Query 020717
Match_columns 322
No_of_seqs 20 out of 22
Neff 2.4
Searched_HMMs 46136
Date Fri Mar 29 04:35:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020717.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020717hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04156 IncA: IncA protein; 86.9 9 0.0002 32.7 10.1 31 174-204 84-114 (191)
2 PRK13454 F0F1 ATP synthase sub 85.1 26 0.00056 30.8 12.9 108 148-268 43-150 (181)
3 cd07628 BAR_Atg24p The Bin/Amp 84.8 11 0.00024 33.2 9.9 93 175-267 8-116 (185)
4 PF10805 DUF2730: Protein of u 81.9 15 0.00032 30.1 8.9 12 177-188 48-59 (106)
5 PRK06975 bifunctional uroporph 80.0 23 0.00051 37.0 11.6 48 215-262 362-409 (656)
6 TIGR03495 phage_LysB phage lys 77.7 49 0.0011 29.0 11.3 51 139-205 3-53 (135)
7 PF05529 Bap31: B-cell recepto 76.2 23 0.0005 30.8 8.8 34 231-264 154-187 (192)
8 cd07624 BAR_SNX7_30 The Bin/Am 75.2 30 0.00065 30.7 9.4 97 172-268 15-126 (200)
9 PF06295 DUF1043: Protein of u 73.7 19 0.00042 30.3 7.5 71 139-239 2-72 (128)
10 PF06120 Phage_HK97_TLTM: Tail 73.4 50 0.0011 32.3 11.1 85 172-256 68-166 (301)
11 PRK09174 F0F1 ATP synthase sub 72.5 76 0.0017 28.8 13.4 91 135-236 51-142 (204)
12 PRK11677 hypothetical protein; 72.4 16 0.00035 31.8 6.9 71 139-239 6-76 (134)
13 PF07889 DUF1664: Protein of u 71.1 11 0.00023 32.7 5.4 71 188-258 39-116 (126)
14 cd01106 HTH_TipAL-Mta Helix-Tu 70.5 16 0.00035 28.8 6.0 45 215-259 56-101 (103)
15 cd07622 BAR_SNX4 The Bin/Amphi 66.9 73 0.0016 28.8 10.1 99 173-271 16-128 (201)
16 PF06305 DUF1049: Protein of u 66.5 12 0.00026 27.2 4.2 47 134-188 19-65 (68)
17 COG3105 Uncharacterized protei 66.2 13 0.00027 33.2 5.0 67 137-233 7-75 (138)
18 CHL00019 atpF ATP synthase CF0 64.4 98 0.0021 27.0 11.6 141 135-291 26-169 (184)
19 TIGR01386 cztS_silS_copS heavy 63.8 57 0.0012 29.7 8.9 13 212-224 249-261 (457)
20 PRK13455 F0F1 ATP synthase sub 63.4 1E+02 0.0022 26.8 11.1 112 176-289 56-170 (184)
21 PF04375 HemX: HemX; InterPro 62.0 95 0.0021 30.2 10.5 31 227-257 89-119 (372)
22 PF07889 DUF1664: Protein of u 61.8 30 0.00064 30.0 6.3 25 177-201 67-91 (126)
23 PRK13453 F0F1 ATP synthase sub 60.7 1.1E+02 0.0025 26.5 11.2 126 151-289 33-161 (173)
24 PRK04778 septation ring format 60.4 1.6E+02 0.0034 30.3 12.1 120 137-272 6-146 (569)
25 cd07666 BAR_SNX7 The Bin/Amphi 57.8 97 0.0021 29.3 9.5 97 172-268 55-166 (243)
26 PRK14475 F0F1 ATP synthase sub 56.4 1.3E+02 0.0028 25.9 12.1 140 133-286 8-150 (167)
27 PRK11091 aerobic respiration c 56.4 2.4E+02 0.0052 28.9 13.9 32 237-269 130-161 (779)
28 PRK07352 F0F1 ATP synthase sub 56.2 1.3E+02 0.0029 25.9 12.1 113 176-290 48-163 (174)
29 TIGR02231 conserved hypothetic 55.4 1.2E+02 0.0027 30.3 10.3 84 175-258 75-165 (525)
30 PRK13461 F0F1 ATP synthase sub 54.7 1.3E+02 0.0029 25.4 11.2 138 136-289 8-148 (159)
31 PF09325 Vps5: Vps5 C terminal 53.2 1.5E+02 0.0033 25.7 10.5 99 175-273 28-143 (236)
32 cd07667 BAR_SNX30 The Bin/Amph 51.6 1.6E+02 0.0035 28.0 9.9 97 172-268 52-163 (240)
33 COG3763 Uncharacterized protei 51.3 21 0.00045 28.9 3.4 31 137-167 8-38 (71)
34 PRK13428 F0F1 ATP synthase sub 48.0 3E+02 0.0066 27.7 11.7 133 136-284 4-139 (445)
35 PRK13460 F0F1 ATP synthase sub 47.9 1.8E+02 0.004 25.1 11.2 141 135-291 18-161 (173)
36 smart00503 SynN Syntaxin N-ter 47.8 1.3E+02 0.0028 23.3 10.0 64 175-238 5-71 (117)
37 PRK09835 sensor kinase CusS; P 47.7 36 0.00077 31.5 4.9 16 211-226 269-284 (482)
38 COG4942 Membrane-bound metallo 44.9 3.7E+02 0.0081 27.8 11.9 96 175-270 63-193 (420)
39 PRK10361 DNA recombination pro 43.5 2.9E+02 0.0062 28.9 11.0 9 145-153 14-22 (475)
40 PF11446 DUF2897: Protein of u 43.3 18 0.0004 27.4 2.0 24 136-159 4-27 (55)
41 PF10506 MCC-bdg_PDZ: PDZ doma 43.1 1.6E+02 0.0036 23.2 7.9 64 176-259 3-67 (67)
42 KOG3165 Predicted nucleic-acid 41.6 9.8 0.00021 35.3 0.3 47 174-220 75-126 (195)
43 PRK06231 F0F1 ATP synthase sub 40.9 2.8E+02 0.006 25.1 11.2 138 136-289 51-191 (205)
44 PF06008 Laminin_I: Laminin Do 40.6 2.5E+02 0.0054 25.7 9.2 85 172-260 81-168 (264)
45 PF06160 EzrA: Septation ring 38.7 4.6E+02 0.01 27.1 12.1 46 140-185 6-51 (560)
46 PRK05759 F0F1 ATP synthase sub 38.4 2.3E+02 0.005 23.5 11.1 133 136-284 7-142 (156)
47 TIGR02680 conserved hypothetic 38.3 3.5E+02 0.0076 31.1 11.5 100 143-253 725-826 (1353)
48 PF10828 DUF2570: Protein of u 37.2 2.3E+02 0.005 23.2 11.4 27 226-252 55-81 (110)
49 PF10186 Atg14: UV radiation r 36.9 3E+02 0.0065 24.4 9.5 92 176-271 68-159 (302)
50 PLN02372 violaxanthin de-epoxi 36.2 4.6E+02 0.01 27.6 11.0 24 157-182 345-368 (455)
51 PRK11637 AmiB activator; Provi 35.1 4.4E+02 0.0096 25.8 14.2 90 175-268 44-133 (428)
52 PF03672 UPF0154: Uncharacteri 34.9 59 0.0013 25.6 3.6 28 138-165 2-29 (64)
53 PF07763 FEZ: FEZ-like protein 34.1 1.8E+02 0.0039 28.1 7.4 51 218-268 179-232 (244)
54 cd01107 HTH_BmrR Helix-Turn-He 33.7 1.4E+02 0.0031 23.8 5.8 42 218-259 60-103 (108)
55 PF08232 Striatin: Striatin fa 33.3 1.1E+02 0.0023 26.3 5.3 31 172-202 26-56 (134)
56 PRK06569 F0F1 ATP synthase sub 32.4 3.7E+02 0.0081 24.1 12.6 116 149-277 23-141 (155)
57 cd04770 HTH_HMRTR Helix-Turn-H 32.3 1.9E+02 0.004 23.3 6.3 28 231-258 79-106 (123)
58 cd04775 HTH_Cfa-like Helix-Tur 32.2 1.4E+02 0.0031 23.7 5.5 40 218-258 59-98 (102)
59 KOG2629 Peroxisomal membrane a 31.9 5.4E+02 0.012 25.8 11.6 98 141-259 90-196 (300)
60 PRK11100 sensory histidine kin 31.8 4.1E+02 0.0088 24.3 9.7 18 210-227 262-279 (475)
61 PF05957 DUF883: Bacterial pro 30.0 35 0.00076 26.7 1.7 16 141-156 79-94 (94)
62 PF05266 DUF724: Protein of un 29.8 1.7E+02 0.0036 26.7 6.1 59 199-261 79-147 (190)
63 PF09090 MIF4G_like_2: MIF4G l 29.7 1.2E+02 0.0025 27.9 5.2 32 188-219 143-174 (253)
64 TIGR03321 alt_F1F0_F0_B altern 29.6 4.4E+02 0.0096 24.1 11.4 128 151-291 20-150 (246)
65 cd04784 HTH_CadR-PbrR Helix-Tu 29.4 2.7E+02 0.0058 22.8 6.8 28 231-258 79-106 (127)
66 PRK11637 AmiB activator; Provi 29.4 3.5E+02 0.0075 26.5 8.7 77 176-252 59-135 (428)
67 KOG0994 Extracellular matrix g 29.3 2.9E+02 0.0062 32.9 9.0 92 137-236 1168-1262(1758)
68 TIGR02883 spore_cwlD N-acetylm 29.3 1.2E+02 0.0026 26.3 5.1 44 183-228 23-81 (189)
69 PRK01844 hypothetical protein; 29.2 75 0.0016 25.7 3.4 28 138-165 9-36 (72)
70 PRK13694 hypothetical protein; 29.2 63 0.0014 26.8 3.1 34 175-208 16-49 (83)
71 COG3851 UhpB Signal transducti 29.1 97 0.0021 32.4 5.0 43 144-191 262-306 (497)
72 PF10073 DUF2312: Uncharacteri 28.5 65 0.0014 26.1 3.0 42 175-216 8-49 (74)
73 PF10805 DUF2730: Protein of u 28.5 1.4E+02 0.0031 24.4 5.1 30 219-248 74-104 (106)
74 PF08172 CASP_C: CASP C termin 28.4 87 0.0019 29.6 4.3 30 176-205 91-120 (248)
75 KOG4608 Uncharacterized conser 28.1 48 0.001 32.4 2.5 56 132-189 191-247 (270)
76 PF11221 Med21: Subunit 21 of 28.0 3E+02 0.0065 23.5 7.1 71 181-256 65-140 (144)
77 TIGR00162 conserved hypothetic 27.7 1E+02 0.0022 27.6 4.4 47 215-263 124-170 (188)
78 PF10112 Halogen_Hydrol: 5-bro 27.6 4.2E+02 0.0091 23.2 8.4 82 187-269 103-184 (199)
79 COG4942 Membrane-bound metallo 27.4 7.2E+02 0.016 25.8 11.5 51 218-268 67-117 (420)
80 PF12718 Tropomyosin_1: Tropom 26.8 3.6E+02 0.0078 23.3 7.4 74 176-257 26-99 (143)
81 PRK00523 hypothetical protein; 26.6 98 0.0021 25.1 3.7 30 138-167 10-39 (72)
82 PRK15048 methyl-accepting chem 26.5 6.4E+02 0.014 25.0 12.3 13 143-155 202-214 (553)
83 cd04790 HTH_Cfa-like_unk Helix 26.2 2.1E+02 0.0045 25.1 5.9 44 217-260 59-103 (172)
84 KOG2189 Vacuolar H+-ATPase V0 26.1 4.3E+02 0.0093 29.7 9.3 92 175-283 53-144 (829)
85 KOG3478 Prefoldin subunit 6, K 25.8 2.7E+02 0.0058 24.6 6.4 46 227-272 65-110 (120)
86 PF00430 ATP-synt_B: ATP synth 25.7 3.4E+02 0.0073 21.5 9.3 114 136-265 2-115 (132)
87 COG3750 Uncharacterized protei 25.5 1.2E+02 0.0026 25.4 4.0 41 175-215 18-58 (85)
88 PRK14473 F0F1 ATP synthase sub 24.8 4.3E+02 0.0094 22.4 11.2 140 136-291 11-153 (164)
89 PF11353 DUF3153: Protein of u 24.2 64 0.0014 28.8 2.5 28 130-158 180-207 (209)
90 PRK10604 sensor protein RstB; 23.8 6.4E+02 0.014 24.0 10.0 40 180-222 191-230 (433)
91 cd04781 HTH_MerR-like_sg6 Heli 23.4 3.3E+02 0.0072 22.1 6.3 41 217-257 57-100 (120)
92 cd07629 BAR_Atg20p The Bin/Amp 23.3 5.3E+02 0.012 22.9 9.8 69 200-268 41-121 (187)
93 PRK14827 undecaprenyl pyrophos 22.6 3.6E+02 0.0078 26.4 7.4 34 196-229 145-184 (296)
94 cd04788 HTH_NolA-AlbR Helix-Tu 22.3 1.8E+02 0.0039 22.9 4.4 36 218-253 59-95 (96)
95 cd00890 Prefoldin Prefoldin is 22.2 2.4E+02 0.0053 22.2 5.2 35 229-263 85-119 (129)
96 PHA02629 A-type inclusion body 22.0 1.4E+02 0.003 23.4 3.6 26 177-202 32-57 (61)
97 cd07307 BAR The Bin/Amphiphysi 21.7 4.1E+02 0.0088 21.0 11.2 96 176-271 5-114 (194)
98 PF12072 DUF3552: Domain of un 21.6 5.9E+02 0.013 22.8 13.3 27 137-163 4-30 (201)
99 PF00901 Orbi_VP5: Orbivirus o 21.4 4.6E+02 0.01 27.9 8.2 35 171-205 84-118 (508)
100 TIGR02043 ZntR Zn(II)-responsi 21.2 3.6E+02 0.0078 22.4 6.2 28 231-258 81-108 (131)
101 KOG0161 Myosin class II heavy 21.1 4.8E+02 0.011 31.8 9.2 109 150-260 812-923 (1930)
102 PRK09514 zntR zinc-responsive 20.9 3.4E+02 0.0074 22.9 6.1 28 231-258 81-108 (140)
103 TIGR03785 marine_sort_HK prote 20.8 6.6E+02 0.014 26.4 9.3 15 212-226 493-507 (703)
104 PRK06041 flagellar assembly pr 20.8 9.7E+02 0.021 25.0 10.4 98 170-268 90-189 (553)
105 PRK09303 adaptive-response sen 20.8 7.1E+02 0.015 23.4 10.7 49 176-224 123-171 (380)
106 cd04769 HTH_MerR2 Helix-Turn-H 20.8 4.5E+02 0.0096 21.3 6.5 42 218-259 58-107 (116)
107 PF06008 Laminin_I: Laminin Do 20.7 5.3E+02 0.011 23.6 7.7 85 176-260 50-142 (264)
108 PF13600 DUF4140: N-terminal d 20.5 2E+02 0.0044 22.5 4.4 34 227-260 66-99 (104)
109 PF01520 Amidase_3: N-acetylmu 20.5 2E+02 0.0043 23.7 4.6 42 184-227 22-64 (175)
110 PF04791 LMBR1: LMBR1-like mem 20.4 5.1E+02 0.011 25.2 7.9 64 128-197 158-222 (471)
111 PRK05771 V-type ATP synthase s 20.2 4.8E+02 0.011 27.1 8.1 28 179-206 44-71 (646)
112 COG5040 BMH1 14-3-3 family pro 20.1 1.6E+02 0.0035 28.5 4.4 48 154-201 57-109 (268)
No 1
>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=86.94 E-value=9 Score=32.74 Aligned_cols=31 Identities=26% Similarity=0.458 Sum_probs=21.4
Q ss_pred chhHHHHHHHHHHhHhHHHHHHHHHHHHHhh
Q 020717 174 VNLVGRIEKLEEDMKSSATILRVLSRQLEKL 204 (322)
Q Consensus 174 ~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKL 204 (322)
.....++..+++.+...-.-+..+..+++++
T Consensus 84 ~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~ 114 (191)
T PF04156_consen 84 SELQQQLQQLQEELDQLQERIQELESELEKL 114 (191)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466777777777777777777777666665
No 2
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=85.07 E-value=26 Score=30.81 Aligned_cols=108 Identities=13% Similarity=0.129 Sum_probs=78.4
Q ss_pred HHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHh
Q 020717 148 WIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQ 227 (322)
Q Consensus 148 ~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAq 227 (322)
++-.++.+--|..+.+. +-.|=.++++++...-..-+-....+++.--...-.|..-+.=|.++.+.++
T Consensus 43 iL~~ll~k~l~~PI~~~-----------l~~R~~~I~~~l~~Ae~~~~eA~~~~~eye~~L~~Ar~EA~~ii~~A~~ea~ 111 (181)
T PRK13454 43 AIYFVLTRVALPRIGAV-----------LAERQGTITNDLAAAEELKQKAVEAEKAYNKALADARAEAQRIVAETRAEIQ 111 (181)
T ss_pred HHHHHHHHHHHHHHHHH-----------HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445577778877766 7778888888887776666666666666666666677777777888888888
Q ss_pred hhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020717 228 KNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLELI 268 (322)
Q Consensus 228 knSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQleLi 268 (322)
+..+..+.-|.++ .++.+.+.++-+..+.++-.++|+-+
T Consensus 112 ~~~~~~~~~A~~e--~~~~~aea~~~I~~~k~~a~~~l~~~ 150 (181)
T PRK13454 112 AELDVAIAKADAE--IAAKAAESEKRIAEIRAGALESVEEV 150 (181)
T ss_pred HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8877777777554 77888888888888777777777543
No 3
>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=84.76 E-value=11 Score=33.16 Aligned_cols=93 Identities=16% Similarity=0.249 Sum_probs=60.1
Q ss_pred hhHHHHHHHHHHhHhHHHHHHHHH-------HHHHhhcceeeeeh---h-hccchHHHHHHHHhhhhHHHHHHHhh-hhh
Q 020717 175 NLVGRIEKLEEDMKSSATILRVLS-------RQLEKLGVRFRVTR---K-ALKDPITQAAALAQKNSEATRALAMQ-GDV 242 (322)
Q Consensus 175 ~l~~Ri~kLEe~vrs~~~~irvlS-------RqlEKLGvRfRvtr---r-~LrdPI~etaAlAqknSeatraLA~r-ed~ 242 (322)
.+.+.+.+||+.+...-.+...+. -.+..+|..|...- . +|-+|+...+....+.|..+..|+.. .+-
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 455666666666655444443333 23334444443221 2 39999999999999999999999997 444
Q ss_pred HHHHHHHH----HHHHHHHHHHHHHHHHH
Q 020717 243 LEKELGEI----QKVLLAMQEQQQKQLEL 267 (322)
Q Consensus 243 LEkEL~e~----Q~vl~amQeqq~KQleL 267 (322)
+..=|++. +++-.+|....+||++.
