Query psy18023
Match_columns 151
No_of_seqs 6 out of 8
Neff 1.6
Searched_HMMs 46136
Date Fri Aug 16 20:32:04 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy18023.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/18023hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00015 MCPsignal: Methyl-acc 97.3 0.023 5E-07 40.9 13.3 44 63-106 116-159 (213)
2 smart00283 MA Methyl-accepting 97.1 0.037 8.1E-07 40.2 13.3 23 112-134 71-93 (262)
3 smart00283 MA Methyl-accepting 97.1 0.037 8E-07 40.2 13.2 71 66-136 16-88 (262)
4 PRK11637 AmiB activator; Provi 96.4 0.14 3E-06 43.2 13.2 83 66-148 45-129 (428)
5 COG1463 Ttg2C ABC-type transpo 96.3 0.062 1.3E-06 44.7 10.4 58 68-125 176-235 (359)
6 PF06103 DUF948: Bacterial pro 96.3 0.15 3.1E-06 34.7 10.4 36 66-101 24-59 (90)
7 PF06103 DUF948: Bacterial pro 95.9 0.21 4.7E-06 33.9 10.0 38 70-107 21-58 (90)
8 PF07889 DUF1664: Protein of u 95.8 0.17 3.6E-06 38.7 10.1 18 89-106 50-67 (126)
9 PF10498 IFT57: Intra-flagella 95.5 0.53 1.1E-05 40.7 12.9 80 63-145 222-317 (359)
10 PRK04778 septation ring format 95.3 0.52 1.1E-05 41.8 12.6 91 54-144 310-412 (569)
11 PRK11637 AmiB activator; Provi 95.3 0.68 1.5E-05 39.1 12.8 83 62-144 48-132 (428)
12 PRK09793 methyl-accepting prot 94.9 1.2 2.7E-05 38.1 13.5 15 134-148 493-507 (533)
13 KOG2196|consensus 94.9 0.23 5.1E-06 42.5 9.1 73 72-144 175-248 (254)
14 PF07889 DUF1664: Protein of u 94.6 1.5 3.3E-05 33.5 12.1 37 112-148 86-122 (126)
15 PRK03918 chromosome segregatio 94.5 1.2 2.6E-05 39.7 12.7 83 59-141 610-692 (880)
16 COG0840 Tar Methyl-accepting c 94.2 2.3 5E-05 33.7 13.2 21 129-149 383-403 (408)
17 PF11932 DUF3450: Protein of u 94.1 2.3 5E-05 33.6 13.5 41 110-150 79-119 (251)
18 PRK10807 paraquat-inducible pr 93.6 1.7 3.6E-05 39.2 12.0 21 127-147 505-525 (547)
19 PLN03094 Substrate binding sub 93.5 1.6 3.4E-05 38.3 11.5 47 92-138 303-350 (370)
20 COG0840 Tar Methyl-accepting c 93.3 3.4 7.3E-05 32.8 13.1 16 83-98 167-182 (408)
21 PF00804 Syntaxin: Syntaxin; 92.9 1.6 3.6E-05 28.2 11.1 58 72-131 4-61 (103)
22 PF10498 IFT57: Intra-flagella 92.9 2.4 5.1E-05 36.8 11.5 20 129-148 294-313 (359)
23 PF10475 DUF2450: Protein of u 92.9 4.4 9.5E-05 32.9 13.7 52 50-102 18-70 (291)
24 PLN03094 Substrate binding sub 92.9 1.8 3.9E-05 37.9 10.9 14 62-75 228-241 (370)
25 PF06009 Laminin_II: Laminin D 92.8 0.032 6.9E-07 41.3 0.0 43 62-104 18-60 (138)
26 KOG2196|consensus 92.3 0.69 1.5E-05 39.7 7.4 62 68-129 178-247 (254)
27 PF04124 Dor1: Dor1-like famil 92.2 1.9 4.1E-05 35.7 9.6 26 63-88 9-34 (338)
28 COG4942 Membrane-bound metallo 91.9 1.9 4.1E-05 39.0 10.0 67 61-127 38-106 (420)
29 cd07628 BAR_Atg24p The Bin/Amp 91.7 4.5 9.8E-05 31.3 10.7 43 62-104 12-54 (185)
30 COG4942 Membrane-bound metallo 91.6 4 8.7E-05 36.9 11.7 68 68-140 38-105 (420)
31 PF10168 Nup88: Nuclear pore c 91.6 0.9 2E-05 42.5 7.9 73 66-139 637-716 (717)
32 PRK01156 chromosome segregatio 91.3 5.3 0.00011 36.4 12.3 36 110-145 411-446 (895)
33 TIGR00833 actII Transport prot 91.3 5.6 0.00012 37.2 12.7 13 13-25 399-411 (910)
34 PF06160 EzrA: Septation ring 91.3 7 0.00015 35.0 12.8 55 89-143 351-407 (560)
35 PRK03918 chromosome segregatio 91.3 8 0.00017 34.6 13.1 23 79-101 204-226 (880)
36 PRK04778 septation ring format 91.1 4.5 9.8E-05 36.0 11.4 27 120-146 381-407 (569)
37 PF06160 EzrA: Septation ring 91.0 4.4 9.6E-05 36.2 11.3 18 129-146 472-489 (560)
38 PF06013 WXG100: Proteins of 1 90.9 2.5 5.4E-05 25.9 10.0 34 57-90 3-36 (86)
39 PF06009 Laminin_II: Laminin D 90.8 0.07 1.5E-06 39.5 0.0 9 134-142 88-96 (138)
40 PF00804 Syntaxin: Syntaxin; 90.5 3.3 7.1E-05 26.8 9.6 17 65-81 11-27 (103)
41 cd07307 BAR The Bin/Amphiphysi 90.5 4.1 8.8E-05 27.8 11.7 40 66-105 5-44 (194)
42 PF09325 Vps5: Vps5 C terminal 90.5 6 0.00013 29.7 12.2 44 61-104 31-74 (236)
43 PF10046 BLOC1_2: Biogenesis o 90.1 5 0.00011 28.5 8.9 19 59-77 36-54 (99)
44 PF04912 Dynamitin: Dynamitin 90.0 7.5 0.00016 32.9 11.3 24 59-82 259-282 (388)
45 PF10475 DUF2450: Protein of u 89.9 4.8 0.0001 32.6 9.8 29 65-93 39-68 (291)
46 PF09325 Vps5: Vps5 C terminal 89.7 7 0.00015 29.3 9.9 44 64-107 27-70 (236)
47 TIGR00634 recN DNA repair prot 88.8 7.7 0.00017 34.2 10.9 11 110-120 303-313 (563)
48 PF11932 DUF3450: Protein of u 88.3 11 0.00024 29.8 12.3 31 108-138 84-114 (251)
49 cd00179 SynN Syntaxin N-termin 88.2 7.3 0.00016 27.5 9.9 46 61-106 6-54 (151)
50 PF08317 Spc7: Spc7 kinetochor 87.9 14 0.00031 30.6 12.3 38 108-145 209-246 (325)
51 cd07596 BAR_SNX The Bin/Amphip 87.6 8.7 0.00019 27.7 10.8 45 62-106 12-56 (218)
52 PRK01156 chromosome segregatio 87.5 14 0.00031 33.7 12.1 35 113-147 407-441 (895)
53 TIGR00833 actII Transport prot 87.0 21 0.00046 33.5 13.2 16 131-146 609-624 (910)
54 PF10168 Nup88: Nuclear pore c 86.9 5.6 0.00012 37.3 9.4 15 7-21 535-549 (717)
55 PF10158 LOH1CR12: Tumour supp 86.5 12 0.00027 28.5 10.6 24 117-140 89-112 (131)
56 PF02646 RmuC: RmuC family; I 86.0 8.1 0.00017 32.0 9.0 34 67-100 232-265 (304)
57 PRK10869 recombination and rep 85.8 21 0.00047 32.0 12.1 37 50-87 251-287 (553)
58 PF00669 Flagellin_N: Bacteria 85.8 9.9 0.00021 26.6 8.7 44 57-100 51-94 (139)
59 PF07361 Cytochrom_B562: Cytoc 85.6 11 0.00024 27.1 9.9 11 134-144 87-97 (103)
60 smart00503 SynN Syntaxin N-ter 85.6 8.8 0.00019 25.8 10.2 22 64-85 11-32 (117)
61 PF10157 DUF2365: Uncharacteri 85.5 16 0.00034 28.6 13.0 91 58-148 49-145 (149)
62 PRK10869 recombination and rep 85.4 7.1 0.00015 35.0 8.9 15 108-122 296-310 (553)
63 PRK03947 prefoldin subunit alp 85.2 12 0.00026 27.0 12.9 40 110-149 96-135 (140)
64 TIGR00606 rad50 rad50. This fa 85.2 35 0.00077 33.3 14.0 38 109-146 971-1008(1311)
65 PHA02562 46 endonuclease subun 85.2 22 0.00048 30.1 12.0 29 112-140 362-390 (562)
66 TIGR00606 rad50 rad50. This fa 84.8 26 0.00056 34.2 13.0 41 108-148 822-862 (1311)
67 COG1340 Uncharacterized archae 83.9 28 0.00062 30.3 12.6 80 62-141 166-247 (294)
68 PF05384 DegS: Sensor protein 83.7 15 0.00033 28.9 9.2 44 64-107 9-52 (159)
69 PRK03947 prefoldin subunit alp 83.6 14 0.00031 26.6 12.0 36 108-143 101-136 (140)
70 cd00890 Prefoldin Prefoldin is 83.5 12 0.00026 25.7 12.7 40 110-149 89-128 (129)
71 PF06013 WXG100: Proteins of 1 82.3 9 0.0002 23.4 11.5 30 115-144 51-80 (86)
72 PF12729 4HB_MCP_1: Four helix 82.1 12 0.00027 24.9 12.0 44 60-103 27-70 (181)
73 COG3352 FlaC Putative archaeal 81.6 12 0.00027 30.4 8.1 51 55-105 38-88 (157)
74 KOG0996|consensus 81.5 27 0.00057 36.0 11.9 62 62-123 462-536 (1293)
75 PRK10807 paraquat-inducible pr 81.4 21 0.00046 32.3 10.4 17 61-77 413-429 (547)
76 COG1196 Smc Chromosome segrega 81.3 41 0.0009 32.5 12.7 33 70-102 248-280 (1163)
77 PF05739 SNARE: SNARE domain; 81.3 10 0.00023 23.5 9.3 54 83-136 5-60 (63)
78 PF05713 MobC: Bacterial mobil 80.9 4.1 8.9E-05 25.4 4.2 12 96-107 10-21 (48)
79 KOG0250|consensus 80.6 36 0.00078 34.5 12.4 66 38-103 654-724 (1074)
80 PRK02224 chromosome segregatio 80.6 44 0.00096 30.3 13.0 44 97-140 635-678 (880)
81 PF12718 Tropomyosin_1: Tropom 80.6 23 0.00049 26.9 13.1 93 52-144 19-116 (143)
82 PF04124 Dor1: Dor1-like famil 80.2 33 0.0007 28.5 13.0 39 63-101 41-79 (338)
83 cd07307 BAR The Bin/Amphiphysi 79.8 16 0.00036 24.8 12.0 16 67-82 27-42 (194)
84 cd07667 BAR_SNX30 The Bin/Amph 79.6 36 0.00077 28.6 11.0 39 64-102 61-99 (240)
85 PF07361 Cytochrom_B562: Cytoc 79.6 17 0.00036 26.2 7.5 34 86-119 57-90 (103)
86 cd00584 Prefoldin_alpha Prefol 79.3 20 0.00043 25.4 12.9 40 110-149 89-128 (129)
87 KOG0996|consensus 79.0 39 0.00085 34.9 12.2 30 110-139 544-573 (1293)
88 PF11166 DUF2951: Protein of u 78.9 23 0.0005 27.0 8.3 69 51-124 15-83 (98)
89 PF04912 Dynamitin: Dynamitin 78.9 28 0.0006 29.5 9.7 31 70-100 331-361 (388)
90 cd07628 BAR_Atg24p The Bin/Amp 78.7 28 0.00061 26.9 11.4 61 63-123 20-83 (185)
91 COG3352 FlaC Putative archaeal 78.6 17 0.00038 29.5 8.1 35 67-101 43-77 (157)
92 PF02646 RmuC: RmuC family; I 77.7 26 0.00056 29.0 9.0 31 109-139 255-285 (304)
93 cd00179 SynN Syntaxin N-termin 77.0 23 0.0005 25.0 11.0 14 63-76 15-28 (151)
94 PF02520 DUF148: Domain of unk 76.9 21 0.00046 25.0 7.3 9 13-21 4-12 (113)
95 PF07851 TMPIT: TMPIT-like pro 76.5 28 0.0006 30.6 9.3 36 67-102 24-59 (330)
96 PF03961 DUF342: Protein of un 76.0 51 0.0011 28.4 11.0 32 115-146 375-406 (451)
97 KOG0977|consensus 75.8 64 0.0014 30.3 11.9 80 68-147 113-194 (546)
98 PF14643 DUF4455: Domain of un 75.4 56 0.0012 28.6 11.0 76 74-149 67-143 (473)
99 COG1344 FlgL Flagellin and rel 75.2 28 0.00061 29.1 8.7 69 60-128 56-125 (360)
100 KOG4302|consensus 75.0 26 0.00057 33.4 9.3 42 50-91 42-84 (660)
101 COG5498 ACF2 Predicted glycosy 74.9 1.2 2.7E-05 42.9 0.8 24 15-38 556-588 (760)
102 KOG2254|consensus 74.9 1.2 2.6E-05 42.9 0.7 24 15-38 543-575 (747)
103 cd07629 BAR_Atg20p The Bin/Amp 74.8 38 0.00082 26.4 11.2 72 64-138 14-86 (187)
104 PF03114 BAR: BAR domain; Int 74.5 28 0.00061 24.7 13.4 44 63-106 35-85 (229)
105 TIGR00383 corA magnesium Mg(2+ 74.4 41 0.00089 26.6 11.5 11 115-125 223-233 (318)
106 PF04582 Reo_sigmaC: Reovirus 74.3 9.4 0.0002 33.6 5.9 84 63-146 58-150 (326)
107 smart00503 SynN Syntaxin N-ter 73.8 24 0.00052 23.7 11.6 25 65-89 5-29 (117)
108 PRK10884 SH3 domain-containing 73.8 46 0.001 26.9 12.1 70 63-140 95-164 (206)
109 COG0598 CorA Mg2+ and Co2+ tra 73.6 49 0.0011 27.1 9.7 26 108-133 220-245 (322)
110 PF05478 Prominin: Prominin; 73.5 79 0.0017 29.6 11.9 31 61-91 191-222 (806)
111 PF12795 MscS_porin: Mechanose 73.4 43 0.00093 26.4 11.0 21 126-146 117-137 (240)
112 PF05384 DegS: Sensor protein 73.2 35 0.00077 26.9 8.3 41 66-106 32-72 (159)
113 cd07648 F-BAR_FCHO The F-BAR ( 73.1 44 0.00096 26.4 11.8 39 94-132 38-84 (261)
114 PF02994 Transposase_22: L1 tr 73.1 15 0.00033 31.5 6.7 28 113-140 142-169 (370)
115 TIGR01843 type_I_hlyD type I s 73.0 46 0.001 26.6 13.2 35 67-101 150-184 (423)
116 PF06148 COG2: COG (conserved 72.8 2.6 5.6E-05 30.4 1.8 19 60-78 25-43 (133)
117 PF07106 TBPIP: Tat binding pr 72.7 37 0.00081 25.3 8.2 38 70-107 74-111 (169)
118 PF05791 Bacillus_HBL: Bacillu 72.3 30 0.00066 26.8 7.7 7 92-98 127-133 (184)
119 TIGR00634 recN DNA repair prot 71.8 47 0.001 29.4 9.6 23 63-85 268-290 (563)
120 cd07624 BAR_SNX7_30 The Bin/Am 71.6 45 0.00098 25.8 11.2 41 63-103 23-63 (200)
121 PF04582 Reo_sigmaC: Reovirus 71.5 3 6.6E-05 36.6 2.3 75 70-144 51-127 (326)
122 PF05130 FlgN: FlgN protein; 71.4 28 0.0006 23.3 10.4 78 57-136 33-112 (143)
123 PF10158 LOH1CR12: Tumour supp 71.3 43 0.00094 25.5 11.8 20 124-143 89-108 (131)
124 cd00193 t_SNARE Soluble NSF (N 71.0 19 0.00041 21.3 7.0 24 108-131 34-57 (60)
125 cd07653 F-BAR_CIP4-like The F- 70.8 47 0.001 25.7 13.0 79 63-142 67-146 (251)
126 PF04156 IncA: IncA protein; 70.8 41 0.00089 25.0 12.6 8 75-82 95-102 (191)
127 PF05713 MobC: Bacterial mobil 70.4 15 0.00033 22.8 4.7 18 83-100 4-21 (48)
128 PRK04863 mukB cell division pr 69.7 1.2E+02 0.0025 31.4 12.9 38 62-99 301-338 (1486)
129 PF05478 Prominin: Prominin; 69.1 74 0.0016 29.8 10.7 8 58-65 310-317 (806)
130 PF14712 Snapin_Pallidin: Snap 68.8 33 0.00071 23.1 10.3 30 63-92 16-45 (92)
131 smart00787 Spc7 Spc7 kinetocho 68.7 74 0.0016 27.1 12.9 39 108-146 204-242 (312)
132 PF08651 DASH_Duo1: DASH compl 68.6 36 0.00078 23.9 6.8 47 61-107 8-54 (78)
133 PF08581 Tup_N: Tup N-terminal 67.6 34 0.00073 24.3 6.5 20 75-94 4-23 (79)
134 PF00261 Tropomyosin: Tropomyo 67.0 62 0.0013 25.7 12.4 36 110-145 199-234 (237)
135 PF10372 YojJ: Bacterial membr 67.0 21 0.00046 25.2 5.4 13 108-120 42-54 (70)
136 PRK08026 flagellin; Validated 66.3 1.1E+02 0.0024 28.3 11.6 89 62-150 14-128 (529)
137 PF10372 YojJ: Bacterial membr 65.7 9.4 0.0002 27.0 3.4 15 110-124 19-33 (70)
138 PF10018 Med4: Vitamin-D-recep 65.6 61 0.0013 25.0 9.2 20 129-148 43-62 (188)
139 TIGR01069 mutS2 MutS2 family p 65.4 1.3E+02 0.0027 28.6 13.3 40 43-85 482-521 (771)
140 TIGR01834 PHA_synth_III_E poly 65.0 98 0.0021 27.2 12.4 41 108-148 263-315 (320)
141 PRK08655 prephenate dehydrogen 64.7 55 0.0012 28.3 8.5 59 86-144 233-298 (437)
142 PF08317 Spc7: Spc7 kinetochor 64.1 84 0.0018 26.1 13.1 32 117-148 211-242 (325)
143 PRK09546 zntB zinc transporter 63.8 79 0.0017 25.7 11.9 14 111-124 225-238 (324)
144 COG1340 Uncharacterized archae 63.7 1E+02 0.0022 27.0 12.6 66 81-146 171-238 (294)
145 PF11221 Med21: Subunit 21 of 63.6 59 0.0013 24.3 7.5 74 62-140 63-136 (144)
146 PF06825 HSBP1: Heat shock fac 63.3 20 0.00044 24.2 4.5 22 113-134 26-47 (54)
147 PRK12807 flagellin; Provisiona 63.3 78 0.0017 25.7 8.7 90 38-128 35-125 (287)
148 PRK08870 flgL flagellar hook-a 62.9 72 0.0016 26.9 8.7 67 57-123 53-120 (404)
149 PF04048 Sec8_exocyst: Sec8 ex 62.8 60 0.0013 24.1 11.2 7 23-29 18-24 (142)
150 PRK04863 mukB cell division pr 62.8 1.9E+02 0.0042 29.9 13.2 33 61-93 307-339 (1486)
151 PRK10929 putative mechanosensi 62.8 61 0.0013 32.5 9.4 36 110-145 104-139 (1109)
152 TIGR01834 PHA_synth_III_E poly 62.7 81 0.0018 27.7 9.2 38 98-135 276-316 (320)
153 PRK05431 seryl-tRNA synthetase 62.1 1E+02 0.0022 26.9 9.6 29 112-140 70-98 (425)
154 PF04136 Sec34: Sec34-like fam 62.0 69 0.0015 24.5 10.8 39 63-101 9-47 (157)
155 PF01025 GrpE: GrpE; InterPro 61.8 60 0.0013 23.7 9.6 86 62-150 19-106 (165)
156 KOG0810|consensus 61.3 1.1E+02 0.0023 26.4 9.9 50 69-121 34-84 (297)
157 PF02181 FH2: Formin Homology 61.2 89 0.0019 25.5 9.8 45 59-103 254-302 (370)
158 PF09763 Sec3_C: Exocyst compl 61.0 74 0.0016 28.8 8.9 70 63-132 32-106 (701)
159 PF12729 4HB_MCP_1: Four helix 60.5 47 0.001 22.1 12.8 28 83-110 110-137 (181)
160 PRK08411 flagellin; Reviewed 60.2 82 0.0018 29.8 9.3 73 56-128 54-127 (572)
161 PRK10929 putative mechanosensi 60.0 1.2E+02 0.0026 30.5 10.9 24 69-92 66-89 (1109)
162 PF09392 MxiH: Type III secret 59.9 53 0.0012 22.4 8.3 63 79-141 25-87 (90)
163 PHA01750 hypothetical protein 59.8 29 0.00063 25.5 5.1 34 114-147 41-74 (75)
164 PF00261 Tropomyosin: Tropomyo 59.1 89 0.0019 24.8 13.5 43 108-150 190-232 (237)
165 cd06225 HAMP Histidine kinase, 58.6 9.8 0.00021 18.9 1.9 9 93-101 7-15 (48)
166 COG1344 FlgL Flagellin and rel 58.1 1.1E+02 0.0024 25.6 10.4 63 87-149 48-125 (360)
167 COG4372 Uncharacterized protei 58.0 1.7E+02 0.0037 27.6 11.6 37 67-103 66-102 (499)
168 PRK10884 SH3 domain-containing 57.7 1E+02 0.0022 25.0 10.9 37 110-146 127-163 (206)
169 PRK08026 flagellin; Validated 57.5 82 0.0018 29.2 8.7 72 58-129 56-128 (529)
170 PF04136 Sec34: Sec34-like fam 57.5 84 0.0018 24.0 12.1 41 67-107 6-46 (157)
171 PRK12803 flagellin; Provisiona 57.4 1E+02 0.0022 26.6 8.8 73 56-128 52-125 (335)
172 PF03961 DUF342: Protein of un 57.3 1.2E+02 0.0026 26.1 9.2 31 110-140 377-407 (451)
173 PRK12805 flagellin; Provisiona 57.3 1.1E+02 0.0023 25.0 8.9 73 56-128 52-125 (287)
174 PLN02678 seryl-tRNA synthetase 56.6 1.4E+02 0.003 26.9 9.7 59 80-140 45-103 (448)
175 PF14643 DUF4455: Domain of un 56.4 1.4E+02 0.003 26.2 13.5 37 66-102 314-350 (473)
176 cd07654 F-BAR_FCHSD The F-BAR 56.1 1.2E+02 0.0026 25.3 11.9 77 70-147 79-156 (264)
177 TIGR02550 flagell_flgL flagell 55.7 1E+02 0.0022 24.3 8.7 86 39-125 35-121 (306)
178 PRK08655 prephenate dehydrogen 55.5 73 0.0016 27.6 7.7 64 72-136 233-297 (437)
179 PRK08411 flagellin; Reviewed 55.4 1.9E+02 0.0042 27.5 12.5 88 62-149 14-127 (572)
180 PF03114 BAR: BAR domain; Int 55.0 74 0.0016 22.6 11.6 33 65-97 30-62 (229)
181 PRK05431 seryl-tRNA synthetase 55.0 1.5E+02 0.0032 26.0 9.9 31 119-149 70-100 (425)
182 COG0233 Frr Ribosome recycling 54.9 1.2E+02 0.0026 25.0 10.3 17 18-34 83-99 (187)
183 PF06120 Phage_HK97_TLTM: Tail 54.9 1.4E+02 0.0031 25.9 13.1 79 68-146 74-165 (301)
184 PRK13588 flagellin B; Provisio 54.2 1.3E+02 0.0027 27.8 9.3 69 59-127 57-126 (514)
185 PF03670 UPF0184: Uncharacteri 54.2 67 0.0015 23.6 6.2 42 63-104 28-69 (83)
186 PF10805 DUF2730: Protein of u 54.0 80 0.0017 22.7 8.6 43 99-141 55-98 (106)
187 PF06156 DUF972: Protein of un 53.5 79 0.0017 23.4 6.6 31 60-90 7-37 (107)
188 PRK12718 flgL flagellar hook-a 53.5 1.3E+02 0.0028 27.6 9.2 33 63-95 59-91 (510)
189 PF05659 RPW8: Arabidopsis bro 53.4 1E+02 0.0022 23.6 9.9 43 107-149 100-144 (147)
190 PF12795 MscS_porin: Mechanose 53.2 1.1E+02 0.0024 24.1 11.2 32 108-139 78-109 (240)
191 PF03915 AIP3: Actin interacti 53.0 1.8E+02 0.0038 26.3 11.7 8 143-150 282-289 (424)
192 TIGR03545 conserved hypothetic 53.0 1.9E+02 0.0041 26.7 10.3 36 109-144 213-248 (555)
193 PRK00409 recombination and DNA 52.9 2.1E+02 0.0045 27.2 13.1 11 14-24 447-457 (782)
194 smart00397 t_SNARE Helical reg 52.9 47 0.001 19.7 7.8 51 81-131 11-63 (66)
195 PF04163 Tht1: Tht1-like nucle 52.3 2E+02 0.0044 26.8 12.6 15 110-124 338-352 (544)
196 PF11657 Activator-TraM: Trans 52.1 1.1E+02 0.0025 23.9 11.1 34 87-120 74-107 (144)
197 PRK08913 flgL flagellar hook-a 52.1 1.2E+02 0.0026 24.2 8.6 42 59-100 57-98 (301)
198 PF04108 APG17: Autophagy prot 51.8 1.6E+02 0.0035 25.5 12.6 33 51-83 241-273 (412)
199 PF14523 Syntaxin_2: Syntaxin- 51.8 70 0.0015 21.4 12.1 24 117-140 73-96 (102)
200 PF04129 Vps52: Vps52 / Sac2 f 51.7 1.7E+02 0.0038 26.0 9.5 6 83-88 43-48 (508)
201 PF02996 Prefoldin: Prefoldin 51.2 58 0.0012 22.3 5.3 37 112-148 81-117 (120)
202 PF02994 Transposase_22: L1 tr 50.9 53 0.0011 28.3 6.1 38 108-145 144-181 (370)
203 PRK11281 hypothetical protein; 50.2 1.3E+02 0.0029 30.2 9.4 57 78-134 83-147 (1113)
204 COG0497 RecN ATPase involved i 50.2 1.8E+02 0.0039 27.4 9.8 8 109-116 298-305 (557)
205 COG1579 Zn-ribbon protein, pos 50.1 1.6E+02 0.0034 24.9 12.0 22 108-129 89-110 (239)
206 PF06156 DUF972: Protein of un 50.1 44 0.00095 24.7 4.8 10 137-146 44-53 (107)
207 COG0598 CorA Mg2+ and Co2+ tra 49.8 1.5E+02 0.0032 24.4 12.0 28 112-139 217-244 (322)
208 PF07083 DUF1351: Protein of u 49.7 1.3E+02 0.0029 23.9 12.4 87 57-143 11-106 (215)
209 PRK12584 flagellin A; Reviewed 49.5 1.7E+02 0.0037 26.6 9.3 70 59-128 57-127 (510)
210 cd07624 BAR_SNX7_30 The Bin/Am 49.0 1.2E+02 0.0027 23.4 11.4 31 65-95 32-62 (200)
211 cd07638 BAR_ACAP2 The Bin/Amph 48.9 1.4E+02 0.0031 24.1 12.4 43 65-107 13-55 (200)
212 TIGR02956 TMAO_torS TMAO reduc 48.9 2E+02 0.0043 25.7 10.8 24 109-132 105-128 (968)
213 PRK13858 type IV secretion sys 48.7 1.4E+02 0.003 23.9 7.8 41 94-134 85-128 (147)
214 PRK05771 V-type ATP synthase s 48.6 2.1E+02 0.0045 25.9 9.6 36 112-147 90-125 (646)
215 PF13514 AAA_27: AAA domain 48.4 2.6E+02 0.0057 27.0 11.9 30 119-148 805-834 (1111)
216 PRK12808 flagellin; Provisiona 48.1 1.7E+02 0.0037 27.3 9.2 71 58-128 54-125 (476)
217 PRK13589 flagellin; Provisiona 47.8 1.7E+02 0.0037 28.0 9.3 70 58-127 56-126 (576)
218 cd07596 BAR_SNX The Bin/Amphip 47.7 1E+02 0.0023 22.2 10.3 20 74-93 31-50 (218)
219 PRK08869 flagellin; Reviewed 47.7 1.8E+02 0.004 25.0 9.3 70 59-128 56-126 (376)
220 PRK13454 F0F1 ATP synthase sub 47.5 1.3E+02 0.0028 23.2 12.9 36 63-98 71-106 (181)
221 PF02996 Prefoldin: Prefoldin 47.2 88 0.0019 21.4 5.7 36 66-101 82-117 (120)
222 TIGR02231 conserved hypothetic 47.1 2E+02 0.0042 25.2 12.0 80 62-145 72-161 (525)
223 TIGR02680 conserved hypothetic 46.9 3.2E+02 0.0069 27.5 13.0 87 61-147 868-960 (1353)
224 KOG0244|consensus 46.9 93 0.002 31.2 7.7 21 24-45 431-451 (913)
225 PF03639 Glyco_hydro_81: Glyco 46.8 5.7 0.00012 36.8 -0.3 24 15-38 499-531 (695)
226 PRK06819 flagellin; Validated 46.7 2E+02 0.0044 25.4 9.1 70 59-128 57-127 (376)
227 PF14712 Snapin_Pallidin: Snap 46.5 88 0.0019 21.0 11.4 76 73-148 12-90 (92)
228 PF03938 OmpH: Outer membrane 46.4 1.1E+02 0.0023 21.9 10.1 52 55-106 16-67 (158)
229 PF00430 ATP-synt_B: ATP synth 46.2 95 0.0021 21.3 12.1 43 65-107 34-76 (132)
230 PRK07192 flgL flagellar hook-a 46.2 1.5E+02 0.0033 23.7 9.0 43 59-101 55-97 (305)
231 TIGR03319 YmdA_YtgF conserved 46.0 2.3E+02 0.005 25.7 12.0 23 117-139 106-128 (514)
232 KOG0964|consensus 45.9 3.7E+02 0.0081 28.0 12.2 9 110-118 750-758 (1200)
233 PRK13169 DNA replication intia 45.9 1.2E+02 0.0026 22.8 6.6 32 60-91 7-38 (110)
234 COG1511 Predicted membrane pro 45.5 2.7E+02 0.0058 26.2 11.3 43 60-102 170-212 (780)
235 PF06705 SF-assemblin: SF-asse 45.3 1.5E+02 0.0033 23.4 13.1 25 69-93 86-110 (247)
236 PF04100 Vps53_N: Vps53-like, 45.3 2E+02 0.0044 24.8 11.6 20 57-76 91-110 (383)
237 TIGR00383 corA magnesium Mg(2+ 45.2 1.5E+02 0.0033 23.4 12.5 21 127-147 221-241 (318)
238 PHA01750 hypothetical protein 45.0 1.2E+02 0.0025 22.3 6.2 46 94-139 28-73 (75)
239 PF02403 Seryl_tRNA_N: Seryl-t 44.8 1E+02 0.0022 21.2 8.9 57 82-140 43-99 (108)
240 cd07652 F-BAR_Rgd1 The F-BAR ( 44.7 1.6E+02 0.0035 23.5 13.2 14 109-122 66-79 (234)
241 cd00584 Prefoldin_alpha Prefol 44.7 1.1E+02 0.0024 21.6 11.3 31 118-148 90-120 (129)
242 KOG0250|consensus 44.1 3.8E+02 0.0082 27.6 13.3 35 109-143 430-464 (1074)
243 cd07667 BAR_SNX30 The Bin/Amph 43.9 2E+02 0.0042 24.2 12.5 31 66-96 56-86 (240)
244 PLN02678 seryl-tRNA synthetase 43.3 2.5E+02 0.0054 25.3 12.8 67 80-148 38-104 (448)
245 PF13874 Nup54: Nucleoporin co 43.2 1.4E+02 0.0029 22.2 6.8 66 60-125 29-96 (141)
246 PF12352 V-SNARE_C: Snare regi 43.2 85 0.0018 19.9 9.1 29 108-136 36-64 (66)
247 cd07602 BAR_RhoGAP_OPHN1-like 43.1 1.9E+02 0.004 23.7 12.0 30 52-81 21-50 (207)
248 TIGR00414 serS seryl-tRNA synt 43.0 2.3E+02 0.0049 24.7 9.8 30 111-140 72-101 (418)
249 cd07652 F-BAR_Rgd1 The F-BAR ( 43.0 1.7E+02 0.0038 23.4 12.0 41 64-104 68-108 (234)
250 PRK07191 flgK flagellar hook-a 42.8 2.3E+02 0.005 24.7 9.6 13 128-140 165-177 (456)
251 PF07730 HisKA_3: Histidine ki 42.7 79 0.0017 19.4 7.7 53 85-138 11-63 (68)
252 PF06825 HSBP1: Heat shock fac 42.6 89 0.0019 21.1 5.0 37 108-147 10-46 (54)
253 PRK06663 flagellar hook-associ 42.1 1.9E+02 0.0041 24.9 8.1 67 58-124 55-122 (419)
254 KOG1300|consensus 42.1 1.2E+02 0.0026 29.1 7.4 23 7-29 234-256 (593)
255 PRK12804 flagellin; Provisiona 42.0 1.9E+02 0.0041 23.6 8.8 72 57-128 53-126 (301)
256 cd07651 F-BAR_PombeCdc15_like 41.9 1.7E+02 0.0036 22.9 11.8 91 61-151 5-97 (236)
257 PF11083 Streptin-Immun: Lanti 41.5 85 0.0018 23.9 5.3 23 37-63 24-46 (99)
258 PF11221 Med21: Subunit 21 of 41.4 1.5E+02 0.0032 22.2 11.4 73 78-150 65-139 (144)
259 smart00304 HAMP HAMP (Histidin 41.2 46 0.001 16.2 3.3 11 92-102 8-18 (53)
260 KOG4438|consensus 41.1 3.1E+02 0.0067 25.7 10.1 94 54-149 296-393 (446)
261 PF00669 Flagellin_N: Bacteria 40.7 1.2E+02 0.0027 21.1 10.1 35 69-103 56-90 (139)
262 PRK10600 nitrate/nitrite senso 40.6 1.6E+02 0.0035 25.1 7.4 28 108-135 178-205 (569)
263 KOG3046|consensus 39.7 2E+02 0.0043 23.3 7.4 62 71-140 8-69 (147)
264 PRK00409 recombination and DNA 39.7 3.4E+02 0.0074 25.8 13.0 9 124-132 586-594 (782)
265 PF12128 DUF3584: Protein of u 39.7 3.8E+02 0.0083 26.4 13.1 53 53-105 627-679 (1201)
266 PRK14692 lagellar hook-associa 39.6 2.3E+02 0.0049 27.7 8.9 67 58-124 54-121 (749)
267 PF12718 Tropomyosin_1: Tropom 39.3 1.7E+02 0.0037 22.2 12.4 38 108-145 101-138 (143)
268 PF00611 FCH: Fes/CIP4, and EF 39.3 1E+02 0.0022 19.6 12.0 72 61-132 9-85 (91)
269 PF05531 NPV_P10: Nucleopolyhe 39.0 1.5E+02 0.0032 21.4 8.5 28 110-137 37-64 (75)
270 cd07674 F-BAR_FCHO1 The F-BAR 38.9 2.1E+02 0.0045 23.1 11.1 61 64-124 150-213 (261)
271 PRK08073 flgL flagellar hook-a 38.7 2.1E+02 0.0046 23.1 9.2 66 59-124 55-121 (287)
272 COG1256 FlgK Flagellar hook-as 38.6 3.2E+02 0.007 25.3 9.8 9 140-148 205-213 (552)
273 KOG4302|consensus 38.6 1.9E+02 0.0041 27.9 8.2 45 63-107 41-86 (660)
274 PF07106 TBPIP: Tat binding pr 38.5 1.7E+02 0.0036 21.9 8.9 31 66-96 77-107 (169)
275 PF02050 FliJ: Flagellar FliJ 38.3 1.1E+02 0.0023 19.7 11.8 29 66-94 3-31 (123)
276 PRK15058 cytochrome b562; Prov 38.3 1.2E+02 0.0025 23.7 5.7 36 85-120 81-116 (128)
277 PF09602 PhaP_Bmeg: Polyhydrox 38.2 2.2E+02 0.0048 23.2 12.9 40 44-87 28-67 (165)
278 PF04523 Herpes_U30: Herpes vi 38.1 4E+02 0.0086 26.1 12.1 54 73-126 716-774 (887)
279 PF03670 UPF0184: Uncharacteri 38.1 1.6E+02 0.0035 21.6 6.7 42 61-102 33-74 (83)
280 PRK06008 flgL flagellar hook-a 38.0 2.4E+02 0.0051 23.5 8.9 61 59-121 58-118 (348)
281 PF05957 DUF883: Bacterial pro 38.0 1.3E+02 0.0028 20.5 8.9 20 72-91 2-21 (94)
282 PF03234 CDC37_N: Cdc37 N term 37.8 58 0.0013 26.1 4.1 26 123-148 132-157 (177)
283 TIGR01843 type_I_hlyD type I s 37.8 2.1E+02 0.0046 22.9 12.8 34 72-105 148-181 (423)
284 PLN02320 seryl-tRNA synthetase 37.7 3.3E+02 0.0073 25.2 9.5 73 74-149 92-164 (502)
285 PF15145 DUF4577: Domain of un 37.7 42 0.00091 26.7 3.2 22 61-82 90-111 (128)
286 PF06148 COG2: COG (conserved 37.6 16 0.00034 26.4 0.8 51 47-97 41-91 (133)
287 PRK05759 F0F1 ATP synthase sub 37.5 1.6E+02 0.0034 21.3 13.3 39 66-104 40-78 (156)
288 PF14931 IFT20: Intraflagellar 37.5 68 0.0015 24.2 4.2 39 47-85 20-58 (120)
289 PF12128 DUF3584: Protein of u 37.5 4.1E+02 0.009 26.2 13.0 9 24-32 568-576 (1201)
290 PF06248 Zw10: Centromere/kine 37.4 3E+02 0.0065 24.5 11.6 12 66-77 34-45 (593)