T Consensus 88 f~~~Lkd~~~y~~s~k~~lk~R~~kq~d~ 116 (185)
T cd07628 88 YLTSLKDLLHYILSLKNLIKLRDQKQLDY 116 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 77777765 44555666777777765
No 4
>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=81.93 E-value=15 Score=30.13 Aligned_cols=12 Identities=25% Similarity=0.470 Sum_probs=5.1
Q ss_pred HHHHHHHHHHhH
Q 020717 177 VGRIEKLEEDMK 188 (322)
Q Consensus 177 ~~Ri~kLEe~vr 188 (322)
..|+..||..++
T Consensus 48 ~~Rl~~lE~~l~ 59 (106)
T PF10805_consen 48 DRRLQALETKLE 59 (106)
T ss_pred HHHHHHHHHHHH
Confidence 344444444443
No 5
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=80.04 E-value=23 Score=36.99 Aligned_cols=48 Identities=17% Similarity=0.164 Sum_probs=37.1
Q ss_pred ccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Q 020717 215 LKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQ 262 (322)
Q Consensus 215 LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~ 262 (322)
+..+..|...++++..+..+.+..|.+.||.++.+.|+-..++|++-+
T Consensus 362 ~~~~~~e~~~~~~~~~~~~~~~~~~l~~le~~l~~~~~~~~~L~~~~~ 409 (656)
T PRK06975 362 NDAQTAELRVKTEQAQASVHQLDSQFAQLDGKLADAQSAQQALEQQYQ 409 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555666666677778888999999999999999888888877654
No 6
>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=77.65 E-value=49 Score=29.04 Aligned_cols=51 Identities=22% Similarity=0.001 Sum_probs=32.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhc
Q 020717 139 GVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLG 205 (322)
Q Consensus 139 g~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLG 205 (322)
-+++++.+|+++.|.+ |+ . .++-+.++.-...++..-+.+..++.|++.|.
T Consensus 3 ~i~l~~~a~~~~~~~~---~~-~------------~~l~~~~~~a~~~~~~~~~~l~~~~~qL~~l~ 53 (135)
T TIGR03495 3 LIVLLGLLVAGLGWQS---QR-L------------RNARADLERANRVLKAQQAELASKANQLIVLL 53 (135)
T ss_pred HHHHHHHHHHHHHHHH---HH-H------------HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 3456666776666653 33 1 12667778777777777777777777776553
No 7
>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=76.24 E-value=23 Score=30.82 Aligned_cols=34 Identities=26% Similarity=0.343 Sum_probs=26.5
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 020717 231 EATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQ 264 (322)
Q Consensus 231 eatraLA~red~LEkEL~e~Q~vl~amQeqq~KQ 264 (322)
+....+-...+-|++||.+.++-+.+|++|....
T Consensus 154 ~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l 187 (192)
T PF05529_consen 154 EENKKLSEEIEKLKKELEKKEKEIEALKKQSEGL 187 (192)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444566777889999999999999999887643
No 8
>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=75.19 E-value=30 Score=30.68 Aligned_cols=97 Identities=15% Similarity=0.172 Sum_probs=67.8
Q ss_pred ccchhHHHHHHHHHHhHhHHHHHHHHH-------HHHHhhcceeeeeh---hhccchHHHHHHHHhhhhHHHHHHHhhhh
Q 020717 172 ESVNLVGRIEKLEEDMKSSATILRVLS-------RQLEKLGVRFRVTR---KALKDPITQAAALAQKNSEATRALAMQGD 241 (322)
Q Consensus 172 ~~~~l~~Ri~kLEe~vrs~~~~irvlS-------RqlEKLGvRfRvtr---r~LrdPI~etaAlAqknSeatraLA~red 241 (322)
.=..+.+.|.+||+.+...-.+..++. -.+..+|..|...- ..|.+||..++....+.+.++..|+...+
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 445677888888888877766655444 34455565555432 26899999999999999999999999877
Q ss_pred -hHHHHHHHH----HHHHHHHHHHHHHHHHHH
Q 020717 242 -VLEKELGEI----QKVLLAMQEQQQKQLELI 268 (322)
Q Consensus 242 -~LEkEL~e~----Q~vl~amQeqq~KQleLi 268 (322)
-|..=|++. +++-.+|....+||.+.=
T Consensus 95 ~~f~e~Lkey~~y~~svk~~l~~R~~~q~~~e 126 (200)
T cd07624 95 FVFLPPLREYLLYSDAVKDVLKRRDQFQIEYE 126 (200)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466666664 444455556666776654
No 9
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=73.70 E-value=19 Score=30.32 Aligned_cols=71 Identities=21% Similarity=0.349 Sum_probs=43.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccch
Q 020717 139 GVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDP 218 (322)
Q Consensus 139 g~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdP 218 (322)
.++.||+|++||+++-|.-.... ....+||+.+...- -.+---|.++.+.
T Consensus 2 ~~i~lvvG~iiG~~~~r~~~~~~----------------~~q~~l~~eL~~~k--------------~el~~yk~~V~~H 51 (128)
T PF06295_consen 2 AIIGLVVGLIIGFLIGRLTSSNQ----------------QKQAKLEQELEQAK--------------QELEQYKQEVNDH 51 (128)
T ss_pred hHHHHHHHHHHHHHHHHHhccch----------------hhHHHHHHHHHHHH--------------HHHHHHHHHHHHH
Confidence 35788999999998866543311 11234444444221 1112246778888
Q ss_pred HHHHHHHHhhhhHHHHHHHhh
Q 020717 219 ITQAAALAQKNSEATRALAMQ 239 (322)
Q Consensus 219 I~etaAlAqknSeatraLA~r 239 (322)
..+||.+..++.+--+-|-+.
T Consensus 52 F~~ta~Ll~~l~~~Y~~l~~H 72 (128)
T PF06295_consen 52 FAQTAELLDNLTQDYQKLYQH 72 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 888988888777766655443
No 10
>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=73.41 E-value=50 Score=32.29 Aligned_cols=85 Identities=26% Similarity=0.312 Sum_probs=54.7
Q ss_pred ccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccch---H--------HHHHHHHhhhhHHHHHHHhhh
Q 020717 172 ESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDP---I--------TQAAALAQKNSEATRALAMQG 240 (322)
Q Consensus 172 ~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdP---I--------~etaAlAqknSeatraLA~re 240 (322)
+...|..-+.|+++++...-..|.-+-++++.|--.+.-.-+.+.+| + ...+....+.+++++.|+.-+
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 55667777888888877777777777777765543332222333333 1 233456778889999999888
Q ss_pred hhHHHHH---HHHHHHHHH
Q 020717 241 DVLEKEL---GEIQKVLLA 256 (322)
Q Consensus 241 d~LEkEL---~e~Q~vl~a 256 (322)
+.||+.. .++|++|..
T Consensus 148 ~~l~q~~~k~~~~q~~l~~ 166 (301)
T PF06120_consen 148 ERLEQMQSKASETQATLND 166 (301)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 8887764 456666643
No 11
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=72.46 E-value=76 Score=28.82 Aligned_cols=91 Identities=16% Similarity=0.176 Sum_probs=54.6
Q ss_pred eeehhhhHHHHHHHHHHH-HHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehh
Q 020717 135 VLACGVVSLVCGVWIGAI-IRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRK 213 (322)
Q Consensus 135 ~~vwg~V~LV~aV~IGai-IRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr 213 (322)
++.|+++.+++.++|=.| +.+--|.+|.+. |-.|=.++++++...-..-.-.-..+++.--...-.|.
T Consensus 51 ~~~~~l~w~~I~FliL~~lL~k~~~~pI~~v-----------Le~R~~~I~~~L~~Ae~~k~eAe~~~~~ye~~L~~Ar~ 119 (204)
T PRK09174 51 HYASQLLWLAITFGLFYLFMSRVILPRIGGI-----------IETRRDRIAQDLDQAARLKQEADAAVAAYEQELAQARA 119 (204)
T ss_pred hccHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357777766666555544 467788887766 77888888888877665555444444444333444455
Q ss_pred hccchHHHHHHHHhhhhHHHHHH
Q 020717 214 ALKDPITQAAALAQKNSEATRAL 236 (322)
Q Consensus 214 ~LrdPI~etaAlAqknSeatraL 236 (322)
.-+.=|.++...+++..+..+.-
T Consensus 120 eA~~Ii~~Ar~ea~~~~e~~~~~ 142 (204)
T PRK09174 120 KAHSIAQAAREAAKAKAEAERAA 142 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555555555555554444433
No 12
>PRK11677 hypothetical protein; Provisional
Probab=72.42 E-value=16 Score=31.80 Aligned_cols=71 Identities=25% Similarity=0.367 Sum_probs=41.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccch
Q 020717 139 GVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDP 218 (322)
Q Consensus 139 g~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdP 218 (322)
.++.||+|++||++|-|.--... + ..-.|...+++.++++. =-|.++-|.
T Consensus 6 a~i~livG~iiG~~~~R~~~~~~-----~----~q~~le~eLe~~k~ele---------------------~YkqeV~~H 55 (134)
T PRK11677 6 ALIGLVVGIIIGAVAMRFGNRKL-----R----QQQALQYELEKNKAELE---------------------EYRQELVSH 55 (134)
T ss_pred HHHHHHHHHHHHHHHHhhccchh-----h----HHHHHHHHHHHHHHHHH---------------------HHHHHHHHH
Confidence 45778899999988876421100 0 11123333333333322 246777888
Q ss_pred HHHHHHHHhhhhHHHHHHHhh
Q 020717 219 ITQAAALAQKNSEATRALAMQ 239 (322)
Q Consensus 219 I~etaAlAqknSeatraLA~r 239 (322)
..+||.+..++.+--+-|-+-
T Consensus 56 Fa~TA~Ll~~L~~~Y~~Ly~H 76 (134)
T PRK11677 56 FARSAELLDTMAKDYRQLYQH 76 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 888988888887776665443
No 13
>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=71.11 E-value=11 Score=32.68 Aligned_cols=71 Identities=15% Similarity=0.300 Sum_probs=46.9
Q ss_pred HhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhh-------hhhHHHHHHHHHHHHHHHH
Q 020717 188 KSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQ-------GDVLEKELGEIQKVLLAMQ 258 (322)
Q Consensus 188 rs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~r-------ed~LEkEL~e~Q~vl~amQ 258 (322)
|++..++..++-|||++.-..+-|||.|..-|...-.--.++-|++...... .+.+-.++.++|.++..|.
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 6788889999999999999999999999877775555545554444433222 2234445555555555543
No 14
>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=70.51 E-value=16 Score=28.77 Aligned_cols=45 Identities=18% Similarity=0.284 Sum_probs=36.5
Q ss_pred ccchHHHHHHHHhhh-hHHHHHHHhhhhhHHHHHHHHHHHHHHHHH
Q 020717 215 LKDPITQAAALAQKN-SEATRALAMQGDVLEKELGEIQKVLLAMQE 259 (322)
Q Consensus 215 LrdPI~etaAlAqkn-SeatraLA~red~LEkEL~e~Q~vl~amQe 259 (322)
+--||.+.+...+.. .+....|..+...|++|+.+++..+..+++
T Consensus 56 ~g~~l~~i~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 101 (103)
T cd01106 56 LGFSLKEIKELLKDPSEDLLEALREQKELLEEKKERLDKLIKTIDR 101 (103)
T ss_pred cCCCHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345777777666655 778889999999999999999999888775
No 15
>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=66.86 E-value=73 Score=28.81 Aligned_cols=99 Identities=13% Similarity=0.152 Sum_probs=64.4
Q ss_pred cchhHHHHHHHHHHhHhHHHHHHHHHH-------HHHhhcceeee---ehhhccchHHHHHHHHhhhhHHHHHHHhhhhh
Q 020717 173 SVNLVGRIEKLEEDMKSSATILRVLSR-------QLEKLGVRFRV---TRKALKDPITQAAALAQKNSEATRALAMQGDV 242 (322)
Q Consensus 173 ~~~l~~Ri~kLEe~vrs~~~~irvlSR-------qlEKLGvRfRv---trr~LrdPI~etaAlAqknSeatraLA~red~ 242 (322)
=..+...+.+|++.+...-.+.+.+.+ .+..+|..|.. .=.+|-+||..+...+...+.++..++.-++-
T Consensus 16 F~~ikey~~~L~~~l~~iekv~~Rl~~r~~~l~~~~~e~g~~f~~ls~~E~~l~~~le~~g~~~d~~~~~~~~~~~~~~~ 95 (201)
T cd07622 16 FEDLKNYSDELQTNLNNLLKVRARLAERLYGVYKIHANYGRVFSEWSAIEKEMGDGLQKAGHYMDSYAASIDNGLEDEEL 95 (201)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 344666677777776555444444333 23445555542 22589999999998888899998888877766
Q ss_pred HHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Q 020717 243 LEKELGEI----QKVLLAMQEQQQKQLELILAI 271 (322)
Q Consensus 243 LEkEL~e~----Q~vl~amQeqq~KQleLil~i 271 (322)
+..=|+|. +.+-..|--..+||+++-.+.
T Consensus 96 f~e~LkEy~~ya~slk~vlk~r~~~q~~~e~~~ 128 (201)
T cd07622 96 IADQLKEYLFFADSLRAVCKKHELLQYDLEKAE 128 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66667664 344444556677888776544
No 16
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=66.47 E-value=12 Score=27.21 Aligned_cols=47 Identities=17% Similarity=0.270 Sum_probs=30.6
Q ss_pred ceeehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhH
Q 020717 134 RVLACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMK 188 (322)
Q Consensus 134 r~~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vr 188 (322)
...+|-.+.++.|+++|.++-.-.|.|.-.+..+ +..+++++|+++.
T Consensus 19 pl~l~il~~f~~G~llg~l~~~~~~~~~r~~~~~--------~~k~l~~le~e~~ 65 (68)
T PF06305_consen 19 PLGLLILIAFLLGALLGWLLSLPSRLRLRRRIRR--------LRKELKKLEKELE 65 (68)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHH
Confidence 3466677777788888877665555544444322 5678888888765
No 17
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=66.17 E-value=13 Score=33.24 Aligned_cols=67 Identities=25% Similarity=0.380 Sum_probs=42.7
Q ss_pred ehhh--hHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhh
Q 020717 137 ACGV--VSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKA 214 (322)
Q Consensus 137 vwg~--V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~ 214 (322)
+|.+ ..||+||+||++|-|. ....-+-+ ..+-++|||+-.++---|++
T Consensus 7 ~W~~a~igLvvGi~IG~li~Rl-----t~~~~k~q-------------------------~~~q~ELe~~K~~ld~~rqe 56 (138)
T COG3105 7 TWEYALIGLVVGIIIGALIARL-----TNRKLKQQ-------------------------QKLQYELEKVKAQLDEYRQE 56 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-----cchhhhhH-------------------------HHHHHHHHHHHHHHHHHHHH
Confidence 4554 5689999999999654 22221111 13445666666666667788
Q ss_pred ccchHHHHHHHHhhhhHHH
Q 020717 215 LKDPITQAAALAQKNSEAT 233 (322)
Q Consensus 215 LrdPI~etaAlAqknSeat 233 (322)
|-+..+++|.+-++..+--
T Consensus 57 l~~HFa~sAeLlktl~~dY 75 (138)
T COG3105 57 LVKHFARSAELLKTLAQDY 75 (138)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 8888888887766555443
No 18
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=64.41 E-value=98 Score=27.00 Aligned_cols=141 Identities=13% Similarity=0.113 Sum_probs=83.4
Q ss_pred eeehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhh
Q 020717 135 VLACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKA 214 (322)
Q Consensus 135 ~~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~ 214 (322)
.+.|+++-+++ +=.++++--|.-+.+. +..|=+++.+++...-..-.-....+...--...-.|..
T Consensus 26 ~~~~~~Infli---ll~lL~~fl~kPI~~~-----------l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~A~~e 91 (184)
T CHL00019 26 ILETNLINLSV---VLGVLIYFGKGVLSDL-----------LDNRKQTILNTIRNSEERREEAIEKLEKARARLRQAELE 91 (184)
T ss_pred HHHHHHHHHHH---HHHHHHHHhHhHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455444333 3334566677765554 778888888888777666655555555544445555555
Q ss_pred ccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH--HHH-HHHhccccccccccCCccccchh
Q 020717 215 LKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQL--ELI-LAIGKTGKLFENRQEPSQEQDKL 291 (322)
Q Consensus 215 LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQl--eLi-l~ig~a~~~~~~~~~~~~~~~~~ 291 (322)
-.+=|.++.+.|++..+....-|+++ .++.+.+.+.-+....+.-.++| ++. +++-.|.++....-+....+..+
T Consensus 92 a~~ii~~A~~~ae~~~~~il~~A~~e--a~~~~~~a~~~ie~Ek~~a~~~l~~ei~~lav~~A~kil~~~ld~~~~~~li 169 (184)
T CHL00019 92 ADEIRVNGYSEIEREKENLINQAKED--LERLENYKNETIRFEQQRAINQVRQQVFQLALQRALGTLNSCLNNELHLRTI 169 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHH
Confidence 56666666666666555444444332 45555555555555555555555 344 88888999888777655554444
No 19
>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=63.78 E-value=57 Score=29.68 Aligned_cols=13 Identities=23% Similarity=0.473 Sum_probs=8.4
Q ss_pred hhhccchHHHHHH
Q 020717 212 RKALKDPITQAAA 224 (322)
Q Consensus 212 rr~LrdPI~etaA 224 (322)
-.+||.|++....
T Consensus 249 ~h~l~tpl~~~~~ 261 (457)
T TIGR01386 249 AHELRTPLTNLLG 261 (457)
T ss_pred hhhhcCcHHHHHH
Confidence 4567888875433
No 20
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=63.35 E-value=1e+02 Score=26.82 Aligned_cols=112 Identities=12% Similarity=0.187 Sum_probs=69.6
Q ss_pred hHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHH
Q 020717 176 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLL 255 (322)
Q Consensus 176 l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~ 255 (322)
+..|=+++++++...-..-.-....++..--+..-.|..-++=|.++.+.+++..+....-|..+ .++.+.+.++-+.
T Consensus 56 L~~R~~~I~~~l~~Ae~~~~eA~~~l~e~e~~L~~A~~ea~~Ii~~A~~~a~~~~e~~~~~a~~e--a~~~~~~A~~~I~ 133 (184)
T PRK13455 56 LDKRAEGIRSELEEARALREEAQTLLASYERKQREVQEQADRIVAAAKDEAQAAAEQAKADLEAS--IARRLAAAEDQIA 133 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHH
Confidence 66777777777766655554444444444444444555556666777777776666555555444 6666677777776
Q ss_pred HHHHHHHHHHH--HH-HHHhccccccccccCCccccc
Q 020717 256 AMQEQQQKQLE--LI-LAIGKTGKLFENRQEPSQEQD 289 (322)
Q Consensus 256 amQeqq~KQle--Li-l~ig~a~~~~~~~~~~~~~~~ 289 (322)
..+++-.+++. +. +++-.|+++.....+....+.
T Consensus 134 ~ek~~a~~~l~~~i~~lA~~~a~kil~~~l~~~~~~~ 170 (184)
T PRK13455 134 SAEAAAVKAVRDRAVSVAVAAAADVIAKQMTAADANA 170 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHH
Confidence 66666666663 33 788888888777666544433
No 21
>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=61.99 E-value=95 Score=30.24 Aligned_cols=31 Identities=26% Similarity=0.389 Sum_probs=15.0
Q ss_pred hhhhHHHHHHHhhhhhHHHHHHHHHHHHHHH
Q 020717 227 QKNSEATRALAMQGDVLEKELGEIQKVLLAM 257 (322)
Q Consensus 227 qknSeatraLA~red~LEkEL~e~Q~vl~am 257 (322)
++..+.+..|..+.+-+|+.+.++|.-+..|
T Consensus 89 ~~~~~~~~~l~~~l~~~~~~l~~l~~~~~~l 119 (372)
T PF04375_consen 89 KQQQEQLQQLQQELAQLQQQLAELQQQLAAL 119 (372)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444445555555555555544444
No 22
>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=61.83 E-value=30 Score=29.99 Aligned_cols=25 Identities=12% Similarity=0.431 Sum_probs=10.9
Q ss_pred HHHHHHHHHHhHhHHHHHHHHHHHH
Q 020717 177 VGRIEKLEEDMKSSATILRVLSRQL 201 (322)
Q Consensus 177 ~~Ri~kLEe~vrs~~~~irvlSRql 201 (322)
.+||+.|...++.+.++...+-.+|
T Consensus 67 sqRId~vd~klDe~~ei~~~i~~eV 91 (126)
T PF07889_consen 67 SQRIDRVDDKLDEQKEISKQIKDEV 91 (126)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 3444444444444444444444444
No 23
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=60.66 E-value=1.1e+02 Score=26.48 Aligned_cols=126 Identities=11% Similarity=0.161 Sum_probs=74.5
Q ss_pred HHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhh
Q 020717 151 AIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNS 230 (322)
Q Consensus 151 aiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknS 230 (322)
.++.+--|..+.+. +..|=+++.+++...-..-.-....++..--+..=.|..-.+=+.++.+.|++..
T Consensus 33 ~lL~~~l~~pi~~~-----------l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~ii~~a~~~a~~~~ 101 (173)
T PRK13453 33 ALLKKFAWGPLKDV-----------MDKRERDINRDIDDAEQAKLNAQKLEEENKQKLKETQEEVQKILEDAKVQARQQQ 101 (173)
T ss_pred HHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566667766655 7778888888877776666666666665555555556666666666666666655
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH--HH-HHHhccccccccccCCccccc
Q 020717 231 EATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLE--LI-LAIGKTGKLFENRQEPSQEQD 289 (322)
Q Consensus 231 eatraLA~red~LEkEL~e~Q~vl~amQeqq~KQle--Li-l~ig~a~~~~~~~~~~~~~~~ 289 (322)
+....-|.. -.++.+.+.+.-+...+..-.++|. .. +++--|.++.....+....+.
T Consensus 102 ~~~~~~A~~--ea~~~~~~A~~~I~~ek~~a~~~l~~ei~~lA~~~a~kll~~~l~~~~~~~ 161 (173)
T PRK13453 102 EQIIHEANV--RANGMIETAQSEINSQKERAIADINNQVSELSVLIASKVLRKEISEQDQKA 161 (173)
T ss_pred HHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHH
Confidence 555444432 2344444455555554444444442 22 677778887776665444333
No 24
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=60.36 E-value=1.6e+02 Score=30.29 Aligned_cols=120 Identities=18% Similarity=0.310 Sum_probs=65.4
Q ss_pred ehhh-hHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHH----------------HHhHh----HHHHHH
Q 020717 137 ACGV-VSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLE----------------EDMKS----SATILR 195 (322)
Q Consensus 137 vwg~-V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLE----------------e~vrs----~~~~ir 195 (322)
++++ +.+++++++|.|+|||.-.+|..-..+-..-...++...|.|+. ++... ...-|.
T Consensus 6 ii~i~ii~i~~~~~~~~~rr~~~~~i~~Le~~k~~l~~~pv~~el~kvk~l~l~Ges~~~f~~w~~~~~~i~~~~~~~ie 85 (569)
T PRK04778 6 IIAIVVIIIIAYLAGLILRKRNYKRIDELEERKQELENLPVNDELEKVKKLNLTGQSEEKFEEWRQKWDEIVTNSLPDIE 85 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHhcCCCCcccHHHHHHHHHHHHHHHHhhhhhHH
Confidence 3444 44555667889999998887766543333223444555555443 22221 222233
Q ss_pred HHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 020717 196 VLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLELILAIG 272 (322)
Q Consensus 196 vlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQleLil~ig 272 (322)
-+--++|..--+||+.+ -.....-+-...+..|.++.+|+..|.-+-++..++=+.|-.+.
T Consensus 86 ~~l~~ae~~~~~~~f~~----------------a~~~~~~~~~~l~~~e~~~~~i~~~l~~l~~~e~~nr~~v~~l~ 146 (569)
T PRK04778 86 EQLFEAEELNDKFRFRK----------------AKHEINEIESLLDLIEEDIEQILEELQELLESEEKNREEVEQLK 146 (569)
T ss_pred HHHHHHHHHHhcccHHH----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444433333321 12334445556677778888888877777777777766665544
No 25
>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=57.81 E-value=97 Score=29.31 Aligned_cols=97 Identities=15% Similarity=0.226 Sum_probs=66.4
Q ss_pred ccchhHHHHHHHHHHhHhHHHHHHHHHHHH-------Hhhcceeee---ehhhccchHHHHHHHHhhhhHHHHH-HHhhh
Q 020717 172 ESVNLVGRIEKLEEDMKSSATILRVLSRQL-------EKLGVRFRV---TRKALKDPITQAAALAQKNSEATRA-LAMQG 240 (322)
Q Consensus 172 ~~~~l~~Ri~kLEe~vrs~~~~irvlSRql-------EKLGvRfRv---trr~LrdPI~etaAlAqknSeatra-LA~re 240 (322)
.=..+.+.+.+|++.+...-.++-.+.|.- ...|-=|-+ .=.+|-+|+++.|+...+++.++.. +....
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 445578899999999988766666555332 233333333 1234889999999999999999988 44455
Q ss_pred hhHHHHHHHH----HHHHHHHHHHHHHHHHHH
Q 020717 241 DVLEKELGEI----QKVLLAMQEQQQKQLELI 268 (322)
Q Consensus 241 d~LEkEL~e~----Q~vl~amQeqq~KQleLi 268 (322)
+-|..=|+|. +++-..|.+..++|.++=
T Consensus 135 ~~f~~~Lkeyv~y~~slK~vlk~R~~~Q~~le 166 (243)
T cd07666 135 EQLLPVIHEYVLYSETLMGVIKRRDQIQAELD 166 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666664 445556677888888876
No 26
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=56.40 E-value=1.3e+02 Score=25.88 Aligned_cols=140 Identities=10% Similarity=0.069 Sum_probs=72.1
Q ss_pred cceeehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeeh
Q 020717 133 SRVLACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTR 212 (322)
Q Consensus 133 ar~~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtr 212 (322)
..++.|+.|-+++=++|-.| .+--|..+... +..|=+++++++...-..-.-....++..--+..-.|
T Consensus 8 ~~~~~w~~i~f~il~~iL~~-~k~l~~pi~~~-----------le~R~~~I~~~l~~Ae~~k~eAe~~~~~~e~~L~~A~ 75 (167)
T PRK14475 8 SNPEFWVGAGLLIFFGILIA-LKVLPKALAGA-----------LDAYAAKIQAELDEAQRLREEAQALLADVKAEREEAE 75 (167)
T ss_pred CchHHHHHHHHHHHHHHHHH-HHHhHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35678987666543333333 35567766655 7778888888887776666555555555444444455
Q ss_pred hhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH--HH-HHHhccccccccccCCcc
Q 020717 213 KALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLE--LI-LAIGKTGKLFENRQEPSQ 286 (322)
Q Consensus 213 r~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQle--Li-l~ig~a~~~~~~~~~~~~ 286 (322)
..-++=|.++-+.+++..+-...-|.. -.++-+...+.-+....+.-.+++. +. |++-.|+++...+.+...
T Consensus 76 ~ea~~Ii~~A~~~a~~~~~~~~~~A~~--ea~~~~~~A~~~I~~e~~~a~~el~~e~~~lAv~~A~kil~~~l~~~~ 150 (167)
T PRK14475 76 RQAAAMLAAAKADARRMEAEAKEKLEE--QIKRRAEMAERKIAQAEAQAAADVKAAAVDLAAQAAETVLAARLAGAK 150 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHH
Confidence 555555555555554443333322211 1122222222222222222222222 12 777788888776665433
No 27
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=56.35 E-value=2.4e+02 Score=28.86 Aligned_cols=32 Identities=19% Similarity=0.259 Sum_probs=20.9
Q ss_pred HhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020717 237 AMQGDVLEKELGEIQKVLLAMQEQQQKQLELIL 269 (322)
Q Consensus 237 A~red~LEkEL~e~Q~vl~amQeqq~KQleLil 269 (322)
..-.+.|++++.+.+....+++++++. |+.|+
T Consensus 130 ~~~~~~L~~~i~~r~~~~~~l~~~~~~-l~~il 161 (779)
T PRK11091 130 QEAFEQLKNEIKEREETQIELEQQSSL-LRSFL 161 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH
Confidence 333466888888888877777766554 44443
No 28
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=56.17 E-value=1.3e+02 Score=25.88 Aligned_cols=113 Identities=21% Similarity=0.165 Sum_probs=67.8
Q ss_pred hHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHH
Q 020717 176 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLL 255 (322)
Q Consensus 176 l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~ 255 (322)
+..|=.++++++...-..-.-....+++.--+..-.|..-..=+.++.+.|++..+-...-| .+-.|+.+...+..+.
T Consensus 48 l~~R~~~I~~~l~~A~~~~~ea~~~~~~~~~~L~~a~~ea~~ii~~a~~~a~~~~~~~~~~A--~~e~~~~~~~a~~~i~ 125 (174)
T PRK07352 48 LEERREAILQALKEAEERLRQAAQALAEAQQKLAQAQQEAERIRADAKARAEAIRAEIEKQA--IEDMARLKQTAAADLS 125 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHH
Confidence 77787777777777665555555555544444444555555556666666665544444333 2335556666666666
Q ss_pred HHHHHHHHHH--HHH-HHHhccccccccccCCccccch
Q 020717 256 AMQEQQQKQL--ELI-LAIGKTGKLFENRQEPSQEQDK 290 (322)
Q Consensus 256 amQeqq~KQl--eLi-l~ig~a~~~~~~~~~~~~~~~~ 290 (322)
.....-.++| +++ +++-.|+++.....+....+..
T Consensus 126 ~e~~~a~~~l~~qi~~la~~~A~kil~~~l~~~~~~~l 163 (174)
T PRK07352 126 AEQERVIAQLRREAAELAIAKAESQLPGRLDEDAQQRL 163 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHH
Confidence 6666666666 445 7888888888777765444433
No 29
>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=55.35 E-value=1.2e+02 Score=30.30 Aligned_cols=84 Identities=18% Similarity=0.257 Sum_probs=45.2
Q ss_pred hhHHHHHHHHHHhHhHH---HHHHHHHHHHHhhcceee-eehhh---ccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHH
Q 020717 175 NLVGRIEKLEEDMKSSA---TILRVLSRQLEKLGVRFR-VTRKA---LKDPITQAAALAQKNSEATRALAMQGDVLEKEL 247 (322)
Q Consensus 175 ~l~~Ri~kLEe~vrs~~---~~irvlSRqlEKLGvRfR-vtrr~---LrdPI~etaAlAqknSeatraLA~red~LEkEL 247 (322)
.|..+|.+||..+...- .++..--..|+.++-... -.+.. -..++.+..+..+-..+.+..+-.+..-+|.++
T Consensus 75 ~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (525)
T TIGR02231 75 ELRKQIRELEAELRDLEDRGDALKALAKFLEDIREGLTEPIKDSAKRNEPDLKEWFQAFDFNGSEIERLLTEDREAERRI 154 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46667777777666553 344444455677664321 11111 123666777766666666655555555555555
Q ss_pred HHHHHHHHHHH
Q 020717 248 GEIQKVLLAMQ 258 (322)
Q Consensus 248 ~e~Q~vl~amQ 258 (322)
+++++-+..+|
T Consensus 155 ~~~~~~l~~l~ 165 (525)
T TIGR02231 155 RELEKQLSELQ 165 (525)
T ss_pred HHHHHHHHHHH
Confidence 55555555443
No 30
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=54.74 E-value=1.3e+02 Score=25.39 Aligned_cols=138 Identities=9% Similarity=0.104 Sum_probs=73.7
Q ss_pred eehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhc
Q 020717 136 LACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKAL 215 (322)
Q Consensus 136 ~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~L 215 (322)
++|+++-+++= -.++.+--|..+.+. +..|=.++++++...-..-.-....+++.--...=.+..-
T Consensus 8 ~~~~~inF~il---~~iL~~f~~kpi~~~-----------l~~R~~~I~~~l~~A~~~~~eA~~~~~e~~~~l~~a~~ea 73 (159)
T PRK13461 8 IIATIINFIIL---LLILKHFFFDKIKAV-----------IDSRQSEIDNKIEKADEDQKKARELKLKNERELKNAKEEG 73 (159)
T ss_pred HHHHHHHHHHH---HHHHHHHhHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555443322 233566777766554 7778888888777765555554444444433333444454
Q ss_pred cchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH--HHH-HHHhccccccccccCCccccc
Q 020717 216 KDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQL--ELI-LAIGKTGKLFENRQEPSQEQD 289 (322)
Q Consensus 216 rdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQl--eLi-l~ig~a~~~~~~~~~~~~~~~ 289 (322)
..=|.++.+.|++..+-...=|. +-.|+.+.+.+.-+...++.-.++| ++. +++--|+++.....+....+.