291 COG0497 RecN ATPase involved i 37.2 3.7E+02 0.008 25.5 10.2 31 113-143 340-370 (557)
292 PF08397 IMD: IRSp53/MIM homol 37.0 2E+02 0.0044 22.4 13.6 26 65-90 55-80 (219)
293 PF01601 Corona_S2: Coronaviru 36.7 2.4E+02 0.0052 27.2 8.5 61 80-141 257-317 (610)
294 PF14399 Transpep_BrtH: NlpC/p 36.6 2E+02 0.0044 22.3 12.6 34 95-128 247-280 (317)
295 cd07666 BAR_SNX7 The Bin/Amphi 36.2 2.6E+02 0.0055 23.4 10.7 39 64-102 64-102 (243)
296 cd00520 RRF Ribosome recycling 36.2 2.1E+02 0.0045 22.3 9.3 18 16-33 75-92 (179)
297 PF08581 Tup_N: Tup N-terminal 35.8 1.6E+02 0.0035 20.9 9.3 16 63-78 6-21 (79)
298 PRK10935 nitrate/nitrite senso 35.7 1.6E+02 0.0036 24.2 6.5 45 86-130 175-228 (565)
299 COG1498 SIK1 Protein implicate 35.2 3.3E+02 0.0071 24.8 8.8 24 127-150 211-234 (395)
300 PRK14068 exodeoxyribonuclease 35.2 1.6E+02 0.0035 20.7 7.2 16 92-107 9-24 (76)
301 PRK14063 exodeoxyribonuclease 35.1 1.6E+02 0.0034 20.6 7.2 12 96-107 12-23 (76)
302 cd07657 F-BAR_Fes_Fer The F-BA 35.1 2.5E+02 0.0053 22.8 12.9 81 65-146 69-150 (237)
303 PF04888 SseC: Secretion syste 35.1 2.4E+02 0.0052 22.7 9.4 23 75-97 244-266 (306)
304 PF02403 Seryl_tRNA_N: Seryl-t 35.0 1.5E+02 0.0032 20.3 10.6 32 117-148 69-100 (108)
305 COG5074 t-SNARE complex subuni 35.0 2.6E+02 0.0055 24.8 7.8 24 58-81 21-45 (280)
306 PF05701 WEMBL: Weak chloropla 35.0 3.4E+02 0.0073 24.4 13.0 85 62-146 219-319 (522)
307 KOG1300|consensus 34.9 2.9E+02 0.0062 26.6 8.7 9 53-61 273-281 (593)
308 PF06193 Orthopox_A5L: Orthopo 34.7 2.5E+02 0.0055 23.0 7.3 8 127-134 144-151 (166)
309 PF03234 CDC37_N: Cdc37 N term 34.6 2E+02 0.0042 23.1 6.6 31 114-144 130-160 (177)
310 PF13805 Pil1: Eisosome compon 34.6 3E+02 0.0066 23.7 11.3 58 66-124 55-112 (271)
311 PF10737 GerPC: Spore germinat 34.3 2.1E+02 0.0045 23.2 6.7 11 25-36 48-58 (176)
312 PF12998 ING: Inhibitor of gro 34.0 1.4E+02 0.0031 19.8 9.6 18 108-125 61-78 (105)
313 cd07666 BAR_SNX7 The Bin/Amphi 34.0 2.8E+02 0.0061 23.2 11.4 12 75-86 89-100 (243)
314 PF13874 Nup54: Nucleoporin co 33.8 2E+02 0.0043 21.4 8.3 29 66-94 49-77 (141)
315 PRK13169 DNA replication intia 33.7 1E+02 0.0022 23.2 4.6 12 112-123 26-37 (110)
316 PRK12704 phosphodiesterase; Pr 33.5 3.7E+02 0.008 24.4 12.0 19 122-140 117-135 (520)
317 PF04558 tRNA_synt_1c_R1: Glut 33.4 56 0.0012 25.6 3.3 31 45-75 100-131 (164)
318 KOG3651|consensus 33.4 1.6E+02 0.0036 27.1 6.7 47 88-138 294-340 (429)
319 COG1256 FlgK Flagellar hook-as 33.4 4E+02 0.0086 24.7 10.1 8 129-136 170-177 (552)
320 COG4768 Uncharacterized protei 33.1 2.6E+02 0.0056 22.5 11.9 67 65-136 28-94 (139)
321 cd00890 Prefoldin Prefoldin is 33.1 1.6E+02 0.0035 20.1 11.2 32 117-148 89-120 (129)
322 PRK08147 flgK flagellar hook-a 32.9 3.5E+02 0.0077 24.0 9.8 12 120-131 165-176 (547)
323 cd07605 I-BAR_IMD Inverse (I)- 32.4 2.8E+02 0.0061 22.7 12.2 85 65-149 65-172 (223)
324 PF14131 DUF4298: Domain of un 32.3 1.8E+02 0.0039 20.4 5.6 23 67-89 6-28 (90)
325 PRK08412 flgL flagellar hook-a 32.1 3.5E+02 0.0077 26.7 9.0 68 59-126 55-123 (827)
326 cd07647 F-BAR_PSTPIP The F-BAR 31.9 2.6E+02 0.0056 22.1 12.0 9 95-103 39-47 (239)
327 PF04344 CheZ: Chemotaxis phos 31.8 2.7E+02 0.0058 22.3 10.4 24 126-149 132-155 (214)
328 PRK12717 flgL flagellar hook-a 31.7 3.9E+02 0.0085 24.2 8.8 41 59-99 55-95 (523)
329 cd07597 BAR_SNX8 The Bin/Amphi 31.6 2.7E+02 0.006 22.3 10.7 22 111-132 87-108 (246)
330 PRK13589 flagellin; Provisiona 31.5 4.8E+02 0.01 25.1 12.6 89 62-150 14-128 (576)
331 PRK14011 prefoldin subunit alp 31.5 2.5E+02 0.0053 21.7 7.8 29 63-91 97-125 (144)
332 PRK12806 flagellin; Provisiona 31.4 4E+02 0.0087 24.2 9.0 72 57-128 55-127 (475)
333 PF09730 BicD: Microtubule-ass 31.4 5E+02 0.011 25.3 12.3 97 52-148 357-459 (717)
334 cd07669 BAR_SNX33 The Bin/Amph 31.4 2.8E+02 0.006 23.3 7.2 35 93-127 26-60 (207)
335 PF04156 IncA: IncA protein; 31.4 2.2E+02 0.0047 21.1 12.9 26 63-88 90-115 (191)
336 cd07665 BAR_SNX1 The Bin/Amphi 31.3 3E+02 0.0065 22.7 10.4 43 62-104 30-72 (234)
337 PF10146 zf-C4H2: Zinc finger- 31.1 3E+02 0.0066 22.7 11.6 8 98-105 65-72 (230)
338 PF04740 LXG: LXG domain of WX 31.0 2.2E+02 0.0049 21.1 11.4 19 129-147 106-124 (204)
339 KOG2273|consensus 30.8 3.6E+02 0.0077 23.4 12.3 43 61-103 281-323 (503)
340 PF04949 Transcrip_act: Transc 30.7 3E+02 0.0065 22.6 7.1 67 52-118 82-158 (159)
341 cd07685 F-BAR_Fes The F-BAR (F 30.6 3.4E+02 0.0075 23.2 10.8 72 79-150 66-145 (237)
342 PRK12714 flgK flagellar hook-a 30.6 4.4E+02 0.0094 24.3 10.6 9 130-138 167-175 (624)
343 cd07673 F-BAR_FCHO2 The F-BAR 30.6 3E+02 0.0066 22.5 11.3 34 63-96 69-102 (269)
344 PF12805 FUSC-like: FUSC-like 30.4 2.8E+02 0.0061 22.1 10.1 35 48-83 194-228 (284)
345 COG1842 PspA Phage shock prote 30.4 3.1E+02 0.0067 22.5 8.7 36 113-148 29-64 (225)
346 PF00435 Spectrin: Spectrin re 30.4 1.3E+02 0.0029 18.3 11.7 53 77-130 43-95 (105)
347 cd07627 BAR_Vps5p The Bin/Amph 30.1 2.7E+02 0.0058 21.7 11.2 42 62-103 12-53 (216)
348 COG4477 EzrA Negative regulato 30.1 5.1E+02 0.011 25.0 12.6 51 38-88 74-131 (570)
349 cd07627 BAR_Vps5p The Bin/Amph 30.0 2.7E+02 0.0058 21.7 10.7 41 67-107 10-50 (216)
350 PF15112 DUF4559: Domain of un 29.9 4E+02 0.0086 23.7 8.7 104 40-147 197-306 (307)
351 PRK14011 prefoldin subunit alp 29.8 2.6E+02 0.0056 21.6 6.4 34 75-108 95-128 (144)
352 KOG0994|consensus 29.8 6E+02 0.013 27.5 10.5 89 62-150 1209-1314(1758)
353 PF04420 CHD5: CHD5-like prote 29.7 2.4E+02 0.0051 21.5 6.1 18 108-125 73-90 (161)
354 PF08700 Vps51: Vps51/Vps67; 29.5 1.6E+02 0.0036 19.1 8.3 34 108-141 51-84 (87)
355 PF13805 Pil1: Eisosome compon 29.5 3.7E+02 0.0081 23.2 11.0 33 63-95 59-91 (271)
356 KOG2629|consensus 29.4 4.1E+02 0.0089 23.7 9.2 13 13-25 83-95 (300)
357 cd07674 F-BAR_FCHO1 The F-BAR 29.3 3E+02 0.0065 22.1 11.8 70 67-139 14-91 (261)
358 PF12495 Vip3A_N: Vegetative i 29.3 3.3E+02 0.0071 22.5 9.2 86 62-147 36-144 (177)
359 cd08065 MPN_eIF3h Mpr1p, Pad1p 29.2 3E+02 0.0065 22.4 7.0 42 61-102 200-241 (266)
360 PF10241 KxDL: Uncharacterized 29.1 2E+02 0.0044 20.0 11.2 68 78-146 14-81 (88)
361 PRK08027 flgL flagellar hook-a 28.8 3.4E+02 0.0074 22.5 9.3 37 62-98 58-94 (317)
362 COG1322 Predicted nuclease of 28.8 4.5E+02 0.0098 23.9 11.9 17 127-143 152-168 (448)
363 cd07673 F-BAR_FCHO2 The F-BAR 28.7 3.3E+02 0.0071 22.3 12.1 29 73-104 27-55 (269)
364 cd07686 F-BAR_Fer The F-BAR (F 28.5 3.4E+02 0.0075 22.5 12.6 24 122-145 127-150 (234)
365 TIGR03036 trp_2_3_diox tryptop 28.5 2.8E+02 0.006 23.7 6.9 42 91-132 44-85 (264)
366 PF06419 COG6: Conserved oligo 28.4 4.7E+02 0.01 24.0 9.5 26 72-97 42-67 (618)
367 PF11172 DUF2959: Protein of u 28.4 3.6E+02 0.0077 22.6 10.7 41 105-145 160-200 (201)
368 PRK08871 flgK flagellar hook-a 28.2 5E+02 0.011 24.3 10.1 9 140-148 201-209 (626)
369 cd07653 F-BAR_CIP4-like The F- 28.1 2.8E+02 0.0061 21.4 11.3 37 63-99 74-111 (251)
370 PRK06665 flgK flagellar hook-a 28.1 4.8E+02 0.01 24.1 11.4 19 115-133 171-189 (627)
371 cd07664 BAR_SNX2 The Bin/Amphi 28.0 3.4E+02 0.0073 22.2 10.1 41 63-103 31-71 (234)
372 PF14966 DNA_repr_REX1B: DNA r 28.0 2.3E+02 0.0051 20.4 7.2 29 78-106 36-64 (97)
373 PRK13729 conjugal transfer pil 27.8 2.6E+02 0.0056 26.1 7.0 26 9-34 6-31 (475)
374 cd07658 F-BAR_NOSTRIN The F-BA 27.8 3.2E+02 0.0069 21.9 12.0 15 108-122 62-76 (239)
375 PF10191 COG7: Golgi complex c 27.8 5.3E+02 0.012 24.4 11.1 17 131-147 146-162 (766)
376 PRK07739 flgK flagellar hook-a 27.7 4.4E+02 0.0095 23.4 10.7 73 73-148 117-197 (507)
377 PF09712 PHA_synth_III_E: Poly 27.5 3E+02 0.0065 23.1 6.9 40 108-147 246-290 (293)
378 PF05529 Bap31: B-cell recepto 27.4 2.8E+02 0.006 21.0 8.5 19 125-143 164-182 (192)
379 PRK13588 flagellin B; Provisio 27.4 5E+02 0.011 24.0 12.5 89 62-150 14-128 (514)
380 PRK11068 phosphatidylglyceroph 27.2 29 0.00063 27.7 0.8 17 16-32 109-125 (164)
381 PF10112 Halogen_Hydrol: 5-bro 27.1 2.8E+02 0.0062 21.1 12.3 27 89-115 101-129 (199)
382 PF04129 Vps52: Vps52 / Sac2 f 26.9 4.6E+02 0.0099 23.4 10.3 39 66-104 19-57 (508)
383 PRK00045 hemA glutamyl-tRNA re 26.9 4E+02 0.0087 22.8 9.2 35 60-94 300-335 (423)
384 PRK09737 EcoKI restriction-mod 26.6 2.5E+02 0.0055 22.7 6.1 37 111-147 376-412 (461)
385 PRK05683 flgK flagellar hook-a 26.5 5.6E+02 0.012 24.2 11.6 7 141-147 202-208 (676)
386 KOG1842|consensus 26.5 2.9E+02 0.0063 26.2 7.2 63 72-134 276-338 (505)
387 PF09577 Spore_YpjB: Sporulati 26.4 3.8E+02 0.0083 22.4 8.3 62 87-148 24-88 (232)
388 PF10805 DUF2730: Protein of u 26.2 2.5E+02 0.0054 20.2 8.6 13 113-125 84-96 (106)
389 PF10146 zf-C4H2: Zinc finger- 26.2 3.8E+02 0.0081 22.2 11.1 7 138-144 97-103 (230)
390 COG1511 Predicted membrane pro 26.1 5.6E+02 0.012 24.2 10.2 10 63-72 187-196 (780)
391 PTZ00440 reticulocyte binding 26.0 1E+03 0.022 27.1 12.2 21 57-77 677-697 (2722)
392 PRK12687 flagellin; Reviewed 25.8 4E+02 0.0087 22.4 8.8 43 57-99 54-100 (311)
393 PF10824 DUF2580: Protein of u 25.8 1.8E+02 0.004 18.4 7.7 33 52-84 1-33 (100)
394 TIGR01069 mutS2 MutS2 family p 25.6 5.9E+02 0.013 24.3 12.9 65 31-99 477-542 (771)
395 PF14071 YlbD_coat: Putative c 25.6 1E+02 0.0022 24.0 3.5 37 60-101 67-103 (124)
396 TIGR00293 prefoldin, archaeal 25.5 2.4E+02 0.0053 19.7 12.6 34 114-147 92-125 (126)
397 PF12874 zf-met: Zinc-finger o 25.3 51 0.0011 17.1 1.3 16 55-70 5-20 (25)
398 PF11458 Mistic: Membrane-inte 25.0 3E+02 0.0065 20.6 8.1 37 87-123 11-51 (84)
399 TIGR00414 serS seryl-tRNA synt 25.0 4.7E+02 0.01 22.8 12.0 31 118-148 72-102 (418)
400 PF03904 DUF334: Domain of unk 25.0 4.5E+02 0.0096 22.6 11.9 11 110-120 99-109 (230)
401 PRK00488 pheS phenylalanyl-tRN 24.9 4.7E+02 0.01 23.0 7.8 12 110-121 39-50 (339)
402 PRK14066 exodeoxyribonuclease 24.9 2.5E+02 0.0054 19.6 7.1 14 94-107 9-22 (75)
403 smart00150 SPEC Spectrin repea 24.7 1.7E+02 0.0038 17.8 10.0 53 76-129 39-91 (101)
404 PF14071 YlbD_coat: Putative c 24.7 2.7E+02 0.0058 21.7 5.7 14 86-99 81-94 (124)
405 PF01765 RRF: Ribosome recycli 24.6 3.1E+02 0.0068 20.7 8.4 16 18-33 63-78 (165)
406 TIGR02131 phaP_Bmeg polyhydrox 24.5 4.1E+02 0.0088 22.0 7.0 28 108-135 37-64 (165)
407 PF10392 COG5: Golgi transport 24.5 2.8E+02 0.0062 20.2 9.7 9 76-84 41-49 (132)
408 KOG3091|consensus 24.5 2E+02 0.0043 27.2 5.7 24 55-78 456-479 (508)
409 PF15145 DUF4577: Domain of un 24.3 1E+02 0.0022 24.6 3.3 33 108-140 90-122 (128)
410 PF07028 DUF1319: Protein of u 24.2 3.3E+02 0.0071 21.4 6.1 10 114-123 66-75 (126)
411 PRK00977 exodeoxyribonuclease 24.2 2.6E+02 0.0056 19.6 7.1 13 95-107 16-28 (80)
412 PRK12718 flgL flagellar hook-a 24.1 5.7E+02 0.012 23.5 12.9 20 129-148 105-124 (510)
413 TIGR00255 conserved hypothetic 24.0 4.5E+02 0.0097 22.3 9.4 19 127-145 218-236 (291)
414 COG0172 SerS Seryl-tRNA synthe 24.0 5.6E+02 0.012 23.4 10.9 25 124-148 77-101 (429)
415 PF11568 Med29: Mediator compl 23.9 2.6E+02 0.0056 22.2 5.6 85 62-146 50-140 (148)
416 PRK05771 V-type ATP synthase s 23.8 5.5E+02 0.012 23.2 8.3 50 50-99 191-246 (646)
417 KOG0161|consensus 23.7 9.8E+02 0.021 26.1 11.5 81 61-141 1069-1152(1930)
418 cd07664 BAR_SNX2 The Bin/Amphi 23.6 4.1E+02 0.0089 21.7 10.2 42 66-107 27-68 (234)
419 TIGR02889 spore_YpeB germinati 23.4 3.7E+02 0.0081 24.2 7.1 64 85-148 35-105 (435)
420 PF07083 DUF1351: Protein of u 23.4 3.9E+02 0.0084 21.3 8.3 71 54-124 42-124 (215)
421 PF10458 Val_tRNA-synt_C: Valy 23.4 2.2E+02 0.0048 18.6 8.2 27 81-107 3-29 (66)
422 PF14322 SusD-like_3: Starch-b 23.4 1.3E+02 0.0029 20.9 3.5 20 11-31 112-132 (190)
423 cd07681 F-BAR_PACSIN3 The F-BA 23.3 4.5E+02 0.0098 22.1 11.7 78 63-140 167-255 (258)
424 PF04568 IATP: Mitochondrial A 23.2 2.4E+02 0.0053 20.9 5.0 12 1-12 1-13 (100)
425 COG3264 Small-conductance mech 23.2 6.3E+02 0.014 25.3 9.0 43 85-129 68-110 (835)
426 PF01297 TroA: Periplasmic sol 23.2 2E+02 0.0043 22.1 4.7 37 53-89 110-146 (256)
427 PF04108 APG17: Autophagy prot 23.2 5E+02 0.011 22.5 15.5 11 139-149 370-380 (412)
428 PF08393 DHC_N2: Dynein heavy 23.0 4.2E+02 0.0092 21.7 9.7 70 81-150 203-305 (408)
429 COG3890 ERG8 Phosphomevalonate 22.9 3.5E+02 0.0076 24.5 6.8 53 95-151 210-263 (337)
430 PRK12802 flagellin; Provisiona 22.9 4.1E+02 0.0088 21.4 8.8 71 57-127 55-126 (282)
431 PRK14147 heat shock protein Gr 22.9 3.8E+02 0.0083 21.1 10.9 85 63-150 27-111 (172)
432 cd07656 F-BAR_srGAP The F-BAR 22.9 4.2E+02 0.0091 21.6 11.9 79 72-150 74-159 (241)
433 PTZ00440 reticulocyte binding 22.8 1.1E+03 0.025 26.8 11.4 32 109-140 2469-2500(2722)
434 PF02609 Exonuc_VII_S: Exonucl 22.8 2.1E+02 0.0046 18.1 7.7 13 95-107 5-17 (53)
435 PTZ00464 SNF-7-like protein; P 22.7 4.2E+02 0.0092 21.5 9.7 45 87-131 103-147 (211)
436 PHA03089 late transcription fa 22.7 3.1E+02 0.0067 23.1 6.0 43 78-127 128-170 (191)
437 KOG3119|consensus 22.7 3.2E+02 0.007 22.6 6.1 29 118-146 218-246 (269)
438 PF10018 Med4: Vitamin-D-recep 22.6 3.7E+02 0.0079 20.8 9.2 34 108-141 29-62 (188)
439 PF04420 CHD5: CHD5-like prote 22.5 3.5E+02 0.0077 20.6 7.0 26 108-133 66-91 (161)
440 PF04100 Vps53_N: Vps53-like, 22.5 5.1E+02 0.011 22.4 12.2 21 62-82 19-39 (383)
441 PF08060 NOSIC: NOSIC (NUC001) 22.5 2E+02 0.0044 18.4 4.0 23 72-94 4-26 (53)
442 PF08192 Peptidase_S64: Peptid 22.4 7.6E+02 0.016 24.4 10.0 44 61-104 164-211 (695)
443 PF08397 IMD: IRSp53/MIM homol 22.4 3.8E+02 0.0082 20.9 12.9 88 63-150 5-94 (219)
444 TIGR01725 phge_HK97_gp10 phage 22.3 2.6E+02 0.0057 19.0 5.6 38 60-97 1-40 (119)
445 PF01920 Prefoldin_2: Prefoldi 22.3 2.4E+02 0.0052 18.6 11.9 85 65-149 2-103 (106)
446 PF13912 zf-C2H2_6: C2H2-type 22.3 61 0.0013 17.1 1.3 17 54-70 5-21 (27)
447 PF06120 Phage_HK97_TLTM: Tail 22.2 5.3E+02 0.011 22.5 10.1 67 80-146 39-105 (301)
448 cd01145 TroA_c Periplasmic bin 22.1 1.4E+02 0.0031 22.6 3.7 41 53-93 126-166 (203)
449 PRK13729 conjugal transfer pil 22.1 4.1E+02 0.0089 24.8 7.2 52 97-148 64-116 (475)
450 PF10786 G6PD_bact: Glucose-6- 22.0 46 0.00099 28.2 1.1 10 12-21 73-82 (215)
451 cd07651 F-BAR_PombeCdc15_like 22.0 3.9E+02 0.0084 20.8 12.6 85 61-146 60-145 (236)
452 PF13315 DUF4085: Protein of u 22.0 2.7E+02 0.0059 23.2 5.5 40 85-124 79-121 (208)
453 cd07649 F-BAR_GAS7 The F-BAR ( 22.0 4.4E+02 0.0094 21.4 9.7 69 62-130 152-223 (233)
454 PRK12584 flagellin A; Reviewed 21.9 6.1E+02 0.013 23.1 12.5 91 60-150 12-128 (510)
455 PF10779 XhlA: Haemolysin XhlA 21.9 2.5E+02 0.0055 18.7 6.5 44 107-150 5-48 (71)
456 cd08915 V_Alix_like Protein-in 21.9 4.5E+02 0.0098 21.6 8.8 90 61-151 133-222 (342)
457 CHL00019 atpF ATP synthase CF0 21.9 3.6E+02 0.0078 20.5 13.3 86 64-149 58-144 (184)
458 PRK11677 hypothetical protein; 21.9 3.8E+02 0.0083 20.7 7.0 47 85-131 32-84 (134)
459 PF09823 DUF2357: Domain of un 21.9 2.3E+02 0.005 21.4 4.8 40 110-149 173-214 (248)
460 PF10280 Med11: Mediator compl 21.8 3.2E+02 0.007 19.9 10.5 67 74-140 5-73 (117)
461 PRK13858 type IV secretion sys 21.7 3E+02 0.0066 22.0 5.6 53 68-120 73-128 (147)
462 PF08654 DASH_Dad2: DASH compl 21.7 2.8E+02 0.006 20.5 5.0 45 57-101 10-54 (103)
463 PF07817 GLE1: GLE1-like prote 21.7 1.7E+02 0.0037 23.7 4.3 72 75-147 3-74 (256)
464 PHA02682 ORF080 virion core pr 21.6 1.8E+02 0.004 25.4 4.6 34 111-144 211-244 (280)
465 PRK08471 flgK flagellar hook-a 21.5 6.5E+02 0.014 23.3 11.2 84 66-149 110-217 (613)
466 COG0803 LraI ABC-type metal io 21.5 1.8E+02 0.0039 23.8 4.4 35 56-90 154-188 (303)
467 PF05667 DUF812: Protein of un 21.5 6.8E+02 0.015 23.5 12.9 139 11-150 248-404 (594)
468 cd07603 BAR_ACAPs The Bin/Amph 21.5 4.2E+02 0.0091 21.0 12.9 99 50-148 19-127 (200)
469 PF08649 DASH_Dad1: DASH compl 21.4 2.8E+02 0.0062 19.1 6.2 41 63-103 11-51 (58)
470 PF07072 DUF1342: Protein of u 21.4 1.7E+02 0.0037 23.8 4.2 62 85-147 43-106 (211)
471 PF04523 Herpes_U30: Herpes vi 21.3 7.9E+02 0.017 24.2 10.2 78 62-139 698-780 (887)
472 smart00502 BBC B-Box C-termina 21.3 2.5E+02 0.0054 18.4 13.1 91 61-151 7-104 (127)
473 PLN02320 seryl-tRNA synthetase 21.2 6.7E+02 0.014 23.3 11.8 91 50-145 77-167 (502)
474 TIGR01386 cztS_silS_copS heavy 21.2 4.1E+02 0.0088 20.8 10.3 73 63-135 220-298 (457)
475 PF10186 Atg14: UV radiation r 21.1 3.8E+02 0.0083 20.4 13.4 87 63-149 65-153 (302)
476 PF06008 Laminin_I: Laminin Do 21.1 4.3E+02 0.0093 21.0 11.9 83 63-145 180-264 (264)
477 COG1579 Zn-ribbon protein, pos 21.0 5.1E+02 0.011 21.9 12.2 86 63-148 33-122 (239)
478 PF13654 AAA_32: AAA domain; P 21.0 32 0.0007 31.0 0.0 117 11-142 138-257 (509)
479 PF01601 Corona_S2: Coronaviru 20.9 7.8E+02 0.017 23.9 9.2 63 64-127 255-317 (610)
480 cd07668 BAR_SNX9 The Bin/Amphi 20.8 5.2E+02 0.011 21.8 9.9 76 76-151 9-95 (210)
481 PF01519 DUF16: Protein of unk 20.8 3.9E+02 0.0084 20.4 9.2 63 61-127 37-100 (102)
482 PF15456 Uds1: Up-regulated Du 20.7 3.8E+02 0.0082 20.3 11.5 82 60-145 21-111 (124)
483 smart00806 AIP3 Actin interact 20.7 6E+02 0.013 23.5 7.9 74 78-151 213-294 (426)
484 PF15469 Sec5: Exocyst complex 20.7 3.6E+02 0.0079 20.0 8.7 73 51-123 3-83 (182)
485 PF11083 Streptin-Immun: Lanti 20.7 3.9E+02 0.0084 20.3 5.9 38 109-146 53-90 (99)
486 PHA03089 late transcription fa 20.7 3.9E+02 0.0085 22.5 6.2 44 78-121 128-171 (191)
487 PF12896 Apc4: Anaphase-promot 20.6 3.7E+02 0.0081 20.1 8.2 62 57-119 6-67 (210)
488 KOG4117|consensus 20.6 1.6E+02 0.0034 21.6 3.4 24 111-134 37-60 (73)
489 PF11945 WASH_WAHD: WAHD domai 20.6 4.7E+02 0.01 22.5 6.9 46 89-134 18-69 (297)
490 PF10232 Med8: Mediator of RNA 20.5 55 0.0012 26.5 1.2 54 71-124 7-64 (226)
491 PF07304 SRA1: Steroid recepto 20.5 4E+02 0.0087 20.4 7.9 54 87-140 44-103 (157)
492 PF15191 Synaptonemal_3: Synap 20.5 3.3E+02 0.0072 20.8 5.3 33 67-99 8-40 (95)
493 PRK00034 gatC aspartyl/glutamy 20.3 1.4E+02 0.0031 20.2 3.1 26 104-129 18-43 (95)
494 cd07622 BAR_SNX4 The Bin/Amphi 20.3 4.5E+02 0.0097 20.9 12.1 82 63-149 23-104 (201)
495 PRK12715 flgK flagellar hook-a 20.2 7.3E+02 0.016 23.3 9.3 73 73-145 105-182 (649)
496 PF02388 FemAB: FemAB family; 20.1 5.6E+02 0.012 22.0 8.4 57 75-133 242-298 (406)
497 PF01452 Rota_NSP4: Rotavirus 20.1 3.4E+02 0.0074 22.6 5.7 56 78-133 93-150 (173)
498 PRK09720 cybC cytochrome b562; 20.0 3.9E+02 0.0085 20.1 5.7 43 81-123 49-91 (100)
499 cd07626 BAR_SNX9_like The Bin/ 20.0 4.7E+02 0.01 21.1 9.0 66 86-151 11-87 (199)
No 1
>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.
Probab=97.27 E-value=0.023 Score=40.94 Aligned_cols=44 Identities=7% Similarity=0.283 Sum_probs=18.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESN 106 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~ 106 (151)
+..+.+.++...+.+.+..+.|..|...++++...+.+++....
T Consensus 116 ~~~~~~~i~~~~~~~~~~~~~l~~i~~~~~~i~~~i~~i~~~~~ 159 (213)
T PF00015_consen 116 MEESREQIEEGSESVEETSESLEEIAESVEEISDSIEEISESAE 159 (213)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhcchhhhhhhcccchhcchhhhhhhhhhhHHhhhhHHHHhhHH
Confidence 33444444444444444444444444444444444444444333
No 2
>smart00283 MA Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.
Probab=97.14 E-value=0.037 Score=40.19 Aligned_cols=23 Identities=17% Similarity=0.329 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 112 QIKKELDQMVKELDLTIKELNQI 134 (151)
Q Consensus 112 qIsK~Ldqisk~ld~isK~L~qI 134 (151)
++...+.++++.+..+.....++
T Consensus 71 ~~~~~~~~~~~~i~~i~~~~~~i 93 (262)
T smart00283 71 QIREVVEEAVSAVEELEESSDEI 93 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444443333333
No 3
>smart00283 MA Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.
Probab=97.13 E-value=0.037 Score=40.21 Aligned_cols=71 Identities=6% Similarity=0.282 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIK 136 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk 136 (151)
++..+.+++..+.++...+.+++..+.+++..+.++.....+ ....++.....++...+..+.+.++.|..
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~ 88 (262)
T smart00283 16 QAEELEELAERMEELSASIEEVAANADEIAATAQSAAEAAEEGREAVEDAITAMDQIREVVEEAVSAVEELEE 88 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333344444444444444444444444444333333333 33333344444444444444444444433
No 4
>PRK11637 AmiB activator; Provisional
Probab=96.39 E-value=0.14 Score=43.19 Aligned_cols=83 Identities=14% Similarity=0.192 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIK 143 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K 143 (151)
..+.++++-+.+.+..+.+.+..+.+++..+.++.+.+.+.. ..+..+...|+.+-+.++.+-+.+++.-+.+++-.+
T Consensus 45 ~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~ 124 (428)
T PRK11637 45 NRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQER 124 (428)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444444444444444433 555556666666666666666666666666665555
Q ss_pred HHHHh
Q psy18023 144 ELNQI 148 (151)
Q Consensus 144 ~l~q~ 148 (151)
.|.+.
T Consensus 125 ~l~~r 129 (428)
T PRK11637 125 LLAAQ 129 (428)
T ss_pred HHHHH
Confidence 55543
No 5
>COG1463 Ttg2C ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=96.28 E-value=0.062 Score=44.75 Aligned_cols=58 Identities=19% Similarity=0.359 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHH
Q psy18023 68 KELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELD 125 (151)
Q Consensus 68 KnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld 125 (151)
.++.+..+++++|+..|+.=++.+.++++.++++...+.+ ..++++...|....++++
T Consensus 176 ~~l~~~l~~l~~~~~~ln~~~~~i~~~i~~l~~~~~~~~~~~~~l~~~~~~l~~l~~~~~ 235 (359)
T COG1463 176 PQLNALLDNLAQFTDALNARDGDIGALIANLNQLLDSLAAASDQLDRLLDNLATLTAALA 235 (359)
T ss_pred hHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHh
Confidence 3334444444444444444444444444444444444333 333333333333333333
No 6
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=96.26 E-value=0.15 Score=34.69 Aligned_cols=36 Identities=33% Similarity=0.557 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLI 101 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qI 101 (151)
+++-|+++.+.++++.++++.+.+..+++.+..+.+
T Consensus 24 l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l 59 (90)
T PF06103_consen 24 LKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNEL 59 (90)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444444444433
No 7
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=95.93 E-value=0.21 Score=33.86 Aligned_cols=38 Identities=26% Similarity=0.532 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 70 LDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 70 LdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
|-.+.+-|+++.+.++.+.+.++.+.+..+++.++.+.
T Consensus 21 l~~l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~ 58 (90)
T PF06103_consen 21 LKKLKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNE 58 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555555555555554443
No 8
>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=95.85 E-value=0.17 Score=38.75 Aligned_cols=18 Identities=28% Similarity=0.222 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHHhhh
Q psy18023 89 KESNQVIKELNLIIKESN 106 (151)
Q Consensus 89 K~l~QiSk~L~qISKel~ 106 (151)
|+|+|+|++|..--|||+
T Consensus 50 kql~~vs~~l~~tKkhLs 67 (126)
T PF07889_consen 50 KQLEQVSESLSSTKKHLS 67 (126)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 9
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=95.45 E-value=0.53 Score=40.75 Aligned_cols=80 Identities=25% Similarity=0.381 Sum_probs=38.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hhhh-------------hhhHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK---ESNQ-------------NKLDQIKKELDQMVKELDL 126 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK---el~q-------------k~LdqIsK~Ldqisk~ld~ 126 (151)
++|..++...|++.+..-...|+.+. ++|++.|+.|++ .+|+ ..|.++.+...+.+..+..
T Consensus 222 leqm~~~~~~I~~~~~~~~~~L~kl~---~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~ 298 (359)
T PF10498_consen 222 LEQMKQHKKSIESALPETKSQLDKLQ---QDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSE 298 (359)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 45555555555555544444444333 234455555542 2332 3344444455555555555
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy18023 127 TIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 127 isK~L~qIsk~l~qI~K~l 145 (151)
-..+|++|+..|.++..++
T Consensus 299 ~t~~L~~IseeLe~vK~em 317 (359)
T PF10498_consen 299 RTRELAEISEELEQVKQEM 317 (359)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5555555555555554443
No 10
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=95.30 E-value=0.52 Score=41.75 Aligned_cols=91 Identities=18% Similarity=0.300 Sum_probs=51.8
Q ss_pred hhhhccccchHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHH
Q psy18023 54 KECKVDFNKLDQIKKELDQIIKELDQIIKE----------LDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMV 121 (151)
Q Consensus 54 ~~~~~~~~~LDQIsKnLdQISK~LdQIsK~----------LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqis 121 (151)
+....=...+..+.++..+....++.++.+ ..++.+.++.+.+.+..+....+. .....+.+.++.+.