T Consensus 74 ~~ii~~a~~~a~~~~~~i~~~A~--~ea~~~~~~a~~~i~~e~~~a~~~l~~ei~~lA~~~a~kil~~~~~~~~~~~ 148 (159)
T PRK13461 74 KKIVEEYKSKAENVYEEIVKEAH--EEADLIIERAKLEAQREKEKAEYEIKNQAVDLAVLLSSKALEESIDESEHRR 148 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHH
Confidence 45555555555444433333332 2234444445544544444444444 222 777778888777666544443
No 31
>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=53.18 E-value=1.5e+02 Score=25.65 Aligned_cols=99 Identities=26% Similarity=0.286 Sum_probs=64.7
Q ss_pred hhHHHHHHHHHHhHhHHHHHHHHHHHHHhhc-------ceeee-----ehhhccchHHHHHHHHhhhhHHHHHHHhhhh-
Q 020717 175 NLVGRIEKLEEDMKSSATILRVLSRQLEKLG-------VRFRV-----TRKALKDPITQAAALAQKNSEATRALAMQGD- 241 (322)
Q Consensus 175 ~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLG-------vRfRv-----trr~LrdPI~etaAlAqknSeatraLA~red- 241 (322)
.....+++||+.++.....+..+..+-..+| .-|.. .-..|.+++.+.+....+.+++...++..+.
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 4556677777777776665555544433333 22221 1256899999999999999999999888754
Q ss_pred ----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 020717 242 ----VLEKELGEIQKVLLAMQEQQQKQLELILAIGK 273 (322)
Q Consensus 242 ----~LEkEL~e~Q~vl~amQeqq~KQleLil~ig~ 273 (322)
.|..-++-+.+|-.++.....++.++..+...
T Consensus 108 ~l~~~L~ey~~~~~svk~~l~~R~~~~~~~~~a~~~ 143 (236)
T PF09325_consen 108 TLGEPLREYLRYIESVKEALNRRDKKLIEYQNAEKE 143 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35555666666666666666777666654433
No 32
>cd07667 BAR_SNX30 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 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. The specific function of SNX30 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=51.65 E-value=1.6e+02 Score=28.00 Aligned_cols=97 Identities=15% Similarity=0.145 Sum_probs=63.7
Q ss_pred ccchhHHHHHHHHHHhHhHHHHHHHHHHHH-------Hhhcceeee---ehhhccchHHHHHHHHhhhhHHHHHHHhhh-
Q 020717 172 ESVNLVGRIEKLEEDMKSSATILRVLSRQL-------EKLGVRFRV---TRKALKDPITQAAALAQKNSEATRALAMQG- 240 (322)
Q Consensus 172 ~~~~l~~Ri~kLEe~vrs~~~~irvlSRql-------EKLGvRfRv---trr~LrdPI~etaAlAqknSeatraLA~re- 240 (322)
.=..+.+++.+|++.+...-.+.-.++|-. ..+|.=|.- .=.+|-+|++..++...++|.+++-|..-+
T Consensus 52 eF~e~~ey~d~l~~~l~~ieki~~Rv~kr~~~l~~d~~e~~~~f~~ws~lE~~l~~~L~~~a~~~~~~s~~l~~l~~~~~ 131 (240)
T cd07667 52 EFAAIGDYLDTFALKLGTIDRIAQRIIKEEIEYLVELREYGPVYSTWSGLEGELAEPLEGVSACIGNCSTALEELTEDMT 131 (240)
T ss_pred HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 445577788888888877755554444322 234444432 235799999999999999999999988755
Q ss_pred hhHHHHHHHHHHHHHHH----HHHHHHHHHHH
Q 020717 241 DVLEKELGEIQKVLLAM----QEQQQKQLELI 268 (322)
Q Consensus 241 d~LEkEL~e~Q~vl~am----Qeqq~KQleLi 268 (322)
+-+=.-|++...-..+| --+.+||+|+=
T Consensus 132 ~~yl~~Lke~~~Y~~slk~vlK~RdqkQ~d~E 163 (240)
T cd07667 132 EDFLPVLREYILYSESMKNVLKKRDQVQAEYE 163 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444566665544444 44677887753
No 33
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.32 E-value=21 Score=28.86 Aligned_cols=31 Identities=23% Similarity=0.319 Sum_probs=27.3
Q ss_pred ehhhhHHHHHHHHHHHHHHHHHHHHhhcccc
Q 020717 137 ACGVVSLVCGVWIGAIIRRRQWRRVCGEKAR 167 (322)
Q Consensus 137 vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr 167 (322)
.|..|-|++|+++|.+|-||+-.+..++.-+
T Consensus 8 l~ivl~ll~G~~~G~fiark~~~k~lk~NPp 38 (71)
T COG3763 8 LLIVLALLAGLIGGFFIARKQMKKQLKDNPP 38 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC
Confidence 6778889999999999999999998888644
No 34
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=48.05 E-value=3e+02 Score=27.68 Aligned_cols=133 Identities=17% Similarity=0.156 Sum_probs=67.1
Q ss_pred eehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhc
Q 020717 136 LACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKAL 215 (322)
Q Consensus 136 ~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~L 215 (322)
++|+++-+++=++ ++.+--|..+.+. +..|=+++.+++...-..-..+....++.--...-.|..-
T Consensus 4 ~i~qlInFlIl~~---lL~kfl~~Pi~~~-----------l~~R~~~I~~~L~eAe~a~~ea~~~~~~~e~~L~~Ak~ea 69 (445)
T PRK13428 4 FIGQLIGFAVIVF---LVWRFVVPPVRRL-----------MAARQDTVRQQLAESATAADRLAEADQAHTKAVEDAKAEA 69 (445)
T ss_pred HHHHHHHHHHHHH---HHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566554433322 3566677766554 6777777777777666544444333332222222233333
Q ss_pred cchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH--HHH-HHHhccccccccccCC
Q 020717 216 KDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQL--ELI-LAIGKTGKLFENRQEP 284 (322)
Q Consensus 216 rdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQl--eLi-l~ig~a~~~~~~~~~~ 284 (322)
+.=|.++.+.|++..+-...-|..+ .|+.+...++-+...+++-.+|| ++. +++..|+++.....+.
T Consensus 70 ~~Ii~~A~~~A~~~~~~~~~~A~~e--a~~i~~~a~~~Ie~ek~~a~~elr~ei~~lAv~~A~kil~~~l~d 139 (445)
T PRK13428 70 ARVVEEAREDAERIAEQLRAQADAE--AERIKVQGARQVQLLRAQLTRQLRLELGHESVRQAGELVRNHVAD 139 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 3344444444444443333333332 34444444444444433333333 333 7889999999887743
No 35
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=47.91 E-value=1.8e+02 Score=25.07 Aligned_cols=141 Identities=11% Similarity=0.200 Sum_probs=89.5
Q ss_pred eeehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhh
Q 020717 135 VLACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKA 214 (322)
Q Consensus 135 ~~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~ 214 (322)
+++|+++-+++ +-.++.+--|..+.+. +-.|=++++.++...-..-+-....+++.--+..-.+..
T Consensus 18 ~~~~~~i~Fli---l~~iL~~~~~kpi~~~-----------l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~e 83 (173)
T PRK13460 18 LVVWTLVTFLV---VVLVLKKFAWDVILKA-----------LDERASGVQNDINKASELRLEAEALLKDYEARLNSAKDE 83 (173)
T ss_pred HHHHHHHHHHH---HHHHHHHHhHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45565443322 2234567778776665 778888888888887777666666666665555556666
Q ss_pred ccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH--HH-HHHhccccccccccCCccccchh
Q 020717 215 LKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLE--LI-LAIGKTGKLFENRQEPSQEQDKL 291 (322)
Q Consensus 215 LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQle--Li-l~ig~a~~~~~~~~~~~~~~~~~ 291 (322)
-+.=+.++.+.|++..+....=|.++ .|+.+...+.-+....+.-.+||. +. |++-.|+++.....+....+..|
T Consensus 84 a~~ii~~A~~ea~~~~~~~~~~A~~e--a~~~~~~a~~~ie~e~~~a~~el~~ei~~lA~~~a~kil~~~l~~~~~~~li 161 (173)
T PRK13460 84 ANAIVAEAKSDALKLKNKLLEETNNE--VKAQKDQAVKEIELAKGKALSQLQNQIVEMTITIASKVLEKQLKKEDYKAFI 161 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH
Confidence 66666777666666666555544433 456666666666666655555553 33 88888999888877665544444
No 36
>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=47.80 E-value=1.3e+02 Score=23.26 Aligned_cols=64 Identities=16% Similarity=0.218 Sum_probs=42.8
Q ss_pred hhHHHHHHHHHHhHhHHHHHHHHHHHHHhhccee---eeehhhccchHHHHHHHHhhhhHHHHHHHh
Q 020717 175 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRF---RVTRKALKDPITQAAALAQKNSEATRALAM 238 (322)
Q Consensus 175 ~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRf---Rvtrr~LrdPI~etaAlAqknSeatraLA~ 238 (322)
.+...++.+..++...-+-+..|.+..+++|.-. ...|..|.+=+.++-.++++....++.|..
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 234555666666666666666666665543
No 37
>PRK09835 sensor kinase CusS; Provisional
Probab=47.68 E-value=36 Score=31.53 Aligned_cols=16 Identities=19% Similarity=0.362 Sum_probs=9.9
Q ss_pred ehhhccchHHHHHHHH
Q 020717 211 TRKALKDPITQAAALA 226 (322)
Q Consensus 211 trr~LrdPI~etaAlA 226 (322)
.-.+|+.|+......+
T Consensus 269 laheL~tpl~~i~~~~ 284 (482)
T PRK09835 269 IAHEIRTPITNLITQT 284 (482)
T ss_pred HHHHhhhhHHHHHHHH
Confidence 3446778887655444
No 38
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=44.94 E-value=3.7e+02 Score=27.81 Aligned_cols=96 Identities=20% Similarity=0.204 Sum_probs=60.7
Q ss_pred hhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhc----------cchHHHH----------------------
Q 020717 175 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKAL----------KDPITQA---------------------- 222 (322)
Q Consensus 175 ~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~L----------rdPI~et---------------------- 222 (322)
.|-.=|.++|+++.+.-.-+......+.|+.-++......| ++=+.+.
T Consensus 63 kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~r~qr~~La~~L~A~~r~g~~p~~~ll~~~eda 142 (420)
T COG4942 63 KLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQEREQRRRLAEQLAALQRSGRNPPPALLVSPEDA 142 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCchhhcChhhh
Confidence 45566666777776666666666666665555444333222 1222222
Q ss_pred ---HHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020717 223 ---AALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLELILA 270 (322)
Q Consensus 223 ---aAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQleLil~ 270 (322)
-.++.--...+.++++|+|-|++.+.++..+=-.|..+|+++..++..
T Consensus 143 ~~~~R~ai~~~~l~~~~~~~i~~l~~~~~~l~~~~~~iaaeq~~l~~~~~e 193 (420)
T COG4942 143 QRSVRLAIYYGALNPARAERIDALKATLKQLAAVRAEIAAEQAELTTLLSE 193 (420)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 233333445667889999999999999988888888887777766644
No 39
>PRK10361 DNA recombination protein RmuC; Provisional
Probab=43.51 E-value=2.9e+02 Score=28.89 Aligned_cols=9 Identities=44% Similarity=0.637 Sum_probs=6.2
Q ss_pred HHHHHHHHH
Q 020717 145 CGVWIGAII 153 (322)
Q Consensus 145 ~aV~IGaiI 153 (322)
.|+++|.|+
T Consensus 14 ~~~~~~~~~ 22 (475)
T PRK10361 14 VGVAIGWLF 22 (475)
T ss_pred HHHHHHHHH
Confidence 666777666
No 40
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=43.32 E-value=18 Score=27.36 Aligned_cols=24 Identities=25% Similarity=0.249 Sum_probs=19.8
Q ss_pred eehhhhHHHHHHHHHHHHHHHHHH
Q 020717 136 LACGVVSLVCGVWIGAIIRRRQWR 159 (322)
Q Consensus 136 ~vwg~V~LV~aV~IGaiIRRRQW~ 159 (322)
-+|.++.+|.||+||-|.=-|.-.
T Consensus 4 ~~wlIIviVlgvIigNia~LK~sA 27 (55)
T PF11446_consen 4 NPWLIIVIVLGVIIGNIAALKYSA 27 (55)
T ss_pred hhhHHHHHHHHHHHhHHHHHHHhc
Confidence 579999999999999887665544
No 41
>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=43.12 E-value=1.6e+02 Score=23.15 Aligned_cols=64 Identities=30% Similarity=0.321 Sum_probs=39.6
Q ss_pred hHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhh-HHHHHHHHHHHH
Q 020717 176 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDV-LEKELGEIQKVL 254 (322)
Q Consensus 176 l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~-LEkEL~e~Q~vl 254 (322)
|.+||++|...++-....+.....+-|.|-. .+-+-||++|.. |.-+ --..+.|++.+|
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 6789999988887777766666666665532 233444544433 1110 112567888999
Q ss_pred HHHHH
Q 020717 255 LAMQE 259 (322)
Q Consensus 255 ~amQe 259 (322)
++|+|
T Consensus 63 lal~E 67 (67)
T PF10506_consen 63 LALVE 67 (67)
T ss_pred HHhhC
Confidence 99875
No 42
>KOG3165 consensus Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=41.57 E-value=9.8 Score=35.35 Aligned_cols=47 Identities=30% Similarity=0.446 Sum_probs=29.8
Q ss_pred chhHHHHHHHHHHhHhHHH-----HHHHHHHHHHhhcceeeeehhhccchHH
Q 020717 174 VNLVGRIEKLEEDMKSSAT-----ILRVLSRQLEKLGVRFRVTRKALKDPIT 220 (322)
Q Consensus 174 ~~l~~Ri~kLEe~vrs~~~-----~irvlSRqlEKLGvRfRvtrr~LrdPI~ 220 (322)
..+..+|.-.|+-++-.-+ +---.--.|||||-+|||.=|-+|||=-
T Consensus 75 fsi~~KiDi~~gmmdcl~Ak~~pcitDCVmaELEkLg~kyrvALri~kDpr~ 126 (195)
T KOG3165|consen 75 FSIQNKIDLFEGMMDCLYAKCIPCITDCVMAELEKLGQKYRVALRIAKDPRF 126 (195)
T ss_pred HHHHhHHHHHHHHHHHHHhccccchhHHHHHHHHHhcchhhhhhhhhcCCcc
Confidence 3445566555554443321 1112234799999999999999999943
No 43
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=40.90 E-value=2.8e+02 Score=25.12 Aligned_cols=138 Identities=15% Similarity=0.151 Sum_probs=69.7
Q ss_pred eehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhc
Q 020717 136 LACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKAL 215 (322)
Q Consensus 136 ~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~L 215 (322)
++|+++-++.-+++- .+-=|.-+.+. +..|=+++++++...-..-+-....++..--+..=.|..-
T Consensus 51 ~i~qlInFlIlv~lL---~k~l~kPi~~~-----------L~~R~~~I~~~L~~Ae~~~~eA~~~l~e~e~~L~~A~~eA 116 (205)
T PRK06231 51 FIAHLIAFSILLLLG---IFLFWKPTQRF-----------LNKRKELIEAEINQANELKQQAQQLLENAKQRHENALAQA 116 (205)
T ss_pred HHHHHHHHHHHHHHH---HHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556655554444333 44456544443 5666666666666655554444444444444444444555
Q ss_pred cchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH--HHH-HHHhccccccccccCCccccc
Q 020717 216 KDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQL--ELI-LAIGKTGKLFENRQEPSQEQD 289 (322)
Q Consensus 216 rdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQl--eLi-l~ig~a~~~~~~~~~~~~~~~ 289 (322)
+.=+.++.+.|++.-+....-|. +-.|+.+.+.+.-+.....+-.+|| ++. +++.-|+++....-+..+...