T Consensus 310 k~~~~l~~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~ 389 (569)
T PRK04778 310 KNSDTLPDFLEHAKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEIL 389 (569)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 333333445555666666666666666665 555555566666666655555554 33555666666666
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 122 KELDLTIKELNQIIKELNQIIKE 144 (151)
Q Consensus 122 k~ld~isK~L~qIsk~l~qI~K~ 144 (151)
+.++.+-+....|...++.+++.
T Consensus 390 e~leeie~eq~ei~e~l~~Lrk~ 412 (569)
T PRK04778 390 KQLEEIEKEQEKLSEMLQGLRKD 412 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 66666666655555555555543
No 11
>PRK11637 AmiB activator; Provisional
Probab=95.28 E-value=0.68 Score=39.12 Aligned_cols=83 Identities=12% Similarity=0.210 Sum_probs=50.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELN 139 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~ 139 (151)
.++++.+.+.+..+.+.+..+.++...+.++.+.+.|....+.++. ..+..+.+.+++.-+.++..-+.|++--+.+.
T Consensus 48 ~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~ 127 (428)
T PRK11637 48 QLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLA 127 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566666666666666666666666666666666666666666655 55666666666666666665555555555554
Q ss_pred HHHHH
Q psy18023 140 QIIKE 144 (151)
Q Consensus 140 qI~K~ 144 (151)
+....
T Consensus 128 ~rlra 132 (428)
T PRK11637 128 AQLDA 132 (428)
T ss_pred HHHHH
Confidence 44433
No 12
>PRK09793 methyl-accepting protein IV; Provisional
Probab=94.92 E-value=1.2 Score=38.12 Aligned_cols=15 Identities=13% Similarity=0.153 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHh
Q psy18023 134 IIKELNQIIKELNQI 148 (151)
Q Consensus 134 Isk~l~qI~K~l~q~ 148 (151)
.+..|.+....|.+.
T Consensus 493 ~~~~l~~~a~~l~~~ 507 (533)
T PRK09793 493 ATEQLANQADHLSSR 507 (533)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333444444444433
No 13
>KOG2196|consensus
Probab=94.92 E-value=0.23 Score=42.55 Aligned_cols=73 Identities=27% Similarity=0.326 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 72 QIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKE 144 (151)
Q Consensus 72 QISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~ 144 (151)
|+.+-++.|..-|+..+..|.+|+++|+..+|-.+- +-+.||-|-|.-+-+.|.-+-.--.|+.|.++.|-|.
T Consensus 175 qty~~a~nidsqLk~l~~dL~~ii~~lN~~~~~~d~t~~~~qi~Kilnah~~sLqwl~d~st~~e~k~d~i~K~ 248 (254)
T KOG2196|consen 175 QTYKMAENIDSQLKRLSEDLKQIIKSLNTMSKTVDKTDPIIQIEKILNAHMDSLQWLDDNSTQLEKKLDKIKKL 248 (254)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHhccCccccCCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhh
Confidence 455555666666666666666666666666665444 5577777777666666655555556666777776553
No 14
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=94.63 E-value=1.5 Score=33.54 Aligned_cols=37 Identities=14% Similarity=0.338 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 112 QIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 112 qIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
+|.+.+..+...+++|-..++.|-..+..+--+++.|
T Consensus 86 ~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~i 122 (126)
T PF07889_consen 86 QIKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKIDEI 122 (126)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555555555555555555555443
No 15
>PRK03918 chromosome segregation protein; Provisional
Probab=94.47 E-value=1.2 Score=39.71 Aligned_cols=83 Identities=25% Similarity=0.358 Sum_probs=42.3
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKEL 138 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l 138 (151)
..+.+..+...+..+.+.++...+.+..+.+.++++.+.++.+.+..+...+.++.+.++.+.+.+..+...+..+-+.+
T Consensus 610 ~~~~l~~~~~~l~~~~~~l~~~~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~~~~l~~~l~~l~~~~~~l~~~i 689 (880)
T PRK03918 610 AEKELEREEKELKKLEEELDKAFEELAETEKRLEELRKELEELEKKYSEEEYEELREEYLELSRELAGLRAELEELEKRR 689 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555666666666666666666666666666666555334444444444444444444444443333333333
Q ss_pred HHH
Q psy18023 139 NQI 141 (151)
Q Consensus 139 ~qI 141 (151)
..+
T Consensus 690 ~~l 692 (880)
T PRK03918 690 EEI 692 (880)
T ss_pred HHH
Confidence 333
No 16
>COG0840 Tar Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]
Probab=94.17 E-value=2.3 Score=33.71 Aligned_cols=21 Identities=29% Similarity=0.482 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q psy18023 129 KELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 129 K~L~qIsk~l~qI~K~l~q~~ 149 (151)
.++...+..|.+....|.+.|
T Consensus 383 ~~~~~~~~~l~~~~~~l~~~v 403 (408)
T COG0840 383 EELAAASEELKELAEKLLELV 403 (408)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444444555555555555544
No 17
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=94.13 E-value=2.3 Score=33.63 Aligned_cols=41 Identities=22% Similarity=0.417 Sum_probs=20.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~~~ 150 (151)
+++..+.++++.+.++.+.+...++.-.+.+..+.|.+.|+
T Consensus 79 v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~v~ 119 (251)
T PF11932_consen 79 VASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQFVE 119 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444444444555544444555555555566655554
No 18
>PRK10807 paraquat-inducible protein B; Provisional
Probab=93.57 E-value=1.7 Score=39.22 Aligned_cols=21 Identities=33% Similarity=0.770 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy18023 127 TIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 127 isK~L~qIsk~l~qI~K~l~q 147 (151)
+.++|++..+.|....+.|++
T Consensus 505 tl~~l~~~~r~lr~l~~~L~~ 525 (547)
T PRK10807 505 DMQRLDQVLRELQPVLKTLNE 525 (547)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 444555555555555555543
No 19
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=93.52 E-value=1.6 Score=38.30 Aligned_cols=47 Identities=9% Similarity=0.060 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHhhhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 92 NQVIKELNLIIKESNQ-NKLDQIKKELDQMVKELDLTIKELNQIIKEL 138 (151)
Q Consensus 92 ~QiSk~L~qISKel~q-k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l 138 (151)
++-+..+.+++..++. .-+.++.+.++....++..+.+-..|+..-+
T Consensus 303 A~as~~l~~l~~~l~~p~~~~~L~qtl~sl~~t~~ni~~vs~dv~~ft 350 (370)
T PLN03094 303 AEASEDLRRLNSSILTPENTELLRQSIYTLTKTLKHIESISSDISGFT 350 (370)
T ss_pred HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3334444444444333 2333334444434333333333333333333
No 20
>COG0840 Tar Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]
Probab=93.29 E-value=3.4 Score=32.78 Aligned_cols=16 Identities=6% Similarity=0.214 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHHHHH
Q psy18023 83 ELDLIIKESNQVIKEL 98 (151)
Q Consensus 83 ~LdqISK~l~QiSk~L 98 (151)
.+.++...+++++...
T Consensus 167 ~~~~~~~~~~~~~~~~ 182 (408)
T COG0840 167 SLEEVASAIEELSETV 182 (408)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333333333333
No 21
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=92.93 E-value=1.6 Score=28.19 Aligned_cols=58 Identities=22% Similarity=0.465 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q psy18023 72 QIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKEL 131 (151)
Q Consensus 72 QISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L 131 (151)
+|-...+.|...|+.|...++++.+--..+.-..++. .+.+++|+.+....-.....+
T Consensus 4 ~f~~~v~~i~~~i~~i~~~~~~l~~l~~~~l~~~~~d--~~~~~el~~l~~~i~~~~~~~ 61 (103)
T PF00804_consen 4 EFFDEVQEIREDIDKIKEKLNELRKLHKKILSSPDQD--SELKRELDELTDEIKQLFQKI 61 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSHH--HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcc--hhHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444333333222211 345555555544444433333
No 22
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=92.90 E-value=2.4 Score=36.81 Aligned_cols=20 Identities=30% Similarity=0.521 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q psy18023 129 KELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 129 K~L~qIsk~l~qI~K~l~q~ 148 (151)
.....-.++|++|..+|+++
T Consensus 294 ~~V~~~t~~L~~IseeLe~v 313 (359)
T PF10498_consen 294 EGVSERTRELAEISEELEQV 313 (359)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 33333444555555555544
No 23
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=92.85 E-value=4.4 Score=32.87 Aligned_cols=52 Identities=21% Similarity=0.286 Sum_probs=32.9
Q ss_pred HHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Q psy18023 50 QEMEKECKVDFNKLDQIKKELDQIIKELDQIIKEL-DLIIKESNQVIKELNLII 102 (151)
Q Consensus 50 ~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~L-dqISK~l~QiSk~L~qIS 102 (151)
-+.++-|..+ ...++|.+..+.+|-.||-+++.| .+|++..+...++|..+.
T Consensus 18 ~~L~~l~~~~-~~~~~i~~~~ekLs~~ldvVe~~L~~~I~~~s~~f~~a~~~v~ 70 (291)
T PF10475_consen 18 YELEKLPEDE-LDLEDIEELQEKLSHYLDVVEKKLSREISEKSDSFFQAMSSVQ 70 (291)
T ss_pred HHHHhCCCcc-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666665 445667777777777777777776 356666666666655443
No 24
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=92.85 E-value=1.8 Score=37.92 Aligned_cols=14 Identities=14% Similarity=0.299 Sum_probs=6.2
Q ss_pred chHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIK 75 (151)
Q Consensus 62 ~LDQIsKnLdQISK 75 (151)
++|++-..|.+++.
T Consensus 228 sld~L~~~ltrL~~ 241 (370)
T PLN03094 228 SLDELVGICTRLAR 241 (370)
T ss_pred CHHHHHHHHHHHHH
Confidence 44444444444444
No 25
>PF06009 Laminin_II: Laminin Domain II; InterPro: IPR010307 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 [].; GO: 0007155 cell adhesion, 0005604 basement membrane; PDB: 2WJS_A.
Probab=92.75 E-value=0.032 Score=41.28 Aligned_cols=43 Identities=19% Similarity=0.278 Sum_probs=0.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE 104 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe 104 (151)
.++.|+++|+.++..+.++..+++.+.+.+.+..+.+++..+.
T Consensus 18 ~~~~i~~~l~~~~~~~~~~~~~v~~t~~~~~~~~~~l~~a~~~ 60 (138)
T PF06009_consen 18 RLDPISENLENWSENLGEINSDVEETNQDISDANKALDDANNS 60 (138)
T ss_dssp -------------------------------------------
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555666666655555555555554444444444444433
No 26
>KOG2196|consensus
Probab=92.33 E-value=0.69 Score=39.74 Aligned_cols=62 Identities=29% Similarity=0.319 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHH
Q psy18023 68 KELDQIIKELDQIIKELDLIIKESNQVIKE------LNLIIKESNQ--NKLDQIKKELDQMVKELDLTIK 129 (151)
Q Consensus 68 KnLdQISK~LdQIsK~LdqISK~l~QiSk~------L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK 129 (151)
+-++.|-..|.+.+-+|++|+++||..++. ..||.|-|+- ++|.-|-.--.|+.|.++.|-|
T Consensus 178 ~~a~nidsqLk~l~~dL~~ii~~lN~~~~~~d~t~~~~qi~Kilnah~~sLqwl~d~st~~e~k~d~i~K 247 (254)
T KOG2196|consen 178 KMAENIDSQLKRLSEDLKQIIKSLNTMSKTVDKTDPIIQIEKILNAHMDSLQWLDDNSTQLEKKLDKIKK 247 (254)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHhccCccccCCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHh
Confidence 333333344444444444444444444332 4456666655 4443333333445555555443
No 27
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=92.17 E-value=1.9 Score=35.67 Aligned_cols=26 Identities=15% Similarity=0.290 Sum_probs=11.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLII 88 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqIS 88 (151)
++...++-..+.++.+.+...+..+.
T Consensus 9 l~~L~~Ep~~L~~~~~~l~~ql~~La 34 (338)
T PF04124_consen 9 LESLFSEPQSLSEEIASLDAQLQSLA 34 (338)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444433
No 28
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=91.88 E-value=1.9 Score=38.98 Aligned_cols=67 Identities=16% Similarity=0.294 Sum_probs=36.2
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLT 127 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~i 127 (151)
+-|+|+.+++.+.++.+....+...+.-+.+.+.-+.++++...+.+ ..|+.+++.++++-+.+..+
T Consensus 38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l 106 (420)
T COG4942 38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNAL 106 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHH
Confidence 34556666666666666666666666655555555555555555444 44444444444444444333
No 29
>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=91.68 E-value=4.5 Score=31.26 Aligned_cols=43 Identities=14% Similarity=0.207 Sum_probs=25.4
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE 104 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe 104 (151)
.++.+..+|..+.|....+.|....++.++.+.+..+..|+..
T Consensus 12 ~~~~L~~~L~~l~ki~~Rl~kr~~~l~~d~~efg~~~~~L~~~ 54 (185)
T cd07628 12 KSDKLDENLTKIDKIFAKVVKRQSDLSVDYADLATQFQKLGSL 54 (185)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3455566666666666666666666666666666666655543
No 30
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=91.59 E-value=4 Score=36.92 Aligned_cols=68 Identities=22% Similarity=0.296 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 68 KELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 68 KnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
++|+|+-+++++.++.+....+...+.-+.|.+.-+++ .+|...|-+...+++.+.+.++++-+.+++
T Consensus 38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i-----~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~ 105 (420)
T COG4942 38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEI-----ASLEAQLIETADDLKKLRKQIADLNARLNA 105 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHhHHHHHHhhHHHHHHHHHH
Confidence 66666666666666666666555555554444443333 334444444444444444444444333333
No 31
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=91.56 E-value=0.9 Score=42.46 Aligned_cols=73 Identities=23% Similarity=0.346 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK-------ESNQNKLDQIKKELDQMVKELDLTIKELNQIIKEL 138 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK-------el~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l 138 (151)
++++|+.+...+.+....++++.+-++.--.+++ ..+ .+..+....|+.-|.++..+++..+|.++.|.+++
T Consensus 637 ~~~EL~~~~~~l~~l~~si~~lk~k~~~Q~~~i~-~~~~~~~~s~~L~~~Q~~~I~~iL~~~~~~I~~~v~~ik~i~~~~ 715 (717)
T PF10168_consen 637 FKKELERMKDQLQDLKASIEQLKKKLDYQQRQIE-SQKSPKKKSIVLSESQKRTIKEILKQQGEEIDELVKQIKNIKKIV 715 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-ccccccCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444555555555555555555555543222333 111 23335677788888888888877777777777765
Q ss_pred H
Q psy18023 139 N 139 (151)
Q Consensus 139 ~ 139 (151)
+
T Consensus 716 ~ 716 (717)
T PF10168_consen 716 N 716 (717)
T ss_pred C
Confidence 3
No 32
>PRK01156 chromosome segregation protein; Provisional
Probab=91.34 E-value=5.3 Score=36.44 Aligned_cols=36 Identities=11% Similarity=0.367 Sum_probs=18.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l 145 (151)
+.+|++.++++.+.++.+-..+.++-+.++++.+.+
T Consensus 411 ~~e~~~~~~~l~~~i~~l~~~i~~l~~~~~el~~~~ 446 (895)
T PRK01156 411 LNEINVKLQDISSKVSSLNQRIRALRENLDELSRNM 446 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555555555555544433
No 33
>TIGR00833 actII Transport protein. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. This sub-family includes the S. coelicolor ActII3 protein, which may play a role in drug resistance, and the M. tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate.
Probab=91.29 E-value=5.6 Score=37.25 Aligned_cols=13 Identities=38% Similarity=0.386 Sum_probs=5.9
Q ss_pred HHHHHHHHHHhcC
Q psy18023 13 RRHYFALFRMFDG 25 (151)
Q Consensus 13 ~~~~~~~~~~~~~ 25 (151)
|+.|..+-+-|.|
T Consensus 399 ~~~~~~l~~~f~~ 411 (910)
T TIGR00833 399 VQGYEAADRHFPG 411 (910)
T ss_pred HHHHHHHHHhCCC
Confidence 4444444444443
No 34
>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=91.27 E-value=7 Score=34.96 Aligned_cols=55 Identities=18% Similarity=0.283 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 89 KESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIK 143 (151)
Q Consensus 89 K~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K 143 (151)
+.+.++.+.++.+...+.+ ..-.+|...|..+.+.|+.|.+....+...|+.+++
T Consensus 351 ~~l~~l~~~~~~~~~~i~~~~~~yS~i~~~l~~~~~~l~~ie~~q~~~~~~l~~L~~ 407 (560)
T PF06160_consen 351 KQLKELEKRYEDLEERIEEQQVPYSEIQEELEEIEEQLEEIEEEQEEINESLQSLRK 407 (560)
T ss_pred HHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444 223344444444444444444444444444444443
No 35
>PRK03918 chromosome segregation protein; Provisional
Probab=91.26 E-value=8 Score=34.63 Aligned_cols=23 Identities=22% Similarity=0.443 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 79 QIIKELDLIIKESNQVIKELNLI 101 (151)
Q Consensus 79 QIsK~LdqISK~l~QiSk~L~qI 101 (151)
.+.+.+..+.+.++.....+..+
T Consensus 204 ~l~~ei~~l~~e~~~l~~~~~~~ 226 (880)
T PRK03918 204 EVLREINEISSELPELREELEKL 226 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333
No 36
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=91.06 E-value=4.5 Score=35.95 Aligned_cols=27 Identities=30% Similarity=0.464 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 120 MVKELDLTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 120 isk~ld~isK~L~qIsk~l~qI~K~l~ 146 (151)
+...++.+.+.|++|-+....|...++
T Consensus 381 l~e~leel~e~leeie~eq~ei~e~l~ 407 (569)
T PRK04778 381 LQEELEEILKQLEEIEKEQEKLSEMLQ 407 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444433
No 37
>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=91.00 E-value=4.4 Score=36.21 Aligned_cols=18 Identities=11% Similarity=0.298 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy18023 129 KELNQIIKELNQIIKELN 146 (151)
Q Consensus 129 K~L~qIsk~l~qI~K~l~ 146 (151)
+.|..+...++....+.+
T Consensus 472 ~~l~~a~~~v~~L~~~t~ 489 (560)
T PF06160_consen 472 KQLEEAEDDVETLEEKTE 489 (560)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 38
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=90.87 E-value=2.5 Score=25.93 Aligned_cols=34 Identities=26% Similarity=0.376 Sum_probs=19.4
Q ss_pred hccccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQIIKELDLIIKE 90 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~ 90 (151)
+||+..|.+..+.+......|......|......
T Consensus 3 ~vd~~~l~~~a~~~~~~~~~l~~~~~~l~~~~~~ 36 (86)
T PF06013_consen 3 KVDPEQLRAAAQQLQAQADELQSQLQQLESSIDS 36 (86)
T ss_dssp TSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677766666666666655555554444443333
No 39
>PF06009 Laminin_II: Laminin Domain II; InterPro: IPR010307 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 [].; GO: 0007155 cell adhesion, 0005604 basement membrane; PDB: 2WJS_A.
Probab=90.84 E-value=0.07 Score=39.48 Aligned_cols=9 Identities=11% Similarity=0.423 Sum_probs=0.0
Q ss_pred HHHHHHHHH
Q psy18023 134 IIKELNQII 142 (151)
Q Consensus 134 Isk~l~qI~ 142 (151)
|++-+.+|+
T Consensus 88 ls~nI~~Ir 96 (138)
T PF06009_consen 88 LSRNISRIR 96 (138)
T ss_dssp ---------
T ss_pred HHHHHHHHH
Confidence 333333333
No 40
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=90.55 E-value=3.3 Score=26.77 Aligned_cols=17 Identities=24% Similarity=0.665 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy18023 65 QIKKELDQIIKELDQII 81 (151)
Q Consensus 65 QIsKnLdQISK~LdQIs 81 (151)
+|...|+.|...+++|.
T Consensus 11 ~i~~~i~~i~~~~~~l~ 27 (103)
T PF00804_consen 11 EIREDIDKIKEKLNELR 27 (103)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 41
>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=90.51 E-value=4.1 Score=27.78 Aligned_cols=40 Identities=20% Similarity=0.345 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKES 105 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel 105 (151)
+.+.+..|.+....+...+...+......+++|..+++..
T Consensus 5 ~~~~~~kl~k~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 44 (194)
T cd07307 5 LEKLLKKLIKDTKKLLDSLKELPAAAEKLSEALQELGKEL 44 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 3344444444444444444444444444444444444444
No 42
>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=90.46 E-value=6 Score=29.67 Aligned_cols=44 Identities=14% Similarity=0.336 Sum_probs=35.7
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE 104 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe 104 (151)
+.++.+..+|..+.+.+..+.+....+...+.+.+..+..|+..
T Consensus 31 ~~~~~le~~Lk~l~~~~~~l~~~~~~l~~~~~e~~~~~~~la~~ 74 (236)
T PF09325_consen 31 DYVDKLEEQLKKLYKSLERLVKRRQELASALAEFGSSFSQLAKS 74 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 45677788888888888888888888888888888888888765
No 43
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=90.06 E-value=5 Score=28.46 Aligned_cols=19 Identities=21% Similarity=0.567 Sum_probs=7.2
Q ss_pred cccchHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKEL 77 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~L 77 (151)
.+.+|.++-.++....+.|
T Consensus 36 kY~~~~~~~~~l~~~~~~l 54 (99)
T PF10046_consen 36 KYKKMKDIAAGLEKNLEDL 54 (99)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444333333333333
No 44
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=89.98 E-value=7.5 Score=32.86 Aligned_cols=24 Identities=33% Similarity=0.648 Sum_probs=13.5
Q ss_pred cccchHHHHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIK 82 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK 82 (151)
+-++||+|...|..+.+.|+++.+
T Consensus 259 ~~~~Ld~i~~rl~~L~~~~~~l~~ 282 (388)
T PF04912_consen 259 DPAKLDSIERRLKSLLSELEELAE 282 (388)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445556666666655555555543
No 45
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=89.90 E-value=4.8 Score=32.63 Aligned_cols=29 Identities=21% Similarity=0.323 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Q psy18023 65 QIKKELDQIIKEL-DQIIKELDLIIKESNQ 93 (151)
Q Consensus 65 QIsKnLdQISK~L-dQIsK~LdqISK~l~Q 93 (151)
.++-.||-+++.| .+|++.=+.+.++|..
T Consensus 39 kLs~~ldvVe~~L~~~I~~~s~~f~~a~~~ 68 (291)
T PF10475_consen 39 KLSHYLDVVEKKLSREISEKSDSFFQAMSS 68 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444443 2334444444444433
No 46
>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=89.70 E-value=7 Score=29.33 Aligned_cols=44 Identities=20% Similarity=0.363 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 64 DQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 64 DQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
.+++..++.+...|..+.+.+..+.++...+...+.+.+..++.
T Consensus 27 ~~~~~~~~~le~~Lk~l~~~~~~l~~~~~~l~~~~~e~~~~~~~ 70 (236)
T PF09325_consen 27 EEIKDYVDKLEEQLKKLYKSLERLVKRRQELASALAEFGSSFSQ 70 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666666666666666666666666666666
No 47
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=88.77 E-value=7.7 Score=34.24 Aligned_cols=11 Identities=36% Similarity=0.715 Sum_probs=4.3
Q ss_pred hHHHHHHHHHH
Q psy18023 110 LDQIKKELDQM 120 (151)
Q Consensus 110 LdqIsK~Ldqi 120 (151)
|+.+...|+.+
T Consensus 303 L~ele~RL~~l 313 (563)
T TIGR00634 303 LNEIEERLAQI 313 (563)
T ss_pred HHHHHHHHHHH
Confidence 34444333333
No 48
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=88.34 E-value=11 Score=29.83 Aligned_cols=31 Identities=19% Similarity=0.412 Sum_probs=12.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKEL 138 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l 138 (151)
+.+.++...++++.++-..+.-.+.+....|
T Consensus 84 ~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L 114 (251)
T PF11932_consen 84 QELASLEQQIEQIEETRQELVPLMEQMIDEL 114 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444433333333333333333
No 49
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=88.17 E-value=7.3 Score=27.54 Aligned_cols=46 Identities=15% Similarity=0.428 Sum_probs=22.3
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhhh
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKES---NQVIKELNLIIKESN 106 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l---~QiSk~L~qISKel~ 106 (151)
+..+.|+.+|.+|...+++|.+-..++-... ..+.+.|+.+..+.+
T Consensus 6 ~~v~~I~~~i~~i~~~v~~l~~l~~~~~t~~~~~~~~~~~l~~~~~~~~ 54 (151)
T cd00179 6 EEVEEIRGNIDKISEDVEELQKLHSQLLTAPDADPELKQELESLVQEIK 54 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHH
Confidence 3345555566666555555555444443332 234444554444433
No 50
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=87.93 E-value=14 Score=30.63 Aligned_cols=38 Identities=24% Similarity=0.517 Sum_probs=21.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l 145 (151)
..|..++.+|.+....+...-+.|++.-.++..+..++
T Consensus 209 ~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i 246 (325)
T PF08317_consen 209 EELEALRQELAEQKEEIEAKKKELAELQEELEELEEKI 246 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666666666666666655555555555555444443
No 51
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=87.60 E-value=8.7 Score=27.75 Aligned_cols=45 Identities=13% Similarity=0.165 Sum_probs=30.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESN 106 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~ 106 (151)
.++++..+|..+++.++.+.|.-..++..+..+...+..++..-.
T Consensus 12 ~v~~le~~l~~l~~~~~~~~k~~~~l~~~~~elg~~~~~Ls~~e~ 56 (218)
T cd07596 12 YILKLEEQLKKLSKQAQRLVKRRRELGSALGEFGKALIKLAKCEE 56 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 345566666666777777777777777777777777777776543
No 52
>PRK01156 chromosome segregation protein; Provisional
Probab=87.46 E-value=14 Score=33.68 Aligned_cols=35 Identities=20% Similarity=0.378 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 113 IKKELDQMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 113 IsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
|.+.+.++.+.++.+.+.+..+-....++.+.+++
T Consensus 407 ~~~~~~e~~~~~~~l~~~i~~l~~~i~~l~~~~~e 441 (895)
T PRK01156 407 IKKELNEINVKLQDISSKVSSLNQRIRALRENLDE 441 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555555555555444
No 53
>TIGR00833 actII Transport protein. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. This sub-family includes the S. coelicolor ActII3 protein, which may play a role in drug resistance, and the M. tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate.
Probab=87.02 E-value=21 Score=33.51 Aligned_cols=16 Identities=19% Similarity=0.270 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHHH
Q psy18023 131 LNQIIKELNQIIKELN 146 (151)
Q Consensus 131 L~qIsk~l~qI~K~l~ 146 (151)
|+...+.++++.+.+.
T Consensus 609 ~~~~~~~~~~~~~~~~ 624 (910)
T TIGR00833 609 VSGLPNALDGIGTQLA 624 (910)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3333334444444443
No 54
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=86.87 E-value=5.6 Score=37.34 Aligned_cols=15 Identities=27% Similarity=0.585 Sum_probs=8.9
Q ss_pred chhHHHHHHHHHHHH
Q psy18023 7 HDCLRLRRHYFALFR 21 (151)
Q Consensus 7 ~~~~~~~~~~~~~~~ 21 (151)
.+|+++=.+++..||
T Consensus 535 ~E~l~lL~~a~~vlr 549 (717)
T PF10168_consen 535 QECLELLSQATKVLR 549 (717)
T ss_pred HHHHHHHHHHHHHHH
Confidence 456666555555555
No 55
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=86.53 E-value=12 Score=28.46 Aligned_cols=24 Identities=17% Similarity=0.338 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 117 LDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 117 Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
++.|+.+|..+...|++++-.++.
T Consensus 89 v~els~~L~~~~~lL~~~v~~ie~ 112 (131)
T PF10158_consen 89 VNELSQQLSRCQSLLNQTVPSIET 112 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555555555555544443
No 56
>PF02646 RmuC: RmuC family; InterPro: IPR003798 This protein contains several bacterial RmuC DNA recombination proteins. The function of the RMUC protein is unknown but it is suspected that it is either a structural protein that protects DNA against nuclease action, or is itself involved in DNA cleavage at the regions of DNA secondary structures []. Proteins in this family are predicted to contain a central endonuclease-like fold domain, surrounded by coiled coils, consistent with a direct role in DNA cleavage [, ].
Probab=85.98 E-value=8.1 Score=31.96 Aligned_cols=34 Identities=12% Similarity=0.236 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 67 KKELDQIIKELDQIIKELDLIIKESNQVIKELNL 100 (151)
Q Consensus 67 sKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~q 100 (151)
.+|-..|.+.+..+-+.+.-+.++++.+.++|+.
T Consensus 232 ~~na~~I~~~~~~l~~~~~~~~~~~~~l~k~l~~ 265 (304)
T PF02646_consen 232 NKNAEEIAELAGKLYDRFGKFVEHLEKLGKSLDK 265 (304)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444444433333333
No 57
>PRK10869 recombination and repair protein; Provisional
Probab=85.78 E-value=21 Score=31.97 Aligned_cols=37 Identities=19% Similarity=0.276 Sum_probs=17.7
Q ss_pred HHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 50 QEMEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLI 87 (151)
Q Consensus 50 ~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqI 87 (151)
..+++-+..| +++..+...|.++.-.|+++..+|...
T Consensus 251 ~~l~~~~~~d-~~~~~~~~~l~~~~~~l~~~~~~l~~~ 287 (553)
T PRK10869 251 QLLSELIGMD-SKLSGVLDMLEEALIQIQEASDELRHY 287 (553)
T ss_pred HHHHHHhhhC-HhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444 344455555555555555554444433
No 58
>PF00669 Flagellin_N: Bacterial flagellin N-terminal helical region; InterPro: IPR001029 Bacterial flagella are responsible for motility and chemotaxis []. They comprise a basal body, a hook and a filament, the latter accounting for 98% of the mass []. Flagellin is the subunit protein that polymerises to form the flagellae [], the subunits being transported through the centre of the filament to the tip, where they then polymerise []. Both the N- and C- termini of the subunit protein, which are alpha-helical in structure [], are required to mediate polymerisation. Although no export or assembly consensus sequences have been identified, Ala, Val, Leu, Ile, Gly, Ser, Thr, Asn, Gln and Asp tend to make up around 90% of the sequence, Cys and Trp being absent []. This entry represents the N and C termini that come together to form the D0 and D1 structural domains []. These domains are responsible for flagellin's ability to polymerise into a filament. ; GO: 0005198 structural molecule activity, 0001539 ciliary or flagellar motility, 0009288 bacterial-type flagellum; PDB: 1IO1_A 1UCU_A 3A5X_A 3V47_C 2D4X_A 3PWX_B 3K8V_A 2ZBI_B 3K8W_A.
Probab=85.78 E-value=9.9 Score=26.61 Aligned_cols=44 Identities=14% Similarity=0.166 Sum_probs=32.9
Q ss_pred hccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNL 100 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~q 100 (151)
+.+.+.++++.+|++....-|+.-...|..|+..+.++.+.+.+
T Consensus 51 ~~~~~~~~~~~~n~~~~~~~l~~~~~al~~i~~~l~~~~~~~~~ 94 (139)
T PF00669_consen 51 RSQISRLEQYQRNIDDAKSRLSTAETALSSISDILQRARELAVQ 94 (139)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566788888888888888888888888888887776665443
No 59
>PF07361 Cytochrom_B562: Cytochrome b562; InterPro: IPR009155 Cytochrome b562 is a haem-containing protein that is expressed in the periplasm of Escherichia coli. In b-type cytochromes, the haem atom is not covalently attached to the polypeptide. Cytochrome b562 has a four-helical bundle structure that is structurally similar to that found in members of the cytochrome c family (IPR002321 from INTERPRO). Cytochrome b562 has a reduction potential of 167 mV, which sets the energy yield possible in metabolism and is also a key determinant of the rate at which redox reactions proceed [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0042597 periplasmic space; PDB: 4ER9_A 3IQ6_G 2QLA_B 3FOO_A 3M79_C 256B_A 3NMI_F 3HNK_A 3NMK_D 2BC5_A ....
Probab=85.61 E-value=11 Score=27.08 Aligned_cols=11 Identities=36% Similarity=0.628 Sum_probs=4.7
Q ss_pred HHHHHHHHHHH
Q psy18023 134 IIKELNQIIKE 144 (151)
Q Consensus 134 Isk~l~qI~K~ 144 (151)
..+.|+++|++
T Consensus 87 ~l~~l~~lR~e 97 (103)
T PF07361_consen 87 ALKKLDDLRKE 97 (103)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 33444444443
No 60
>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=85.57 E-value=8.8 Score=25.81 Aligned_cols=22 Identities=14% Similarity=0.406 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy18023 64 DQIKKELDQIIKELDQIIKELD 85 (151)
Q Consensus 64 DQIsKnLdQISK~LdQIsK~Ld 85 (151)
+.|+.++.+|..++.+|.+-..
T Consensus 11 ~~I~~~I~~i~~~v~~l~~l~~ 32 (117)
T smart00503 11 EEIRANIQKISQNVAELQKLHE 32 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444333
No 61
>PF10157 DUF2365: Uncharacterized conserved protein (DUF2365); InterPro: IPR019314 This entry is found in a highly conserved family of proteins which have no known function.
Probab=85.46 E-value=16 Score=28.64 Aligned_cols=91 Identities=15% Similarity=0.295 Sum_probs=61.6
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---hhhHHHHHHHHHHHHHHHHH---HHHH
Q psy18023 58 VDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ---NKLDQIKKELDQMVKELDLT---IKEL 131 (151)
Q Consensus 58 ~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q---k~LdqIsK~Ldqisk~ld~i---sK~L 131 (151)
||++-|..+.++-.+++.+++..-.+|...-..|-.++-+.-+.-+.... ..+|.=-|..-++......+ -|.+
T Consensus 49 id~~~L~~LE~~a~~ia~svd~ll~~L~~~L~~mS~~Tv~~~~~y~~sv~~~cdsvD~sik~~y~liakceELn~~M~~v 128 (149)
T PF10157_consen 49 IDPAVLHDLERDAQAIAESVDSLLRSLRSSLHSMSAITVEHMETYKDSVDKLCDSVDASIKSMYTLIAKCEELNESMKPV 128 (149)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 79999999999999999999988888877766666666555555555444 45555556555554433333 4445
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy18023 132 NQIIKELNQIIKELNQI 148 (151)
Q Consensus 132 ~qIsk~l~qI~K~l~q~ 148 (151)
..+.+.+.+|+|.||.+
T Consensus 129 ~~La~qIK~Ik~~lD~l 145 (149)
T PF10157_consen 129 YKLAQQIKDIKKLLDLL 145 (149)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 55666677777777653
No 62
>PRK10869 recombination and repair protein; Provisional
Probab=85.36 E-value=7.1 Score=34.96 Aligned_cols=15 Identities=20% Similarity=0.578 Sum_probs=8.1
Q ss_pred hhhHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVK 122 (151)
Q Consensus 108 k~LdqIsK~Ldqisk 122 (151)
..|+.|..-|+.|.+
T Consensus 296 ~~l~~ie~Rl~~l~~ 310 (553)
T PRK10869 296 NRLAELEQRLSKQIS 310 (553)
T ss_pred HHHHHHHHHHHHHHH
Confidence 555666555555443
No 63
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=85.21 E-value=12 Score=27.05 Aligned_cols=40 Identities=20% Similarity=0.405 Sum_probs=24.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~~ 149 (151)
++-+.+.++.+.+.++.+.+.|+.+.+.+++|...+.++.
T Consensus 96 ~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~ 135 (140)
T PRK03947 96 IEILDKRKEELEKALEKLEEALQKLASRIAQLAQELQQLQ 135 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555566666666666666666666666666666654
No 64
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=85.18 E-value=35 Score=33.34 Aligned_cols=38 Identities=18% Similarity=0.316 Sum_probs=18.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 109 KLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 109 ~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~ 146 (151)
.|.++...|..+.++++.+-..+..+...++.++++++
T Consensus 971 qL~~~e~el~~~~~~ie~le~e~~~l~~~i~~l~kel~ 1008 (1311)
T TIGR00606 971 YLKQKETELNTVNAQLEECEKHQEKINEDMRLMRQDID 1008 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444444444554444444
No 65
>PHA02562 46 endonuclease subunit; Provisional
Probab=85.18 E-value=22 Score=30.09 Aligned_cols=29 Identities=21% Similarity=0.422 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 112 QIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 112 qIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
.+..++..+..........|.++...|+.
T Consensus 362 ~l~~ei~~l~~~~~~~~~~l~~l~~~l~~ 390 (562)
T PHA02562 362 KVKAAIEELQAEFVDNAEELAKLQDELDK 390 (562)
T ss_pred HHHHHHHHHHhhhhchHHHHHHHHHHHHH
Confidence 33333333333333333333333333333
No 66
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=84.79 E-value=26 Score=34.21 Aligned_cols=41 Identities=15% Similarity=0.300 Sum_probs=22.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
..+++|...++...+.++.+.+.++.+.....+..++++++
T Consensus 822 ~s~~ele~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~L 862 (1311)
T TIGR00606 822 RTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHL 862 (1311)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35556666666666666666555555555555555444443
No 67
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=83.90 E-value=28 Score=30.32 Aligned_cols=80 Identities=19% Similarity=0.388 Sum_probs=42.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELN 139 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~ 139 (151)
-.|.+.+....|.+.+..++-....+...|....+..|.+-|..+- ..+.+.++..+.....+..+.+.|.++-+.+.