T Consensus 117 ~~Ii~~A~~eAe~~~e~i~~~A~--~eae~ii~~A~~~Ie~Ek~~a~~~Lk~ei~~lAv~iA~kiL~k~ld~~~~~~ 191 (205)
T PRK06231 117 KEIIDQANYEALQLKSELEKEAN--RQANLIIFQARQEIEKERRELKEQLQKESVELAMLAAEELIKKKVDREDDDK 191 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCHHHHHH
Confidence 55555555555544333333222 2234444444444444333333333 222 788888888877765544333
No 44
>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=40.56 E-value=2.5e+02 Score=25.68 Aligned_cols=85 Identities=24% Similarity=0.246 Sum_probs=61.6
Q ss_pred ccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcc-eeeeehhhccchHHHHHHHHhhhhHHH--HHHHhhhhhHHHHHH
Q 020717 172 ESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGV-RFRVTRKALKDPITQAAALAQKNSEAT--RALAMQGDVLEKELG 248 (322)
Q Consensus 172 ~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGv-RfRvtrr~LrdPI~etaAlAqknSeat--raLA~red~LEkEL~ 248 (322)
.......|...|+..+..+..-|..+-.++..||. -+-..-.+ +.+..+.|+.+=+.. |-+..+...-|.|++
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 44456778999999999999999999999999998 22222222 233444444444444 346778888999999
Q ss_pred HHHHHHHHHHHH
Q 020717 249 EIQKVLLAMQEQ 260 (322)
Q Consensus 249 e~Q~vl~amQeq 260 (322)
+-+.+|..++..
T Consensus 157 ~A~~LL~~v~~~ 168 (264)
T PF06008_consen 157 EAEDLLSRVQKW 168 (264)
T ss_pred HHHHHHHHHHHH
Confidence 999999988876
No 45
>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=38.73 E-value=4.6e+02 Score=27.08 Aligned_cols=46 Identities=17% Similarity=0.302 Sum_probs=26.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHH
Q 020717 140 VVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEE 185 (322)
Q Consensus 140 ~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe 185 (322)
+|+++++.++|.|+|||.-.+|..-..+-..-...++..+|.|+.+
T Consensus 6 ivi~l~~~~~~~~~rk~~~k~i~~Le~~k~~l~~~pv~~el~kvk~ 51 (560)
T PF06160_consen 6 IVIVLIIYIIGYIYRKRYYKEIDELEERKNELMNLPVADELSKVKK 51 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 4556667777888888777766554333222234445555555443
No 46
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=38.36 E-value=2.3e+02 Score=23.50 Aligned_cols=133 Identities=17% Similarity=0.236 Sum_probs=69.2
Q ss_pred eehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhc
Q 020717 136 LACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKAL 215 (322)
Q Consensus 136 ~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~L 215 (322)
++|+.+-++.=++ ++.+--|..+.+. +..|=.++.+++...-..-+-....+++.--+..-.+..-
T Consensus 7 ~~~~~i~Flil~~---il~~~~~~pi~~~-----------l~~R~~~I~~~l~~a~~~~~~a~~~~~e~~~~l~~a~~ea 72 (156)
T PRK05759 7 LIGQLIAFLILVW---FIMKFVWPPIMKA-----------LEERQKKIADGLAAAERAKKELELAQAKYEAQLAEARAEA 72 (156)
T ss_pred HHHHHHHHHHHHH---HHHHHhHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455444433222 3456667766555 6777777777777766665555555555444444444444
Q ss_pred cchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhccccccccccCC
Q 020717 216 KDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLELI---LAIGKTGKLFENRQEP 284 (322)
Q Consensus 216 rdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQleLi---l~ig~a~~~~~~~~~~ 284 (322)
..=+.++...|++.-+....-|. +-.++.+.+.+..+...++.-.+|+.-- +++.-|.++.....+.
T Consensus 73 ~~i~~~a~~ea~~~~~~~~~~a~--~ea~~~~~~a~~~i~~e~~~a~~~l~~~~~~lA~~~a~k~l~~~~d~ 142 (156)
T PRK05759 73 AEIIEQAKKRAAQIIEEAKAEAE--AEAARIKAQAQAEIEQERKRAREELRKQVADLAVAGAEKILGRELDA 142 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCH
Confidence 44444444444443333333222 2234444555555555555555555432 6677777776665543
No 47
>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=38.35 E-value=3.5e+02 Score=31.08 Aligned_cols=100 Identities=21% Similarity=0.254 Sum_probs=68.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehh--hccchHH
Q 020717 143 LVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRK--ALKDPIT 220 (322)
Q Consensus 143 LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr--~LrdPI~ 220 (322)
-..+--||+-=|+|-.+|-..+ |..||..|++.+...-+-+..+..+++.|.-+.+.... .|++-..
T Consensus 725 k~~a~~IG~~aR~~~R~~ri~e-----------l~~~IaeL~~~i~~l~~~l~~l~~r~~~L~~e~~~~Ps~~dL~~A~~ 793 (1353)
T TIGR02680 725 KPAAEYIGAAARERARLRRIAE-----------LDARLAAVDDELAELARELRALGARQRALADELAGAPSDRSLRAAHR 793 (1353)
T ss_pred CcchhHhhHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence 4557888988888877755544 78889999999888888888888888888877655444 4555555
Q ss_pred HHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHH
Q 020717 221 QAAALAQKNSEATRALAMQGDVLEKELGEIQKV 253 (322)
Q Consensus 221 etaAlAqknSeatraLA~red~LEkEL~e~Q~v 253 (322)
+..+...+-..+.+.++...+-++.-.+..+..
T Consensus 794 ~l~~A~~~~~~a~~~l~~a~~~l~~a~~~~~~a 826 (1353)
T TIGR02680 794 RAAEAERQAESAERELARAARKAAAAAAAWKQA 826 (1353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555555556655555555444443333
No 48
>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=37.17 E-value=2.3e+02 Score=23.18 Aligned_cols=27 Identities=19% Similarity=0.207 Sum_probs=14.8
Q ss_pred HhhhhHHHHHHHhhhhhHHHHHHHHHH
Q 020717 226 AQKNSEATRALAMQGDVLEKELGEIQK 252 (322)
Q Consensus 226 AqknSeatraLA~red~LEkEL~e~Q~ 252 (322)
.+.|-.++...-.++..+++|-.+.+.
T Consensus 55 ~~~~r~~~~~~~~~~qq~r~~~e~~~e 81 (110)
T PF10828_consen 55 LQQNRQAVEEQQKREQQLRQQSEERRE 81 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 335555555555666666665554444
No 49
>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=36.87 E-value=3e+02 Score=24.39 Aligned_cols=92 Identities=22% Similarity=0.284 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHH
Q 020717 176 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLL 255 (322)
Q Consensus 176 l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~ 255 (322)
...|++.|++.+...-.-+...-+.++++-.-..--+.+|. ......++..+....+-...+-.+..+..+++.+.
T Consensus 68 ~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~----~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~ 143 (302)
T PF10186_consen 68 LRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLS----ASQDLVESRQEQLEELQNELEERKQRLSQLQSQLA 143 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHH
Q 020717 256 AMQEQQQKQLELILAI 271 (322)
Q Consensus 256 amQeqq~KQleLil~i 271 (322)
.-+.+--.||.-|.-|
T Consensus 144 ~~r~~l~~~l~~ifpI 159 (302)
T PF10186_consen 144 RRRRQLIQELSEIFPI 159 (302)
T ss_pred HHHHHHHHHHHHHhCc
No 50
>PLN02372 violaxanthin de-epoxidase
Probab=36.19 E-value=4.6e+02 Score=27.61 Aligned_cols=24 Identities=17% Similarity=0.266 Sum_probs=15.8
Q ss_pred HHHHHhhcccccCCcccchhHHHHHH
Q 020717 157 QWRRVCGEKARAEGRESVNLVGRIEK 182 (322)
Q Consensus 157 QW~Ri~~e~gr~gg~~~~~l~~Ri~k 182 (322)
-|.-.+...+.=| ...+|+.||+|
T Consensus 345 df~~F~~tDNsCg--pep~l~~~l~~ 368 (455)
T PLN02372 345 DFSDFVRTDNTCG--PEPPLLERLEK 368 (455)
T ss_pred CHHHheeeCCCCC--CCchHHHHHHH
Confidence 3677777765443 56778888765
No 51
>PRK11637 AmiB activator; Provisional
Probab=35.07 E-value=4.4e+02 Score=25.79 Aligned_cols=90 Identities=17% Similarity=0.233 Sum_probs=42.6
Q ss_pred hhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHH
Q 020717 175 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVL 254 (322)
Q Consensus 175 ~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl 254 (322)
++..+++.+++.+...-.-+.-+..++.++=-.. ..|..=|.++.....+..+.+..+-.+.+-+|+||.+.|+-+
T Consensus 44 ~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l----~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l 119 (428)
T PRK11637 44 DNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQL----KKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQ 119 (428)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666555544444444443321111 112223333333444444444455555555555665555555
Q ss_pred HHHHHHHHHHHHHH
Q 020717 255 LAMQEQQQKQLELI 268 (322)
Q Consensus 255 ~amQeqq~KQleLi 268 (322)
...+++-.+++.-+
T Consensus 120 ~~~~~~l~~rlra~ 133 (428)
T PRK11637 120 AAQERLLAAQLDAA 133 (428)
T ss_pred HHHHHHHHHHHHHH
Confidence 55555555544433
No 52
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=34.93 E-value=59 Score=25.63 Aligned_cols=28 Identities=25% Similarity=0.382 Sum_probs=24.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcc
Q 020717 138 CGVVSLVCGVWIGAIIRRRQWRRVCGEK 165 (322)
Q Consensus 138 wg~V~LV~aV~IGaiIRRRQW~Ri~~e~ 165 (322)
+.++.|++|+++|.++-|++-..-.++.
T Consensus 2 ~iilali~G~~~Gff~ar~~~~k~l~~N 29 (64)
T PF03672_consen 2 LIILALIVGAVIGFFIARKYMEKQLKEN 29 (64)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 4578899999999999999999887775
No 53
>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=34.06 E-value=1.8e+02 Score=28.09 Aligned_cols=51 Identities=27% Similarity=0.423 Sum_probs=35.3
Q ss_pred hHHHHHHHHhhhhHH-HHHHHhhhhh-HHHHHHHH-HHHHHHHHHHHHHHHHHH
Q 020717 218 PITQAAALAQKNSEA-TRALAMQGDV-LEKELGEI-QKVLLAMQEQQQKQLELI 268 (322)
Q Consensus 218 PI~etaAlAqknSea-traLA~red~-LEkEL~e~-Q~vl~amQeqq~KQleLi 268 (322)
=..+.-++.+..||- +.-||.|.++ +|||++-+ =++|+++|..|..|-++.
T Consensus 179 ll~e~E~~Ir~ySEeLV~qLA~RDELefEKEvKN~FIS~Ll~VQnrqre~r~~~ 232 (244)
T PF07763_consen 179 LLEEMETAIREYSEELVQQLALRDELEFEKEVKNTFISLLLEVQNRQREQRELA 232 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444555555543 4568889886 79999875 578888888887776764
No 54
>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=33.67 E-value=1.4e+02 Score=23.85 Aligned_cols=42 Identities=21% Similarity=0.407 Sum_probs=30.7
Q ss_pred hHHHHHHHHhhh--hHHHHHHHhhhhhHHHHHHHHHHHHHHHHH
Q 020717 218 PITQAAALAQKN--SEATRALAMQGDVLEKELGEIQKVLLAMQE 259 (322)
Q Consensus 218 PI~etaAlAqkn--SeatraLA~red~LEkEL~e~Q~vl~amQe 259 (322)
||.+...+-... .++...|..+.+-||+++.++|.....|..
T Consensus 60 sl~~i~~l~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 103 (108)
T cd01107 60 PLEEIKEILDADNDDELRKLLREKLAELEAEIEELQRILRLLED 103 (108)
T ss_pred CHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555444 467888999999999999999887766653
No 55
>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=33.27 E-value=1.1e+02 Score=26.27 Aligned_cols=31 Identities=23% Similarity=0.408 Sum_probs=21.7
Q ss_pred ccchhHHHHHHHHHHhHhHHHHHHHHHHHHH
Q 020717 172 ESVNLVGRIEKLEEDMKSSATILRVLSRQLE 202 (322)
Q Consensus 172 ~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlE 202 (322)
+-..+.+||++||.+.++.-.+-.-|-|.+.
T Consensus 26 ERaEmkarIa~LEGE~r~~e~l~~dL~rrIk 56 (134)
T PF08232_consen 26 ERAEMKARIAFLEGERRGQENLKKDLKRRIK 56 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345999999999999987665554444433
No 56
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=32.35 E-value=3.7e+02 Score=24.09 Aligned_cols=116 Identities=7% Similarity=0.066 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhh
Q 020717 149 IGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQK 228 (322)
Q Consensus 149 IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqk 228 (322)
+-.++++--|.++.+. +-.|=.++++++......-.-+....+..--..+-.|...+.=..++.+-+..
T Consensus 23 Ly~ll~kf~~ppI~~i-----------Le~R~~~I~~~L~~Ae~~k~eAe~l~a~ye~~L~~Ar~eA~~I~~e~~~~~~a 91 (155)
T PRK06569 23 LYIFVYKFITPKAEEI-----------FNNRQTNIQDNITQADTLTIEVEKLNKYYNEEIDKTNTEIDRLKKEKIDSLES 91 (155)
T ss_pred HHHHHHHHhHHHHHHH-----------HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788889988776 56666666666655544322222211111111111111111111111111110
Q ss_pred hhH-HH-HHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhccccc
Q 020717 229 NSE-AT-RALAMQGDVLEKELGEIQKVLLAMQEQQQKQLELI-LAIGKTGKL 277 (322)
Q Consensus 229 nSe-at-raLA~red~LEkEL~e~Q~vl~amQeqq~KQleLi-l~ig~a~~~ 277 (322)
-++ .. ..-|.=..+|++|+.++-++..-++.+-. =+|| |++.=+.++
T Consensus 92 ~~~~~~~~~ea~L~~~~~~~~~~~~~~~~~~~~~~~--~~~i~~~~~i~~k~ 141 (155)
T PRK06569 92 EFLIKKKNLEQDLKNSINQNIEDINLAAKQFRTNKS--EAIIKLAVNIIEKI 141 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH--HHHHHHHHHHHHHH
Confidence 000 01 11122356899999999998885555443 3455 555544443
No 57
>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=32.28 E-value=1.9e+02 Score=23.34 Aligned_cols=28 Identities=18% Similarity=0.214 Sum_probs=19.8
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHHH
Q 020717 231 EATRALAMQGDVLEKELGEIQKVLLAMQ 258 (322)
Q Consensus 231 eatraLA~red~LEkEL~e~Q~vl~amQ 258 (322)
+....|..+.+-||+++.+++.+...++
T Consensus 79 ~~~~~l~~~~~~l~~~i~~l~~~~~~l~ 106 (123)
T cd04770 79 EVRALLEEKLAEVEAKIAELQALRAELA 106 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556677777888888887777665554
No 58
>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=32.21 E-value=1.4e+02 Score=23.69 Aligned_cols=40 Identities=13% Similarity=0.223 Sum_probs=21.8
Q ss_pred hHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Q 020717 218 PITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQ 258 (322)
Q Consensus 218 PI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQ 258 (322)
||.+.+......+ ....|..+.+-||+++.+++..+..++
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 4444444433322 344566666777777777666655443
No 59
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=31.92 E-value=5.4e+02 Score=25.80 Aligned_cols=98 Identities=19% Similarity=0.305 Sum_probs=54.7
Q ss_pred hHHHHHHHHHHHHHHHHHH--HHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccch
Q 020717 141 VSLVCGVWIGAIIRRRQWR--RVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDP 218 (322)
Q Consensus 141 V~LV~aV~IGaiIRRRQW~--Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdP 218 (322)
..+.+|++-|+..+-|+|- ++..+. ...+.+=...|-+.+....+++..|.-++-+. ++=
T Consensus 90 Avi~aGi~y~~y~~~K~YV~P~~l~~~-------~~k~e~~k~~Ld~~~~~~~~~~~~l~~~va~v-----------~q~ 151 (300)
T KOG2629|consen 90 AVILAGIAYAAYRFVKSYVLPRFLGES-------KDKLEADKRQLDDQFDKAAKSLNALMDEVAQV-----------SQL 151 (300)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHhhCcc-------chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHH
Confidence 4456788888999999986 343332 11244444455555555566655555544332 111
Q ss_pred HHHHHHHHhhhhHHHHHHH-------hhhhhHHHHHHHHHHHHHHHHH
Q 020717 219 ITQAAALAQKNSEATRALA-------MQGDVLEKELGEIQKVLLAMQE 259 (322)
Q Consensus 219 I~etaAlAqknSeatraLA-------~red~LEkEL~e~Q~vl~amQe 259 (322)
+.+++. +.++++..|. .-.+-||.|+.-|-..|+-|+.