T Consensus 166 ei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e~~ee~~~~~~elre~~k~ik 245 (294)
T COG1340 166 EIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELSKKIDELHEEFRNLQNELRELEKKIK 245 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555555555555555555555555555554 44455555555555555555555555544444
Q ss_pred HH
Q psy18023 140 QI 141 (151)
Q Consensus 140 qI 141 (151)
.+
T Consensus 246 ~l 247 (294)
T COG1340 246 AL 247 (294)
T ss_pred HH
Confidence 33
No 68
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=83.75 E-value=15 Score=28.93 Aligned_cols=44 Identities=27% Similarity=0.394 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 64 DQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 64 DQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
+-|...-+||-.--++.-++.+.+-+.|+++-..+.+++++.+.
T Consensus 9 ~~ie~sK~qIf~I~E~~R~E~~~l~~EL~evk~~v~~~I~evD~ 52 (159)
T PF05384_consen 9 DTIESSKEQIFEIAEQARQEYERLRKELEEVKEEVSEVIEEVDK 52 (159)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444444444444444433
No 69
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=83.60 E-value=14 Score=26.65 Aligned_cols=36 Identities=19% Similarity=0.433 Sum_probs=16.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIK 143 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K 143 (151)
+.++.+.+.++.+.+.++.+.+.+++|...+.++.+
T Consensus 101 ~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~ 136 (140)
T PRK03947 101 KRKEELEKALEKLEEALQKLASRIAQLAQELQQLQQ 136 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444444444433
No 70
>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=83.46 E-value=12 Score=25.73 Aligned_cols=40 Identities=23% Similarity=0.486 Sum_probs=29.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~~ 149 (151)
.+-+.+.++.+.+.++.+.+.+..+.+.++++...+.++.
T Consensus 89 ~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~~ 128 (129)
T cd00890 89 IEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQLQ 128 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4456666777777778888888888888888888777754
No 71
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=82.31 E-value=9 Score=23.40 Aligned_cols=30 Identities=10% Similarity=0.230 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 115 KELDQMVKELDLTIKELNQIIKELNQIIKE 144 (151)
Q Consensus 115 K~Ldqisk~ld~isK~L~qIsk~l~qI~K~ 144 (151)
....++...+..+...|.++.+.|..+...
T Consensus 51 ~~~~~~~~~~~~~~~~L~~~~~~l~~~~~~ 80 (86)
T PF06013_consen 51 DKFEEWNQAFRQLNEALEELSQALRQAAQN 80 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444454444444433
No 72
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=82.07 E-value=12 Score=24.87 Aligned_cols=44 Identities=18% Similarity=0.233 Sum_probs=21.9
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK 103 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK 103 (151)
+.+|.++..+++.+..+--.-...+.++...+..+...+-.+.-
T Consensus 27 ~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (181)
T PF12729_consen 27 LYSLSQINQNVEEIYENNLPSIELLNDIRSNLQRIRRALRRYLL 70 (181)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 34555555555555554444444455555555555444444433
No 73
>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]
Probab=81.55 E-value=12 Score=30.37 Aligned_cols=51 Identities=20% Similarity=0.283 Sum_probs=33.5
Q ss_pred hhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 55 ECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKES 105 (151)
Q Consensus 55 ~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel 105 (151)
+-+.|-.-+|+|-.-|+.|+-.|-.+.-.++-++|.+..+-++|+.+-+..
T Consensus 38 e~g~dne~id~imer~~~ieNdlg~~~~~~~g~kk~~~~~~eelerLe~~i 88 (157)
T COG3352 38 ENGIDNEVIDAIMERMTDIENDLGKVKIEIEGQKKQLQDIKEELERLEENI 88 (157)
T ss_pred ccCCChHHHHHHHHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHH
Confidence 345566667777777777777777666666666777766666666554443
No 74
>KOG0996|consensus
Probab=81.55 E-value=27 Score=36.03 Aligned_cols=62 Identities=29% Similarity=0.422 Sum_probs=29.2
Q ss_pred chHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---------hhhHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQ----IIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ---------NKLDQIKKELDQMVKE 123 (151)
Q Consensus 62 ~LDQIsKnLdQ----ISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q---------k~LdqIsK~Ldqisk~ 123 (151)
.||.+...++| +++....+.|.|..|++.+++.-..++--.-+|.. +.++..++.|.+++.+
T Consensus 462 ~l~e~~~~l~~~t~~~~~e~~~~ekel~~~~~~~n~~~~e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~ 536 (1293)
T KOG0996|consen 462 ELDEILDSLKQETEGIREEIEKLEKELMPLLKQVNEARSELDVAESELDILLSRHETGLKKVEELKGKLLASSES 536 (1293)
T ss_pred HHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444443 44455555566666665555544333332222221 4555555555554443
No 75
>PRK10807 paraquat-inducible protein B; Provisional
Probab=81.42 E-value=21 Score=32.29 Aligned_cols=17 Identities=24% Similarity=0.454 Sum_probs=8.0
Q ss_pred cchHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKEL 77 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~L 77 (151)
+.++++.+.+.+|-..+
T Consensus 413 s~l~~l~~~~~~il~ki 429 (547)
T PRK10807 413 GGLAQIQQKLMEALDKI 429 (547)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 44555555544444433
No 76
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=81.32 E-value=41 Score=32.51 Aligned_cols=33 Identities=27% Similarity=0.394 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 70 LDQIIKELDQIIKELDLIIKESNQVIKELNLII 102 (151)
Q Consensus 70 LdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS 102 (151)
+.++-+++++..+.++...+........+..+.
T Consensus 248 l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~e~~ 280 (1163)
T COG1196 248 LSRLEEELEELQEELEEAEKEIEELKSELEELR 280 (1163)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333333333333333333
No 77
>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ]. Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion. The Syntaxins are type-I transmembrane proteins that contain several regions with coiled-coil propensity in their cytosolic part, the SNARE motif. SNAP-25 (IPR000928 from INTERPRO) is a protein consisting of two coiled-coil regions, which is associated with the membrane by lipid anchors. SNARE motifs assemble into parallel four helix bundles stabilised by the burial of these hydrophobic helix faces in the bundle core. Monomeric SNARE motifs are disordered so this assembly reaction is accompanied by a dramatic increase in alpha-helical secondary structure []. The parallel arrangement of SNARE motifs within complexes bring the transmembrane anchors, and the two membranes, into close proximity. Recently, it was shown that the two coiled-coil regions of SNAP-25 and one of the coiled-coil regions of the syntaxins are related []. This domain is found in both Syntaxin and SNAP-25 families as well as in other proteins.; GO: 0005515 protein binding; PDB: 1URQ_B 3RL0_R 1HVV_B 1SFC_B 1N7S_B 3IPD_B 3C98_B 3HD7_F 3RK2_B 1KIL_B ....
Probab=81.32 E-value=10 Score=23.48 Aligned_cols=54 Identities=24% Similarity=0.332 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 83 ELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIK 136 (151)
Q Consensus 83 ~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk 136 (151)
.|+.|+..+..+-.-..+|.-++.. .-||.|....+.....|....++|....+
T Consensus 5 ~l~~l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~vd~~~~~l~~~~~~l~ka~~ 60 (63)
T PF05739_consen 5 ELDELEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNVDRANENLKKGNKKLKKALK 60 (63)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444445444 55666666666666666666655555443
No 78
>PF05713 MobC: Bacterial mobilisation protein (MobC); InterPro: IPR008687 This family consists of several bacterial MobC-like, mobilisation proteins. MobC proteins belong to the group of relaxases. Together with MobA and MobB they bind to a single cis-active site of a mobilising plasmid, the origin of transfer (oriT) region []. The absence of MobC has several different effects on oriT DNA. Site- and strand-specific nicking by MobA protein is severely reduced, accounting for the lower frequency of mobilisation. The localised DNA strand separation required for this nicking is less affected, but becomes more sensitive to the level of active DNA gyrase in the cell. In addition, strand separation is not efficiently extended through the region containing the nick site. These effects suggest a model in which MobC acts as a molecular wedge for the relaxosome-induced melting of oriT DNA. The effect of MobC on strand separation may be partially complemented by the helical distortion induced by supercoiling. However, MobC extends the melted region through the nick site, thus providing the single-stranded substrate required for cleavage by MobA [].
Probab=80.94 E-value=4.1 Score=25.37 Aligned_cols=12 Identities=42% Similarity=0.551 Sum_probs=4.9
Q ss_pred HHHHHHHHhhhh
Q psy18023 96 KELNLIIKESNQ 107 (151)
Q Consensus 96 k~L~qISKel~q 107 (151)
--|+||.|.++.
T Consensus 10 nNlNQiAk~~N~ 21 (48)
T PF05713_consen 10 NNLNQIAKHANS 21 (48)
T ss_pred ccHHHHHHHHhC
Confidence 334444444443
No 79
>KOG0250|consensus
Probab=80.63 E-value=36 Score=34.47 Aligned_cols=66 Identities=20% Similarity=0.226 Sum_probs=44.1
Q ss_pred hccccccCChhHHHHh-----hhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 38 EINLESSNGIEEQEME-----KECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK 103 (151)
Q Consensus 38 ~~~~~~~~~~~~~~~~-----~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK 103 (151)
-++-.+.++|+.-++| ++-..=-|-.++.+++|+-+-+.|.+++.+.-|+-+.+..+--.|++.--
T Consensus 654 ~~~~s~d~~ie~le~e~~~l~~~~~~l~~~~~~~e~~l~e~~~~~~~l~~~~~q~~~~~~~~~~em~el~n 724 (1074)
T KOG0250|consen 654 VDEFSFDDEIEDLEREASRLQKEILELENQRREAEKNLEELEKKLRELSEHIEQIKRRIRKKRAEMTELKN 724 (1074)
T ss_pred ccchhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444556677655443 33334456677888888888888888888877777777777777776654
No 80
>PRK02224 chromosome segregation protein; Provisional
Probab=80.62 E-value=44 Score=30.29 Aligned_cols=44 Identities=9% Similarity=0.247 Sum_probs=18.7
Q ss_pred HHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 97 ELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 97 ~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
.++.+-..++...+.++...+.+..+.++.+...|..+-..++.
T Consensus 635 ~i~~l~~~~~~~~~e~l~~~~~~~~~~~~~l~~~l~~~~~~~~~ 678 (880)
T PRK02224 635 RKRELEAEFDEARIEEAREDKERAEEYLEQVEEKLDELREERDD 678 (880)
T ss_pred HHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333444444444444444444444444444433333333
No 81
>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=80.59 E-value=23 Score=26.88 Aligned_cols=93 Identities=18% Similarity=0.255 Sum_probs=53.2
Q ss_pred HhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-----hhhHHHHHHHHHHHHHHHH
Q psy18023 52 MEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-----NKLDQIKKELDQMVKELDL 126 (151)
Q Consensus 52 ~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-----k~LdqIsK~Ldqisk~ld~ 126 (151)
.+..+|-=-....++-..+..+.+-+.++-.+++..-..|...-..++.-.+.... ..+.++-.+|++.-+.|..
T Consensus 19 ~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq~LEeele~ae~~L~e 98 (143)
T PF12718_consen 19 LEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQLLEEELEEAEKKLKE 98 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 33444444444555556666666666666667776666666666666666554433 4555555555555555555
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy18023 127 TIKELNQIIKELNQIIKE 144 (151)
Q Consensus 127 isK~L~qIsk~l~qI~K~ 144 (151)
+..-|.++.......-..
T Consensus 99 ~~ekl~e~d~~ae~~eRk 116 (143)
T PF12718_consen 99 TTEKLREADVKAEHFERK 116 (143)
T ss_pred HHHHHHHHHHHhHHHHHH
Confidence 555555555554444433
No 82
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=80.21 E-value=33 Score=28.47 Aligned_cols=39 Identities=13% Similarity=0.133 Sum_probs=16.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLI 101 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qI 101 (151)
+-+.++.+..+.+.++.+.+.++.+.+++.+..+.....
T Consensus 41 fi~~~~~~~~i~~~~~~~~~~l~~L~~~l~~L~~~~~~f 79 (338)
T PF04124_consen 41 FIDNAECSSDIRQELSSLSDSLDSLLDSLPELDEACQRF 79 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444444444444444433333333
No 83
>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=79.77 E-value=16 Score=24.79 Aligned_cols=16 Identities=13% Similarity=0.258 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHH
Q psy18023 67 KKELDQIIKELDQIIK 82 (151)
Q Consensus 67 sKnLdQISK~LdQIsK 82 (151)
..+...+++.|..+..
T Consensus 27 ~~~~~~~~~~l~~l~~ 42 (194)
T cd07307 27 PAAAEKLSEALQELGK 42 (194)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 3344444444444433
No 84
>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=79.60 E-value=36 Score=28.56 Aligned_cols=39 Identities=21% Similarity=0.063 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 64 DQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLII 102 (151)
Q Consensus 64 DQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS 102 (151)
|.+..+|..|-|-...+.+....+...+...+.....||
T Consensus 61 d~l~~~l~~ieki~~Rv~kr~~~l~~d~~e~~~~f~~ws 99 (240)
T cd07667 61 DTFALKLGTIDRIAQRIIKEEIEYLVELREYGPVYSTWS 99 (240)
T ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444443333333333333
No 85
>PF07361 Cytochrom_B562: Cytochrome b562; InterPro: IPR009155 Cytochrome b562 is a haem-containing protein that is expressed in the periplasm of Escherichia coli. In b-type cytochromes, the haem atom is not covalently attached to the polypeptide. Cytochrome b562 has a four-helical bundle structure that is structurally similar to that found in members of the cytochrome c family (IPR002321 from INTERPRO). Cytochrome b562 has a reduction potential of 167 mV, which sets the energy yield possible in metabolism and is also a key determinant of the rate at which redox reactions proceed [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0042597 periplasmic space; PDB: 4ER9_A 3IQ6_G 2QLA_B 3FOO_A 3M79_C 256B_A 3NMI_F 3HNK_A 3NMK_D 2BC5_A ....
Probab=79.58 E-value=17 Score=26.18 Aligned_cols=34 Identities=18% Similarity=0.231 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q psy18023 86 LIIKESNQVIKELNLIIKESNQNKLDQIKKELDQ 119 (151)
Q Consensus 86 qISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldq 119 (151)
..-.+|++++..++.+.+.+++..|++.+..|.+
T Consensus 57 ~Y~~Gl~~li~~id~a~~~~~~G~l~~AK~~l~~ 90 (103)
T PF07361_consen 57 DYQEGLDKLIDQIDKAEALAEAGKLDEAKAALKK 90 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 4555566666666666666666666666655544
No 86
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=79.28 E-value=20 Score=25.41 Aligned_cols=40 Identities=20% Similarity=0.486 Sum_probs=27.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~~ 149 (151)
..-+.+.++.+.+.++.+.+.+..+.+.++.+...+.+.+
T Consensus 89 ~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~~~ 128 (129)
T cd00584 89 IEFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQELQ 128 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3455666666777777777777777777777777766653
No 87
>KOG0996|consensus
Probab=79.04 E-value=39 Score=34.87 Aligned_cols=30 Identities=40% Similarity=0.504 Sum_probs=12.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKELN 139 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~l~ 139 (151)
|+.+++.|.++--++++.+|.|...-++..
T Consensus 544 l~~~k~~l~~~k~e~~~~~k~l~~~~~e~~ 573 (1293)
T KOG0996|consen 544 LDDLKEELPSLKQELKEKEKELPKLRKEER 573 (1293)
T ss_pred HHHHHHhhhhHHHHHHHHHHhHHHHHHHHH
Confidence 344444444444444444444444443333
No 88
>PF11166 DUF2951: Protein of unknown function (DUF2951); InterPro: IPR021337 This family of proteins has no known function. It has a highly conserved sequence.
Probab=78.92 E-value=23 Score=27.03 Aligned_cols=69 Identities=28% Similarity=0.294 Sum_probs=51.0
Q ss_pred HHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHH
Q psy18023 51 EMEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKEL 124 (151)
Q Consensus 51 ~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~l 124 (151)
.+|..-+-=|+||++|+.-....++..+-...-||.|-.+ +.++.=+|+.++|-+.+++--+--.+-++
T Consensus 15 rLEendk~i~~~L~~Ik~gq~~qe~v~~kld~tlD~i~re-----Re~dee~k~~n~Knir~~KmwilGlvgTi 83 (98)
T PF11166_consen 15 RLEENDKTIFNKLDEIKDGQHDQELVNQKLDRTLDEINRE-----REEDEENKKKNDKNIRDIKMWILGLVGTI 83 (98)
T ss_pred HHHHhhHHHHHHHHHHHHhHhhHHHHHHHHHhhHHHHHHH-----HHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 4455556669999999988877777777777777776544 67787888888998988887665555544
No 89
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=78.89 E-value=28 Score=29.52 Aligned_cols=31 Identities=10% Similarity=0.062 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 70 LDQIIKELDQIIKELDLIIKESNQVIKELNL 100 (151)
Q Consensus 70 LdQISK~LdQIsK~LdqISK~l~QiSk~L~q 100 (151)
..+|+..|.++.....++...+.+|.+.|+.
T Consensus 331 a~~~~~~l~~le~~q~~l~~~l~~~~~~L~~ 361 (388)
T PF04912_consen 331 AAEFSQTLSELESQQSDLQSQLKKWEELLNK 361 (388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333333333333
No 90
>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=78.67 E-value=28 Score=26.88 Aligned_cols=61 Identities=15% Similarity=0.142 Sum_probs=27.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhhh--hhhHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNL-IIKESNQ--NKLDQIKKELDQMVKE 123 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~q-ISKel~q--k~LdqIsK~Ldqisk~ 123 (151)
|..+.|....+.|....+..++.++++..+.|+..=.- +...+.. ..+++++..++.+++.
T Consensus 20 L~~l~ki~~Rl~kr~~~l~~d~~efg~~~~~L~~~E~~~L~~~l~~~~~~~~~~s~~~~~l~~~ 83 (185)
T cd07628 20 LTKIDKIFAKVVKRQSDLSVDYADLATQFQKLGSLESGEITEPFKIFSESLSQFSTSLRVLNKY 83 (185)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444445555555555555555555555443332 3333322 3444444444444444
No 91
>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]
Probab=78.57 E-value=17 Score=29.51 Aligned_cols=35 Identities=23% Similarity=0.312 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 67 KKELDQIIKELDQIIKELDLIIKESNQVIKELNLI 101 (151)
Q Consensus 67 sKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qI 101 (151)
-+++|+|-+-|+.|+.+|..+.-.+.-++|.+..+
T Consensus 43 ne~id~imer~~~ieNdlg~~~~~~~g~kk~~~~~ 77 (157)
T COG3352 43 NEVIDAIMERMTDIENDLGKVKIEIEGQKKQLQDI 77 (157)
T ss_pred hHHHHHHHHHHHHHHhhcccccccccchhhhHHHH
Confidence 34555555555555555544444444444444444
No 92
>PF02646 RmuC: RmuC family; InterPro: IPR003798 This protein contains several bacterial RmuC DNA recombination proteins. The function of the RMUC protein is unknown but it is suspected that it is either a structural protein that protects DNA against nuclease action, or is itself involved in DNA cleavage at the regions of DNA secondary structures []. Proteins in this family are predicted to contain a central endonuclease-like fold domain, surrounded by coiled coils, consistent with a direct role in DNA cleavage [, ].
Probab=77.69 E-value=26 Score=29.04 Aligned_cols=31 Identities=23% Similarity=0.458 Sum_probs=14.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 109 KLDQIKKELDQMVKELDLTIKELNQIIKELN 139 (151)
Q Consensus 109 ~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~ 139 (151)
+++.+.|+|++.++..+++.+.+..+..-+.
T Consensus 255 ~~~~l~k~l~~a~~~~~~~~~~~~~~~~~~~ 285 (304)
T PF02646_consen 255 HLEKLGKSLDKAVKSYNKAVGSLEKRVGNIA 285 (304)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence 3344444555555555555555544444333
No 93
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=76.95 E-value=23 Score=24.98 Aligned_cols=14 Identities=21% Similarity=0.584 Sum_probs=5.7
Q ss_pred hHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKE 76 (151)
Q Consensus 63 LDQIsKnLdQISK~ 76 (151)
++.|..++++|.+-
T Consensus 15 i~~i~~~v~~l~~l 28 (151)
T cd00179 15 IDKISEDVEELQKL 28 (151)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444444333
No 94
>PF02520 DUF148: Domain of unknown function DUF148; InterPro: IPR003677 This entry represents the domain DUF148, which has no known function.
Probab=76.90 E-value=21 Score=25.03 Aligned_cols=9 Identities=33% Similarity=1.147 Sum_probs=5.1
Q ss_pred HHHHHHHHH
Q psy18023 13 RRHYFALFR 21 (151)
Q Consensus 13 ~~~~~~~~~ 21 (151)
|+-||++|+
T Consensus 4 ~~ef~~I~~ 12 (113)
T PF02520_consen 4 RKEFFQIFQ 12 (113)
T ss_pred HHHHHHHHc
Confidence 455666654
No 95
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=76.53 E-value=28 Score=30.61 Aligned_cols=36 Identities=19% Similarity=0.202 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 67 KKELDQIIKELDQIIKELDLIIKESNQVIKELNLII 102 (151)
Q Consensus 67 sKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS 102 (151)
++-+++.++..++.+++++-=.|.|.++.++|....
T Consensus 24 ~qKleel~~lQ~~C~ssI~~QkkrLk~L~~sLk~~~ 59 (330)
T PF07851_consen 24 KQKLEELSKLQDKCSSSISHQKKRLKELKKSLKRCK 59 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 333444444444444444444444444444444443
No 96
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=75.96 E-value=51 Score=28.37 Aligned_cols=32 Identities=22% Similarity=0.400 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 115 KELDQMVKELDLTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 115 K~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~ 146 (151)
+.+..+.+........++++...+.++..+|.
T Consensus 375 ~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~l~ 406 (451)
T PF03961_consen 375 EQLKKLKEKKKELKEELKELKEELKELKEELE 406 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444445555555544444
No 97
>KOG0977|consensus
Probab=75.82 E-value=64 Score=30.31 Aligned_cols=80 Identities=20% Similarity=0.327 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 68 KELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 68 KnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l 145 (151)
.+++....+++...+-+...-|+....-+.++.+-..+++ ..+..++--...+--++..+-++...|-.+|+.+++.|
T Consensus 113 ~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~l 192 (546)
T KOG0977|consen 113 IEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQL 192 (546)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 3344444444444444444444444444444444444444 44445555555666666777777777777777777777
Q ss_pred HH
Q psy18023 146 NQ 147 (151)
Q Consensus 146 ~q 147 (151)
+|
T Consensus 193 d~ 194 (546)
T KOG0977|consen 193 DD 194 (546)
T ss_pred HH
Confidence 65
No 98
>PF14643 DUF4455: Domain of unknown function (DUF4455)
Probab=75.38 E-value=56 Score=28.64 Aligned_cols=76 Identities=25% Similarity=0.325 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhh
Q psy18023 74 IKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKEL-NQIIKELNQIIKELNQIV 149 (151)
Q Consensus 74 SK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L-~qIsk~l~qI~K~l~q~~ 149 (151)
...|.++-..+.+.+-.=.+|++.|+....++-++-.+.|++.|......|-.|+=-+ .++-+-++.-...+||.+
T Consensus 67 ~~~l~~~w~~v~~~~~~r~~~I~~l~~~L~~~E~~R~~~l~~~l~~~~~~L~~ia~~~~~dv~rli~~ea~~iN~~l 143 (473)
T PF14643_consen 67 IQDLLELWDEVAEHSQKRKQWIKELDEDLEELEKERADKLKKVLRKYVEILEKIAHLLPPDVERLIEKEAMEINQAL 143 (473)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444577888887777778888888888888888887777544 466677777777777764
No 99
>COG1344 FlgL Flagellin and related hook-associated proteins [Cell motility and secretion]
Probab=75.21 E-value=28 Score=29.08 Aligned_cols=69 Identities=22% Similarity=0.200 Sum_probs=36.7
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE-SNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe-l~qk~LdqIsK~Ldqisk~ld~is 128 (151)
-..|+|...|...-.--|+--...|+++++-|..+-+-+-|-.-- +++.....|.+++.++..+|..|.
T Consensus 56 ~~~L~q~~~n~~~g~s~lqtae~aL~~~~~~lqrirelavqaan~t~s~~dr~~iq~Ei~~l~~el~~ia 125 (360)
T COG1344 56 IRGLSQAKDNAQDGISKLQTAEGALSEISKILQRIKELAVQAANGTLSDADRAAIQKEIEQLLDELDNIA 125 (360)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555555555555555555555544444432 333555566666666655555443
No 100
>KOG4302|consensus
Probab=74.95 E-value=26 Score=33.45 Aligned_cols=42 Identities=19% Similarity=0.376 Sum_probs=20.0
Q ss_pred HHHhhhhhcccc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 50 QEMEKECKVDFN-KLDQIKKELDQIIKELDQIIKELDLIIKES 91 (151)
Q Consensus 50 ~~~~~~~~~~~~-~LDQIsKnLdQISK~LdQIsK~LdqISK~l 91 (151)
-+++++|.-.++ .+|+.++....+..+++++-+.++.+.-.|
T Consensus 42 ~~le~e~~~~y~~kve~a~~~~~~L~~~ia~~eael~~l~s~l 84 (660)
T KOG4302|consen 42 LRLEQECLEIYKRKVEEASESKARLLQEIAVIEAELNDLCSAL 84 (660)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 457788865443 334444444444444444444444443333
No 101
>COG5498 ACF2 Predicted glycosyl hydrolase [Cell envelope biogenesis, outer membrane]
Probab=74.94 E-value=1.2 Score=42.92 Aligned_cols=24 Identities=58% Similarity=0.924 Sum_probs=21.5
Q ss_pred HHHHHHHHhc---------CCccCCCCCccchh
Q psy18023 15 HYFALFRMFD---------GLTPVTDGSTEESE 38 (151)
Q Consensus 15 ~~~~~~~~~~---------~~~~~~~~~~~~~~ 38 (151)
-||+-||||| ||-|-.||..|||.
T Consensus 556 ~yFp~~RmFDwf~GhSWA~GLfesgdGkdEESt 588 (760)
T COG5498 556 PYFPQFRMFDWFNGHSWADGLFESGDGKDEEST 588 (760)
T ss_pred ccchhhhccccccCCchhhcccccCCCCCcccc
Confidence 4999999997 89999999999874
No 102
>KOG2254|consensus
Probab=74.89 E-value=1.2 Score=42.94 Aligned_cols=24 Identities=58% Similarity=0.924 Sum_probs=22.0
Q ss_pred HHHHHHHHhc---------CCccCCCCCccchh
Q psy18023 15 HYFALFRMFD---------GLTPVTDGSTEESE 38 (151)
Q Consensus 15 ~~~~~~~~~~---------~~~~~~~~~~~~~~ 38 (151)
-||+-||||| ||++-.||..|||.
T Consensus 543 ~yfp~~R~FDwF~gHSWA~GLfEsgDGkdeEST 575 (747)
T KOG2254|consen 543 PYFPQFRMFDWFNGHSWAGGLFESGDGKDEEST 575 (747)
T ss_pred ccchhhhcccccccccccccccccCCCCCcccc
Confidence 5999999998 99999999999874
No 103
>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=74.79 E-value=38 Score=26.37 Aligned_cols=72 Identities=15% Similarity=0.220 Sum_probs=36.1
Q ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 64 DQIKKELD-QIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKEL 138 (151)
Q Consensus 64 DQIsKnLd-QISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l 138 (151)
+++...|. .+.|.-.++.|+...++..+......++.||..-... .+...|..+...+|..+..++..+.++
T Consensus 14 ~~~~~~L~~~l~kv~~Ri~k~~~~l~~dl~elG~~fn~ls~~E~~~---~L~~~le~~g~a~D~~~~~~~~l~~~l 86 (187)
T cd07629 14 KKYEQLLHGGMEKVNRRITKRLGDLAEDMADLGGRFNAFSLEEQKS---ELAEALEKVGQAVDSTYLATEALVGSL 86 (187)
T ss_pred HHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCch---hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444442 3444445555555555566666666666665542211 234455555555555555555554443
No 104
>PF03114 BAR: BAR domain; InterPro: IPR004148 Endocytosis and intracellular transport involve several mechanistic steps: (1) for the internalisation of cargo molecules, the membrane needs to bend to form a vesicular structure, which requires membrane curvature and a rearrangement of the cytoskeleton; (2) following its formation, the vesicle has to be pinched off the membrane; (3) the cargo has to be subsequently transported through the cell and the vesicle must fuse with the correct cellular compartment. Members of the Amphiphysin protein family are key regulators in the early steps of endocytosis, involved in the formation of clathrin-coated vesicles by promoting the assembly of a protein complex at the plasma membrane and directly assist in the induction of the high curvature of the membrane at the neck of the vesicle. Amphiphysins contain a characteristic domain, known as the BAR (Bin-Amphiphysin-Rvs)-domain, which is required for their in vivo function and their ability to tubulate membranes []. The crystal structure of these proteins suggest the domain forms a crescent-shaped dimer of a three-helix coiled coil with a characteristic set of conserved hydrophobic, aromatic and hydrophilic amino acids. Proteins containing this domain have been shown to homodimerise, heterodimerise or, in a few cases, interact with small GTPases. ; GO: 0005515 protein binding, 0005737 cytoplasm; PDB: 4AVM_A 2D4C_C 1X03_A 1X04_A 2RND_A 2RMY_A 2FIC_A 2C08_A 2Z0V_A 3SOG_A ....
Probab=74.51 E-value=28 Score=24.72 Aligned_cols=44 Identities=11% Similarity=0.253 Sum_probs=23.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHhhh
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESN-------QVIKELNLIIKESN 106 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~-------QiSk~L~qISKel~ 106 (151)
++.+.+.+..+.+++..+...+.....+.. .++..|........
T Consensus 35 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~ 85 (229)
T PF03114_consen 35 FKQLEESIKKLQKSLKKYLDSIKKLSASQKNMKSPFEELADALIELGSEFS 85 (229)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTHHHHHHHHHHHHHHHCTS
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhHHhhhhhHHHHHHHHHHHHHhcccc
Confidence 344455555555555555555555555554 55666666665543
No 105
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=74.42 E-value=41 Score=26.63 Aligned_cols=11 Identities=0% Similarity=0.280 Sum_probs=4.1
Q ss_pred HHHHHHHHHHH
Q psy18023 115 KELDQMVKELD 125 (151)
Q Consensus 115 K~Ldqisk~ld 125 (151)
.++.++...++
T Consensus 223 ~~~~~l~~~~~ 233 (318)
T TIGR00383 223 DHILSLLEMIE 233 (318)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 106
>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer. It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.
Probab=74.32 E-value=9.4 Score=33.59 Aligned_cols=84 Identities=6% Similarity=0.235 Sum_probs=13.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---------hhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ---------NKLDQIKKELDQMVKELDLTIKELNQ 133 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q---------k~LdqIsK~Ldqisk~ld~isK~L~q 133 (151)
+-+++-.|+.+.-.+++...+|+.++..+.+..-+|+.++..++. ..+.+++..++-++-.+.-.--.+..
T Consensus 58 iSdLss~L~~l~~sl~~~~s~L~sLsstV~~lq~Sl~~lsssVs~lS~~ls~h~ssIS~Lqs~v~~lsTdvsNLksdVSt 137 (326)
T PF04582_consen 58 ISDLSSDLQDLASSLADMTSELNSLSSTVTSLQSSLSSLSSSVSSLSSTLSDHSSSISDLQSSVSALSTDVSNLKSDVST 137 (326)
T ss_dssp ------------------------------------------------------------HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhhhhhhhhHHHHHHhhhhhhhhhhhhhhhhhh
Confidence 334444444444444444444444444444444444444444433 33333334444444444333333344
Q ss_pred HHHHHHHHHHHHH
Q psy18023 134 IIKELNQIIKELN 146 (151)
Q Consensus 134 Isk~l~qI~K~l~ 146 (151)
..-.+.++-+.++
T Consensus 138 ~aL~ItdLe~RV~ 150 (326)
T PF04582_consen 138 QALNITDLESRVK 150 (326)
T ss_dssp HHHHHHHHHHHHH
T ss_pred hcchHhhHHHHHH
Confidence 4444444444443
No 107
>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=73.82 E-value=24 Score=23.67 Aligned_cols=25 Identities=12% Similarity=0.304 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 65 QIKKELDQIIKELDQIIKELDLIIK 89 (151)
Q Consensus 65 QIsKnLdQISK~LdQIsK~LdqISK 89 (151)
.|-...+.|..++.+|...+.+|.+
T Consensus 5 ~F~~~v~~I~~~I~~i~~~v~~l~~ 29 (117)
T smart00503 5 EFFEKVEEIRANIQKISQNVAELQK 29 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444433
No 108
>PRK10884 SH3 domain-containing protein; Provisional
Probab=73.76 E-value=46 Score=26.89 Aligned_cols=70 Identities=14% Similarity=0.279 Sum_probs=31.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
+.+..+.++..-..|+++..+.++-..+|.+-.+..++.+.+ +.++.+++.++|....++++..-..+++
T Consensus 95 lp~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~--------L~~~n~~L~~~l~~~~~~~~~l~~~~~~ 164 (206)
T PRK10884 95 VPDLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVING--------LKEENQKLKNQLIVAQKKVDAANLQLDD 164 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555554444444433333333332 3334444444444444444443333333
No 109
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=73.57 E-value=49 Score=27.15 Aligned_cols=26 Identities=19% Similarity=0.330 Sum_probs=13.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQ 133 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~q 133 (151)
.-+.++.-|+.++..+++..+..|+.
T Consensus 220 ~~l~dv~~~~~~~~~~~~~~~~~l~~ 245 (322)
T COG0598 220 EYLRDVLDHLTQLIEMLEALRERLSS 245 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555555444443
No 110
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=73.45 E-value=79 Score=29.61 Aligned_cols=31 Identities=26% Similarity=0.152 Sum_probs=16.5
Q ss_pred cchHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQ-IIKELDQIIKELDLIIKES 91 (151)
Q Consensus 61 ~~LDQIsKnLdQ-ISK~LdQIsK~LdqISK~l 91 (151)
+.-+||..-++| +..-.+++.++|+.+...+
T Consensus 191 ~~~~qi~~l~~~ny~~~~~~v~~~L~~~~~~l 222 (806)
T PF05478_consen 191 DTPQQIDHLLVQNYSELKDHVSSDLDNIGSLL 222 (806)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhccchh
Confidence 344555555555 5555555555555555444
No 111
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=73.37 E-value=43 Score=26.36 Aligned_cols=21 Identities=19% Similarity=0.322 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy18023 126 LTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 126 ~isK~L~qIsk~l~qI~K~l~ 146 (151)
.+-..+....+.+.+|...|+
T Consensus 117 ~aq~~l~~~~~~l~ei~~~L~ 137 (240)
T PF12795_consen 117 RAQQQLSEARQRLQEIRNQLQ 137 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 333334444444444444443
No 112
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=73.15 E-value=35 Score=26.90 Aligned_cols=41 Identities=24% Similarity=0.477 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESN 106 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~ 106 (151)
+.+.|.++-..+.++++..|...+.--+....|-..|+..+
T Consensus 32 l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~~f~ 72 (159)
T PF05384_consen 32 LRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSRNFD 72 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 33444444444444444444444444444444444444443
No 113
>cd07648 F-BAR_FCHO The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Proteins in this group have been named FCH domain Only (FCHO) proteins. Vertebrates have two members, FCHO1 and FCHO2. These proteins contain an F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=73.10 E-value=44 Score=26.37 Aligned_cols=39 Identities=13% Similarity=0.132 Sum_probs=16.9
Q ss_pred HHHHHHHHHHhhhh--------hhhHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 94 VIKELNLIIKESNQ--------NKLDQIKKELDQMVKELDLTIKELN 132 (151)
Q Consensus 94 iSk~L~qISKel~q--------k~LdqIsK~Ldqisk~ld~isK~L~ 132 (151)
-++.|..|+|.... ...+.|..+.+.++..=..++..|.
T Consensus 38 Yak~L~kLakk~~~~~~~gt~~~~w~~i~~~~e~~a~~H~~l~~~L~ 84 (261)
T cd07648 38 YSKALNKLAKQASNSSQLGTFAPLWLVLRVSTEKLSELHLQLVQKLQ 84 (261)
T ss_pred HHHHHHHHHHHhcCCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555554422 2344444444444433333333333
No 114
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=73.06 E-value=15 Score=31.52 Aligned_cols=28 Identities=7% Similarity=0.319 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 113 IKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 113 IsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
+...++++-..+..+-+.+..|..++..
T Consensus 142 l~~Ri~e~Eeris~lEd~~~~i~~~~~~ 169 (370)
T PF02994_consen 142 LNSRIDELEERISELEDRIEEIEQAIKE 169 (370)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhHHHHHHHHHHHHhhHHHH
Confidence 3344444444444444444444443333
No 115
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=72.97 E-value=46 Score=26.55 Aligned_cols=35 Identities=17% Similarity=0.244 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 67 KKELDQIIKELDQIIKELDLIIKESNQVIKELNLI 101 (151)
Q Consensus 67 sKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qI 101 (151)
...+++....+++....+......++...+.++..