T Consensus 152 ~~~qq~---Els~~L~~l~~~~~~~s~~~~k~esei~~Ik~lvln~~~ 196 (300)
T KOG2629|consen 152 LATQQS---ELSRALASLKNTLVQLSRNIEKLESEINTIKQLVLNMSN 196 (300)
T ss_pred HHHHHH---HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcccc
Confidence 222221 2222322222 2355699999999999988863
No 60
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=31.75 E-value=4.1e+02 Score=24.35 Aligned_cols=18 Identities=22% Similarity=0.364 Sum_probs=12.0
Q ss_pred eehhhccchHHHHHHHHh
Q 020717 210 VTRKALKDPITQAAALAQ 227 (322)
Q Consensus 210 vtrr~LrdPI~etaAlAq 227 (322)
..-..|+.|++.....++
T Consensus 262 ~~~h~l~~pl~~i~~~~~ 279 (475)
T PRK11100 262 TLTHELKSPLAAIRGAAE 279 (475)
T ss_pred HhhhhhcCcHHHHHHHHH
Confidence 345678889887655544
No 61
>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=29.95 E-value=35 Score=26.71 Aligned_cols=16 Identities=31% Similarity=0.700 Sum_probs=12.6
Q ss_pred hHHHHHHHHHHHHHHH
Q 020717 141 VSLVCGVWIGAIIRRR 156 (322)
Q Consensus 141 V~LV~aV~IGaiIRRR 156 (322)
+-+.+|+++|.+++||
T Consensus 79 iAagvG~llG~Ll~RR 94 (94)
T PF05957_consen 79 IAAGVGFLLGLLLRRR 94 (94)
T ss_pred HHHHHHHHHHHHHhCC
Confidence 3456788999999987
No 62
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=29.78 E-value=1.7e+02 Score=26.67 Aligned_cols=59 Identities=24% Similarity=0.372 Sum_probs=34.7
Q ss_pred HHHHhhcceeeeehhhccchHHHHHHHHhhhhHH---HHHHH-------hhhhhHHHHHHHHHHHHHHHHHHH
Q 020717 199 RQLEKLGVRFRVTRKALKDPITQAAALAQKNSEA---TRALA-------MQGDVLEKELGEIQKVLLAMQEQQ 261 (322)
Q Consensus 199 RqlEKLGvRfRvtrr~LrdPI~etaAlAqknSea---traLA-------~red~LEkEL~e~Q~vl~amQeqq 261 (322)
-.||++|..|+..+..|.. .-.+....... .+.+- +-.+-+|.++.+++.-+.-||++.
T Consensus 79 ~~LE~~GFnV~~l~~RL~k----LL~lk~~~~~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~ 147 (190)
T PF05266_consen 79 SELEEHGFNVKFLRSRLNK----LLSLKDDQEKLLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQA 147 (190)
T ss_pred HHHHHcCCccHHHHHHHHH----HHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence 4689999988877766543 22221111111 11111 123567888889988888888864
No 63
>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=29.69 E-value=1.2e+02 Score=27.92 Aligned_cols=32 Identities=28% Similarity=0.444 Sum_probs=26.1
Q ss_pred HhHHHHHHHHHHHHHhhcceeeeehhhccchH
Q 020717 188 KSSATILRVLSRQLEKLGVRFRVTRKALKDPI 219 (322)
Q Consensus 188 rs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI 219 (322)
-....+...+.|.++|...|+|-.+++++.+=
T Consensus 143 ~~~~~~wE~l~~tl~k~~~rv~~~~~~~~~~~ 174 (253)
T PF09090_consen 143 LTRSYVWEILNRTLRKVTKRVRQVRKELEEAK 174 (253)
T ss_dssp TTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34578999999999999999998888875443
No 64
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=29.60 E-value=4.4e+02 Score=24.09 Aligned_cols=128 Identities=13% Similarity=0.106 Sum_probs=56.8
Q ss_pred HHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhh
Q 020717 151 AIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNS 230 (322)
Q Consensus 151 aiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknS 230 (322)
.++++--|..+... +..|=+++++++...-..-.-....++..--+..-.+..-.+=+.++.+.|++..
T Consensus 20 ~lL~kfl~kPi~~~-----------l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~i~~~A~~eA~~~~ 88 (246)
T TIGR03321 20 WLLKRFLYRPILDA-----------MDAREKKIAGELADADTKKREAEQERREYEEKNEELDQQREVLLTKAKEEAQAER 88 (246)
T ss_pred HHHHHHhHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566667766655 6677777777776665554444333332222222223333333333333333322
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH--HHH-HHHhccccccccccCCccccchh
Q 020717 231 EATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQL--ELI-LAIGKTGKLFENRQEPSQEQDKL 291 (322)
Q Consensus 231 eatraLA~red~LEkEL~e~Q~vl~amQeqq~KQl--eLi-l~ig~a~~~~~~~~~~~~~~~~~ 291 (322)
+-..+=|. +-.|+.+...+..+..-.+...++| ++. +++-.|+++....-+....+..+
T Consensus 89 ~~i~~~A~--~ea~~~~~~a~~~ie~E~~~a~~~l~~ei~~la~~~A~kil~~~~d~~~~~~li 150 (246)
T TIGR03321 89 QRLLDEAR--EEADEIREKWQEALRREQAALSDELRRRTGAEVFAIARKVLTDLADTDLEERMV 150 (246)
T ss_pred HHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHH
Confidence 22211111 1122222222222222222222222 233 67788888887766655544433
No 65
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=29.40 E-value=2.7e+02 Score=22.77 Aligned_cols=28 Identities=14% Similarity=0.166 Sum_probs=19.8
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHHH
Q 020717 231 EATRALAMQGDVLEKELGEIQKVLLAMQ 258 (322)
Q Consensus 231 eatraLA~red~LEkEL~e~Q~vl~amQ 258 (322)
+....|..+.+.+|+++.++++....++
T Consensus 79 ~~~~~l~~~~~~l~~~i~~L~~~~~~L~ 106 (127)
T cd04784 79 EVNALIDEHLAHVRARIAELQALEKQLQ 106 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556677788888888888776655544
No 66
>PRK11637 AmiB activator; Provisional
Probab=29.39 E-value=3.5e+02 Score=26.50 Aligned_cols=77 Identities=14% Similarity=0.149 Sum_probs=46.2
Q ss_pred hHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHH
Q 020717 176 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQK 252 (322)
Q Consensus 176 l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~ 252 (322)
+...|.+++...+..-.-+..+.++++++.-.++-+.+.|..==.+...+-++..+.-..+..+.+.|.+-++...+
T Consensus 59 ~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~rlra~Y~ 135 (428)
T PRK11637 59 KEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQLDAAFR 135 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444445555556666677777777777666666666555544555555555555556666666666666666555
No 67
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=29.31 E-value=2.9e+02 Score=32.85 Aligned_cols=92 Identities=15% Similarity=0.178 Sum_probs=60.2
Q ss_pred ehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHH---HHHHHHHHhhcceeeeehh
Q 020717 137 ACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATIL---RVLSRQLEKLGVRFRVTRK 213 (322)
Q Consensus 137 vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~i---rvlSRqlEKLGvRfRvtrr 213 (322)
.|-.++--.+.-+..+|-|-+ ..+..|..| .+..++.++|+.+...-.++ -+-.-.+++|+--+-.+||
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 TWDAILQELALRTHRLINRAK---ELKQTGVLG-----AYASRFLDMEEKLEEIRAILSAPSVSAEDIAQLASATESLRR 1239 (1758)
T ss_pred HHHHHHHHHHHHHHHHHHHHH---HhhhccCch-----hhHhHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHH
Confidence 576666666777775554443 333333333 48899999999888776665 3455678888888888888
Q ss_pred hccchHHHHHHHHhhhhHHHHHH
Q 020717 214 ALKDPITQAAALAQKNSEATRAL 236 (322)
Q Consensus 214 ~LrdPI~etaAlAqknSeatraL 236 (322)
.|++---...++-++.|.++..+
T Consensus 1240 ~l~~~~e~L~~~E~~Lsdi~~~~ 1262 (1758)
T KOG0994|consen 1240 QLQALTEDLPQEEETLSDITNSL 1262 (1758)
T ss_pred HHHHHHhhhhhhhhhhhhhhhcc
Confidence 77665555555555566665554
No 68
>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=29.27 E-value=1.2e+02 Score=26.31 Aligned_cols=44 Identities=25% Similarity=0.329 Sum_probs=34.1
Q ss_pred HHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccc---------------hHHHHHHHHhh
Q 020717 183 LEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKD---------------PITQAAALAQK 228 (322)
Q Consensus 183 LEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~Lrd---------------PI~etaAlAqk 228 (322)
.|+++ ...+...|...|++.|+++-+||.+=.+ ++.+-+..|.+
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 56776666653
No 69
>PRK01844 hypothetical protein; Provisional
Probab=29.23 E-value=75 Score=25.70 Aligned_cols=28 Identities=36% Similarity=0.501 Sum_probs=24.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcc
Q 020717 138 CGVVSLVCGVWIGAIIRRRQWRRVCGEK 165 (322)
Q Consensus 138 wg~V~LV~aV~IGaiIRRRQW~Ri~~e~ 165 (322)
..++.|++|+++|.+|-|++-....++.
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 3467789999999999999999888886
No 70
>PRK13694 hypothetical protein; Provisional
Probab=29.16 E-value=63 Score=26.81 Aligned_cols=34 Identities=24% Similarity=0.371 Sum_probs=19.8
Q ss_pred hhHHHHHHHHHHhHhHHHHHHHHHHHHHhhccee
Q 020717 175 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRF 208 (322)
Q Consensus 175 ~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRf 208 (322)
.++.|||+||++-.....-++-.=-...--|..+
T Consensus 16 ~fIERIERLEeEkk~i~~dikdVyaEAK~~GfD~ 49 (83)
T PRK13694 16 AFIERIERLEEEKKTISDDIKDVYAEAKGNGFDV 49 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcH
Confidence 3899999999985444444443333333333333
No 71
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=29.10 E-value=97 Score=32.36 Aligned_cols=43 Identities=26% Similarity=0.371 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHH--HHHhhcccccCCcccchhHHHHHHHHHHhHhHH
Q 020717 144 VCGVWIGAIIRRRQW--RRVCGEKARAEGRESVNLVGRIEKLEEDMKSSA 191 (322)
Q Consensus 144 V~aV~IGaiIRRRQW--~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~ 191 (322)
..|+..|+-|-|.+= .|+.+|=.+ +-+|++++-.-||++|..+
T Consensus 262 l~Gl~LGiaIqrlrelnqrL~~EL~~-----~raLaeqListEEsiRk~v 306 (497)
T COG3851 262 LTGLGLGIAIQRLRELNQRLQKELAR-----NRALAEQLISTEESIRKDV 306 (497)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-----hHHHHHHHHhhHHHHHHHH
Confidence 356666766665332 266666433 3469999999999998764
No 72
>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=28.51 E-value=65 Score=26.07 Aligned_cols=42 Identities=21% Similarity=0.385 Sum_probs=31.9
Q ss_pred hhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhcc
Q 020717 175 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALK 216 (322)
Q Consensus 175 ~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~Lr 216 (322)
.++.||++||++-.....-++-.=....--|...-+.|+-++
T Consensus 8 ~~ieRiErLEeEk~~i~~dikdVyaEAK~~GfD~K~lr~ii~ 49 (74)
T PF10073_consen 8 QFIERIERLEEEKKAISDDIKDVYAEAKGNGFDTKALRQIIR 49 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence 488999999999988887777777777777776665555443
No 73
>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=28.48 E-value=1.4e+02 Score=24.42 Aligned_cols=30 Identities=23% Similarity=0.258 Sum_probs=14.0
Q ss_pred HHHHHHHHhhhhHHHHHHHhhhh-hHHHHHH
Q 020717 219 ITQAAALAQKNSEATRALAMQGD-VLEKELG 248 (322)
Q Consensus 219 I~etaAlAqknSeatraLA~red-~LEkEL~ 248 (322)
|.+.--.-+..++-++.+.++-+ +||+||+
T Consensus 74 l~el~G~~~~l~~~l~~v~~~~~lLlE~~lk 104 (106)
T PF10805_consen 74 LAELRGELKELSARLQGVSHQLDLLLENELK 104 (106)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 33333333444444555555444 3466654
No 74
>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=28.43 E-value=87 Score=29.55 Aligned_cols=30 Identities=27% Similarity=0.460 Sum_probs=27.0
Q ss_pred hHHHHHHHHHHhHhHHHHHHHHHHHHHhhc
Q 020717 176 LVGRIEKLEEDMKSSATILRVLSRQLEKLG 205 (322)
Q Consensus 176 l~~Ri~kLEe~vrs~~~~irvlSRqlEKLG 205 (322)
+..|..+||++++..-..+..|-+.+++|-
T Consensus 91 FR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~ 120 (248)
T PF08172_consen 91 FRQRNAELEEELRKQQQTISSLRREVESLR 120 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 788999999999999999999999888873
No 75
>KOG4608 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.08 E-value=48 Score=32.39 Aligned_cols=56 Identities=18% Similarity=0.224 Sum_probs=33.7
Q ss_pred ccce-eehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHh
Q 020717 132 GSRV-LACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKS 189 (322)
Q Consensus 132 gar~-~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs 189 (322)
|+-. .+.+.++++...++|-=.--+.-.-...-++++. +.+.+-++|++|+|+.+-
T Consensus 191 G~~lG~tv~~~l~l~q~a~~k~vnE~~~l~~~dyk~~l~--vts~~~~aie~L~q~e~~ 247 (270)
T KOG4608|consen 191 GALLGTTVGGLLMLFQKASGKTVNERKQLKLEDYKGRLQ--VTSHLPEAIESLLQEEEP 247 (270)
T ss_pred ehhhcchHHHHHHHHHHHhCCcHHHHHHHHHHhhccccc--cccchHHHHHHHHHHhCc
Confidence 4444 5666777777777774333222111222345554 677788999999998653
No 76
>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=28.00 E-value=3e+02 Score=23.52 Aligned_cols=71 Identities=25% Similarity=0.361 Sum_probs=45.5
Q ss_pred HHHHHHhHhHHHHHHHHHHHHHhh-----cceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHH
Q 020717 181 EKLEEDMKSSATILRVLSRQLEKL-----GVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLL 255 (322)
Q Consensus 181 ~kLEe~vrs~~~~irvlSRqlEKL-----GvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~ 255 (322)
+..|+..+..++-|-..+++.|.| |+-. +=.+=....+.|..+|-++-.-|..-.+.-|+.|..++.++.
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 EEFEENIKELATDIIRKAKQIEYLIDSLPGIEV-----SEEEQLKRIKELEEENEEAEEELQEAVKEAEELLKQVQELIR 139 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHSTTSSS------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC-----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567788888888888899998887 3221 112223455666667777766666666666666666666554
Q ss_pred H
Q 020717 256 A 256 (322)
Q Consensus 256 a 256 (322)
.
T Consensus 140 ~ 140 (144)
T PF11221_consen 140 E 140 (144)
T ss_dssp T
T ss_pred H
Confidence 3
No 77
>TIGR00162 conserved hypothetical protein TIGR00162. This ortholog set includes MJ1210 from Methanococcus jannaschii and AF0525 from Archaeoglobus fulgidus, but not MJ0106 or AF1251.
Probab=27.67 E-value=1e+02 Score=27.59 Aligned_cols=47 Identities=21% Similarity=0.374 Sum_probs=30.3
Q ss_pred ccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 020717 215 LKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQK 263 (322)
Q Consensus 215 LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~K 263 (322)
+-||=. ++++-+.-++++ .+..=-+-||+|-.++++.+..||+++++
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 455522 333333444444 55555677888888999888888888865
No 78
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=27.63 E-value=4.2e+02 Score=23.21 Aligned_cols=82 Identities=23% Similarity=0.270 Sum_probs=50.6
Q ss_pred hHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 020717 187 MKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLE 266 (322)
Q Consensus 187 vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQle 266 (322)
+.....+.+.+=+.++|-=-+++-.|+=+---+--+..+..+-.+.-..-.. .+-..+-+.++..+|.-|.+.=+||++
T Consensus 103 ~~~~~~~~~~I~~~v~~~P~~l~~a~~Fl~~yLp~~~~l~~kY~~l~~~~~~-~~~~~~~l~e~~~~L~~l~~~f~~~~~ 181 (199)
T PF10112_consen 103 VSRIEKIARRIFKYVEKDPERLTQARKFLYYYLPTAVKLLEKYAELESQPVK-SEEIKQSLEEIEETLDTLNQAFEKDLD 181 (199)
T ss_pred HHHHHHHHHHHHHHHHHCHHhHHHHHHHHHHHhhHHHHHHHHHHHHHhccCC-ChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555566666666666666666665555555555565555554332221 233445577788888888888888888
Q ss_pred HHH
Q 020717 267 LIL 269 (322)
Q Consensus 267 Lil 269 (322)
-++
T Consensus 182 ~l~ 184 (199)
T PF10112_consen 182 KLL 184 (199)
T ss_pred HHH
Confidence 765
No 79
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=27.36 E-value=7.2e+02 Score=25.83 Aligned_cols=51 Identities=14% Similarity=0.109 Sum_probs=35.9
Q ss_pred hHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020717 218 PITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLELI 268 (322)
Q Consensus 218 PI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQleLi 268 (322)
-|.+.-....+.....+..+...+-+++.|..+.+-+.+++.|..+|.+.+
T Consensus 67 ~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~r~qr~~L 117 (420)
T COG4942 67 QLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQEREQRRRL 117 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444455556666777888999999999999999888887776
No 80
>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=26.76 E-value=3.6e+02 Score=23.28 Aligned_cols=74 Identities=22% Similarity=0.275 Sum_probs=45.7
Q ss_pred hHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHH
Q 020717 176 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLL 255 (322)
Q Consensus 176 l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~ 255 (322)
+-.|..++|+.+.+.-.=+..|--+|+++--++.-... -+.+..... ...-.|-.|..+||.||....+-|.
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 LEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKE----KLEESEKRK----SNAEQLNRRIQLLEEELEEAEKKLK 97 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhHHHHH----HhHHHHHhhHHHHHHHHHHHHHHHH
Confidence 44566666777777777777777777776654432221 111221111 1222788999999999999888775
Q ss_pred HH
Q 020717 256 AM 257 (322)
Q Consensus 256 am 257 (322)
--
T Consensus 98 e~ 99 (143)
T PF12718_consen 98 ET 99 (143)
T ss_pred HH
Confidence 43
No 81
>PRK00523 hypothetical protein; Provisional
Probab=26.57 E-value=98 Score=25.05 Aligned_cols=30 Identities=20% Similarity=0.432 Sum_probs=25.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhcccc
Q 020717 138 CGVVSLVCGVWIGAIIRRRQWRRVCGEKAR 167 (322)
Q Consensus 138 wg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr 167 (322)
..++.|++|+++|.+|-|++-+...++.-+
T Consensus 10 l~i~~li~G~~~Gffiark~~~k~l~~NPp 39 (72)
T PRK00523 10 LGIPLLIVGGIIGYFVSKKMFKKQIRENPP 39 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCcC
Confidence 456678999999999999999988887633
No 82
>PRK15048 methyl-accepting chemotaxis protein II; Provisional
Probab=26.54 E-value=6.4e+02 Score=24.97 Aligned_cols=13 Identities=23% Similarity=-0.018 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHH
Q 020717 143 LVCGVWIGAIIRR 155 (322)
Q Consensus 143 LV~aV~IGaiIRR 155 (322)
++++++++.+|++
T Consensus 202 ~~~~~~~~~~i~~ 214 (553)
T PRK15048 202 VLILLVAWYGIRR 214 (553)
T ss_pred HHHHHHHHHHHHH
Confidence 3444445555554
No 83
>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=26.15 E-value=2.1e+02 Score=25.13 Aligned_cols=44 Identities=18% Similarity=0.210 Sum_probs=29.6
Q ss_pred chHHHHHHHHh-hhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Q 020717 217 DPITQAAALAQ-KNSEATRALAMQGDVLEKELGEIQKVLLAMQEQ 260 (322)
Q Consensus 217 dPI~etaAlAq-knSeatraLA~red~LEkEL~e~Q~vl~amQeq 260 (322)
-||.+...+.. .+.++...|..+.+.|++|+.+++.....++..
T Consensus 59 ~sL~eI~~ll~~~~~~~~~~L~~~~~~l~~ei~~L~~~~~~l~~l 103 (172)
T cd04790 59 VSLEDIRSLLQQPGDDATDVLRRRLAELNREIQRLRQQQRAIATL 103 (172)
T ss_pred CCHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35555555443 334556678888888999988888777666553
No 84
>KOG2189 consensus Vacuolar H+-ATPase V0 sector, subunit a [Energy production and conversion]
Probab=26.08 E-value=4.3e+02 Score=29.73 Aligned_cols=92 Identities=25% Similarity=0.314 Sum_probs=67.8
Q ss_pred hhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHH
Q 020717 175 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVL 254 (322)
Q Consensus 175 ~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl 254 (322)
+=+.|.+++|. -+|-|-.++.|-|+..--+...+- ..+.....-|-.+-+-||.||.|+.+--
T Consensus 53 ~evrRcdemeR-------klrfl~~ei~k~~i~~~~~~~~~~----------~p~~~~i~dle~~l~klE~el~eln~n~ 115 (829)
T KOG2189|consen 53 NEVRRCDEMER-------KLRFLESEIKKAGIPLPDLDESPP----------APPPREIIDLEEQLEKLESELRELNANK 115 (829)
T ss_pred HHHHHHHHHHH-------HHHHHHHHHHhcCCCCCCccccCC----------CCCchHHHHHHHHHHHHHHHHHHHHhhH
Confidence 34566666664 467788899999998763332221 1223334456667788999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhccccccccccC
Q 020717 255 LAMQEQQQKQLELILAIGKTGKLFENRQE 283 (322)
Q Consensus 255 ~amQeqq~KQleLil~ig~a~~~~~~~~~ 283 (322)
.+++...-..+|+...+.+++..++....
T Consensus 116 ~~L~~n~~eL~E~~~vl~~t~~Ff~~~~~ 144 (829)
T KOG2189|consen 116 EALKANYNELLELKYVLEKTDEFFSTSVQ 144 (829)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhcccchh
Confidence 99999999999999999999998877443
No 85
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=25.77 E-value=2.7e+02 Score=24.62 Aligned_cols=46 Identities=22% Similarity=0.308 Sum_probs=40.1
Q ss_pred hhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 020717 227 QKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLELILAIG 272 (322)
Q Consensus 227 qknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQleLil~ig 272 (322)
|+.+||-.-+-.|.|.+++||....+-+.-||+.-.||=+-+.-+.
T Consensus 65 qel~EAr~nV~kRlefI~~Eikr~e~~i~d~q~e~~k~R~~v~k~Q 110 (120)
T KOG3478|consen 65 QELEEARTNVGKRLEFISKEIKRLENQIRDSQEEFEKQREAVIKLQ 110 (120)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677787888899999999999999999999999999988775443
No 86
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=25.68 E-value=3.4e+02 Score=21.46 Aligned_cols=114 Identities=15% Similarity=0.230 Sum_probs=51.7
Q ss_pred eehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhc
Q 020717 136 LACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKAL 215 (322)
Q Consensus 136 ~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~L 215 (322)
+.|+.+-+++-++ ++.+--|..+.+. +..|-.++..++...-..-.-.....+..--+..-+|..-
T Consensus 2 l~~~~i~Flil~~---~l~~~~~~pi~~~-----------l~~R~~~I~~~~~~a~~~~~ea~~~~~e~~~~l~~a~~ea 67 (132)
T PF00430_consen 2 LFWQLINFLILFF---LLNKFLYKPIKKF-----------LDERKAKIQSELEEAEELKEEAEQLLAEYEEKLAEAREEA 67 (132)
T ss_dssp HHHHHHHHHHHHH---HHHHHTHHHHHHH-----------CS--S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHH---HHHHHHHHHHHHH-----------HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566555443332 3345556666555 3344444444444444333333333333333333344444
Q ss_pred cchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 020717 216 KDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQL 265 (322)
Q Consensus 216 rdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQl 265 (322)
..=+.++-..+.+.-+. .+..=++-+++.+.+.+.-+...+++-.+++
T Consensus 68 ~~i~~~a~~~a~~~~~~--~~~ea~~~~~~~~~~a~~~i~~e~~~a~~~l 115 (132)
T PF00430_consen 68 QEIIEEAKEEAEKEKEE--ILAEAEKEAERIIEQAEAEIEQEKEKAKKEL 115 (132)
T ss_dssp CHHHHHHCHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444443333 2333344456666666666655555555544
No 87
>COG3750 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.52 E-value=1.2e+02 Score=25.39 Aligned_cols=41 Identities=24% Similarity=0.405 Sum_probs=25.8
Q ss_pred hhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhc
Q 020717 175 NLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKAL 215 (322)
Q Consensus 175 ~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~L 215 (322)
.++.|||+||++-.....=+.-.--.+.--|..+.+.|.-+
T Consensus 18 afIerIERlEeEk~~i~~dikdvy~eakg~GFDvKa~r~ii 58 (85)
T COG3750 18 AFIERIERLEEEKKTIADDIKDVYAEAKGHGFDVKAVRTII 58 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHH
Confidence 48899999999876655555544445555555555544443
No 88
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=24.78 E-value=4.3e+02 Score=22.40 Aligned_cols=140 Identities=14% Similarity=0.185 Sum_probs=73.2
Q ss_pred eehhhhHHHHHHHHHHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhc
Q 020717 136 LACGVVSLVCGVWIGAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKAL 215 (322)
Q Consensus 136 ~vwg~V~LV~aV~IGaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~L 215 (322)
+.|+++-++ ++-.++++--|..+.+. +..|=.++.+++...-..-.-....+++.--+..=.|..-
T Consensus 11 ~~~~~infl---il~~lL~~fl~kpi~~~-----------l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~l~~A~~ea 76 (164)
T PRK14473 11 LIAQLINFL---LLIFLLRTFLYRPVLNL-----------LNERTRRIEESLRDAEKVREQLANAKRDYEAELAKARQEA 76 (164)
T ss_pred HHHHHHHHH---HHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555443 33345577788877665 6777777777777666555555555554444444445555
Q ss_pred cchHHHHHHHHhhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH--HH-HHHhccccccccccCCccccchh
Q 020717 216 KDPITQAAALAQKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQKQLE--LI-LAIGKTGKLFENRQEPSQEQDKL 291 (322)
Q Consensus 216 rdPI~etaAlAqknSeatraLA~red~LEkEL~e~Q~vl~amQeqq~KQle--Li-l~ig~a~~~~~~~~~~~~~~~~~ 291 (322)
++=|.++.+.|++.-+....-|..+ .++.+.+.++-+....+.-.++|. +. +++--|+++.....+....+..|
T Consensus 77 ~~ii~~A~~~a~~~~~~~l~~A~~e--a~~~~~~a~~~I~~ek~~a~~~L~~~i~~la~~~a~kil~~~l~~~~~~~li 153 (164)
T PRK14473 77 AKIVAQAQERARAQEAEIIAQARRE--AEKIKEEARAQAEQERQRMLSELKSQIADLVTLTASRVLGAELQARGHDALI 153 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHH
Confidence 5555555555555444333333222 223333333333322222222221 22 67777888887777655544443
No 89
>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=24.16 E-value=64 Score=28.82 Aligned_cols=28 Identities=29% Similarity=0.506 Sum_probs=21.8
Q ss_pred ccccceeehhhhHHHHHHHHHHHHHHHHH
Q 020717 130 LIGSRVLACGVVSLVCGVWIGAIIRRRQW 158 (322)
Q Consensus 130 ~igar~~vwg~V~LV~aV~IGaiIRRRQW 158 (322)
++++. ..||.+.+++.+++|.++|++.+
T Consensus 180 w~pn~-lgiG~v~I~~l~~~~~~l~~~r~ 207 (209)
T PF11353_consen 180 WVPNP-LGIGTVLIVLLILLGFLLRRRRL 207 (209)
T ss_pred EeccH-HHHHHHHHHHHHHHHHHHHHhhc
Confidence 33443 44799999999999999999865
No 90
>PRK10604 sensor protein RstB; Provisional
Probab=23.83 E-value=6.4e+02 Score=24.00 Aligned_cols=40 Identities=18% Similarity=0.291 Sum_probs=19.1
Q ss_pred HHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHH
Q 020717 180 IEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQA 222 (322)
Q Consensus 180 i~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~et 222 (322)
+..|.+.+..++.-++.+-....++ .+..--+||-|++..
T Consensus 191 l~~L~~~fn~m~~~l~~~~~~~~~l---~~~vsHeLrtPL~~i 230 (433)
T PRK10604 191 LERLGVAFNQMADNINALIASKKQL---IDGIAHELRTPLVRL 230 (433)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HHHhhHhhcChHHHH
Confidence 4555555555554444332221111 222335688888754
No 91
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, an
Probab=23.37 E-value=3.3e+02 Score=22.11 Aligned_cols=41 Identities=10% Similarity=0.181 Sum_probs=23.1
Q ss_pred chHHHHHHHHhhh---hHHHHHHHhhhhhHHHHHHHHHHHHHHH
Q 020717 217 DPITQAAALAQKN---SEATRALAMQGDVLEKELGEIQKVLLAM 257 (322)
Q Consensus 217 dPI~etaAlAqkn---SeatraLA~red~LEkEL~e~Q~vl~am 257 (322)
-||.+........ ......|..+.+.+++++.+++.+..-+
T Consensus 57 ~~L~eI~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~L 100 (120)
T cd04781 57 FSLDEIQAMLSHDGKPPIDRQLLKAKAAELDQQIQRLQAMRELL 100 (120)
T ss_pred CCHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555555544332 1223466777777777777776665444
No 92
>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=23.30 E-value=5.3e+02 Score=22.93 Aligned_cols=69 Identities=19% Similarity=0.238 Sum_probs=46.0
Q ss_pred HHHhhcceeeee-----hhhccchHHHHHHHHhhhhHHHHHHHhhhh-hHHHHHHHHHHHHH----HH--HHHHHHHHHH
Q 020717 200 QLEKLGVRFRVT-----RKALKDPITQAAALAQKNSEATRALAMQGD-VLEKELGEIQKVLL----AM--QEQQQKQLEL 267 (322)
Q Consensus 200 qlEKLGvRfRvt-----rr~LrdPI~etaAlAqknSeatraLA~red-~LEkEL~e~Q~vl~----am--Qeqq~KQleL 267 (322)
.+..||..|.-. ..+|-+||..++.....++-++..|....+ -++.=|+|.-.... .| ..+.+.|+++
T Consensus 41 dl~elG~~fn~ls~~E~~~~L~~~le~~g~a~D~~~~~~~~l~~~l~~~f~EpL~E~~~y~~s~k~vlk~R~~K~~Q~e~ 120 (187)
T cd07629 41 DMADLGGRFNAFSLEEQKSELAEALEKVGQAVDSTYLATEALVGSLYYNINEPLSESAQFAGVVRELLKYRKLKHVQYEM 120 (187)
T ss_pred HHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555544422 237889999999999999999999998755 47777777544333 33 4455556666
Q ss_pred H
Q 020717 268 I 268 (322)
Q Consensus 268 i 268 (322)
+
T Consensus 121 l 121 (187)
T cd07629 121 T 121 (187)
T ss_pred H
Confidence 5
No 93
>PRK14827 undecaprenyl pyrophosphate synthase; Provisional
Probab=22.64 E-value=3.6e+02 Score=26.42 Aligned_cols=34 Identities=24% Similarity=0.409 Sum_probs=21.7
Q ss_pred HHHHHHHhhcceeeeeh------hhccchHHHHHHHHhhh
Q 020717 196 VLSRQLEKLGVRFRVTR------KALKDPITQAAALAQKN 229 (322)
Q Consensus 196 vlSRqlEKLGvRfRvtr------r~LrdPI~etaAlAqkn 229 (322)
.....+.+.|||+|+.. +.+++=|.++.+..+.|
T Consensus 145 ~~~~~~~~~~irir~iG~~~~Lp~~v~~~i~~~e~~T~~n 184 (296)
T PRK14827 145 RRRDNLNKMGVRIRWVGSRPRLWRSVINELAIAEEMTKSN 184 (296)
T ss_pred HHHHHHHHCCcEEEEEechhhCCHHHHHHHHHHHHHhcCC
Confidence 33445788999999998 44444455554445544
No 94
>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=22.34 E-value=1.8e+02 Score=22.90 Aligned_cols=36 Identities=14% Similarity=0.132 Sum_probs=23.2
Q ss_pred hHHHHHHHHhhhh-HHHHHHHhhhhhHHHHHHHHHHH
Q 020717 218 PITQAAALAQKNS-EATRALAMQGDVLEKELGEIQKV 253 (322)
Q Consensus 218 PI~etaAlAqknS-eatraLA~red~LEkEL~e~Q~v 253 (322)
||.+...+-.... +....|..+.+.||+++.+++.+
T Consensus 59 ~l~eI~~~l~~~~~~~~~~l~~~~~~l~~~i~~l~~~ 95 (96)
T cd04788 59 SLREIGRALDGPDFDPLELLRRQLARLEEQLELATRL 95 (96)
T ss_pred CHHHHHHHHhCCChhHHHHHHHHHHHHHHHHHHHHhc
Confidence 4444444433322 55677888888888888888753
No 95
>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=22.15 E-value=2.4e+02 Score=22.25 Aligned_cols=35 Identities=29% Similarity=0.340 Sum_probs=26.1
Q ss_pred hhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 020717 229 NSEATRALAMQGDVLEKELGEIQKVLLAMQEQQQK 263 (322)
Q Consensus 229 nSeatraLA~red~LEkEL~e~Q~vl~amQeqq~K 263 (322)
-.+|..-|..|.+.|++++.++++-+..++++-.+
T Consensus 85 ~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~ 119 (129)
T cd00890 85 LEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITE 119 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567778888888888888888888877765543
No 96
>PHA02629 A-type inclusion body protein; Provisional
Probab=21.99 E-value=1.4e+02 Score=23.42 Aligned_cols=26 Identities=23% Similarity=0.383 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhHhHHHHHHHHHHHHH
Q 020717 177 VGRIEKLEEDMKSSATILRVLSRQLE 202 (322)
Q Consensus 177 ~~Ri~kLEe~vrs~~~~irvlSRqlE 202 (322)
-.||+-||.++|..+..|.+|-.-+|
T Consensus 32 rk~iavleaelr~~metik~lekf~e 57 (61)
T PHA02629 32 RKIIAVLEAELRKSMETIKALEKFME 57 (61)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45899999999999999999877665
No 97
>cd07307 BAR The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature. 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. Mutations in BAR containing proteins have been linked to diseases and their inactivation in cells leads to altered membrane dynamics. A BAR domain with an additional N-terminal amphipathic helix (an N-BAR) can drive membrane curvature. These N-BAR domains are found in amphiphysins and endophilins, among others. BAR domains are also frequently found alongside domains that determine lipid specificity, such as the Pleckstrin Homology (PH) and Phox Homology (PX) domains which are present in beta centaurins (ACAPs and ASAPs) and sorting nexins, respectively. A FES-CIP4 Homology (FCH) domain together with a coiled coil region is called the F-
Probab=21.68 E-value=4.1e+02 Score=20.97 Aligned_cols=96 Identities=18% Similarity=0.206 Sum_probs=57.1
Q ss_pred hHHHHHHHHHHhHhHHH-------HHHHHHHHHHhhcceeeeehh-hccchHHHHHHHHhhhhHHHHHHHhhh-----hh
Q 020717 176 LVGRIEKLEEDMKSSAT-------ILRVLSRQLEKLGVRFRVTRK-ALKDPITQAAALAQKNSEATRALAMQG-----DV 242 (322)
Q Consensus 176 l~~Ri~kLEe~vrs~~~-------~irvlSRqlEKLGvRfRvtrr-~LrdPI~etaAlAqknSeatraLA~re-----d~ 242 (322)
+..++.+|-+..+..+. ....++..+.++|..+-..-- .|..++.+.+....+..+....+..+. +-
T Consensus 5 ~~~~~~kl~k~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~v~~p 84 (194)
T cd07307 5 LEKLLKKLIKDTKKLLDSLKELPAAAEKLSEALQELGKELPDLSNTDLGEALEKFGKIQKELEEFRDQLEQKLENKVIEP 84 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555555555555 778888899999988754332 266788888888888877777776654 22
Q ss_pred HHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 020717 243 LEKEL-GEIQKVLLAMQEQQQKQLELILAI 271 (322)
Q Consensus 243 LEkEL-~e~Q~vl~amQeqq~KQleLil~i 271 (322)
|+.=+ +.+..+-........++++.=-+.