T Consensus 150 ~~~i~~~~~~i~~~~~~l~~~~~~l~~~~~~~~~~ 184 (423)
T TIGR01843 150 LAQIKQLEAELAGLQAQLQALRQQLEVISEELEAR 184 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444444444444444444433
No 116
>PF06148 COG2: COG (conserved oligomeric Golgi) complex component, COG2; InterPro: IPR024602 This entry represents the uncharacterised N-terminal domain of subunit 2 of the COG complex. The COG complex comprises eight proteins COG1-8 and plays critical roles in Golgi structure and function [].; PDB: 2JQQ_A.
Probab=72.83 E-value=2.6 Score=30.44 Aligned_cols=19 Identities=32% Similarity=0.609 Sum_probs=0.0
Q ss_pred ccchHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELD 78 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~Ld 78 (151)
+-+|+++.+.|.+.++.|.
T Consensus 25 ~~~Le~L~~dL~~~~~~L~ 43 (133)
T PF06148_consen 25 YVSLEDLRKDLRSYSKELK 43 (133)
T ss_dssp -------------------
T ss_pred CCCHHHHHHHHHHHHHHHH
Confidence 4456666666655555543
No 117
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=72.66 E-value=37 Score=25.32 Aligned_cols=38 Identities=24% Similarity=0.321 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 70 LDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 70 LdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
|..+...+.++...+..+.+........|..+.++++.
T Consensus 74 l~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~ 111 (169)
T PF07106_consen 74 LAELDAEIKELREELAELKKEVKSLEAELASLSSEPTN 111 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCH
Confidence 44444445555555555666666666666666666654
No 118
>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []. Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.
Probab=72.32 E-value=30 Score=26.76 Aligned_cols=7 Identities=43% Similarity=0.700 Sum_probs=2.5
Q ss_pred HHHHHHH
Q psy18023 92 NQVIKEL 98 (151)
Q Consensus 92 ~QiSk~L 98 (151)
....+.|
T Consensus 127 ~~~i~~L 133 (184)
T PF05791_consen 127 QALINEL 133 (184)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 3333333
No 119
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=71.81 E-value=47 Score=29.43 Aligned_cols=23 Identities=17% Similarity=0.508 Sum_probs=9.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELD 85 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~Ld 85 (151)
+..+.+.|.+..-.|+++..+|.
T Consensus 268 ~~~~~~~l~~~~~~l~d~~~~l~ 290 (563)
T TIGR00634 268 LRELAEQVGNALTEVEEATRELQ 290 (563)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444333333
No 120
>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=71.63 E-value=45 Score=25.85 Aligned_cols=41 Identities=20% Similarity=0.096 Sum_probs=23.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK 103 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK 103 (151)
.+++..+|..+.|....+.|....++.++....+.++.|+.
T Consensus 23 i~~L~~~l~~~~kv~~Rl~kr~~el~~~~~efg~~~~~ls~ 63 (200)
T cd07624 23 LTLFGEKLGTIERISQRIHKERIEYFDELKEYSPIFQLWSA 63 (200)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44555555555555555555555555556655555555553
No 121
>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer. It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.
Probab=71.52 E-value=3 Score=36.57 Aligned_cols=75 Identities=8% Similarity=0.217 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 70 LDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKE 144 (151)
Q Consensus 70 LdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~ 144 (151)
+..++-.+-+++.+|+.+.-.+.+..-+|+.++..+.+ .+|+.++..+..++..+....-.|.++...++-+.-.
T Consensus 51 Vs~lss~iSdLss~L~~l~~sl~~~~s~L~sLsstV~~lq~Sl~~lsssVs~lS~~ls~h~ssIS~Lqs~v~~lsTd 127 (326)
T PF04582_consen 51 VSSLSSTISDLSSDLQDLASSLADMTSELNSLSSTVTSLQSSLSSLSSSVSSLSSTLSDHSSSISDLQSSVSALSTD 127 (326)
T ss_dssp -------------------------------------------------------------------HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhhhhhhhhHHHHHHhhhhhhhh
Confidence 44444555555566666666666666666666666655 6666666666666666666666666666665555443
No 122
>PF05130 FlgN: FlgN protein; InterPro: IPR007809 Flagella synthesis protein FlgN is an export chaperone involved in flagellar synthesis []. This entry represents a FlgN-like domain, consisting of a 4 long helices bundle, where the last helix is shorter than the three others.; GO: 0009296 flagellum assembly, 0019861 flagellum; PDB: 2FUP_A 3OPC_A.
Probab=71.40 E-value=28 Score=23.34 Aligned_cols=78 Identities=18% Similarity=0.363 Sum_probs=43.4
Q ss_pred hccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQV--IKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQI 134 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~Qi--Sk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qI 134 (151)
.-|...|+.+-+....+...+.++.+...++...+..- ..+|..|.. .+..+.++...|...+.++....+.-..+
T Consensus 33 ~~d~~~l~~~~~~k~~l~~~l~~le~~r~~~~~~~~~~~~~~~l~~~~~--~~~~l~~~~~~l~~~~~~~~~~n~~N~~l 110 (143)
T PF05130_consen 33 SGDIDELEELVEEKQELLEELRELEKQRQQLLAKLGAEPEEATLSELIE--EREELQALWRELRELLEELQELNERNQQL 110 (143)
T ss_dssp TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SCHHHHHHHHC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccccHHHHHh--ccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33555666666666666666666666665555544433 334445444 44566666666666666666555555444
Q ss_pred HH
Q psy18023 135 IK 136 (151)
Q Consensus 135 sk 136 (151)
++
T Consensus 111 l~ 112 (143)
T PF05130_consen 111 LE 112 (143)
T ss_dssp HH
T ss_pred HH
Confidence 43
No 123
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=71.30 E-value=43 Score=25.53 Aligned_cols=20 Identities=20% Similarity=0.242 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy18023 124 LDLTIKELNQIIKELNQIIK 143 (151)
Q Consensus 124 ld~isK~L~qIsk~l~qI~K 143 (151)
++.++..|..|..-|+++.-
T Consensus 89 v~els~~L~~~~~lL~~~v~ 108 (131)
T PF10158_consen 89 VNELSQQLSRCQSLLNQTVP 108 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444433
No 124
>cd00193 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fusion protein)-Attachment protein (SNAP) REceptor domain; these alpha-helical motifs form twisted and parallel heterotetrameric helix bundles; the core complex contains one helix from a protein that is anchored in the vesicle membrane (synaptobrevin), one helix from a protein of the target membrane (syntaxin), and two helices from another protein anchored in the target membrane (SNAP-25); their interaction forms a core which is composed of a polar zero layer, a flanking leucine-zipper layer acts as a water tight shield to isolate ionic interactions in the zero layer from the surrounding solvent
Probab=71.03 E-value=19 Score=21.28 Aligned_cols=24 Identities=25% Similarity=0.333 Sum_probs=12.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKEL 131 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L 131 (151)
.-||.|...+++....+....+.|
T Consensus 34 ~~ld~i~~~~~~~~~~~~~~~~~l 57 (60)
T cd00193 34 ELLDRIEDNVDNADVNVKRANKRL 57 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555444444443
No 125
>cd07653 F-BAR_CIP4-like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Cdc42-Interacting Protein 4 and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Cdc42-Interacting Protein 4 (CIP4), Formin Binding Protein 17 (FBP17), FormiN Binding Protein 1-Like (FNBP1L), and similar proteins. CIP4 and FNBP1L are Cdc42 effectors that bind Wiskott-Aldrich syndrome protein (WASP) and function in endocytosis. CIP4 and FBP17 bind to the Fas ligand and may be implicated in the inflammatory response. CIP4 may also play a role in phagocytosis. Members of this subfamily typically contain an N-terminal F-BAR domain and a C-terminal SH3 domain. In addition, some members such as FNBP1L contain a central Cdc42-binding HR1 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged l
Probab=70.82 E-value=47 Score=25.68 Aligned_cols=79 Identities=22% Similarity=0.317 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELD-LIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQI 141 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~Ld-qISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI 141 (151)
.+.|...++.++..-.+++..|. ++.+.+..|.+.+....|.+.. ....+.+.+....+.|...-|.-.+..+.....
T Consensus 67 w~~i~~e~~~~a~~H~~~a~~l~~~v~~~l~~~~~~~~~~rK~~~~-~~~kl~~~~~~~~~~l~kskk~Y~~~~ke~~~a 145 (251)
T cd07653 67 FRSILNEVNDIAGQHELIAENLNSNVCKELKTLISELRQERKKHLS-EGSKLQQKLESSIKQLEKSKKAYEKAFKEAEKA 145 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444443 3444444444444444444332 222233344444444444444444444443333
Q ss_pred H
Q psy18023 142 I 142 (151)
Q Consensus 142 ~ 142 (151)
.
T Consensus 146 ~ 146 (251)
T cd07653 146 K 146 (251)
T ss_pred H
Confidence 3
No 126
>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=70.77 E-value=41 Score=25.00 Aligned_cols=8 Identities=50% Similarity=0.763 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q psy18023 75 KELDQIIK 82 (151)
Q Consensus 75 K~LdQIsK 82 (151)
+.++++..
T Consensus 95 ~el~~l~~ 102 (191)
T PF04156_consen 95 EELDQLQE 102 (191)
T ss_pred HHHHHHHH
Confidence 33333333
No 127
>PF05713 MobC: Bacterial mobilisation protein (MobC); InterPro: IPR008687 This family consists of several bacterial MobC-like, mobilisation proteins. MobC proteins belong to the group of relaxases. Together with MobA and MobB they bind to a single cis-active site of a mobilising plasmid, the origin of transfer (oriT) region []. The absence of MobC has several different effects on oriT DNA. Site- and strand-specific nicking by MobA protein is severely reduced, accounting for the lower frequency of mobilisation. The localised DNA strand separation required for this nicking is less affected, but becomes more sensitive to the level of active DNA gyrase in the cell. In addition, strand separation is not efficiently extended through the region containing the nick site. These effects suggest a model in which MobC acts as a molecular wedge for the relaxosome-induced melting of oriT DNA. The effect of MobC on strand separation may be partially complemented by the helical distortion induced by supercoiling. However, MobC extends the melted region through the nick site, thus providing the single-stranded substrate required for cleavage by MobA [].
Probab=70.38 E-value=15 Score=22.81 Aligned_cols=18 Identities=39% Similarity=0.364 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy18023 83 ELDLIIKESNQVIKELNL 100 (151)
Q Consensus 83 ~LdqISK~l~QiSk~L~q 100 (151)
.|.-|+--+|||.+.++.
T Consensus 4 eL~~ignNlNQiAk~~N~ 21 (48)
T PF05713_consen 4 ELNRIGNNLNQIAKHANS 21 (48)
T ss_pred HHHHHhccHHHHHHHHhC
Confidence 344444555555555555
No 128
>PRK04863 mukB cell division protein MukB; Provisional
Probab=69.67 E-value=1.2e+02 Score=31.40 Aligned_cols=38 Identities=16% Similarity=0.204 Sum_probs=18.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELN 99 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~ 99 (151)
.|.....++..+...+..+.+.+..+.+..+...+.++
T Consensus 301 kLe~tE~nL~rI~diL~ELe~rL~kLEkQaEkA~kyle 338 (1486)
T PRK04863 301 QLAAEQYRLVEMARELAELNEAESDLEQDYQAASDHLN 338 (1486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555555555554444444444433
No 129
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=69.14 E-value=74 Score=29.78 Aligned_cols=8 Identities=38% Similarity=0.758 Sum_probs=4.0
Q ss_pred ccccchHH
Q psy18023 58 VDFNKLDQ 65 (151)
Q Consensus 58 ~~~~~LDQ 65 (151)
.||+.|..
T Consensus 310 ~~~~qLP~ 317 (806)
T PF05478_consen 310 ADFSQLPN 317 (806)
T ss_pred CCcccCCC
Confidence 45554443
No 130
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=68.80 E-value=33 Score=23.09 Aligned_cols=30 Identities=13% Similarity=0.483 Sum_probs=11.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESN 92 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~ 92 (151)
++++..++.....+=..+...|+.....+.
T Consensus 16 l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~ 45 (92)
T PF14712_consen 16 LDRLDQQLQELRQSQEELLQQIDRLNEKLK 45 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444333333333333333333
No 131
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=68.67 E-value=74 Score=27.14 Aligned_cols=39 Identities=23% Similarity=0.561 Sum_probs=21.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~ 146 (151)
..|++++..|+....++....+.|.+.-..|..+...++
T Consensus 204 ~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~ 242 (312)
T smart00787 204 TELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIE 242 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666665555555555555555555554444443
No 132
>PF08651 DASH_Duo1: DASH complex subunit Duo1; InterPro: IPR013960 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=68.63 E-value=36 Score=23.94 Aligned_cols=47 Identities=15% Similarity=0.227 Sum_probs=38.8
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
..|+.|-.-++.+.+.|+..-.+|..|....+..+.-|+.|++=+.|
T Consensus 8 ~~Lr~IN~~ie~~~~~L~~a~~~~~~v~~~~~~t~~LLd~w~~IlSQ 54 (78)
T PF08651_consen 8 EQLRKINPVIEGLIETLRSAKSNMNRVQETVESTNTLLDKWIRILSQ 54 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35777778888888888888888888888888888888888888777
No 133
>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []. ; PDB: 3VP9_B 3VP8_B.
Probab=67.62 E-value=34 Score=24.32 Aligned_cols=20 Identities=30% Similarity=0.424 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy18023 75 KELDQIIKELDLIIKESNQV 94 (151)
Q Consensus 75 K~LdQIsK~LdqISK~l~Qi 94 (151)
+-||+|..+.+..+.+++..
T Consensus 4 elLd~ir~Ef~~~~~e~~~~ 23 (79)
T PF08581_consen 4 ELLDAIRQEFENLSQEANSY 23 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555544433
No 134
>PF00261 Tropomyosin: Tropomyosin; 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 [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=67.04 E-value=62 Score=25.65 Aligned_cols=36 Identities=28% Similarity=0.567 Sum_probs=14.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l 145 (151)
.....+.+|++-.+|...-.....+.++|++....|
T Consensus 199 v~~Le~~id~le~eL~~~k~~~~~~~~eld~~l~el 234 (237)
T PF00261_consen 199 VKKLEKEIDRLEDELEKEKEKYKKVQEELDQTLNEL 234 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333344444444444444444444444444443333
No 135
>PF10372 YojJ: Bacterial membrane-spanning protein N-terminus; InterPro: IPR019457 This entry is found at the N terminus of a family of putative membrane-spanning bacterial proteins. These proteins often contain IPR003390 from INTERPRO towards the C terminus. ; PDB: 2FB5_A.
Probab=66.99 E-value=21 Score=25.21 Aligned_cols=13 Identities=8% Similarity=0.419 Sum_probs=8.0
Q ss_pred hhhHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQM 120 (151)
Q Consensus 108 k~LdqIsK~Ldqi 120 (151)
..+++|.+.+.++
T Consensus 42 ~e~e~i~~~f~~~ 54 (70)
T PF10372_consen 42 CEFEEIREKFLDI 54 (70)
T ss_dssp GGHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHH
Confidence 5566666666554
No 136
>PRK08026 flagellin; Validated
Probab=66.26 E-value=1.1e+02 Score=28.31 Aligned_cols=89 Identities=16% Similarity=0.274 Sum_probs=47.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHhhhh---------hhhHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKE-----------LDLIIKESNQVIKELNLIIKESNQ---------NKLDQIKKELDQMV 121 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~-----------LdqISK~l~QiSk~L~qISKel~q---------k~LdqIsK~Ldqis 121 (151)
.+.++.++..+.++.++|+|-- =-.|+..|..-+..|+|-.+-.++ -.|.+|...|..|.
T Consensus 14 al~~L~~~~~~l~~s~eqLSSG~RInsAsDDpag~aia~~l~sqi~~l~qa~rN~~dg~s~lqtAE~aL~~i~d~LqRmr 93 (529)
T PRK08026 14 TQNNINKNQSALSSSIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQAARNANDGISVAQTTEGALSEINNNLQRVR 93 (529)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCccCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555556666666665532 123444444444555555554443 44555555555544
Q ss_pred HHHHHHH------HHHHHHHHHHHHHHHHHHHhhh
Q psy18023 122 KELDLTI------KELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 122 k~ld~is------K~L~qIsk~l~qI~K~l~q~~~ 150 (151)
.-+-+-. .....|..++.++.++++.|.+
T Consensus 94 ELaVqAaNGT~S~~DR~aiq~Ei~qL~~eI~~ia~ 128 (529)
T PRK08026 94 ELTVQAATGTNSQSDLDSIQDEIKSRLDEIDRVSG 128 (529)
T ss_pred HHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3222221 2456677777777777776653
No 137
>PF10372 YojJ: Bacterial membrane-spanning protein N-terminus; InterPro: IPR019457 This entry is found at the N terminus of a family of putative membrane-spanning bacterial proteins. These proteins often contain IPR003390 from INTERPRO towards the C terminus. ; PDB: 2FB5_A.
Probab=65.67 E-value=9.4 Score=27.00 Aligned_cols=15 Identities=40% Similarity=0.809 Sum_probs=5.7
Q ss_pred hHHHHHHHHHHHHHH
Q psy18023 110 LDQIKKELDQMVKEL 124 (151)
Q Consensus 110 LdqIsK~Ldqisk~l 124 (151)
|.+|.+++.+|.++|
T Consensus 19 L~~I~~~~~~i~~~l 33 (70)
T PF10372_consen 19 LEQIEEEISQIIQTL 33 (70)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHh
Confidence 333333333333333
No 138
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=65.61 E-value=61 Score=25.04 Aligned_cols=20 Identities=30% Similarity=0.597 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q psy18023 129 KELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 129 K~L~qIsk~l~qI~K~l~q~ 148 (151)
..+.+|.+.|...+++|..+
T Consensus 43 ~~i~~~~~~L~~~~~~L~~~ 62 (188)
T PF10018_consen 43 EQIRDILKQLKEARKELRTL 62 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555444
No 139
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=65.42 E-value=1.3e+02 Score=28.61 Aligned_cols=40 Identities=18% Similarity=0.254 Sum_probs=17.0
Q ss_pred ccCChhHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 43 SSNGIEEQEMEKECKVDFNKLDQIKKELDQIIKELDQIIKELD 85 (151)
Q Consensus 43 ~~~~~~~~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~Ld 85 (151)
+|+|++- -+.++++..=++.-++.+......++.+...|.
T Consensus 482 ~S~a~~i---A~~~Glp~~ii~~A~~~~~~~~~~~~~li~~L~ 521 (771)
T TIGR01069 482 ESYAFEI---AQRYGIPHFIIEQAKTFYGEFKEEINVLIEKLS 521 (771)
T ss_pred CcHHHHH---HHHhCcCHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 4566542 333444444444444444333333333333333
No 140
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=65.01 E-value=98 Score=27.21 Aligned_cols=41 Identities=24% Similarity=0.464 Sum_probs=30.3
Q ss_pred hhhHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 108 NKLDQIKKELDQMVK------------ELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 108 k~LdqIsK~Ldqisk------------~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
+.+.+.++.+++++. +||.+-+.|.++-|.+..+.|.|.+.
T Consensus 263 na~m~lr~~~qe~~e~~L~~LnlPTRsElDe~~krL~ELrR~vr~L~k~l~~l 315 (320)
T TIGR01834 263 NALMRLRIQQQEIVEALLKMLNLPTRSELDEAHQRIQQLRREVKSLKKRLGDL 315 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 666777777777763 56778888888888888888877654
No 141
>PRK08655 prephenate dehydrogenase; Provisional
Probab=64.73 E-value=55 Score=28.32 Aligned_cols=59 Identities=14% Similarity=0.213 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 86 LIIKESNQVIKELNLIIKESNQNKLDQIKKELD-------QMVKELDLTIKELNQIIKELNQIIKE 144 (151)
Q Consensus 86 qISK~l~QiSk~L~qISKel~qk~LdqIsK~Ld-------qisk~ld~isK~L~qIsk~l~qI~K~ 144 (151)
.+.+.+++..+.|+++...+.++.-+.+.+-+. +....+....|-++.+..++.++.|+
T Consensus 233 ~~~~~l~~~~~~l~~l~~~l~~~D~~~l~~~~~~a~~~~~~~~~~~~~s~~~i~~~~~~~~~~~~~ 298 (437)
T PRK08655 233 QIPEIHETFIKECEELSELVKNGDREEFVERMKEAAKHFGDTERALGRSDKAIYALNQEFEKLLKS 298 (437)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHHHHHHHHHHHh
Confidence 344455555555555555554433334444444 44444444444445555555444443
No 142
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=64.06 E-value=84 Score=26.14 Aligned_cols=32 Identities=28% Similarity=0.445 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 117 LDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 117 Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
|..+-.+|......++..-+.+++...++.++
T Consensus 211 L~~lr~eL~~~~~~i~~~k~~l~el~~el~~l 242 (325)
T PF08317_consen 211 LEALRQELAEQKEEIEAKKKELAELQEELEEL 242 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444455555555555555554443
No 143
>PRK09546 zntB zinc transporter; Reviewed
Probab=63.84 E-value=79 Score=25.70 Aligned_cols=14 Identities=21% Similarity=0.416 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHHHH
Q psy18023 111 DQIKKELDQMVKEL 124 (151)
Q Consensus 111 dqIsK~Ldqisk~l 124 (151)
.++--|+.++...+
T Consensus 225 ~Dv~d~~~~~~~~l 238 (324)
T PRK09546 225 QDIADRLGRGLDDL 238 (324)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 144
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=63.72 E-value=1e+02 Score=26.98 Aligned_cols=66 Identities=20% Similarity=0.289 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 81 IKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 81 sK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~ 146 (151)
-+....|......++.....+...++. ...|.+.|.-|-+...+-..++..+.+...+..+.++|.
T Consensus 171 k~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e~~ee~~~~~~elr 238 (294)
T COG1340 171 KKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELSKKIDELHEEFRNLQNELR 238 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 333333444444444444444444444 556666666666665555555555555555444444443
No 145
>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=63.61 E-value=59 Score=24.31 Aligned_cols=74 Identities=12% Similarity=0.373 Sum_probs=32.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
+-.++..+...++..+-.-+|..+-++.+|=-+. .|.+...+.+.....++....+++....++-..+.+.|..
T Consensus 63 ~~~~~~~~~~elA~dIi~kakqIe~LIdsLPg~~-----~see~Q~~~i~~L~~E~~~~~~el~~~v~e~e~ll~~v~~ 136 (144)
T PF11221_consen 63 PPEEFEENIKELATDIIRKAKQIEYLIDSLPGIE-----VSEEEQLKRIKELEEENEEAEEELQEAVKEAEELLKQVQE 136 (144)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTSS-----S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC-----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555555555555555544444332211 1111111444444455555555554444444444443333
No 146
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=63.33 E-value=20 Score=24.22 Aligned_cols=22 Identities=23% Similarity=0.354 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy18023 113 IKKELDQMVKELDLTIKELNQI 134 (151)
Q Consensus 113 IsK~Ldqisk~ld~isK~L~qI 134 (151)
|-..+|+|++.+|++-|+++++
T Consensus 26 I~~riDeM~~RIDdLE~si~dl 47 (54)
T PF06825_consen 26 ILGRIDEMSSRIDDLEKSIADL 47 (54)
T ss_dssp HHHHHHHHHHHHHCCHHHH---
T ss_pred HHHHHHHHHhhHHHHHHHHHHH
Confidence 3344445555544444444443
No 147
>PRK12807 flagellin; Provisional
Probab=63.28 E-value=78 Score=25.73 Aligned_cols=90 Identities=7% Similarity=0.092 Sum_probs=55.3
Q ss_pred hccccccCChhHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhhhhHHHHHH
Q psy18023 38 EINLESSNGIEEQEMEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK-ESNQNKLDQIKKE 116 (151)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK-el~qk~LdqIsK~ 116 (151)
.||-.|.+.+.-.-. ...+-+...++|..+|...-.-.|..-...|..++..|..+-+-+-+..- .+++.....|..+
T Consensus 35 ri~~~sDDp~~~~~~-~~l~~~~~~~~q~~~N~~~~~s~l~~ad~~L~~i~~~l~r~rel~v~a~ngt~s~~dr~ai~~E 113 (287)
T PRK12807 35 RINSAADDAAGLAIA-TRMRARQSGLEKASQNTQDGMSLIRTAESAMNSVSNILTRMRDIAVQSSNGTNTAENQSALQKE 113 (287)
T ss_pred CcCChhhCHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHH
Confidence 344444444433221 23445567888888888888888888888888888888877665554432 2334455555555
Q ss_pred HHHHHHHHHHHH
Q psy18023 117 LDQMVKELDLTI 128 (151)
Q Consensus 117 Ldqisk~ld~is 128 (151)
+.++..++..+.
T Consensus 114 i~~l~~~i~~~a 125 (287)
T PRK12807 114 FAELQEQIDYIA 125 (287)
T ss_pred HHHHHHHHHHHH
Confidence 555555555443
No 148
>PRK08870 flgL flagellar hook-associated protein FlgL; Reviewed
Probab=62.90 E-value=72 Score=26.90 Aligned_cols=67 Identities=15% Similarity=0.085 Sum_probs=43.8
Q ss_pred hccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhhhhHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK-ESNQNKLDQIKKELDQMVKE 123 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK-el~qk~LdqIsK~Ldqisk~ 123 (151)
+.....++|..+|.+.....|..-...|.++.+.|..+.+.+-+-.- .++...+..|..++.++.+.
T Consensus 53 ~~~~~~~~qy~~n~~~~~~~l~~~~~~L~~i~~~l~~~r~~~v~a~n~t~s~~~r~aia~e~~~l~~~ 120 (404)
T PRK08870 53 SQQSALLDQYTKNINLARNRLQQEESTLGSVEDLLQRARELVVQAGNGSLSDSDRQAIATELQGLRDQ 120 (404)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 34457788888888888888888888888888888887766555433 22334444444444444333
No 149
>PF04048 Sec8_exocyst: Sec8 exocyst complex component specific domain; InterPro: IPR007191 Sec8 is a component of the exocyst complex involved in the docking of exocystic vesicles with a fusion site on the plasma membrane. The exocyst complex is composed of Sec3, Sec5, Sec6, Sec8, Sec10, Sec15, Exo70 and Exo84.; GO: 0006904 vesicle docking involved in exocytosis, 0015031 protein transport, 0000145 exocyst
Probab=62.84 E-value=60 Score=24.06 Aligned_cols=7 Identities=43% Similarity=0.766 Sum_probs=3.5
Q ss_pred hcCCccC
Q psy18023 23 FDGLTPV 29 (151)
Q Consensus 23 ~~~~~~~ 29 (151)
+|-..||
T Consensus 18 ~~~~~pv 24 (142)
T PF04048_consen 18 TDDFNPV 24 (142)
T ss_pred cCCCcHH
Confidence 4555554
No 150
>PRK04863 mukB cell division protein MukB; Provisional
Probab=62.83 E-value=1.9e+02 Score=29.88 Aligned_cols=33 Identities=12% Similarity=0.205 Sum_probs=16.9
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQ 93 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~Q 93 (151)
.++..|...+..+.+.+..+.+......+.++.
T Consensus 307 ~nL~rI~diL~ELe~rL~kLEkQaEkA~kyleL 339 (1486)
T PRK04863 307 YRLVEMARELAELNEAESDLEQDYQAASDHLNL 339 (1486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555555555544444443
No 151
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=62.82 E-value=61 Score=32.54 Aligned_cols=36 Identities=19% Similarity=0.208 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l 145 (151)
++++...|.+..-.|.+.-+.+++....+.+|+..+
T Consensus 104 ~~~Leq~l~~~~~~L~~~q~~l~~~~~~~~~~~~~l 139 (1109)
T PRK10929 104 TDALEQEILQVSSQLLEKSRQAQQEQDRAREISDSL 139 (1109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence 455555555555555555555555444444444433
No 152
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=62.75 E-value=81 Score=27.70 Aligned_cols=38 Identities=21% Similarity=0.369 Sum_probs=26.8
Q ss_pred HHHHHHhhhh---hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 98 LNLIIKESNQ---NKLDQIKKELDQMVKELDLTIKELNQII 135 (151)
Q Consensus 98 L~qISKel~q---k~LdqIsK~Ldqisk~ld~isK~L~qIs 135 (151)
++.+.+.++- ..+|.+.+.|.++-|.+..+.|.|.+.-
T Consensus 276 ~e~~L~~LnlPTRsElDe~~krL~ELrR~vr~L~k~l~~l~ 316 (320)
T TIGR01834 276 VEALLKMLNLPTRSELDEAHQRIQQLRREVKSLKKRLGDLE 316 (320)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4445556654 7788888888888888887777776543
No 153
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=62.11 E-value=1e+02 Score=26.94 Aligned_cols=29 Identities=21% Similarity=0.377 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 112 QIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 112 qIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
.+.++..++.+.+...-+.+..+...+++
T Consensus 70 ~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 98 (425)
T PRK05431 70 ALIAEVKELKEEIKALEAELDELEAELEE 98 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444433333
No 154
>PF04136 Sec34: Sec34-like family ; InterPro: IPR007265 Sec34 and Sec35 form a sub-complex in a seven-protein complex that includes Dor1. This complex is thought to be important for tethering vesicles to the Golgi [].; GO: 0006886 intracellular protein transport, 0005801 cis-Golgi network, 0016020 membrane
Probab=62.05 E-value=69 Score=24.47 Aligned_cols=39 Identities=31% Similarity=0.524 Sum_probs=18.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLI 101 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qI 101 (151)
|.+...+.+++....+.+...|+.+...-+.|++.-+..
T Consensus 9 L~~~~~~~~~ll~~~~~~~~~l~~l~~~~~~Vs~kT~~l 47 (157)
T PF04136_consen 9 LQQYREECDQLLDQTDEILDQLDELQEQYNSVSEKTNSL 47 (157)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 444444445544444444444444444444444443333
No 155
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=61.84 E-value=60 Score=23.65 Aligned_cols=86 Identities=23% Similarity=0.352 Sum_probs=42.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLT--IKELNQIIKELN 139 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~i--sK~L~qIsk~l~ 139 (151)
.++.+.+.++++.+.+....++++.+-+.+ .+......+...++-+.++-.-+|++.+.+... ......+.+.+.
T Consensus 19 ~l~~l~~~~~~l~~~~~r~~ae~en~~~r~---~~e~~~~~~~~~~~~~~~ll~v~D~l~~a~~~~~~~~~~~~~~~g~~ 95 (165)
T PF01025_consen 19 ELEELEKEIEELKERLLRLQAEFENYRKRL---EKEKEEAKKYALEKFLKDLLPVLDNLERALEAAKSNEEEESLLEGLE 95 (165)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCC-SHHCTCHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccchHHHHHHHHH
Confidence 344455555555444444444444443333 334444444444444555555555555554432 222345556666
Q ss_pred HHHHHHHHhhh
Q psy18023 140 QIIKELNQIVE 150 (151)
Q Consensus 140 qI~K~l~q~~~ 150 (151)
.+.+.|.++++
T Consensus 96 ~~~~~l~~~L~ 106 (165)
T PF01025_consen 96 MILKQLEDILE 106 (165)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 67777666654
No 156
>KOG0810|consensus
Probab=61.28 E-value=1.1e+02 Score=26.37 Aligned_cols=50 Identities=16% Similarity=0.387 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhhHHHHHHHHHHH
Q psy18023 69 ELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-NKLDQIKKELDQMV 121 (151)
Q Consensus 69 nLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-k~LdqIsK~Ldqis 121 (151)
+|++|.+..+.|-.+++.+....+++-+.= |+.+.. +....++.+|++..
T Consensus 34 ~l~~Ff~~ve~Ir~~i~~l~~~~~~l~~~h---s~~l~~~~~~~~~k~~l~~~~ 84 (297)
T KOG0810|consen 34 NLEEFFEDVEEIRDDIEKLDEDVEKLQKLH---SKSLHSPNADKELKRKLESLV 84 (297)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---hhHhccccccHHHHHHHHHHH
Confidence 455555555555555555555555543321 555555 55555565555543
No 157
>PF02181 FH2: Formin Homology 2 Domain; InterPro: IPR015425 Formin homology (FH) proteins play a crucial role in the reorganisation of the actin cytoskeleton, which mediates various functions of the cell cortex including motility, adhesion, and cytokinesis []. Formins are multidomain proteins that interact with diverse signalling molecules and cytoskeletal proteins, although some formins have been assigned functions within the nucleus. Formins are characterised by the presence of three FH domains (FH1, FH2 and FH3), although members of the formin family do not necessarily contain all three domains []. The proline-rich FH1 domain mediates interactions with a variety of proteins, including the actin-binding protein profilin, SH3 (Src homology 3) domain proteins, and WW domain proteins. The FH2 domain is required for the self-association of formin proteins through the ability of FH2 domains to directly bind each other [], and may also act to inhibit actin polymerisation []. The FH3 domain (IPR010472 from INTERPRO) is less well conserved and may be important for determining intracellular localisation of formin family proteins. In addition, some formins can contain a GTPase-binding domain (GBD) (IPR010473 from INTERPRO) required for binding to Rho small GTPases, and a C-terminal conserved Dia-autoregulatory domain (DAD). This entry represents the FH2 domain, which was shown by X-ray crystallography to have an elongated, crescent shape containing three helical subdomains [].; PDB: 1Y64_B 1UX4_A 1UX5_A 3O4X_H 3OBV_E 1V9D_D 2Z6E_B 2J1D_G.
Probab=61.18 E-value=89 Score=25.47 Aligned_cols=45 Identities=29% Similarity=0.435 Sum_probs=28.6
Q ss_pred cccchHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIK----ELDQIIKELDLIIKESNQVIKELNLIIK 103 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK----~LdQIsK~LdqISK~l~QiSk~L~qISK 103 (151)
.+..+.++...|..+.. +++++..++..+.+++..+...+.....
T Consensus 254 ~~~~~~~~~~eL~~v~~a~~~~~~~l~~~i~~l~~~~~~~~~~l~~~~~ 302 (370)
T PF02181_consen 254 KFPDLLDLEDELSSVEKASKVSLDELEQDIKELEKGLEKIKKELEAIEK 302 (370)
T ss_dssp TSGGGGGHHHHTTTHHHCCTS-HHHHHHHHHHHHHHHHHHHHHHHHCCT
T ss_pred cChHHhccHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 45556666666666665 6677777777777777776666665554
No 158
>PF09763 Sec3_C: Exocyst complex component Sec3; InterPro: IPR019160 The exocyst complex is composed of 8 subunits: Exoc1, Exoc2, Exoc3, Exoc4, Exoc5, Exoc6, Exoc7 and Exoc8. This entry represents the subunit Exoc1 (Sec3). Sec3 binds to the C-terminal cytoplasmic domain of GLYT1 (glycine transporter protein 1). Sec3 is the exocyst component that is closest to the plasma membrane docking site and it serves as a spatial landmark in the plasma membrane for incoming secretory vesicles. Sec3 is recruited to the sites of polarised membrane growth through its interaction with Rho1p, a small GTP-binding protein.
Probab=61.04 E-value=74 Score=28.85 Aligned_cols=70 Identities=21% Similarity=0.332 Sum_probs=48.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-----hhhHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-----NKLDQIKKELDQMVKELDLTIKELN 132 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-----k~LdqIsK~Ldqisk~ld~isK~L~ 132 (151)
.+++.+.+|....++|.+...|+.....|.-+++.++.|-...+. ....-+-++|..+..+|+.-..+|.
T Consensus 32 v~~l~~~ld~a~~e~d~le~~l~~y~~~L~~~~~di~~IE~qn~~Lqvq~~N~k~L~~eL~~Ll~~l~i~~~~l~ 106 (701)
T PF09763_consen 32 VNSLMEYLDEALAECDELESWLSLYDVELNSVRDDIEYIESQNNGLQVQSANQKLLLNELENLLDTLSIPEEHLE 106 (701)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCchhhHHHHHHHHHHHHHHHHHhcCCCHHHHH
Confidence 367788888888888888888888888888888888887654432 2223345666666666654444433
No 159
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=60.54 E-value=47 Score=22.07 Aligned_cols=28 Identities=11% Similarity=-0.006 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q psy18023 83 ELDLIIKESNQVIKELNLIIKESNQNKL 110 (151)
Q Consensus 83 ~LdqISK~l~QiSk~L~qISKel~qk~L 110 (151)
.++++.+.++++.+..+++..-......
T Consensus 110 ~~~~~~~~~~~y~~~~~~~~~~~~~~~~ 137 (181)
T PF12729_consen 110 LLEEFKEAWKAYRKLRDQVIELAKSGDN 137 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCH
Confidence 3555555666666666555554444333
No 160
>PRK08411 flagellin; Reviewed
Probab=60.22 E-value=82 Score=29.82 Aligned_cols=73 Identities=14% Similarity=0.171 Sum_probs=45.6
Q ss_pred hhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 56 CKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK-ESNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 56 ~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK-el~qk~LdqIsK~Ldqisk~ld~is 128 (151)
..-..+.|+|..+|..+-.-.|..-...|+.+.+-|..+.+-+-|-.- .+++....-|.+++.++..+++.+.
T Consensus 54 L~sqi~~L~Qa~rNa~dgiS~LqtAEgAL~ei~diLqRiRELaVQAaNGT~S~~DR~AIq~EI~qL~eqI~~IA 127 (572)
T PRK08411 54 LRSQANTLGQAISNGNDALGILQTADKAMDEQLKILDTIKTKATQAAQDGQSLKTRTMLQADINRLMEELDNIA 127 (572)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566777777777777777777777777777777776655555432 2233455556666655555555544
No 161
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=60.02 E-value=1.2e+02 Score=30.51 Aligned_cols=24 Identities=17% Similarity=0.093 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 69 ELDQIIKELDQIIKELDLIIKESN 92 (151)
Q Consensus 69 nLdQISK~LdQIsK~LdqISK~l~ 92 (151)
..++..+.++++-+.+..+.+.++
T Consensus 66 ~~~~~~~~i~~ap~~~~~~~~~l~ 89 (1109)
T PRK10929 66 RAKQYQQVIDNFPKLSAELRQQLN 89 (1109)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHH
Confidence 344444444444444444444444
No 162
>PF09392 MxiH: Type III secretion needle MxiH like; InterPro: IPR021123 This entry represents bacterial type III secretion system needle-like proteins. Type III secretion systems are essential virulence determinants for many Gram-negative bacterial pathogens, acting to translocate proteins, usually virulence factors, out across both inner and outer membranes of bacteria and into the cytoplasm of the host cell. These proteins include: Needle proteins, including MxiH, YscF, EscF, PscF, EprI, that form the needle of the injection apparatus. For instance, MxiH is an extracellular alpha helical needle that is required for translocation of effector proteins into host cells, and once inside, the effector proteins subvert normal cell function to aid infection []. YscI (Yop proteins translocation protein I) in Yersinia and HrpB (hypersensitivity response and pathogenicity protein B) in plant pathogens such as Pseudomonas syringae. YscI is involved in the translocation of Yop proteins across the bacterial membrane or in the specific control of this function. ; GO: 0009405 pathogenesis, 0015031 protein transport; PDB: 2UWJ_F 2CA5_B 3J0R_A 2P58_B 3ZQB_B 3ZQE_B 2G0U_A 2LPZ_S 2JOW_A 2X9C_A ....
Probab=59.85 E-value=53 Score=22.43 Aligned_cols=63 Identities=16% Similarity=0.290 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 79 QIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQI 141 (151)
Q Consensus 79 QIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI 141 (151)
+++.-.+.+++...++-..|+.-....+...|-+..-.|-+.+=.++.++|-.-.+...++-|
T Consensus 25 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~P~~ll~~Q~~l~qysl~~~l~sk~v~~~~q~i~~L 87 (90)
T PF09392_consen 25 ELSSAAQALSKKAQQAMRAMNSAANSSDPEDLLQLQFALSQYSLQVNLQSKLVKKMKQSIETL 87 (90)
T ss_dssp HHHHHHHHHHHSTHHHHHHH--HHSTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcccchhhhhhhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444454445555668888888888888888888887655544444443
No 163
>PHA01750 hypothetical protein
Probab=59.82 E-value=29 Score=25.45 Aligned_cols=34 Identities=18% Similarity=0.420 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 114 KKELDQMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 114 sK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
.++|+...+++.++-+..+.|++.+.+|.+++|.
T Consensus 41 ~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~dk 74 (75)
T PHA01750 41 NSELDNLKTEIEELKIKQDELSRQVEEIKRKLDK 74 (75)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcc
Confidence 3455555555555556666677777777777763
No 164
>PF00261 Tropomyosin: Tropomyosin; 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 [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=59.07 E-value=89 Score=24.77 Aligned_cols=43 Identities=21% Similarity=0.382 Sum_probs=28.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~~~ 150 (151)
.-.+.-.......-+.+|.+-..|...-.....+.+.|++.+.
T Consensus 190 ~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~~~~eld~~l~ 232 (237)
T PF00261_consen 190 NRAEFAERRVKKLEKEIDRLEDELEKEKEKYKKVQEELDQTLN 232 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555566666666777777777777777777777777653
No 165
>cd06225 HAMP Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The structure of the HAMP dimer from Archaeoglobus fulgidus has been solved using nuclear magnetic resonance, revealing a parallel four-helix bundle; this structure has been confirmed by cross-linking analysis of HAMP domains from the Escherichia coli aerotaxis receptor Aer. It has been suggested that the four-helix arrangement can rotate between the unusually packed conformation observed in the NMR structure and a canonical coiled-coil arrangement. Such rotation may coincide with signal transduction, but a common mechanism by which HAMP domains relay a variety of input signals has yet to be established.
Probab=58.60 E-value=9.8 Score=18.94 Aligned_cols=9 Identities=11% Similarity=0.187 Sum_probs=3.4
Q ss_pred HHHHHHHHH
Q psy18023 93 QVIKELNLI 101 (151)
Q Consensus 93 QiSk~L~qI 101 (151)
+++..+..+
T Consensus 7 ~l~~~~~~~ 15 (48)
T cd06225 7 RLAEAAQRI 15 (48)
T ss_pred HHHHHHHHH
Confidence 333333333
No 166
>COG1344 FlgL Flagellin and related hook-associated proteins [Cell motility and secretion]
Probab=58.08 E-value=1.1e+02 Score=25.58 Aligned_cols=63 Identities=22% Similarity=0.292 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhh---------hhhHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHhh
Q psy18023 87 IIKESNQVIKELNLIIKESNQ---------NKLDQIKKELDQMVKELDLTI------KELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 87 ISK~l~QiSk~L~qISKel~q---------k~LdqIsK~Ldqisk~ld~is------K~L~qIsk~l~qI~K~l~q~~ 149 (151)
|+..|..=+.+|+|.+..... ..|.++.+-|..|-.-+-+-. .....|-+++.++.++|+.|.
T Consensus 48 is~~l~~~~~~L~q~~~n~~~g~s~lqtae~aL~~~~~~lqrirelavqaan~t~s~~dr~~iq~Ei~~l~~el~~ia 125 (360)
T COG1344 48 IALRLRSQIRGLSQAKDNAQDGISKLQTAEGALSEISKILQRIKELAVQAANGTLSDADRAAIQKEIEQLLDELDNIA 125 (360)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444433 344444444444433333333 345566677777777776654
No 167
>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]
Probab=57.96 E-value=1.7e+02 Score=27.64 Aligned_cols=37 Identities=19% Similarity=0.153 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 67 KKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK 103 (151)
Q Consensus 67 sKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK 103 (151)
++||-.=.-.||||-+.|.+.-..+.+.+....++--
T Consensus 66 ~~~lr~gVfqlddi~~qlr~~rtel~~a~~~k~~~e~ 102 (499)
T COG4372 66 NRNLRSGVFQLDDIRPQLRALRTELGTAQGEKRAAET 102 (499)
T ss_pred hhhHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444555555555555555555555555443
No 168
>PRK10884 SH3 domain-containing protein; Provisional
Probab=57.68 E-value=1e+02 Score=24.96 Aligned_cols=37 Identities=14% Similarity=0.122 Sum_probs=19.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~ 146 (151)
+.+-.+...++-.+.+...++|.....+++....+++
T Consensus 127 ~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~ 163 (206)
T PRK10884 127 VAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLD 163 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333334444555555555566665555555555444
No 169
>PRK08026 flagellin; Validated
Probab=57.49 E-value=82 Score=29.17 Aligned_cols=72 Identities=18% Similarity=0.174 Sum_probs=48.6
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHHHHHHHHHHHHHHHHH
Q psy18023 58 VDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE-SNQNKLDQIKKELDQMVKELDLTIK 129 (151)
Q Consensus 58 ~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe-l~qk~LdqIsK~Ldqisk~ld~isK 129 (151)
.+.+.|+|..+|..+-+-.|..-...|..++..|..+.+-.-|-+-. +++..+..|..++.++..+++.|+.
T Consensus 56 sqi~~l~qa~rN~~dg~s~lqtAE~aL~~i~d~LqRmrELaVqAaNGT~S~~DR~aiq~Ei~qL~~eI~~ia~ 128 (529)
T PRK08026 56 SNIKGLTQAARNANDGISVAQTTEGALSEINNNLQRVRELTVQAATGTNSQSDLDSIQDEIKSRLDEIDRVSG 128 (529)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34567788888888877777777777887777777776655554332 3345666777777776666665543
No 170
>PF04136 Sec34: Sec34-like family ; InterPro: IPR007265 Sec34 and Sec35 form a sub-complex in a seven-protein complex that includes Dor1. This complex is thought to be important for tethering vesicles to the Golgi [].; GO: 0006886 intracellular protein transport, 0005801 cis-Golgi network, 0016020 membrane
Probab=57.47 E-value=84 Score=24.01 Aligned_cols=41 Identities=22% Similarity=0.357 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 67 KKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 67 sKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
...|.+.....+++..+.+.+...++.+...-..++...+.
T Consensus 6 ~~~L~~~~~~~~~ll~~~~~~~~~l~~l~~~~~~Vs~kT~~ 46 (157)
T PF04136_consen 6 LDYLQQYREECDQLLDQTDEILDQLDELQEQYNSVSEKTNS 46 (157)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 34455555566666666666666666666666666655544
No 171
>PRK12803 flagellin; Provisional
Probab=57.41 E-value=1e+02 Score=26.59 Aligned_cols=73 Identities=12% Similarity=0.100 Sum_probs=45.7
Q ss_pred hhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 56 CKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLII-KESNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 56 ~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS-Kel~qk~LdqIsK~Ldqisk~ld~is 128 (151)
.+-+...++|..+|+..-.-.|.--.-.|..+..-|.++-+-+-+-. -.+++.....|.++++++..++..|.
T Consensus 52 l~s~i~~l~q~~~Ni~~a~s~lqtae~aL~~i~~~LqrirELavqA~Ngt~s~~dR~ai~~Ei~qL~~~i~~ia 125 (335)
T PRK12803 52 INAQIRGLSQASRNTSKAINFIQTTEGNLNEVEKVLVRMKELAVQSGNGTYSDADRGSIQIEIEQLTDEINRIA 125 (335)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456778888888888887777777777777777777665444432 12333455555555555555555444
No 172
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=57.34 E-value=1.2e+02 Score=26.15 Aligned_cols=31 Identities=26% Similarity=0.452 Sum_probs=14.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
+..+.+.+.++.+.+..+...+.++-..+..
T Consensus 377 ~~~l~~~~~~l~~~~~~l~~~~~~l~~~l~~ 407 (451)
T PF03961_consen 377 LKKLKEKKKELKEELKELKEELKELKEELER 407 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444444444555555555555554444443
No 173
>PRK12805 flagellin; Provisional
Probab=57.26 E-value=1.1e+02 Score=25.05 Aligned_cols=73 Identities=18% Similarity=0.108 Sum_probs=47.1
Q ss_pred hhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 56 CKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK-ESNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 56 ~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK-el~qk~LdqIsK~Ldqisk~ld~is 128 (151)
.+.+...++|..+|...-.-.|..-...|..++.-|..+-+-+-+-.- .+++.....|..+++++..++..+.
T Consensus 52 l~~~~~~~~q~~~Ni~~~~s~l~~~e~~L~~i~~~l~r~rel~v~a~ngt~s~~dr~ai~~Ei~~l~~~i~~~a 125 (287)
T PRK12805 52 MNVKSTGLDAASKNSSMGIDLLQTADSALSSMSSILQRMRQLAVQSSNGSFSDEDRKQYTAEFGSLIKELDHVA 125 (287)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667888888888888888888888888888888776655444432 2333445555555555555544443
No 174
>PLN02678 seryl-tRNA synthetase
Probab=56.61 E-value=1.4e+02 Score=26.92 Aligned_cols=59 Identities=22% Similarity=0.226 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 80 IIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 80 IsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
+...++.+-..-|++||.+-+.- .+......+..+..++.+++...-+.++.+..++.+
T Consensus 45 l~~~~e~lr~erN~~sk~I~~~k--~~~~~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~~ 103 (448)
T PLN02678 45 RQFELDSLRKEFNKLNKEVAKLK--IAKEDATELIAETKELKKEITEKEAEVQEAKAALDA 103 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444455555555444321 111223333334444444444444444444333333
No 175
>PF14643 DUF4455: Domain of unknown function (DUF4455)
Probab=56.43 E-value=1.4e+02 Score=26.23 Aligned_cols=37 Identities=14% Similarity=0.246 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLII 102 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS 102 (151)
+++-..++.+.|+.+.+.|+..++.+.+.++.|-.+-
T Consensus 314 v~~~q~~~e~~le~l~~~~E~~a~~~~~~~~~L~~f~ 350 (473)
T PF14643_consen 314 VGELQSEFEEELEKLDKSFEELAKQTEAQSEDLFKFF 350 (473)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444445555555555555555554444444433
No 176
>cd07654 F-BAR_FCHSD The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH and double SH3 domains proteins (FCHSD). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of FCH and double SH3 domain (FCHSD) proteins, so named as they contain an N-terminal F-BAR domain and two SH3 domains at the C-terminus. Vertebrates harbor two subfamily members, FCHSD1 and FCHSD2, which have been characterized only in silico. Their biological function is still unknown. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=56.07 E-value=1.2e+02 Score=25.27 Aligned_cols=77 Identities=14% Similarity=0.147 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 70 LDQIIKELDQIIKELD-LIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 70 LdQISK~LdQIsK~Ld-qISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
++++++....++..|. +|+..+..++..+.++.|... .-+.++..+|....++|+-.-|.-.+--+...+-+.++++
T Consensus 79 t~~~A~~~~~~ae~l~~~i~~~l~~l~~~~~~~~Kk~~-e~~~~lq~el~~~~~eL~ksKK~Y~~~~~~~~~ar~K~~~ 156 (264)
T cd07654 79 LDAVAQSRQNRCEAYRRYISEPAKTGRSAKEQQLKKCT-EQLQRAQAEVQQTVRELSKSRKTYFEREQVAHLAREKAAD 156 (264)
T ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 4444444444444442 344444444444444444433 3344556666666666666666666555555555666554
No 177
>TIGR02550 flagell_flgL flagellar hook-associated protein 3. This protein family consists of flagellar hook-associated proteins designated FlgL (or HAP3) encoded in bacterial flagellar operons. A N-terminal region of about 150 residues and a C-terminal region of about 85 residues are conserved. Members show considerable length heterogeneity between these two well-conserved terminal regions; members of the family vary between 287 to over 500 residues in length. This model distinguishes FlgL from the flagellin gene product FliC.
Probab=55.67 E-value=1e+02 Score=24.32 Aligned_cols=86 Identities=17% Similarity=0.193 Sum_probs=51.2
Q ss_pred ccccccCChhHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhhhhHHHHHHH
Q psy18023 39 INLESSNGIEEQEMEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK-ESNQNKLDQIKKEL 117 (151)
Q Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK-el~qk~LdqIsK~L 117 (151)
++.-|.++..-.... .-+-....++|+.+|.+.-...|..-...|..+.+.|..+.+.+-+..- .+++..+..|..++
T Consensus 35 i~~~sddp~~~~~~~-~l~~~~~~~~~~~~n~~~~~~~l~~~~~~L~~i~~~l~~~~~~~v~a~ngt~~~~~~~~ia~e~ 113 (306)
T TIGR02550 35 INKPSDDPVAAAQAL-NLNQELAQLEQYQKNIDDAKNWLSQTETALSSVGDVLQRARELAVQAANGTLSDDDRKAIAKEI 113 (306)
T ss_pred CCCcccCHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHH
Confidence 444444444332211 1233456788888888888888888888888888888887765554432 33344455555555
Q ss_pred HHHHHHHH
Q psy18023 118 DQMVKELD 125 (151)
Q Consensus 118 dqisk~ld 125 (151)
.++..++.
T Consensus 114 ~~l~~~i~ 121 (306)
T TIGR02550 114 KQLLDQLV 121 (306)
T ss_pred HHHHHHHH
Confidence 55544443
No 178
>PRK08655 prephenate dehydrogenase; Provisional
Probab=55.51 E-value=73 Score=27.61 Aligned_cols=64 Identities=19% Similarity=0.226 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 72 QIIKELDQIIKELDLIIKESNQ-VIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIK 136 (151)
Q Consensus 72 QISK~LdQIsK~LdqISK~l~Q-iSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk 136 (151)
.+.+.+++|.+.|+++...+++ =.+.|.+.-+.. .+.+.+++..|..-.|-++.+..++.++-+
T Consensus 233 ~~~~~l~~~~~~l~~l~~~l~~~D~~~l~~~~~~a-~~~~~~~~~~~~~s~~~i~~~~~~~~~~~~ 297 (437)
T PRK08655 233 QIPEIHETFIKECEELSELVKNGDREEFVERMKEA-AKHFGDTERALGRSDKAIYALNQEFEKLLK 297 (437)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH-HHHhcccHhHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555544421 011222222221 133345666666666666666666555544
No 179
>PRK08411 flagellin; Reviewed
Probab=55.36 E-value=1.9e+02 Score=27.46 Aligned_cols=88 Identities=16% Similarity=0.208 Sum_probs=49.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHhhhh---------hhhHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKE-----------LDLIIKESNQVIKELNLIIKESNQ---------NKLDQIKKELDQMV 121 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~-----------LdqISK~l~QiSk~L~qISKel~q---------k~LdqIsK~Ldqis 121 (151)
.+..+.++..++++.++|++-- =-.|+..|..=...|+|..+-.++ ..|++|.+-|..|.
T Consensus 14 al~nL~~~~~~Ls~~~eqLSSGkRInsASDDPAGlAia~rL~sqi~~L~Qa~rNa~dgiS~LqtAEgAL~ei~diLqRiR 93 (572)
T PRK08411 14 AKANSDLNAKSLDASLSRLSSGLRINSAADDASGMAIADSLRSQANTLGQAISNGNDALGILQTADKAMDEQLKILDTIK 93 (572)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCccCCchhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666777777776631 123455555555566665555444 45555555555543
Q ss_pred HHHHHH------HHHHHHHHHHHHHHHHHHHHhh
Q psy18023 122 KELDLT------IKELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 122 k~ld~i------sK~L~qIsk~l~qI~K~l~q~~ 149 (151)
..+-+- ....+-|-.++.++.++|++|.
T Consensus 94 ELaVQAaNGT~S~~DR~AIq~EI~qL~eqI~~IA 127 (572)
T PRK08411 94 TKATQAAQDGQSLKTRTMLQADINRLMEELDNIA 127 (572)
T ss_pred HHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 222221 1245567777788877777765
No 180
>PF03114 BAR: BAR domain; InterPro: IPR004148 Endocytosis and intracellular transport involve several mechanistic steps: (1) for the internalisation of cargo molecules, the membrane needs to bend to form a vesicular structure, which requires membrane curvature and a rearrangement of the cytoskeleton; (2) following its formation, the vesicle has to be pinched off the membrane; (3) the cargo has to be subsequently transported through the cell and the vesicle must fuse with the correct cellular compartment. Members of the Amphiphysin protein family are key regulators in the early steps of endocytosis, involved in the formation of clathrin-coated vesicles by promoting the assembly of a protein complex at the plasma membrane and directly assist in the induction of the high curvature of the membrane at the neck of the vesicle. Amphiphysins contain a characteristic domain, known as the BAR (Bin-Amphiphysin-Rvs)-domain, which is required for their in vivo function and their ability to tubulate membranes []. The crystal structure of these proteins suggest the domain forms a crescent-shaped dimer of a three-helix coiled coil with a characteristic set of conserved hydrophobic, aromatic and hydrophilic amino acids. Proteins containing this domain have been shown to homodimerise, heterodimerise or, in a few cases, interact with small GTPases. ; GO: 0005515 protein binding, 0005737 cytoplasm; PDB: 4AVM_A 2D4C_C 1X03_A 1X04_A 2RND_A 2RMY_A 2FIC_A 2C08_A 2Z0V_A 3SOG_A ....
Probab=54.99 E-value=74 Score=22.57 Aligned_cols=33 Identities=9% Similarity=0.299 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 65 QIKKELDQIIKELDQIIKELDLIIKESNQVIKE 97 (151)
Q Consensus 65 QIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~ 97 (151)
+..++++.+-+.+..+.+++..+...+.....+
T Consensus 30 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 62 (229)
T PF03114_consen 30 ELEEKFKQLEESIKKLQKSLKKYLDSIKKLSAS 62 (229)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHH
Confidence 333444444444444444444444433333333
No 181
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=54.96 E-value=1.5e+02 Score=25.96 Aligned_cols=31 Identities=19% Similarity=0.419 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 119 QMVKELDLTIKELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 119 qisk~ld~isK~L~qIsk~l~qI~K~l~q~~ 149 (151)
.+..+...+.+.+...-+.+..+..++++++
T Consensus 70 ~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 100 (425)
T PRK05431 70 ALIAEVKELKEEIKALEAELDELEAELEELL 100 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555556666666665543
No 182
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=54.88 E-value=1.2e+02 Score=25.03 Aligned_cols=17 Identities=35% Similarity=0.536 Sum_probs=13.0
Q ss_pred HHHHHhcCCccCCCCCc
Q psy18023 18 ALFRMFDGLTPVTDGST 34 (151)
Q Consensus 18 ~~~~~~~~~~~~~~~~~ 34 (151)
|+..-==||+|+.||.+
T Consensus 83 aI~~snLglnP~~dG~~ 99 (187)
T COG0233 83 AILASNLGLNPNNDGNV 99 (187)
T ss_pred HHHHcCCCCCcCcCCCe
Confidence 44444459999999998
No 183
>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=54.85 E-value=1.4e+02 Score=25.85 Aligned_cols=79 Identities=13% Similarity=0.254 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhh--hh-----h---hhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 68 KELDQIIKELDQIIKELDLIIKESNQVIKELN---LIIKES--NQ-----N---KLDQIKKELDQMVKELDLTIKELNQI 134 (151)
Q Consensus 68 KnLdQISK~LdQIsK~LdqISK~l~QiSk~L~---qISKel--~q-----k---~LdqIsK~Ldqisk~ld~isK~L~qI 134 (151)
-+..+..++|+.-.+.+++.-+.++.+...+. .+...- +. + ++.++...|+...+.|+..-..|+++
T Consensus 74 ~~~~k~~~si~~q~~~i~~l~~~i~~l~~~i~~y~~~~~~~~~~~~~~~~n~~~~~~~~t~~la~~t~~L~~~~~~l~q~ 153 (301)
T PF06120_consen 74 ANIAKAEESIAAQKRAIEDLQKKIDSLKDQIKNYQQQLAEKGITENGYIINHLMSQADATRKLAEATRELAVAQERLEQM 153 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444455555555555555555554444442 221111 00 2 23455556666666666555555555
Q ss_pred HHHHHHHHHHHH
Q psy18023 135 IKELNQIIKELN 146 (151)
Q Consensus 135 sk~l~qI~K~l~ 146 (151)
...+..+.+.|+
T Consensus 154 ~~k~~~~q~~l~ 165 (301)
T PF06120_consen 154 QSKASETQATLN 165 (301)
T ss_pred HHHHHHHHHHHH
Confidence 555555555554
No 184
>PRK13588 flagellin B; Provisional
Probab=54.20 E-value=1.3e+02 Score=27.78 Aligned_cols=69 Identities=14% Similarity=0.200 Sum_probs=37.4
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE-SNQNKLDQIKKELDQMVKELDLT 127 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe-l~qk~LdqIsK~Ldqisk~ld~i 127 (151)
..+.|+|..+|..+-+-.|..-...|+.+.+-|..+-+-.-|-.-. +++.....|.+++.++..+++.+
T Consensus 57 qi~~l~Qa~~N~~dgis~lqtae~aL~~i~~iLqrireLavqAaNgt~s~~dR~aiq~Ei~qL~~eI~~i 126 (514)
T PRK13588 57 QSANLGQAIRNANDAIGMVQTADKAMDEQIKILDTIKTKAVQAAQDGQTLESRRALQSDIQRLLEELDNI 126 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666666666666666666666666666666655544443322 22244444555555544444443
No 185
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=54.20 E-value=67 Score=23.59 Aligned_cols=42 Identities=21% Similarity=0.237 Sum_probs=22.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE 104 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe 104 (151)
++.|-..||||.--||.+-+--|.+-..|-++.++-.|+-++
T Consensus 28 ~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e 69 (83)
T PF03670_consen 28 YAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLE 69 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555555555555555555444444443
No 186
>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=54.00 E-value=80 Score=22.71 Aligned_cols=43 Identities=14% Similarity=0.254 Sum_probs=30.1
Q ss_pred HHHHHhhhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 99 NLIIKESNQ-NKLDQIKKELDQMVKELDLTIKELNQIIKELNQI 141 (151)
Q Consensus 99 ~qISKel~q-k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI 141 (151)
++-.+++.. +.+.++...+..+...++.+...|..|.+.++=+
T Consensus 55 E~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lL 98 (106)
T PF10805_consen 55 ETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSHQLDLL 98 (106)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 333444433 7788888888888888888888887777666543
No 187
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=53.53 E-value=79 Score=23.36 Aligned_cols=31 Identities=35% Similarity=0.798 Sum_probs=16.6
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELDQIIKELDLIIKE 90 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~LdQIsK~LdqISK~ 90 (151)
|..++++.++|.+....|.++.+.+..+.+.
T Consensus 7 ~~~l~~le~~l~~l~~~~~~LK~~~~~l~EE 37 (107)
T PF06156_consen 7 FDRLDQLEQQLGQLLEELEELKKQLQELLEE 37 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555555555555555443
No 188
>PRK12718 flgL flagellar hook-associated protein FlgL; Provisional
Probab=53.50 E-value=1.3e+02 Score=27.60 Aligned_cols=33 Identities=12% Similarity=0.185 Sum_probs=14.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVI 95 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiS 95 (151)
++|..+|.+.....|.+-...|+.+.+.|..+.
T Consensus 59 ~eQY~~Ni~~A~~~L~~~EstL~sv~~~L~rir 91 (510)
T PRK12718 59 NSNYDANRKQAEQALGAQTNTLQSVVKNMQEML 91 (510)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444444443
No 189
>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots. Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].
Probab=53.45 E-value=1e+02 Score=23.63 Aligned_cols=43 Identities=9% Similarity=0.430 Sum_probs=28.1
Q ss_pred hhhhHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 107 QNKLDQIKKELDQMVKE--LDLTIKELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 107 qk~LdqIsK~Ldqisk~--ld~isK~L~qIsk~l~qI~K~l~q~~ 149 (151)
++++..+-++|..+... -..+..-+-.+...+..+.++|+.|.
T Consensus 100 ~~Ki~~le~~l~~f~~v~~q~~~~~D~~~l~~~~~e~~~kl~~i~ 144 (147)
T PF05659_consen 100 ARKIEELEESLRRFIQVDLQLHQLRDIKELLAKMSEMNTKLDDIT 144 (147)
T ss_pred HHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 37777788887777652 22333445556667778888888774
No 190
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=53.25 E-value=1.1e+02 Score=24.07 Aligned_cols=32 Identities=22% Similarity=0.242 Sum_probs=15.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELN 139 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~ 139 (151)
-+++++...|.+..-.|...-..|.++-..+.
T Consensus 78 ~s~~eLeq~l~~~~~~L~~~q~~l~~~~~~l~ 109 (240)
T PF12795_consen 78 LSLEELEQRLSQEQAQLQELQEQLQQENSQLI 109 (240)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555555444444444444333
No 191
>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6. In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.
Probab=53.03 E-value=1.8e+02 Score=26.33 Aligned_cols=8 Identities=38% Similarity=0.692 Sum_probs=4.0
Q ss_pred HHHHHhhh
Q psy18023 143 KELNQIVE 150 (151)
Q Consensus 143 K~l~q~~~ 150 (151)
++|+.|++
T Consensus 282 ~EL~~V~e 289 (424)
T PF03915_consen 282 SELQKVCE 289 (424)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 44555554
No 192
>TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.
Probab=52.97 E-value=1.9e+02 Score=26.70 Aligned_cols=36 Identities=25% Similarity=0.372 Sum_probs=18.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 109 KLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKE 144 (151)
Q Consensus 109 ~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~ 144 (151)
.+-+..++++++.++....-.......++|.+-.+.
T Consensus 213 ~i~~~~~e~d~lk~e~~~~~~~i~~~~~~l~~~~~~ 248 (555)
T TIGR03545 213 ELQKIKEEFDKLKKEGKADKQKIKSAKNDLQNDKKQ 248 (555)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 444666666666666555444444444444433333
No 193
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=52.89 E-value=2.1e+02 Score=27.17 Aligned_cols=11 Identities=27% Similarity=0.365 Sum_probs=6.0
Q ss_pred HHHHHHHHHhc
Q psy18023 14 RHYFALFRMFD 24 (151)
Q Consensus 14 ~~~~~~~~~~~ 24 (151)
-||..+...+.
T Consensus 447 TH~~el~~~~~ 457 (782)
T PRK00409 447 THYKELKALMY 457 (782)
T ss_pred CChHHHHHHHh
Confidence 36666655443
No 194
>smart00397 t_SNARE Helical region found in SNAREs. All alpha-helical motifs that form twisted and parallel four-helix bundles in target soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptor proteins. This motif found in "Q-SNAREs".
Probab=52.89 E-value=47 Score=19.73 Aligned_cols=51 Identities=22% Similarity=0.234 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHH
Q psy18023 81 IKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKEL 131 (151)
Q Consensus 81 sK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L 131 (151)
...++.+++.+..+..-..+|.-++.+ .-|+.|...++.+...+....+.|
T Consensus 11 ~~~l~~l~~~i~~l~~l~~~i~~~v~~Q~~~ld~i~~~~d~~~~~~~~~~~~l 63 (66)
T smart00397 11 DEELEQLEKSIGELKQIFLDMGTELEEQGEQLDRIEDNVDDADVNLKKANKRL 63 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 344444444444444444444444443 345555555555555544444433
No 195
>PF04163 Tht1: Tht1-like nuclear fusion protein ; InterPro: IPR007292 Nuclear fusion protein KAR5 is an integral membrane protein that is thought to be required for the fusion of nuclear envelopes during karyogamy.
Probab=52.28 E-value=2e+02 Score=26.82 Aligned_cols=15 Identities=27% Similarity=0.570 Sum_probs=6.6
Q ss_pred hHHHHHHHHHHHHHH
Q psy18023 110 LDQIKKELDQMVKEL 124 (151)
Q Consensus 110 LdqIsK~Ldqisk~l 124 (151)
..++++.|..+++.+
T Consensus 338 ~~~lke~L~~ls~~l 352 (544)
T PF04163_consen 338 TSQLKEQLQSLSRKL 352 (544)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444444
No 196
>PF11657 Activator-TraM: Transcriptional activator TraM
Probab=52.13 E-value=1.1e+02 Score=23.92 Aligned_cols=34 Identities=24% Similarity=0.354 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q psy18023 87 IIKESNQVIKELNLIIKESNQNKLDQIKKELDQM 120 (151)
Q Consensus 87 ISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqi 120 (151)
++..|....+.|+++..+..+..-.-++++.+..
T Consensus 74 L~aal~~ske~m~~~l~e~~~~~~~avk~~i~~~ 107 (144)
T PF11657_consen 74 LNAALAASKEAMNKILQESAQEIVEAVKSEIDNS 107 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444455555555555554444444443333
No 197
>PRK08913 flgL flagellar hook-associated protein FlgL; Validated
Probab=52.11 E-value=1.2e+02 Score=24.15 Aligned_cols=42 Identities=7% Similarity=0.077 Sum_probs=32.0
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNL 100 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~q 100 (151)
..+.++|+.+|.+...-.|..-...|..|...+..+.+-+-+
T Consensus 57 ~~~~~~q~~~ni~~a~~~l~~~e~aL~~i~~~l~~~r~l~v~ 98 (301)
T PRK08913 57 SVTRAQSYIDAATLAQSKVQVMYSAVGQIADLAQQLRSSLSA 98 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456778888888888888888888888888877777765544
No 198
>PF04108 APG17: Autophagy protein Apg17 ; InterPro: IPR007240 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Autophagy protein 17 (Apg17) is required for activating Apg1 protein kinases. This entry also contains Autophagy protein 11 which is involved in cytoplasm to vacuole transport (Cvt) and pexophagy. ; GO: 0006914 autophagy
Probab=51.83 E-value=1.6e+02 Score=25.53 Aligned_cols=33 Identities=24% Similarity=0.325 Sum_probs=14.0
Q ss_pred HHhhhhhccccchHHHHHHHHHHHHHHHHHHHH
Q psy18023 51 EMEKECKVDFNKLDQIKKELDQIIKELDQIIKE 83 (151)
Q Consensus 51 ~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~ 83 (151)
||-+--.-|-+-++.+-+.|......|++....
T Consensus 241 e~l~Vl~~Da~El~~V~~el~~~~~~~~~~~~~ 273 (412)
T PF04108_consen 241 EMLEVLENDAQELPDVVKELQERLDEMENNEER 273 (412)
T ss_pred HHHHHHHcchhhHHHHHHHHHHHHHHHHHHHHH
Confidence 333333334444444444444444444444333
No 199
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=51.81 E-value=70 Score=21.38 Aligned_cols=24 Identities=4% Similarity=0.326 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 117 LDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 117 Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
.+.+++......+++..+.+....
T Consensus 73 ~~KL~~df~~~l~~fq~~q~~~~~ 96 (102)
T PF14523_consen 73 REKLSRDFKEALQEFQKAQRRYAE 96 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444433
No 200
>PF04129 Vps52: Vps52 / Sac2 family ; InterPro: IPR007258 Vps52 complexes with Vps53 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=51.75 E-value=1.7e+02 Score=25.98 Aligned_cols=6 Identities=33% Similarity=0.385 Sum_probs=2.1
Q ss_pred HHHHHH
Q psy18023 83 ELDLII 88 (151)
Q Consensus 83 ~LdqIS 88 (151)
+|..+|
T Consensus 43 ~L~~iS 48 (508)
T PF04129_consen 43 DLGSIS 48 (508)
T ss_pred HHHHHH
Confidence 333333
No 201
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=51.23 E-value=58 Score=22.34 Aligned_cols=37 Identities=24% Similarity=0.442 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 112 QIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 112 qIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
-+.+.+..+.+.++...+.++.+..+++++...+++.
T Consensus 81 ~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~ 117 (120)
T PF02996_consen 81 FLKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQQL 117 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555556666666666666666655554
No 202
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=50.88 E-value=53 Score=28.26 Aligned_cols=38 Identities=8% Similarity=0.405 Sum_probs=17.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l 145 (151)
..++++...+..+-..+..+...+....+.+.....+|
T Consensus 144 ~Ri~e~Eeris~lEd~~~~i~~~~~~~~k~i~~l~~kl 181 (370)
T PF02994_consen 144 SRIDELEERISELEDRIEEIEQAIKELEKRIKKLEDKL 181 (370)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 34555555555555555444444444444443333333
No 203
>PRK11281 hypothetical protein; Provisional
Probab=50.23 E-value=1.3e+02 Score=30.19 Aligned_cols=57 Identities=19% Similarity=0.260 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh--------hhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 78 DQIIKELDLIIKESNQVIKELNLIIKE--------SNQNKLDQIKKELDQMVKELDLTIKELNQI 134 (151)
Q Consensus 78 dQIsK~LdqISK~l~QiSk~L~qISKe--------l~qk~LdqIsK~Ldqisk~ld~isK~L~qI 134 (151)
++..+.+++.-+.+.+..+.|+...++ ...-++.++...|.+....|.+.-+.|++.
T Consensus 83 ~~L~k~l~~Ap~~l~~a~~~Le~Lk~~~~~~~~~~~~~~Sl~qLEq~L~q~~~~Lq~~Q~~La~~ 147 (1113)
T PRK11281 83 EQLKQQLAQAPAKLRQAQAELEALKDDNDEETRETLSTLSLRQLESRLAQTLDQLQNAQNDLAEY 147 (1113)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHhhccccccccccccccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555666666655543 222445666666666666666655555554
No 204
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=50.22 E-value=1.8e+02 Score=27.44 Aligned_cols=8 Identities=13% Similarity=0.709 Sum_probs=3.0
Q ss_pred hhHHHHHH
Q psy18023 109 KLDQIKKE 116 (151)
Q Consensus 109 ~LdqIsK~ 116 (151)
-|++|-..
T Consensus 298 ~L~~ve~R 305 (557)
T COG0497 298 RLEEVEER 305 (557)
T ss_pred HHHHHHHH
Confidence 33333333
No 205
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=50.13 E-value=1.6e+02 Score=24.89 Aligned_cols=22 Identities=9% Similarity=0.161 Sum_probs=8.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIK 129 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK 129 (151)
+.+.+...+++..-+....+..
T Consensus 89 ~e~~aL~~E~~~ak~r~~~le~ 110 (239)
T COG1579 89 RELRALNIEIQIAKERINSLED 110 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333
No 206
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=50.06 E-value=44 Score=24.72 Aligned_cols=10 Identities=20% Similarity=0.321 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q psy18023 137 ELNQIIKELN 146 (151)
Q Consensus 137 ~l~qI~K~l~ 146 (151)
+-+..++.|.