T Consensus 85 L~~~~~~~~~~~~~~~k~~~~~~~~yd~~~ 114 (194)
T cd07307 85 LKEYLKKDLKEIKKRRKKLDKARLDYDAAR 114 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 22222 333334444444455555544333
No 98
>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=21.65 E-value=5.9e+02 Score=22.77 Aligned_cols=27 Identities=26% Similarity=0.511 Sum_probs=21.0
Q ss_pred ehhhhHHHHHHHHHHHHHHHHHHHHhh
Q 020717 137 ACGVVSLVCGVWIGAIIRRRQWRRVCG 163 (322)
Q Consensus 137 vwg~V~LV~aV~IGaiIRRRQW~Ri~~ 163 (322)
+-.++.+++|+++|.++++..+..-..
T Consensus 4 i~~i~~~~vG~~~G~~~~~~~~~~~~~ 30 (201)
T PF12072_consen 4 IIAIVALIVGIGIGYLVRKKINRKKLE 30 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345788999999999999888875443
No 99
>PF00901 Orbi_VP5: Orbivirus outer capsid protein VP5; InterPro: IPR000145 The orbivirus VP5 protein is one of the two proteins (with VP2) which make up the virus particle outer capsid. Cryoelectron microscopy indicates that VP5 is a trimer suggesting that there are 360 copies of VP5 per virion [].; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=21.35 E-value=4.6e+02 Score=27.94 Aligned_cols=35 Identities=20% Similarity=0.328 Sum_probs=26.8
Q ss_pred cccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhc
Q 020717 171 RESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLG 205 (322)
Q Consensus 171 ~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLG 205 (322)
+.+-.+..+|.+||+..++-....+-=..-.+|+|
T Consensus 84 PgE~~l~~Kl~eLE~e~k~d~v~~khn~~I~~k~g 118 (508)
T PF00901_consen 84 PGEQGLQRKLKELEDEQKEDEVREKHNKKIIEKFG 118 (508)
T ss_pred HhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 35566889999999999988766666556667777
No 100
>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=21.25 E-value=3.6e+02 Score=22.45 Aligned_cols=28 Identities=11% Similarity=0.342 Sum_probs=18.3
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHHH
Q 020717 231 EATRALAMQGDVLEKELGEIQKVLLAMQ 258 (322)
Q Consensus 231 eatraLA~red~LEkEL~e~Q~vl~amQ 258 (322)
+....|..+.+.||+++.++++....|+
T Consensus 81 ~~~~~l~~~~~~l~~~i~~L~~~~~~L~ 108 (131)
T TIGR02043 81 EVKAIVDAKLELVDEKINELTKIRRSLK 108 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556667777777777777666654443
No 101
>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]
Probab=21.15 E-value=4.8e+02 Score=31.85 Aligned_cols=109 Identities=17% Similarity=0.209 Sum_probs=73.8
Q ss_pred HHHHHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhH---hHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHHHH
Q 020717 150 GAIIRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMK---SSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAALA 226 (322)
Q Consensus 150 GaiIRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vr---s~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaAlA 226 (322)
..-+|.-+||++..---+.- ....=...+.+.|+.+. ....-.+..-..+|+.+.+.=+-+-.|.+-....-...
T Consensus 812 ~~~lr~w~W~~Lf~kvkPLL--~~~~~ee~~~~~~~e~~~l~~~l~~~e~~~~ele~~~~~~~~e~~~l~~~l~~e~~~~ 889 (1930)
T KOG0161|consen 812 YLKLRTWPWWRLFTKVKPLL--KVTKTEEEMRAKEEEIQKLKEELQKSESKRKELEEKLVKLLEEKNDLQEQLQAEKENL 889 (1930)
T ss_pred HHhhccCHHHHHHHHHHHHH--HhhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456668888765421110 00011244555555443 33455566667777777777777777887787777778
Q ss_pred hhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Q 020717 227 QKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQ 260 (322)
Q Consensus 227 qknSeatraLA~red~LEkEL~e~Q~vl~amQeq 260 (322)
.+..|....+..+...+|+++.+.+.=+...|++
T Consensus 890 ~~aee~~~~~~~~k~~le~~l~~~~~~~e~~ee~ 923 (1930)
T KOG0161|consen 890 AEAEELLERLRAEKQELEKELKELKERLEEEEEK 923 (1930)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888888999999999999999999988888774
No 102
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=20.88 E-value=3.4e+02 Score=22.93 Aligned_cols=28 Identities=18% Similarity=0.233 Sum_probs=17.1
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHHH
Q 020717 231 EATRALAMQGDVLEKELGEIQKVLLAMQ 258 (322)
Q Consensus 231 eatraLA~red~LEkEL~e~Q~vl~amQ 258 (322)
+....|..+.+.+|+++.++++....|+
T Consensus 81 ~~~~~l~~~~~~l~~~i~~L~~~~~~L~ 108 (140)
T PRK09514 81 EVKGIVDEKLAEVEAKIAELQHMRRSLQ 108 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566677777777777665544443
No 103
>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=20.85 E-value=6.6e+02 Score=26.41 Aligned_cols=15 Identities=13% Similarity=0.317 Sum_probs=9.9
Q ss_pred hhhccchHHHHHHHH
Q 020717 212 RKALKDPITQAAALA 226 (322)
Q Consensus 212 rr~LrdPI~etaAlA 226 (322)
--+||.|++.....+
T Consensus 493 SHELrtPL~~I~~~l 507 (703)
T TIGR03785 493 SHELRTPVAVVRSSL 507 (703)
T ss_pred HHHHhhHHHHHHHHH
Confidence 367888887665444
No 104
>PRK06041 flagellar assembly protein J; Reviewed
Probab=20.83 E-value=9.7e+02 Score=25.02 Aligned_cols=98 Identities=12% Similarity=0.087 Sum_probs=69.7
Q ss_pred CcccchhHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeee--hhhccchHHHHHHHHhhhhHHHHHHHhhhhhHHHHH
Q 020717 170 GRESVNLVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVT--RKALKDPITQAAALAQKNSEATRALAMQGDVLEKEL 247 (322)
Q Consensus 170 g~~~~~l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvt--rr~LrdPI~etaAlAqknSeatraLA~red~LEkEL 247 (322)
|-...++..++.+-|+ ......-.+..-|.++.+|-.+.=. +.+-+-|-...+..-...+.+++.=..=+|.||+|.
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 3467778888885544 7777888888888999999877532 333455666666666666666665445578899998
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 020717 248 GEIQKVLLAMQEQQQKQLELI 268 (322)
Q Consensus 248 ~e~Q~vl~amQeqq~KQleLi 268 (322)
...++--...|++--.-|+++
T Consensus 169 ~~~~~~~~~~~~~~le~L~~~ 189 (553)
T PRK06041 169 DTVMEDYKTFYERALYSLDVW 189 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 888887777777777777765
No 105
>PRK09303 adaptive-response sensory kinase; Validated
Probab=20.82 E-value=7.1e+02 Score=23.43 Aligned_cols=49 Identities=16% Similarity=0.165 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhhccchHHHHHH
Q 020717 176 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKALKDPITQAAA 224 (322)
Q Consensus 176 l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~LrdPI~etaA 224 (322)
+..++.+|++++.........+..+++.++-=++..--+||.|++-...
T Consensus 123 ~~~~~~~l~~~~~~l~~~~~~l~e~~~~~~~l~~~iaHeLrtPLt~i~~ 171 (380)
T PRK09303 123 YSQELLQLSDELFVLRQENETLLEQLKFKDRVLAMLAHDLRTPLTAASL 171 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhcchHHHHHH
Confidence 3556777777776666666666666665665556667789999975533
No 106
>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=20.75 E-value=4.5e+02 Score=21.25 Aligned_cols=42 Identities=14% Similarity=0.278 Sum_probs=27.9
Q ss_pred hHHHHHHHHhhh--------hHHHHHHHhhhhhHHHHHHHHHHHHHHHHH
Q 020717 218 PITQAAALAQKN--------SEATRALAMQGDVLEKELGEIQKVLLAMQE 259 (322)
Q Consensus 218 PI~etaAlAqkn--------SeatraLA~red~LEkEL~e~Q~vl~amQe 259 (322)
||.+........ ......|..+.+.+|+++.++|..+..+..
T Consensus 58 sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 107 (116)
T cd04769 58 TLAELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQLLARLDA 107 (116)
T ss_pred CHHHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555554332 234567888888888888888887766653
No 107
>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=20.75 E-value=5.3e+02 Score=23.61 Aligned_cols=85 Identities=24% Similarity=0.275 Sum_probs=47.0
Q ss_pred hHHHHHHHHHHhHhHHHHHHHHHHHHHhhcceeeeehhh---ccchHHHHHHHHhhhhHHHHHHHh-----hhhhHHHHH
Q 020717 176 LVGRIEKLEEDMKSSATILRVLSRQLEKLGVRFRVTRKA---LKDPITQAAALAQKNSEATRALAM-----QGDVLEKEL 247 (322)
Q Consensus 176 l~~Ri~kLEe~vrs~~~~irvlSRqlEKLGvRfRvtrr~---LrdPI~etaAlAqknSeatraLA~-----red~LEkEL 247 (322)
+-.-+..|++++...-.=+...++..+++....--|... |..=|..+....+..-+-+..+.. ...=|.+.+
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 344466666666665555555566656655443333322 222233333333333333334444 455678899
Q ss_pred HHHHHHHHHHHHH
Q 020717 248 GEIQKVLLAMQEQ 260 (322)
Q Consensus 248 ~e~Q~vl~amQeq 260 (322)
+|++..|..|+..
T Consensus 130 ~ea~~mL~emr~r 142 (264)
T PF06008_consen 130 AEAQRMLEEMRKR 142 (264)
T ss_pred HHHHHHHHHHHhc
Confidence 9999999999764
No 108
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=20.51 E-value=2e+02 Score=22.52 Aligned_cols=34 Identities=26% Similarity=0.396 Sum_probs=26.7
Q ss_pred hhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Q 020717 227 QKNSEATRALAMQGDVLEKELGEIQKVLLAMQEQ 260 (322)
Q Consensus 227 qknSeatraLA~red~LEkEL~e~Q~vl~amQeq 260 (322)
+..++.+..|-.+.+-||+++..++..+.++..+
T Consensus 66 ~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~ 99 (104)
T PF13600_consen 66 ESDSPELKELEEELEALEDELAALQDEIQALEAQ 99 (104)
T ss_pred ccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456688888899999999999998888776543
No 109
>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=20.51 E-value=2e+02 Score=23.73 Aligned_cols=42 Identities=33% Similarity=0.453 Sum_probs=29.9
Q ss_pred HHHhHhHHHHHHHHHHHHHhhcceeeeehhhcc-chHHHHHHHHh
Q 020717 184 EEDMKSSATILRVLSRQLEKLGVRFRVTRKALK-DPITQAAALAQ 227 (322)
Q Consensus 184 Ee~vrs~~~~irvlSRqlEKLGvRfRvtrr~Lr-dPI~etaAlAq 227 (322)
|.++- ..+...|...|++.|+++-+||.+=. .++.+-++.|.
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 35667788899999999999999821 26666666663
No 110
>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=20.40 E-value=5.1e+02 Score=25.20 Aligned_cols=64 Identities=17% Similarity=0.206 Sum_probs=30.4
Q ss_pred ccccccceeehhhhHHHHHHHHHHH-HHHHHHHHHhhcccccCCcccchhHHHHHHHHHHhHhHHHHHHHH
Q 020717 128 FGLIGSRVLACGVVSLVCGVWIGAI-IRRRQWRRVCGEKARAEGRESVNLVGRIEKLEEDMKSSATILRVL 197 (322)
Q Consensus 128 ~g~igar~~vwg~V~LV~aV~IGai-IRRRQW~Ri~~e~gr~gg~~~~~l~~Ri~kLEe~vrs~~~~irvl 197 (322)
.+++-+-...||.++++.=.-.|.. |=+.-|+.-.... ....+..+.++.+++++....-++.+
T Consensus 158 ~~~~ial~~~~Gl~l~i~~~g~Glv~iP~~l~~~~~~~~------~~~~~~~~~~~~~~~l~~~~~~~~~~ 222 (471)
T PF04791_consen 158 LPFLIALSNFWGLFLFIILLGYGLVAIPRDLWRSSNSYF------RAAKLEDEAAEAKEKLDDIIEKLRRL 222 (471)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHhccccc------hhhhhcchhHHHHHHHHHHHHHHHHH
Confidence 3344355567777777665555532 3455565333210 12224444455555555444444433
No 111
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=20.20 E-value=4.8e+02 Score=27.05 Aligned_cols=28 Identities=29% Similarity=0.311 Sum_probs=18.5
Q ss_pred HHHHHHHHhHhHHHHHHHHHHHHHhhcc
Q 020717 179 RIEKLEEDMKSSATILRVLSRQLEKLGV 206 (322)
Q Consensus 179 Ri~kLEe~vrs~~~~irvlSRqlEKLGv 206 (322)
++.++++.....-.+++.|....++.|+
T Consensus 44 ~~~~~~~~~~~~~~~l~~L~~~~~~~~~ 71 (646)
T PRK05771 44 RLRKLRSLLTKLSEALDKLRSYLPKLNP 71 (646)
T ss_pred HHhHHHHHHHHHHHHHHHHHHhcccccc
Confidence 4556666666666777777777777664
No 112
>COG5040 BMH1 14-3-3 family protein [Signal transduction mechanisms]
Probab=20.11 E-value=1.6e+02 Score=28.51 Aligned_cols=48 Identities=27% Similarity=0.471 Sum_probs=31.5
Q ss_pred HHHHHHHHhhcccccCCcccchh----HHHHHHHHHHhHhH-HHHHHHHHHHH
Q 020717 154 RRRQWRRVCGEKARAEGRESVNL----VGRIEKLEEDMKSS-ATILRVLSRQL 201 (322)
Q Consensus 154 RRRQW~Ri~~e~gr~gg~~~~~l----~~Ri~kLEe~vrs~-~~~irvlSRql 201 (322)
||-.|+-+|...-++.|..+... ..-+.|+|+++... -.++-||..+|
T Consensus 57 RRaSWRivsSieQKeEsk~~~~qv~lI~eyrkkiE~EL~~icddiL~vl~~hl 109 (268)
T COG5040 57 RRASWRIVSSIEQKEESKGNTHQVELIKEYRKKIETELTKICDDILSVLEKHL 109 (268)
T ss_pred hhhhhhhhhhHHHHHhcCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 88889988877655555444333 34567888888765 45666666665
Done!