T Consensus 44 EN~~Lr~~l~ 53 (107)
T PF06156_consen 44 ENEHLRERLE 53 (107)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 207
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=49.80 E-value=1.5e+02 Score=24.44 Aligned_cols=28 Identities=18% Similarity=0.286 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 112 QIKKELDQMVKELDLTIKELNQIIKELN 139 (151)
Q Consensus 112 qIsK~Ldqisk~ld~isK~L~qIsk~l~ 139 (151)
+.+..|.++..|+.++...++..+.-++
T Consensus 217 ~~~~~l~dv~~~~~~~~~~~~~~~~~l~ 244 (322)
T COG0598 217 EDREYLRDVLDHLTQLIEMLEALRERLS 244 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444455554444444444444433
No 208
>PF07083 DUF1351: Protein of unknown function (DUF1351); InterPro: IPR009785 This entry is represented by Lactobacillus prophage Lj928, Orf309. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacterial and phage proteins of around 230 residues in length. The function of this family is unknown.
Probab=49.73 E-value=1.3e+02 Score=23.94 Aligned_cols=87 Identities=17% Similarity=0.331 Sum_probs=42.2
Q ss_pred hccccchHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHhhhh---hhhHHHHHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQI------IKELDLIIKESNQVIKELNLIIKESNQ---NKLDQIKKELDQMVKELDLT 127 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQI------sK~LdqISK~l~QiSk~L~qISKel~q---k~LdqIsK~Ldqisk~ld~i 127 (151)
.++|...++++++++...+....+ .++--..-..||-+.+.|+.--|+..- +-++++.+.+..+..-++..
T Consensus 11 ~I~~~n~e~lk~~v~~~~~~Y~~~vvTee~ik~aKk~rA~LNKl~k~id~~RK~ikk~~~~P~~~Fe~~~K~l~~~i~~~ 90 (215)
T PF07083_consen 11 VIEIFNFEELKAEVDEAVEKYKGYVVTEENIKDAKKDRAELNKLKKAIDDKRKEIKKEYSKPIKEFEAKIKELIAPIDEA 90 (215)
T ss_pred eeecCCHHHHHHHHHHHHHHhCCcccChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHH
Confidence 345556677777777666555321 222222333344444444443333332 44555555555555555555
Q ss_pred HHHHHHHHHHHHHHHH
Q psy18023 128 IKELNQIIKELNQIIK 143 (151)
Q Consensus 128 sK~L~qIsk~l~qI~K 143 (151)
+..++.-++...+-+|
T Consensus 91 ~~~I~~~ik~~Ee~~k 106 (215)
T PF07083_consen 91 SDKIDEQIKEFEEKEK 106 (215)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5555555555444333
No 209
>PRK12584 flagellin A; Reviewed
Probab=49.45 E-value=1.7e+02 Score=26.60 Aligned_cols=70 Identities=11% Similarity=0.119 Sum_probs=41.0
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE-SNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe-l~qk~LdqIsK~Ldqisk~ld~is 128 (151)
..+.|+|..+|..+-...|..-...|..+.+-|..+.+-+-|-+-. +++.....|.+++.++..+++.|.
T Consensus 57 ~i~~l~q~~~N~~~g~s~lqtae~aL~~i~~~Lqr~relavqaangt~s~~dR~ai~~Ei~~L~~ei~~ia 127 (510)
T PRK12584 57 QASSLGQAIANTNDGMGIIQVADKAMDEQLKILDTIKVKATQAAQDGQTTESRKAIQSDIVRLIQGLDNIG 127 (510)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456777777777777667666777777776666666554444322 233445555555555555555443
No 210
>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=49.04 E-value=1.2e+02 Score=23.42 Aligned_cols=31 Identities=19% Similarity=0.024 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 65 QIKKELDQIIKELDQIIKELDLIIKESNQVI 95 (151)
Q Consensus 65 QIsKnLdQISK~LdQIsK~LdqISK~l~QiS 95 (151)
.+.|....+.+....+..++..+.+..+.|+
T Consensus 32 ~~~kv~~Rl~kr~~el~~~~~efg~~~~~ls 62 (200)
T cd07624 32 TIERISQRIHKERIEYFDELKEYSPIFQLWS 62 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333334444444443333333
No 211
>cd07638 BAR_ACAP2 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP2 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 2), also called centaurin beta-2, is an Arf6-specific GTPase activating protein (GAP) which mediates Arf6 signaling. Arf6 is involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration. ACAP2 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=48.92 E-value=1.4e+02 Score=24.15 Aligned_cols=43 Identities=14% Similarity=0.233 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 65 QIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 65 QIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
.+...++++.|..-.+.......+......+.+|.+..+..++
T Consensus 13 ~Le~~l~Kl~K~~~~~~dag~~~~~a~~~F~~~l~d~~~~~~~ 55 (200)
T cd07638 13 ELELKLDKLVKLCIGMIDAGKAFCQANKQFMNGIRDLAQYSSK 55 (200)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 3444555555555555555555555555555555555554433
No 212
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=48.85 E-value=2e+02 Score=25.72 Aligned_cols=24 Identities=8% Similarity=0.119 Sum_probs=10.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 109 KLDQIKKELDQMVKELDLTIKELN 132 (151)
Q Consensus 109 ~LdqIsK~Ldqisk~ld~isK~L~ 132 (151)
.+..+...++++...++.....+.
T Consensus 105 ~~~~~~~~~~~~~~~~~~~~~~~~ 128 (968)
T TIGR02956 105 LLARLEVLVKDIIDTLAQLGLSVG 128 (968)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444443
No 213
>PRK13858 type IV secretion system T-DNA border endonuclease VirD1; Provisional
Probab=48.71 E-value=1.4e+02 Score=23.87 Aligned_cols=41 Identities=17% Similarity=0.181 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhhhhhh---hHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 94 VIKELNLIIKESNQNK---LDQIKKELDQMVKELDLTIKELNQI 134 (151)
Q Consensus 94 iSk~L~qISKel~qk~---LdqIsK~Ldqisk~ld~isK~L~qI 134 (151)
++--||||.|..|+.. +.++..+=-+.-+++++..--|.-|
T Consensus 85 ianNLNQLAr~aN~~~~~~~~~l~~er~~~g~~~~~l~~~l~~~ 128 (147)
T PRK13858 85 LSSNIAALLSAYAENPRPDLEALRAERIAFGKEFADLDGLLRSI 128 (147)
T ss_pred HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444433 5555555555555555544444433
No 214
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=48.56 E-value=2.1e+02 Score=25.86 Aligned_cols=36 Identities=19% Similarity=0.487 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 112 QIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 112 qIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
+..+.++.+.+++..+.+.++++..+++.+.+.+.+
T Consensus 90 ~~~~~~~~~~~~i~~l~~~~~~L~~~~~~l~~~~~~ 125 (646)
T PRK05771 90 DVEEELEKIEKEIKELEEEISELENEIKELEQEIER 125 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555666666666666666655555555554443
No 215
>PF13514 AAA_27: AAA domain
Probab=48.41 E-value=2.6e+02 Score=26.97 Aligned_cols=30 Identities=27% Similarity=0.417 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 119 QMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 119 qisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
.....++...+.+.+....+..+.+.+..+
T Consensus 805 ~l~~~~~~~~~~~~~~~~~l~~~~~~l~~L 834 (1111)
T PF13514_consen 805 RLQEQLEELEEELEQAEEELEELEAELAEL 834 (1111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444444444444443
No 216
>PRK12808 flagellin; Provisional
Probab=48.14 E-value=1.7e+02 Score=27.32 Aligned_cols=71 Identities=7% Similarity=0.052 Sum_probs=42.7
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 58 VDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE-SNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 58 ~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe-l~qk~LdqIsK~Ldqisk~ld~is 128 (151)
...+.++|..+|..+-.-.|..-.-.|..++.-|..+.+-.-|-.-. +++.....|..++.++..+++.|.
T Consensus 54 sqiagL~Qa~rNi~dgiS~LQTAEgAL~eIsdILQRmRELAVQAANGT~S~~DRaAIq~EI~qLleeI~~IA 125 (476)
T PRK12808 54 ARESGLGVAANNTQDGMSLIRTADSAMNSVSNILLRMRDIANQSANGTNTDKNQAALQKEFAELQKQITYIA 125 (476)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 34466777777777777777666677777776666665544443322 233455556666666665555554
No 217
>PRK13589 flagellin; Provisional
Probab=47.78 E-value=1.7e+02 Score=27.96 Aligned_cols=70 Identities=14% Similarity=0.183 Sum_probs=37.9
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHHHHHHHHHHHHHHH
Q psy18023 58 VDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE-SNQNKLDQIKKELDQMVKELDLT 127 (151)
Q Consensus 58 ~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe-l~qk~LdqIsK~Ldqisk~ld~i 127 (151)
-..+.|+|..+|..+-.-.|..-...|+.+.+-|..+-+-+-|-.-. .++....-|.+++.++..+++.|
T Consensus 56 sQi~gL~Qa~rNandgiS~LQTAEgAL~ei~diLQRmRELAVQAANGT~S~~DR~AIq~El~qL~eeI~~I 126 (576)
T PRK13589 56 SQAATLGQAINNGNDAIGILQTADKAMDEQLKILDTIKTKATQAAQDGQSLKTRTMLQADINRLMEELDNI 126 (576)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666666666666666666666666666666655544443321 22234444555555544444444
No 218
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=47.72 E-value=1e+02 Score=22.16 Aligned_cols=20 Identities=15% Similarity=0.034 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy18023 74 IKELDQIIKELDLIIKESNQ 93 (151)
Q Consensus 74 SK~LdQIsK~LdqISK~l~Q 93 (151)
.+.-.++..++..+...++.
T Consensus 31 ~k~~~~l~~~~~elg~~~~~ 50 (218)
T cd07596 31 VKRRRELGSALGEFGKALIK 50 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333
No 219
>PRK08869 flagellin; Reviewed
Probab=47.68 E-value=1.8e+02 Score=25.00 Aligned_cols=70 Identities=9% Similarity=0.048 Sum_probs=38.4
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE-SNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe-l~qk~LdqIsK~Ldqisk~ld~is 128 (151)
..+.++|..+|..+-.-.|..-...|.++..-|..+-+-.-|-.-. +++.....|.++++++..+++.+.
T Consensus 56 ~~~~~~q~~~N~~~~~s~lq~ae~aL~~i~~~L~r~reLavqa~Ngt~s~~dr~ai~~E~~~L~~~i~~ia 126 (376)
T PRK08869 56 QIRGLDVAVRNANDGISIAQTAEGAMNETTNILQRMRDLSLQSANGSNSASDRQALQEEVTALNDELNRIA 126 (376)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666666666666666666666666666655444443322 233445555555555555555443
No 220
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=47.52 E-value=1.3e+02 Score=23.18 Aligned_cols=36 Identities=14% Similarity=0.135 Sum_probs=16.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKEL 98 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L 98 (151)
++...+...+..+-+.+..+.|.+..+.-.++.+..
T Consensus 71 l~~Ae~~~~eA~~~~~eye~~L~~Ar~EA~~ii~~A 106 (181)
T PRK13454 71 LAAAEELKQKAVEAEKAYNKALADARAEAQRIVAET 106 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444444444443
No 221
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=47.16 E-value=88 Score=21.42 Aligned_cols=36 Identities=22% Similarity=0.409 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLI 101 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qI 101 (151)
+.+.++.+.+.++.+.+.++.+...++++...|.+.
T Consensus 82 l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~ 117 (120)
T PF02996_consen 82 LKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQQL 117 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555555555555555444443
No 222
>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=47.10 E-value=2e+02 Score=25.16 Aligned_cols=80 Identities=19% Similarity=0.249 Sum_probs=38.6
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----------hhhhhHHHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKES----------NQNKLDQIKKELDQMVKELDLTIKEL 131 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel----------~qk~LdqIsK~Ldqisk~ld~isK~L 131 (151)
.++.+.+.+.+....++.+...++-....+ +-|+.+.+.. +...+.++.+-++-+...+..+...+
T Consensus 72 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 (525)
T TIGR02231 72 RLAELRKQIRELEAELRDLEDRGDALKALA----KFLEDIREGLTEPIKDSAKRNEPDLKEWFQAFDFNGSEIERLLTED 147 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666666666655444433333 3333333211 12345555555555555554444444
Q ss_pred HHHHHHHHHHHHHH
Q psy18023 132 NQIIKELNQIIKEL 145 (151)
Q Consensus 132 ~qIsk~l~qI~K~l 145 (151)
.++.+.+.++.++|
T Consensus 148 ~~~~~~~~~~~~~l 161 (525)
T TIGR02231 148 REAERRIRELEKQL 161 (525)
T ss_pred HHHHHHHHHHHHHH
Confidence 44444444444443
No 223
>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=46.92 E-value=3.2e+02 Score=27.54 Aligned_cols=87 Identities=10% Similarity=0.079 Sum_probs=42.2
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh------hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ------NKLDQIKKELDQMVKELDLTIKELNQI 134 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q------k~LdqIsK~Ldqisk~ld~isK~L~qI 134 (151)
+.+.+-...+.+....++....++++.....++.-+.+......+.. .-.++|...|++.-..|+.+-+++...
T Consensus 868 ~~L~~A~~~~~~a~~~le~ae~~l~~~~~e~~~~~~e~~~a~~~l~~l~e~l~~~~eel~a~L~e~r~rL~~l~~el~~~ 947 (1353)
T TIGR02680 868 RELRHAATRAAEQRARAARAESDAREAAEDAAEARAEAEEASLRLRTLEESVGAMVDEIRARLAETRAALASGGRELPRL 947 (1353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333444444444444444444444433333333332 115566666666666666666666666
Q ss_pred HHHHHHHHHHHHH
Q psy18023 135 IKELNQIIKELNQ 147 (151)
Q Consensus 135 sk~l~qI~K~l~q 147 (151)
.+.+....+++..
T Consensus 948 ~~~~~~a~~~~~~ 960 (1353)
T TIGR02680 948 AEALATAEEARGR 960 (1353)
T ss_pred HHHHHHHHHHHHH
Confidence 6666555554443
No 224
>KOG0244|consensus
Probab=46.89 E-value=93 Score=31.17 Aligned_cols=21 Identities=43% Similarity=0.632 Sum_probs=14.9
Q ss_pred cCCccCCCCCccchhccccccC
Q psy18023 24 DGLTPVTDGSTEESEINLESSN 45 (151)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~ 45 (151)
.+++||..| |+++-.+..+++
T Consensus 431 ~~~~~v~~~-~~e~~~~~~~~~ 451 (913)
T KOG0244|consen 431 KPLEPVDSG-TEEIGMNTDTSG 451 (913)
T ss_pred ccccccccc-cccccccccCCC
Confidence 357888887 777777776653
No 225
>PF03639 Glyco_hydro_81: Glycosyl hydrolase family 81 ; InterPro: IPR005200 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is a family of eukaryotic beta-1,3-glucanases belonging to glycoside hydrolase family 81 (GH81 from CAZY).; GO: 0033903 endo-1,3(4)-beta-glucanase activity, 0016998 cell wall macromolecule catabolic process
Probab=46.82 E-value=5.7 Score=36.75 Aligned_cols=24 Identities=50% Similarity=0.908 Sum_probs=21.4
Q ss_pred HHHHHHHHhc---------CCccCCCCCccchh
Q psy18023 15 HYFALFRMFD---------GLTPVTDGSTEESE 38 (151)
Q Consensus 15 ~~~~~~~~~~---------~~~~~~~~~~~~~~ 38 (151)
-||..||.|| |++|..||..+||.
T Consensus 499 ~~FP~~R~FDwy~GHSWA~Gl~~~~dGknqESs 531 (695)
T PF03639_consen 499 PYFPFFRNFDWYHGHSWASGLFEFADGKNQESS 531 (695)
T ss_pred CcccccccccccCCCccccccCcCCCCcccccc
Confidence 4899999998 99999999988873
No 226
>PRK06819 flagellin; Validated
Probab=46.65 E-value=2e+02 Score=25.37 Aligned_cols=70 Identities=19% Similarity=0.191 Sum_probs=38.2
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK-ESNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK-el~qk~LdqIsK~Ldqisk~ld~is 128 (151)
....+.|..+|..+-.-.|.--...|..+...|..+-+-.-|-.- .+++.....|.++++++..+++.+.
T Consensus 57 qi~~l~qa~~N~~dgis~Lqtae~aL~~i~~iLqR~reLavqAaNgT~s~~dR~ai~~Ei~qL~~qI~~ia 127 (376)
T PRK06819 57 NIKGLTQAARNANDGISIAQTTEGALNEINNNLQRVRELTVQAQNGSNSSSDLDSIQDEISQRLAEIDRVS 127 (376)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666666666666666666666665554444321 1233445555555555555555444
No 227
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=46.55 E-value=88 Score=20.98 Aligned_cols=76 Identities=18% Similarity=0.411 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhhHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 73 IIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-NKLDQIKK--ELDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 73 ISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-k~LdqIsK--~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
++-.++++...+.....+=......++....+|.. +...++.. .++.-.+-|..+-|.+..+...+..+.+.++.+
T Consensus 12 l~P~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~~~~~~~~~~~~~y~~KL~~ikkrm~~l~~~l~~lk~R~~~L 90 (92)
T PF14712_consen 12 LEPDLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNEVEQINEPFDLDPYVKKLVNIKKRMSNLHERLQKLKKRADKL 90 (92)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33445555555555555555555555555555543 33233331 233344555666666666666666666665543
No 228
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=46.36 E-value=1.1e+02 Score=21.92 Aligned_cols=52 Identities=15% Similarity=0.153 Sum_probs=27.6
Q ss_pred hhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 55 ECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESN 106 (151)
Q Consensus 55 ~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~ 106 (151)
.+||-|=.++.+-.+......-..++.+....+.+.++...+.|...-+.+.
T Consensus 16 ~~kIa~Vd~~~v~~~~~~~k~~~~~l~~~~~~~~~~l~~~~~el~~~~~~l~ 67 (158)
T PF03938_consen 16 SPKIAVVDVDKVFQESPAGKDAQAKLQEKFKALQKELQAKQKELQKLQQKLQ 67 (158)
T ss_dssp --CEEEE-HHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred cCcEEEeeHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555555555555555555566666666666555544433
No 229
>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=46.23 E-value=95 Score=21.28 Aligned_cols=43 Identities=19% Similarity=0.206 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 65 QIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 65 QIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
.|.++++...+...+..+-+++..+.+.+.-..-..|.+....
T Consensus 34 ~I~~~~~~a~~~~~ea~~~~~e~~~~l~~a~~ea~~i~~~a~~ 76 (132)
T PF00430_consen 34 KIQSELEEAEELKEEAEQLLAEYEEKLAEAREEAQEIIEEAKE 76 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCH
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555555555555555555555555544444
No 230
>PRK07192 flgL flagellar hook-associated protein FlgL; Reviewed
Probab=46.21 E-value=1.5e+02 Score=23.67 Aligned_cols=43 Identities=9% Similarity=0.067 Sum_probs=31.6
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLI 101 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qI 101 (151)
..+.++++..|.+.....|..-...|..+++.|..+.+-+-+.
T Consensus 55 ~~~~~~~~~~n~~~a~~~l~~~d~~L~~i~~~l~~~r~~~v~a 97 (305)
T PRK07192 55 EQSNNSQYADNIANLSNSLNNQEGHLSGVNDQLQSIRSLLVAA 97 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456777788888888888888888877777777777665554
No 231
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=46.03 E-value=2.3e+02 Score=25.68 Aligned_cols=23 Identities=35% Similarity=0.400 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 117 LDQMVKELDLTIKELNQIIKELN 139 (151)
Q Consensus 117 Ldqisk~ld~isK~L~qIsk~l~ 139 (151)
|++-.+.|+.-.+.|++..+.+.
T Consensus 106 Le~ke~~L~~re~eLee~~~e~~ 128 (514)
T TIGR03319 106 LEKKEKELSNKEKNLDEKEEELE 128 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333
No 232
>KOG0964|consensus
Probab=45.89 E-value=3.7e+02 Score=28.02 Aligned_cols=9 Identities=44% Similarity=0.752 Sum_probs=3.4
Q ss_pred hHHHHHHHH
Q psy18023 110 LDQIKKELD 118 (151)
Q Consensus 110 LdqIsK~Ld 118 (151)
|..|.-+|.
T Consensus 750 Le~i~~~l~ 758 (1200)
T KOG0964|consen 750 LEEIKTSLH 758 (1200)
T ss_pred HHHHHHHHH
Confidence 333333333
No 233
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=45.86 E-value=1.2e+02 Score=22.77 Aligned_cols=32 Identities=31% Similarity=0.641 Sum_probs=18.7
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELDQIIKELDLIIKES 91 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l 91 (151)
|..++++..++.++.+.|.++.+.+..+.+.=
T Consensus 7 fd~l~~le~~l~~l~~el~~LK~~~~el~EEN 38 (110)
T PRK13169 7 FDALDDLEQNLGVLLKELGALKKQLAELLEEN 38 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666666665555555443
No 234
>COG1511 Predicted membrane protein [Function unknown]
Probab=45.45 E-value=2.7e+02 Score=26.24 Aligned_cols=43 Identities=9% Similarity=0.119 Sum_probs=26.5
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLII 102 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS 102 (151)
|.++..+.+++.+....+.++-+.++.+.......+..++...
T Consensus 170 ~~~i~~~~~~~~~~~d~~~~l~~~~~~~~~~~~~~~~~~~~~~ 212 (780)
T COG1511 170 FPTIYDLGGGVKGAADGAEKLKDGTDEASNGNKKLSDLLNTLN 212 (780)
T ss_pred HHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhhhhhhhHHHHHH
Confidence 5666677777777666666666666666655555555444433
No 235
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=45.35 E-value=1.5e+02 Score=23.44 Aligned_cols=25 Identities=16% Similarity=0.348 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 69 ELDQIIKELDQIIKELDLIIKESNQ 93 (151)
Q Consensus 69 nLdQISK~LdQIsK~LdqISK~l~Q 93 (151)
..++++..++.+...+..+-+.+++
T Consensus 86 ~~~~~~~~l~~L~~ri~~L~~~i~e 110 (247)
T PF06705_consen 86 KQEQLQSRLDSLNDRIEALEEEIQE 110 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444443333333
No 236
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=45.26 E-value=2e+02 Score=24.84 Aligned_cols=20 Identities=35% Similarity=0.508 Sum_probs=13.7
Q ss_pred hccccchHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKE 76 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~ 76 (151)
--|...||.-++||++-..-
T Consensus 91 t~dIk~LD~AKrNLT~SIT~ 110 (383)
T PF04100_consen 91 TRDIKQLDNAKRNLTQSITT 110 (383)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34777788888888776543
No 237
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=45.24 E-value=1.5e+02 Score=23.42 Aligned_cols=21 Identities=5% Similarity=0.137 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy18023 127 TIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 127 isK~L~qIsk~l~qI~K~l~q 147 (151)
+..+++++...++..+..+++
T Consensus 221 v~~~~~~l~~~~~~~~e~l~~ 241 (318)
T TIGR00383 221 IYDHILSLLEMIETYRELLSS 241 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333334444433333333333
No 238
>PHA01750 hypothetical protein
Probab=44.98 E-value=1.2e+02 Score=22.34 Aligned_cols=46 Identities=22% Similarity=0.405 Sum_probs=32.7
Q ss_pred HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 94 VIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELN 139 (151)
Q Consensus 94 iSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~ 139 (151)
|-.+|.+-.|+.-++.||...+++.++-+..|.++....+|-|.|+
T Consensus 28 IKq~lkdAvkeIV~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~d 73 (75)
T PHA01750 28 IKQALKDAVKEIVNSELDNLKTEIEELKIKQDELSRQVEEIKRKLD 73 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhc
Confidence 3445666667777777888887777777777777777777776664
No 239
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=44.78 E-value=1e+02 Score=21.19 Aligned_cols=57 Identities=25% Similarity=0.434 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 82 KELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 82 K~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
..++.+-..-|.+|+.+-+..+.- .....+..+...+.+.+..+-+.+..+...+..
T Consensus 43 ~~~e~lr~~rN~~sk~I~~~~~~~--~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~ 99 (108)
T PF02403_consen 43 QELEELRAERNELSKEIGKLKKAG--EDAEELKAEVKELKEEIKELEEQLKELEEELNE 99 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCHTT--CCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHHHHHHHHhhCc--ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444433333322 123344444444444444444444444444333
No 240
>cd07652 F-BAR_Rgd1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Saccharomyces cerevisiae Rho GTPase activating protein Rgd1 and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Saccharomyces cerevisiae Rgd1 is a GTPase activating protein (GAP) with activity towards Rho3p and Rho4p, which are involved in bud growth and cytokinesis, respectively. At low pH, S. cerevisiae Rgd1 is required for cell survival and the activation of the protein kinase C pathway, which is important in cell integrity and the maintenance of cell shape. It contains an N-terminal F-BAR domain and a C-terminal Rho GAP domain. The F-BAR domain of S. cerevisiae Rgd1 binds to phosphoinositides and plays an important role in the localization of the protein to the bud tip/neck during the cell cycle. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that
Probab=44.74 E-value=1.6e+02 Score=23.54 Aligned_cols=14 Identities=0% Similarity=-0.014 Sum_probs=5.6
Q ss_pred hhHHHHHHHHHHHH
Q psy18023 109 KLDQIKKELDQMVK 122 (151)
Q Consensus 109 ~LdqIsK~Ldqisk 122 (151)
.++.|-.+.+.|+.
T Consensus 66 a~~~il~~~e~lA~ 79 (234)
T cd07652 66 AYHSSLEFHEKLAD 79 (234)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444444444333
No 241
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=44.68 E-value=1.1e+02 Score=21.59 Aligned_cols=31 Identities=19% Similarity=0.437 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 118 DQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 118 dqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
.-+-+.++.+.+.++.+.+.+..+.+.++++
T Consensus 90 ~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~ 120 (129)
T cd00584 90 EFLDKKIEELTKQIEKLQKELAKLKDQINTL 120 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444445555555555555555555544
No 242
>KOG0250|consensus
Probab=44.09 E-value=3.8e+02 Score=27.60 Aligned_cols=35 Identities=23% Similarity=0.300 Sum_probs=17.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 109 KLDQIKKELDQMVKELDLTIKELNQIIKELNQIIK 143 (151)
Q Consensus 109 ~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K 143 (151)
.+....+++.-+-....++.|.+.+++.+|..+.+
T Consensus 430 ~~~~~~ee~~~i~~~i~~l~k~i~~~~~~l~~lk~ 464 (1074)
T KOG0250|consen 430 KAKEEEEEKEHIEGEILQLRKKIENISEELKDLKK 464 (1074)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33344444444444455555555555555555443
No 243
>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=43.87 E-value=2e+02 Score=24.23 Aligned_cols=31 Identities=29% Similarity=0.264 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIK 96 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk 96 (151)
++...|.+...|..|.|-...+.+....+..
T Consensus 56 ~~ey~d~l~~~l~~ieki~~Rv~kr~~~l~~ 86 (240)
T cd07667 56 IGDYLDTFALKLGTIDRIAQRIIKEEIEYLV 86 (240)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444433333
No 244
>PLN02678 seryl-tRNA synthetase
Probab=43.32 E-value=2.5e+02 Score=25.30 Aligned_cols=67 Identities=21% Similarity=0.211 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 80 IIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 80 IsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
+....-++...+++.-..-+++||+..++..+. .....+...+..+.+++...-..++.+..+|+++
T Consensus 38 ld~~~r~l~~~~e~lr~erN~~sk~I~~~k~~~--~~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~~~ 104 (448)
T PLN02678 38 LDKEWRQRQFELDSLRKEFNKLNKEVAKLKIAK--EDATELIAETKELKKEITEKEAEVQEAKAALDAK 104 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444445556666666666666665422221 2233344444455555555555555555555544
No 245
>PF13874 Nup54: Nucleoporin complex subunit 54; PDB: 3T97_B.
Probab=43.24 E-value=1.4e+02 Score=22.23 Aligned_cols=66 Identities=12% Similarity=0.171 Sum_probs=24.4
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELD 125 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld 125 (151)
....+++.+-++.=.+.+++....|+.|.+.++++.++-...+..+.. ..-.+|+.-+=.+...+.
T Consensus 29 i~GF~dL~~R~~~Q~~~~~~~~~~l~~i~~~l~~L~~~~~~~~~rl~~~r~r~~~L~hR~l~v~~~~e 96 (141)
T PF13874_consen 29 IIGFEDLKKRVEAQEEEIAQHRERLKEINDKLEELQKHDLETSARLEEARRRHQELSHRLLRVLRKQE 96 (141)
T ss_dssp -----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666666666666666666666665554444444333 233334433333333333
No 246
>PF12352 V-SNARE_C: Snare region anchored in the vesicle membrane C-terminus; PDB: 1GL2_C 2NPS_C.
Probab=43.19 E-value=85 Score=19.87 Aligned_cols=29 Identities=21% Similarity=0.398 Sum_probs=17.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIK 136 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk 136 (151)
..|..+.+.|++|...|+...+.|..|.+
T Consensus 36 e~L~~~~~kl~~i~~~l~~s~~~l~~I~r 64 (66)
T PF12352_consen 36 EQLKRVRDKLDDIDSNLPKSNSLLKRISR 64 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHc
Confidence 55666666666666666666665555554
No 247
>cd07602 BAR_RhoGAP_OPHN1-like The Bin/Amphiphysin/Rvs (BAR) domain of Oligophrenin1-like Rho GTPase Activating Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of Rho and Rac GTPase activating proteins (GAPs) with similarity to oligophrenin1 (OPHN1). Members contain an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and a Rho GAP domain. Some members contain a C-terminal SH3 domain. Vertebrates harbor at least three Rho GAPs in this subfamily including OPHN1, GTPase Regulator Associated with Focal adhesion kinase (GRAF), GRAF2, and an uncharacterized protein called GAP10-like. OPHN1, GRAF and GRAF2 show GAP activity towards RhoA and Cdc42. In addition, OPHN1 is active towards Rac. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domains of OPHN1
Probab=43.06 E-value=1.9e+02 Score=23.75 Aligned_cols=30 Identities=20% Similarity=0.305 Sum_probs=13.7
Q ss_pred HhhhhhccccchHHHHHHHHHHHHHHHHHH
Q psy18023 52 MEKECKVDFNKLDQIKKELDQIIKELDQII 81 (151)
Q Consensus 52 ~~~~~~~~~~~LDQIsKnLdQISK~LdQIs 81 (151)
+-|.|+.=.+.+.+.++.--.|+..|..|.
T Consensus 21 LiK~ck~~i~a~k~~~~a~~~F~~~L~~f~ 50 (207)
T cd07602 21 LIKECKNLISATKNLSKAQRSFAQTLQNFK 50 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444444444
No 248
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=43.01 E-value=2.3e+02 Score=24.73 Aligned_cols=30 Identities=33% Similarity=0.464 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 111 DQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 111 dqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
+.+..+..++...+....+.+..+...+++
T Consensus 72 ~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 101 (418)
T TIGR00414 72 EEIKKELKELKEELTELSAALKALEAELQD 101 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444444333
No 249
>cd07652 F-BAR_Rgd1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Saccharomyces cerevisiae Rho GTPase activating protein Rgd1 and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Saccharomyces cerevisiae Rgd1 is a GTPase activating protein (GAP) with activity towards Rho3p and Rho4p, which are involved in bud growth and cytokinesis, respectively. At low pH, S. cerevisiae Rgd1 is required for cell survival and the activation of the protein kinase C pathway, which is important in cell integrity and the maintenance of cell shape. It contains an N-terminal F-BAR domain and a C-terminal Rho GAP domain. The F-BAR domain of S. cerevisiae Rgd1 binds to phosphoinositides and plays an important role in the localization of the protein to the bud tip/neck during the cell cycle. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that
Probab=43.00 E-value=1.7e+02 Score=23.37 Aligned_cols=41 Identities=12% Similarity=0.062 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 64 DQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE 104 (151)
Q Consensus 64 DQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe 104 (151)
+.|-...+.++..=.+|+..|.+|+..|....+.++..-|.
T Consensus 68 ~~il~~~e~lA~~h~~~a~~L~~~~~eL~~l~~~~e~~RK~ 108 (234)
T cd07652 68 HSSLEFHEKLADNGLRFAKALNEMSDELSSLAKTVEKSRKS 108 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333334443333333344433333
No 250
>PRK07191 flgK flagellar hook-associated protein FlgK; Validated
Probab=42.79 E-value=2.3e+02 Score=24.73 Aligned_cols=13 Identities=15% Similarity=0.598 Sum_probs=4.9
Q ss_pred HHHHHHHHHHHHH
Q psy18023 128 IKELNQIIKELNQ 140 (151)
Q Consensus 128 sK~L~qIsk~l~q 140 (151)
.+.+|++.+.+++
T Consensus 165 V~~iN~ll~~Ia~ 177 (456)
T PRK07191 165 VKQINSLTRSIAD 177 (456)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 251
>PF07730 HisKA_3: Histidine kinase; InterPro: IPR011712 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represetns the dimerisation and phosphoacceptor domain of a sub-family of histidine kinases. It shares sequence similarity with IPR003661 from INTERPRO and IPR011102 from INTERPRO.; GO: 0000155 two-component sensor activity, 0046983 protein dimerization activity, 0000160 two-component signal transduction system (phosphorelay), 0016021 integral to membrane; PDB: 3GIE_B 3GIG_A 3EHJ_B 3EHH_B 3GIF_B 3EHF_B 3EHG_A.
Probab=42.74 E-value=79 Score=19.36 Aligned_cols=53 Identities=21% Similarity=0.349 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 85 DLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKEL 138 (151)
Q Consensus 85 dqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l 138 (151)
|.+.-.|.-+.=.++.+...+ .+.-.+....|.++...+.....++-.++..|
T Consensus 11 D~v~q~L~~i~~~l~~~~~~~-~~~~~~~~~~l~~i~~~~~~~~~~~R~~~~~L 63 (68)
T PF07730_consen 11 DGVGQSLTAIKMQLEALRRRL-ADDPEEAREELEEIRELLREALQELRRIIHEL 63 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT-TT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred hHHHHHHHHHHHHHHHHHhhh-cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555555555555544 22223566666666666666666665555543
No 252
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=42.65 E-value=89 Score=21.10 Aligned_cols=37 Identities=14% Similarity=0.412 Sum_probs=17.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
+-|.|+......||.. |...+++.++.++++-|++..
T Consensus 10 ~lL~qmq~kFq~mS~~---I~~riDeM~~RIDdLE~si~d 46 (54)
T PF06825_consen 10 NLLQQMQDKFQTMSDQ---ILGRIDEMSSRIDDLEKSIAD 46 (54)
T ss_dssp HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHCCHHHH--
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHhhHHHHHHHHHH
Confidence 3455555555555432 444445555555554444443
No 253
>PRK06663 flagellar hook-associated protein FlgL; Validated
Probab=42.10 E-value=1.9e+02 Score=24.94 Aligned_cols=67 Identities=19% Similarity=0.179 Sum_probs=37.9
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhhhhHHHHHHHHHHHHHH
Q psy18023 58 VDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLII-KESNQNKLDQIKKELDQMVKEL 124 (151)
Q Consensus 58 ~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS-Kel~qk~LdqIsK~Ldqisk~l 124 (151)
...+.++|+.+|.+.....|..-...|.++...|.++-+-.-+-. -.++...+.-|..++.++.++|
T Consensus 55 ~~~~~~~qy~~ni~~a~s~L~~~dsaL~~i~~~l~~~rel~v~a~n~t~s~~dr~aia~e~~~l~~~l 122 (419)
T PRK06663 55 SRLFKLDRYQKNIDDGKDRLRYAEGYLQSITNILQRARELAVQGANGTYQADDKKKIAKEIDELLEDL 122 (419)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHH
Confidence 345567777777777777777777777777777766655332221 1222233444444444444433
No 254
>KOG1300|consensus
Probab=42.05 E-value=1.2e+02 Score=29.07 Aligned_cols=23 Identities=26% Similarity=0.239 Sum_probs=15.3
Q ss_pred chhHHHHHHHHHHHHHhcCCccC
Q psy18023 7 HDCLRLRRHYFALFRMFDGLTPV 29 (151)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~ 29 (151)
-|+..--=|-|.+=-|.--|.|.
T Consensus 234 ~D~iaPlLHE~TyqAM~~DLl~i 256 (593)
T KOG1300|consen 234 FDPVAPLLHEFTYQAMAYDLLPI 256 (593)
T ss_pred ccccchHHHHHHHHHHHHHHHhh
Confidence 34444445777777787778774
No 255
>PRK12804 flagellin; Provisional
Probab=42.05 E-value=1.9e+02 Score=23.59 Aligned_cols=72 Identities=15% Similarity=0.117 Sum_probs=43.7
Q ss_pred hccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hhhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK--ESNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK--el~qk~LdqIsK~Ldqisk~ld~is 128 (151)
+-+...++|..+|+..-.-.|..-.-.|..++..|.++-+-+-+-.- .++......|..++.++...+..+.
T Consensus 53 ~~~~~~~~~~~~n~~~~~s~l~~ad~~l~~i~~~l~r~rel~v~a~n~gt~s~~dr~~i~~E~~~l~~~i~~~a 126 (301)
T PRK12804 53 RGQIRGLEMASKNAQDGISLIQTAEGALTETHSILQRVRELVVQAGNTGTQDGTDLGAIQDEIKALVDEIDGIS 126 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 35556777777777777777777777777777777776654444332 2334445555555555555544443
No 256
>cd07651 F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe Cdc15, and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Schizosaccharomyces pombe Cdc15 and Imp2, and similar proteins. These proteins contain an N-terminal F-BAR domain and a C-terminal SH3 domain. S. pombe Cdc15 and Imp2 play both distinct and overlapping roles in the maintenance and strengthening of the contractile ring at the division site, which is required in cell division. Cdc15 is a component of the actomyosin ring and is required in normal cytokinesis. Imp2 colocalizes with the medial ring during septation and is required for normal septation. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation
Probab=41.93 E-value=1.7e+02 Score=22.87 Aligned_cols=91 Identities=14% Similarity=0.206 Sum_probs=0.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-NKLDQIKKELDQMVKELDLTIKELNQIIKELN 139 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~ 139 (151)
+..+-+.++|.+-.+.++.|..=+-.=+.-=..-++.|..|+|.... ....-++..++.|..+.+.+++.=.+++..|.
T Consensus 5 ~G~~~l~~r~~~g~~~~~el~~f~keRa~iE~eYak~L~kLakk~~~~~~~gsl~~a~~~i~~e~e~~a~~H~~~a~~L~ 84 (236)
T cd07651 5 AGFDVIQTRIKDSLRTLEELRSFYKERASIEEEYAKRLEKLSRKSLGGSEEGGLKNSLDTLRLETESMAKSHLKFAKQIR 84 (236)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred -HHHHHHHHhhhC
Q psy18023 140 -QIIKELNQIVEE 151 (151)
Q Consensus 140 -qI~K~l~q~~~~ 151 (151)
+|.+.|.....+
T Consensus 85 ~~v~~~l~~~~~~ 97 (236)
T cd07651 85 QDLEEKLAAFASS 97 (236)
T ss_pred HHHHHHHHHHHHH
No 257
>PF11083 Streptin-Immun: Lantibiotic streptin immunity protein; InterPro: IPR021112 Streptococcal species produce a lantibiotic, streptin, in a similar manner to the production of nisin and subtilin by other lactic acid bacteria, in order to compete against competing bacteria within the environment []. The immunity protein protects the bacterium from destruction by its own lantibiotic. In general, there is little homology between the immunity proteins of different genera of bacteria.
Probab=41.52 E-value=85 Score=23.87 Aligned_cols=23 Identities=48% Similarity=0.570 Sum_probs=13.3
Q ss_pred hhccccccCChhHHHHhhhhhccccch
Q psy18023 37 SEINLESSNGIEEQEMEKECKVDFNKL 63 (151)
Q Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~~~~L 63 (151)
--|||-|.+ .|-.+..+.||.+|
T Consensus 24 vLinlks~~----~esrklaky~~sKL 46 (99)
T PF11083_consen 24 VLINLKSDD----PESRKLAKYDFSKL 46 (99)
T ss_pred HHHhcccCC----HHHHHHHHHHHHHc
Confidence 345666543 34456667777766
No 258
>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=41.41 E-value=1.5e+02 Score=22.16 Aligned_cols=73 Identities=12% Similarity=0.293 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 78 DQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 78 dQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~~~ 150 (151)
+++......++..+-.-+|-++-++-+|-- .+=++--+.|..+..++....++|.+..++-..+.+.++..+.
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 EEFEENIKELATDIIRKAKQIEYLIDSLPGIEVSEEEQLKRIKELEEENEEAEEELQEAVKEAEELLKQVQELIR 139 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHSTTSSS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555666666666665 4444445677777777777777777777777777766665543
No 259
>smart00304 HAMP HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain.
Probab=41.17 E-value=46 Score=16.22 Aligned_cols=11 Identities=9% Similarity=0.138 Sum_probs=4.3
Q ss_pred HHHHHHHHHHH
Q psy18023 92 NQVIKELNLII 102 (151)
Q Consensus 92 ~QiSk~L~qIS 102 (151)
..+++.+..++
T Consensus 8 ~~l~~~~~~~~ 18 (53)
T smart00304 8 RRLAEAAQRIA 18 (53)
T ss_pred HHHHHHHHHHh
Confidence 33334444433
No 260
>KOG4438|consensus
Probab=41.05 E-value=3.1e+02 Score=25.68 Aligned_cols=94 Identities=22% Similarity=0.308 Sum_probs=58.1
Q ss_pred hhhhccccchHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHH
Q psy18023 54 KECKVDFNKLDQIKKELDQIIKELDQIIKELDL----IIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIK 129 (151)
Q Consensus 54 ~~~~~~~~~LDQIsKnLdQISK~LdQIsK~Ldq----ISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK 129 (151)
.+|.|..+++.-+-..+.++++-=+|+- +++ +-|-.++|-|-|+-..|+.--..=+-+.+....+++-+|.+++
T Consensus 296 ~~~~~e~d~~Et~~v~lke~~~Le~q~e--~~~~e~~~lk~~e~~~kqL~~~~kek~~~~Qd~~~r~~E~v~~~md~~~~ 373 (446)
T KOG4438|consen 296 SSDGVEYDSLETKVVELKEILELEDQIE--LNQLELEKLKMFENLTKQLNELKKEKESRRQDLENRKTESVKAMMDDNIE 373 (446)
T ss_pred HHhhhhhhhhHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 3566777777777777777777666654 443 2344466666666655554444444455555667777777777
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q psy18023 130 ELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 130 ~L~qIsk~l~qI~K~l~q~~ 149 (151)
.-++|...-+.+++++...+
T Consensus 374 ~~n~V~~kr~a~~~kie~~~ 393 (446)
T KOG4438|consen 374 KYNVVRQKRNAKVKKIEEKN 393 (446)
T ss_pred HhcccchhhccHHHHHHHHH
Confidence 77777766666666554443
No 261
>PF00669 Flagellin_N: Bacterial flagellin N-terminal helical region; InterPro: IPR001029 Bacterial flagella are responsible for motility and chemotaxis []. They comprise a basal body, a hook and a filament, the latter accounting for 98% of the mass []. Flagellin is the subunit protein that polymerises to form the flagellae [], the subunits being transported through the centre of the filament to the tip, where they then polymerise []. Both the N- and C- termini of the subunit protein, which are alpha-helical in structure [], are required to mediate polymerisation. Although no export or assembly consensus sequences have been identified, Ala, Val, Leu, Ile, Gly, Ser, Thr, Asn, Gln and Asp tend to make up around 90% of the sequence, Cys and Trp being absent []. This entry represents the N and C termini that come together to form the D0 and D1 structural domains []. These domains are responsible for flagellin's ability to polymerise into a filament. ; GO: 0005198 structural molecule activity, 0001539 ciliary or flagellar motility, 0009288 bacterial-type flagellum; PDB: 1IO1_A 1UCU_A 3A5X_A 3V47_C 2D4X_A 3PWX_B 3K8V_A 2ZBI_B 3K8W_A.
Probab=40.73 E-value=1.2e+02 Score=21.05 Aligned_cols=35 Identities=14% Similarity=0.147 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 69 ELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK 103 (151)
Q Consensus 69 nLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK 103 (151)
.++++.+.++...--|+.....|..+.+.|.++..
T Consensus 56 ~~~~~~~n~~~~~~~l~~~~~al~~i~~~l~~~~~ 90 (139)
T PF00669_consen 56 RLEQYQRNIDDAKSRLSTAETALSSISDILQRARE 90 (139)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444555555555555555554433
No 262
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=40.64 E-value=1.6e+02 Score=25.09 Aligned_cols=28 Identities=21% Similarity=0.332 Sum_probs=16.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQII 135 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIs 135 (151)
..+.++...+..|+.+|..++.+|.+-.
T Consensus 178 dE~g~L~~~~n~M~~~L~~~~~~l~~~~ 205 (569)
T PRK10600 178 DEMAMLGTALNNMSAELAESYAVLEQRV 205 (569)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666666666666655554433
No 263
>KOG3046|consensus
Probab=39.72 E-value=2e+02 Score=23.34 Aligned_cols=62 Identities=26% Similarity=0.462 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 71 DQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 71 dQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
+|.-+.|+|+.+++..|.+.+-| |-.+.-.+...+=+-+-..|+-+++.|+. ++.++..+++
T Consensus 8 ~q~~ekl~~l~~~le~~~e~~~~----Lgl~vs~F~~tsq~~L~qrl~tLv~~L~~----l~~~s~k~n~ 69 (147)
T KOG3046|consen 8 DQMQEKLAQLENSLEKFLENFRQ----LGLIVSNFQPTSQDALNQRLNTLVRGLQD----LDKLSSKLND 69 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH----HhHhhhcCCCCcHHHHHHHHHHHHHHhhh----hHHHHHhhcc
Confidence 34444444444444444443333 23444455556667777788888887754 4555555553
No 264
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=39.72 E-value=3.4e+02 Score=25.81 Aligned_cols=9 Identities=56% Similarity=0.564 Sum_probs=3.7
Q ss_pred HHHHHHHHH
Q psy18023 124 LDLTIKELN 132 (151)
Q Consensus 124 ld~isK~L~ 132 (151)
.+.+++.|.
T Consensus 586 ~~~~i~~lk 594 (782)
T PRK00409 586 ADEIIKELR 594 (782)
T ss_pred HHHHHHHHH
Confidence 334444443
No 265
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=39.67 E-value=3.8e+02 Score=26.39 Aligned_cols=53 Identities=28% Similarity=0.372 Sum_probs=30.8
Q ss_pred hhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 53 EKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKES 105 (151)
Q Consensus 53 ~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel 105 (151)
|+.-+---..+++..+.+++..-.+.+.-..+.++-...++|-...+...++-
T Consensus 627 e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 679 (1201)
T PF12128_consen 627 EKQLKQINKKIEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIEEAKEER 679 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333456666667776666666666666666666666655555544433
No 266
>PRK14692 lagellar hook-associated protein FlgL; Provisional
Probab=39.63 E-value=2.3e+02 Score=27.66 Aligned_cols=67 Identities=16% Similarity=0.275 Sum_probs=42.0
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhhhhHHHHHHHHHHHHHH
Q psy18023 58 VDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLII-KESNQNKLDQIKKELDQMVKEL 124 (151)
Q Consensus 58 ~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS-Kel~qk~LdqIsK~Ldqisk~l 124 (151)
...+.++|..+|.......|..-...|..+.+.|..+-+-+-+-. -.+++..+.-|.++|.++..+|
T Consensus 54 s~i~~l~Qy~~Ni~~A~s~L~~tEtaL~sI~~iLqr~ReLaVqAaNGT~S~~dR~AIA~El~~L~eqL 121 (749)
T PRK14692 54 YEIKTLEQVKESTSRAQEMTQNSMKALQDMVKLLEDFKVKVTQAASDSNSQTSREAIAKELERIKESI 121 (749)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 345667888888887777888888888877777777766544433 2344444444555554444443
No 267
>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=39.29 E-value=1.7e+02 Score=22.17 Aligned_cols=38 Identities=11% Similarity=0.203 Sum_probs=17.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l 145 (151)
.+|.++++..+.+.|.+..+-...++.-+-++.+.+++
T Consensus 101 ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~ 138 (143)
T PF12718_consen 101 EKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKY 138 (143)
T ss_pred HHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 44444444444444444444444444444444444433
No 268
>PF00611 FCH: Fes/CIP4, and EFC/F-BAR homology domain; InterPro: IPR001060 The FCH domain is a short conserved region of around 60 amino acids first described as a region of homology between FER and CIP4 proteins []. Many proteins containing an FCH domain are involved in the regulation of cytoskeletal rearrangements, vesicular transport and endocytosis. In the CIP4 protein the FCH domain binds to microtubules []. The FCH domain is always found N-terminally and is followed by a coiled-coil region. Proteins containing an FCH domain can be divided in 3 classes []: A subfamily of protein kinases usually associated with an SH2 domain: Fps/fes (Fujimani poultry sarcoma/feline sarcoma) proto-oncogenes. They are non-receptor protein-tyrosine kinases preferentially expressed in myeloid lineage. The viral oncogene has an unregulated kinase activity which abrogates the need for cytokines and influences differentiation of haematopoietic progenitor cells. Fes related protein (fer). It is an ubiquitously expressed homologue of Fes. Adaptor proteins usually associated with a C-terminal SH3 domain: Schizosaccharomyces pombe CDC15 protein. It mediates cytoskeletal rearrangements required for cytokinesis. It is essential for viability. CD2 cytoplasmic domain binding protein. Mammalian Cdc42-interacting protein 4 (CIP4). It may act as a link between Cdc42 signaling and regulation of the actin cytoskeleton. Mammalian PACSIN proteins. A family of cytoplasmic phosphoproteins playing a role in vesicle formation and transport. A subfamily of Rho-GAP proteins: Mammalian RhoGAP4 proteins. They may down-regulate Rho-like GTPases in hematopoietic cells. Yeast hypothetical protein YBR260C. Caenorhabditis elegans hypothetical protein ZK669.1. ; PDB: 2EFK_A 2EFL_A 2X3W_A 2X3X_C 2X3V_C 3I2W_A 3ABH_B 3Q0K_B 3HAJ_A 3ACO_B ....
Probab=39.28 E-value=1e+02 Score=19.61 Aligned_cols=72 Identities=17% Similarity=0.224 Sum_probs=37.4
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh-----hHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNK-----LDQIKKELDQMVKELDLTIKELN 132 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~-----LdqIsK~Ldqisk~ld~isK~L~ 132 (151)
+.++.+.+.+++-.+.++++..=+.+-++-=.+-++.|..+++....+. -..++..+..+..+++.+++.=.
T Consensus 9 ~g~~~l~~~~~~~~~~~~~l~~~~keRa~lE~~Yak~L~kl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~a~~h~ 85 (91)
T PF00611_consen 9 DGFEVLFKRLKQGIKLLEELASFFKERASLEEEYAKSLQKLAKKFKKKMKSSQEYGTLKNAWDSLLEETEQIAEQHS 85 (91)
T ss_dssp CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSS-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555666665555555555554444444455666666666555311 24455555555555555444433
No 269
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=39.03 E-value=1.5e+02 Score=21.39 Aligned_cols=28 Identities=21% Similarity=0.316 Sum_probs=13.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQIIKE 137 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~qIsk~ 137 (151)
.+.+.+.||.++..|+.+...++.|...
T Consensus 37 v~~l~~klDa~~~~l~~l~~~V~~I~~i 64 (75)
T PF05531_consen 37 VTELNKKLDAQSAQLTTLNTKVNEIQDI 64 (75)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555544444444444333
No 270
>cd07674 F-BAR_FCHO1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 1 protein. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. FCH domain Only 1 (FCHO1) may be involved in clathrin-coated vesicle formation. It contains an N-terminal F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in FCHO2 and endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=38.91 E-value=2.1e+02 Score=23.06 Aligned_cols=61 Identities=7% Similarity=0.084 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---hhhHHHHHHHHHHHHHH
Q psy18023 64 DQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ---NKLDQIKKELDQMVKEL 124 (151)
Q Consensus 64 DQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q---k~LdqIsK~Ldqisk~l 124 (151)
.++.|.-....|.=+...+.++..-+.-.+|-+.|.++-..+-+ ..|..++..|-+.+.++
T Consensus 150 k~leK~~~K~~ka~~~y~~~~~ky~~~~~~~~~~m~~~~~~~Q~~Ee~Ri~~lk~~L~~~~~~~ 213 (261)
T cd07674 150 KELEKAELKTKKAAESLRGSVEKYNRARGDFEQKMLESAQKFQDIEETHLRHMKLLIKGYSHSV 213 (261)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344333344444445555555556666666666666665544 78888888887776665
No 271
>PRK08073 flgL flagellar hook-associated protein FlgL; Validated
Probab=38.74 E-value=2.1e+02 Score=23.12 Aligned_cols=66 Identities=20% Similarity=0.332 Sum_probs=39.9
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhhhhHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK-ESNQNKLDQIKKELDQMVKEL 124 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK-el~qk~LdqIsK~Ldqisk~l 124 (151)
....++|..+|.+.-...|......|..++..+.++.+-+-+-.- .+++..+..|.+++.++-.++
T Consensus 55 ~~~~~~~~~~n~~~~~~~L~~~d~aL~~i~~~l~~~rel~v~a~n~t~s~~~r~aia~e~~~l~~~i 121 (287)
T PRK08073 55 SLANIEQMQKDVADSKNVLNQTENTLSGMSKSLTRVDQLVLQALNGTNDEKELKAIGAEIDQILKQV 121 (287)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 345677777777777777777777777777777777654444332 233344445555554444333
No 272
>COG1256 FlgK Flagellar hook-associated protein [Cell motility and secretion]
Probab=38.60 E-value=3.2e+02 Score=25.26 Aligned_cols=9 Identities=44% Similarity=0.855 Sum_probs=3.8
Q ss_pred HHHHHHHHh
Q psy18023 140 QIIKELNQI 148 (151)
Q Consensus 140 qI~K~l~q~ 148 (151)
++.++|.++
T Consensus 205 ~Lv~eLs~~ 213 (552)
T COG1256 205 QLVDELSQL 213 (552)
T ss_pred HHHHHHHhh
Confidence 334444444
No 273
>KOG4302|consensus
Probab=38.57 E-value=1.9e+02 Score=27.88 Aligned_cols=45 Identities=18% Similarity=0.227 Sum_probs=22.8
Q ss_pred hHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 63 LDQIKKELDQIIKE-LDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 63 LDQIsKnLdQISK~-LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
|.+|.++.-.|.+. +++.+.+.+.+..+++++-..|+.+.-.+..
T Consensus 41 l~~le~e~~~~y~~kve~a~~~~~~L~~~ia~~eael~~l~s~l~~ 86 (660)
T KOG4302|consen 41 LLRLEQECLEIYKRKVEEASESKARLLQEIAVIEAELNDLCSALGE 86 (660)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 44555554444432 3455555555555555555555555544443
No 274
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=38.49 E-value=1.7e+02 Score=21.85 Aligned_cols=31 Identities=19% Similarity=0.335 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIK 96 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk 96 (151)
+...+.++.+.+.++.+........++.+..
T Consensus 77 ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~ 107 (169)
T PF07106_consen 77 LDAEIKELREELAELKKEVKSLEAELASLSS 107 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3333444444444444444444444444433
No 275
>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.
Probab=38.31 E-value=1.1e+02 Score=19.65 Aligned_cols=29 Identities=21% Similarity=0.363 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQV 94 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~Qi 94 (151)
....|.++...+.+....|..+.....+.
T Consensus 3 a~~~l~~~~~~~~~~~~~l~~L~~~~~~~ 31 (123)
T PF02050_consen 3 AEQELAEAQQELQEAEEQLEQLQQERQEY 31 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444443333
No 276
>PRK15058 cytochrome b562; Provisional
Probab=38.27 E-value=1.2e+02 Score=23.66 Aligned_cols=36 Identities=11% Similarity=0.209 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q psy18023 85 DLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQM 120 (151)
Q Consensus 85 dqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqi 120 (151)
-..-.+|++++..+++..+..++-+|++-+..+.++
T Consensus 81 K~Y~~G~d~Li~qID~a~~la~~GkL~eAK~~a~~l 116 (128)
T PRK15058 81 KDFRHGFDILVGQIDGALKLANEGKVKEAQAAAEQL 116 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 345555666666666666666666676666555443
No 277
>PF09602 PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); InterPro: IPR011728 This entry describes a protein found in polyhydroxyalkanoic acid (PHA) gene regions and incorporated into PHA inclusions in Bacillus cereus and Bacillus megaterium. The role of the protein may include amino acid storage [].
Probab=38.21 E-value=2.2e+02 Score=23.20 Aligned_cols=40 Identities=30% Similarity=0.450 Sum_probs=24.1
Q ss_pred cCChhHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 44 SNGIEEQEMEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLI 87 (151)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqI 87 (151)
++++|.+-.++ ||-- =|.++|--+++.+.+.||.+....+
T Consensus 28 ~kqve~~~l~~-lkqq---qd~itk~veeLe~~~~q~~~~~s~~ 67 (165)
T PF09602_consen 28 MKQVEQQTLKK-LKQQ---QDWITKQVEELEKELKQFKREFSDL 67 (165)
T ss_pred hHHHHHHHHHH-HHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777776655 5531 1337777777777777766555444
No 278
>PF04523 Herpes_U30: Herpes virus tegument protein U30; InterPro: IPR007611 This family is named after the human herpesvirus protein, but has been characterised in cytomegalovirus as UL47. Cytomegalovirus UL47 is a component of the tegument, which is a protein layer surrounding the viral capsid. UL47 co-precipitates with UL48 and UL69 tegument proteins, and the major capsid protein UL86. A UL47-containing complex is thought to be involved in the release of viral DNA from the disassembling virus particle [].; GO: 0019068 virion assembly
Probab=38.13 E-value=4e+02 Score=26.14 Aligned_cols=54 Identities=20% Similarity=0.354 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----h-hhhhhHHHHHHHHHHHHHHHH
Q psy18023 73 IIKELDQIIKELDLIIKESNQVIKELNLIIKE----S-NQNKLDQIKKELDQMVKELDL 126 (151)
Q Consensus 73 ISK~LdQIsK~LdqISK~l~QiSk~L~qISKe----l-~qk~LdqIsK~Ldqisk~ld~ 126 (151)
+...|.+++.+|..+-.-|.++++.++.|+-+ . +.-.+.+++|.+.++.+.+..
T Consensus 716 l~~~l~~~~~~l~~~~~rl~~~l~d~~~i~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~ 774 (887)
T PF04523_consen 716 LIDRLTQLSERLQTIYRRLLQILEDIEKIKQHPIWISFSHPNFRELKKSYLKCFSRLKT 774 (887)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccchhHHHHHHHHHHHHHHHHH
Confidence 33444444444444445555555555555553 1 124456666666666555443
No 279
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=38.12 E-value=1.6e+02 Score=21.62 Aligned_cols=42 Identities=21% Similarity=0.353 Sum_probs=29.9
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLII 102 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS 102 (151)
++||+|.--||.+-+--|.+-..|.++..+-.|+-+.+.+-.
T Consensus 33 s~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e~~~~~ 74 (83)
T PF03670_consen 33 SMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLEFQEQL 74 (83)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467777777777777777777777777777777776665433
No 280
>PRK06008 flgL flagellar hook-associated protein FlgL; Validated
Probab=38.00 E-value=2.4e+02 Score=23.49 Aligned_cols=61 Identities=11% Similarity=0.268 Sum_probs=39.4
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMV 121 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqis 121 (151)
....++|+.+|.+.....|+.-.-.|..+.+.+.++.+.+-. -..+...++.|..++.++-
T Consensus 58 ~~~~~~qy~~n~~~a~~~l~~~~~aL~~v~~~~~~~~~~l~~--~~~~~~~~~aia~e~~~~~ 118 (348)
T PRK06008 58 EYDRLASLTDSNSLVTQRLTATQTALGQIIEAAQSFLNDLLA--ANSSAQTAATVAQSARSAL 118 (348)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCCCcccHHHHHHHHHHHH
Confidence 345677788888888888888888888887777777665554 2333444555555444443
No 281
>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=38.00 E-value=1.3e+02 Score=20.51 Aligned_cols=20 Identities=20% Similarity=0.428 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy18023 72 QIIKELDQIIKELDLIIKES 91 (151)
Q Consensus 72 QISK~LdQIsK~LdqISK~l 91 (151)
++..+|+++..+++.+.+..
T Consensus 2 ~l~~~l~~l~~d~~~l~~~~ 21 (94)
T PF05957_consen 2 DLKAELEQLRADLEDLARSA 21 (94)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 34445555555554444433
No 282
>PF03234 CDC37_N: Cdc37 N terminal kinase binding; InterPro: IPR013855 In Saccharomyces cerevisiae (Baker's yeast), cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90 [].
Probab=37.84 E-value=58 Score=26.12 Aligned_cols=26 Identities=23% Similarity=0.350 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 123 ELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 123 ~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
.+..+.+|++.|-+...++.++|++.
T Consensus 132 ~~~~l~~H~~kl~~~~ke~~~kLeeL 157 (177)
T PF03234_consen 132 ELEELQEHRAKLEKEQKELKKKLEEL 157 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555543
No 283
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=37.84 E-value=2.1e+02 Score=22.86 Aligned_cols=34 Identities=21% Similarity=0.295 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 72 QIIKELDQIIKELDLIIKESNQVIKELNLIIKES 105 (151)
Q Consensus 72 QISK~LdQIsK~LdqISK~l~QiSk~L~qISKel 105 (151)
++-..+++....+.++...++.....++...+.+
T Consensus 148 ~l~~~i~~~~~~i~~~~~~l~~~~~~l~~~~~~~ 181 (423)
T TIGR01843 148 LILAQIKQLEAELAGLQAQLQALRQQLEVISEEL 181 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333444444444444444444444444433
No 284
>PLN02320 seryl-tRNA synthetase
Probab=37.75 E-value=3.3e+02 Score=25.17 Aligned_cols=73 Identities=15% Similarity=0.149 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 74 IKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 74 SK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~~ 149 (151)
...+-+.....-++...+++.-..-+.+||+..+ ..-......+..++..+.+.+..+-..+..+..+|++++
T Consensus 92 vd~l~~ld~~~r~~~~~~~~lr~ern~~sk~i~~---~~~~~~~~~l~~~~k~lk~~i~~le~~~~~~~~~l~~~~ 164 (502)
T PLN02320 92 LELVLELYENMLALQKEVERLRAERNAVANKMKG---KLEPSERQALVEEGKNLKEGLVTLEEDLVKLTDELQLEA 164 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 285
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=37.65 E-value=42 Score=26.68 Aligned_cols=22 Identities=32% Similarity=0.566 Sum_probs=9.9
Q ss_pred cchHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIK 82 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK 82 (151)
|+||+++..|.-=-|+.|+..|
T Consensus 90 nkMddvSrRL~aEgKdIdeLKK 111 (128)
T PF15145_consen 90 NKMDDVSRRLTAEGKDIDELKK 111 (128)
T ss_pred chHHHHHHHHHhccCCHHHHHH
Confidence 4455555444444444444333
No 286
>PF06148 COG2: COG (conserved oligomeric Golgi) complex component, COG2; InterPro: IPR024602 This entry represents the uncharacterised N-terminal domain of subunit 2 of the COG complex. The COG complex comprises eight proteins COG1-8 and plays critical roles in Golgi structure and function [].; PDB: 2JQQ_A.
Probab=37.65 E-value=16 Score=26.41 Aligned_cols=51 Identities=16% Similarity=0.208 Sum_probs=9.2
Q ss_pred hhHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 47 IEEQEMEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKE 97 (151)
Q Consensus 47 ~~~~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~ 97 (151)
.-.++|-.-+.-|+...=.++.+|...-+.++++...|.++-+.+.++-+.
T Consensus 41 ~L~~~Li~lIN~dY~dFv~Ls~~L~g~~~~i~~l~~~L~~~~~~v~~~~~~ 91 (133)
T PF06148_consen 41 ELKNELIELINDDYADFVSLSTNLVGMDEKIEELRKPLSQFREEVESVRDE 91 (133)
T ss_dssp ---------------------------------HHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334556555666665555566666666665555555555555554444333
No 287
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=37.52 E-value=1.6e+02 Score=21.27 Aligned_cols=39 Identities=13% Similarity=0.043 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE 104 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe 104 (151)
|.++++...+..++..+.+.+.-+.+.++.+.-.+|..+
T Consensus 40 I~~~l~~a~~~~~~a~~~~~e~~~~l~~a~~ea~~i~~~ 78 (156)
T PRK05759 40 IADGLAAAERAKKELELAQAKYEAQLAEARAEAAEIIEQ 78 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444333343333333333333
No 288
>PF14931 IFT20: Intraflagellar transport complex B, subunit 20
Probab=37.47 E-value=68 Score=24.19 Aligned_cols=39 Identities=28% Similarity=0.503 Sum_probs=27.0
Q ss_pred hhHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 47 IEEQEMEKECKVDFNKLDQIKKELDQIIKELDQIIKELD 85 (151)
Q Consensus 47 ~~~~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~Ld 85 (151)
-.-+++..+|+.=.+++.+|.+....|.+.++++.+..+
T Consensus 20 ~~t~~Lk~ec~~F~~ki~~F~~iv~~~~~~~~~~A~~VE 58 (120)
T PF14931_consen 20 DQTQELKEECKEFVEKISEFQKIVKGFIEILDELAKRVE 58 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677888887777777777777777766666666544
No 289
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=37.45 E-value=4.1e+02 Score=26.15 Aligned_cols=9 Identities=22% Similarity=0.191 Sum_probs=6.5
Q ss_pred cCCccCCCC
Q psy18023 24 DGLTPVTDG 32 (151)
Q Consensus 24 ~~~~~~~~~ 32 (151)
.+|.|.-.+
T Consensus 568 ~dL~P~l~~ 576 (1201)
T PF12128_consen 568 TDLEPQLVE 576 (1201)
T ss_pred CCCCCeecC
Confidence 688897653
No 290
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=37.41 E-value=3e+02 Score=24.51 Aligned_cols=12 Identities=25% Similarity=0.374 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKEL 77 (151)
Q Consensus 66 IsKnLdQISK~L 77 (151)
|.++..+|+..+
T Consensus 34 I~~~y~df~~~~ 45 (593)
T PF06248_consen 34 INKKYSDFSPSL 45 (593)
T ss_pred HHHHHHHHHHHH
Confidence 444444444333
No 291
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=37.17 E-value=3.7e+02 Score=25.46 Aligned_cols=31 Identities=26% Similarity=0.290 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 113 IKKELDQMVKELDLTIKELNQIIKELNQIIK 143 (151)
Q Consensus 113 IsK~Ldqisk~ld~isK~L~qIsk~l~qI~K 143 (151)
..-++.++-+.++..-..+.+..+.|.++|+
T Consensus 340 ~~~~~~~Le~~~~~l~~~~~~~A~~Ls~~R~ 370 (557)
T COG0497 340 SEESLEALEKEVKKLKAELLEAAEALSAIRK 370 (557)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444444444444444444
No 292
>PF08397 IMD: IRSp53/MIM homology domain; InterPro: IPR013606 The IMD (IRSp53 and MIM (missing in metastases) homology) domain is a BAR-like domain of approximately 250 amino acids found at the N-terminal in the insulin receptor tyrosine kinase substrate p53 (IRSp53) and in the evolutionarily related IRSp53/MIM family. In IRSp53, a ubiquitous regulator o the actin cytoskeleton, the IMD domain acts as conserved F-actin bundling domain involved in filopodium formation. Filopodium-inducing IMD activity is regulated by Cdc42 and Rac1 (Rho-family GTPases) and is SH3-independent [, , ]. The IRSp53/MIM family is a novel F-actin bundling protein family that includes invertebrate relatives: Vertebrate MIM (missing in metastasis), an actin-binding scaffold protein that may be involved in cancer metastasis. Vertebrate ABBA-1, a MIM-related protein. Vertebrate brain-specific angiogenesis inhibitor 1-associated protein 2 (BAI1-associated protein 2) or insulin receptor tyrosine kinase substrate p53 (IRSp53), a multifunctional adaptor protein that links Rac1 with a Wiskott-Aldrich syndrome family verprolin-homologous protein 2 (WAVE2) to induce lamellipodia or Cdc42 with Mena to induce filopodia []. Vertebrate brain-specific angiogenesis inhibitor 1-associated protein 2-like proteins 1 and 2 (BAI1-associated protein 2-like proteins 1 and 2). Drosophila melanogaster (Fruit fly) CG32082-PA. Caenorhabditis elegans M04F3.5 protein. The vertebrate IRSp53/MIM family is divided into two major groups: the IRSp53 subfamily and the MIM/ABBA subfamily. The putative invertebrate homologues are positioned between them. The IRSp53 subfamily members contain an SH3 domain, and the MIM/ABBA subfamily proteins contain a WH2 (WASP-homology 2) domain. The vertebrate SH3-containing subfamily is further divided into three groups according to the presence or absence of the WWB and the half-CRIB motif. The IMD domain can bind to and bundle actin filaments, bind to membranes and interact with the small GTPase Rac [, ]. The IMD domain folds as a coiled coil of three extended alpha-helices and a shorter C-terminal helix. Helix 4 packs tightly against the other three helices, and thus represents an integral part of the domain. The fold of the IMD domain closely resembles that of the BAR (Bin-Amphiphysin-RVS) domain, a functional module serving both as a sensor and inducer of membrane curvature []. The WH2 domain performs a scaffolding function [].; GO: 0008093 cytoskeletal adaptor activity, 0017124 SH3 domain binding, 0007165 signal transduction, 0046847 filopodium assembly; PDB: 2D1L_A 3OK8_B 1WDZ_B 1Y2O_A 2YKT_A.
Probab=36.99 E-value=2e+02 Score=22.42 Aligned_cols=26 Identities=27% Similarity=0.326 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 65 QIKKELDQIIKELDQIIKELDLIIKE 90 (151)
Q Consensus 65 QIsKnLdQISK~LdQIsK~LdqISK~ 90 (151)
+|+..|.+|+.-.-.|...+..+++.
T Consensus 55 ~lG~~L~~~s~~~r~i~~~~~~~~~~ 80 (219)
T PF08397_consen 55 ELGDALMQISEVHRRIENELEEVFKA 80 (219)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555555544444
No 293
>PF01601 Corona_S2: Coronavirus S2 glycoprotein; InterPro: IPR002552 The type I glycoprotein S of Coronavirus, trimers of which constitute the typical viral spikes, is assembled into virions through noncovalent interactions with the M protein. The spike glycoprotein is translated as a large polypeptide that is subsequently cleaved to S1 IPR002551 from INTERPRO and S2 []. Both chimeric S proteins appeared to cause cell fusion when expressed individually, suggesting that they were biologically fully active []. The spike is a type I membrane glycoprotein that possesses a conserved transmembrane anchor and an unusual cysteine-rich (cys) domain that bridges the putative junction of the anchor and the cytoplasmic tail [].; GO: 0006944 cellular membrane fusion, 0046813 virion attachment, binding of host cell surface receptor, 0016021 integral to membrane, 0019031 viral envelope; PDB: 2BEQ_B 2FXP_A 1ZVB_A 1WNC_D 1ZV8_H 1ZV7_B 1WYY_B 1ZVA_A 2BEZ_F 1WDG_A ....
Probab=36.69 E-value=2.4e+02 Score=27.22 Aligned_cols=61 Identities=18% Similarity=0.185 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 80 IIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQI 141 (151)
Q Consensus 80 IsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI 141 (151)
|-|.|..|.+++.-++..|+.|---.|+. =.+.++-..|++....-||-++++|-..|+++
T Consensus 257 FN~Ai~~I~~g~~t~~~Al~KiQ~VVN~q-~~aL~~L~~qL~nnF~AISssI~dIy~RLd~l 317 (610)
T PF01601_consen 257 FNKAIGNIQLGFTTTASALNKIQDVVNQQ-GQALNQLTSQLSNNFGAISSSIQDIYNRLDQL 317 (610)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHH
Confidence 34444444445555555555554444441 12233333444444555555555555555544
No 294
>PF14399 Transpep_BrtH: NlpC/p60-like transpeptidase
Probab=36.57 E-value=2e+02 Score=22.34 Aligned_cols=34 Identities=6% Similarity=-0.003 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 95 IKELNLIIKESNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 95 Sk~L~qISKel~qk~LdqIsK~Ldqisk~ld~is 128 (151)
++-|......+....+..+...+.++++.-..+.
T Consensus 247 a~fL~~~~~~~~~~~~~~~~~~~~~i~~~W~~~~ 280 (317)
T PF14399_consen 247 ADFLQEAAELLGNPELAEAAELFEEIAQLWRQLA 280 (317)
T ss_pred HHHHHHHHHHhCChhhHHHHHHHHHHHHHHHHHH
Confidence 3445555555555445555555555555544443
No 295
>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=36.23 E-value=2.6e+02 Score=23.38 Aligned_cols=39 Identities=15% Similarity=0.109 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 64 DQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLII 102 (151)
Q Consensus 64 DQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS 102 (151)
|.+..+|..+-+...-+.+.-......+.+.-+....||
T Consensus 64 d~L~~~L~~ieki~~Rl~kr~~ey~~~~~~fgk~~~lws 102 (243)
T cd07666 64 EAFSQKINVLDKISQRIYKEQREYFEELKEYGPIYTLWS 102 (243)
T ss_pred HHHHHHhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence 344444444444444444333344444445444444444
No 296
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=36.18 E-value=2.1e+02 Score=22.33 Aligned_cols=18 Identities=33% Similarity=0.390 Sum_probs=14.4
Q ss_pred HHHHHHHhcCCccCCCCC
Q psy18023 16 YFALFRMFDGLTPVTDGS 33 (151)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~ 33 (151)
+-|+...--|++|..||.
T Consensus 75 ~kAI~~s~l~l~P~~dg~ 92 (179)
T cd00520 75 EKAILNSDLGLNPNNDGA 92 (179)
T ss_pred HHHHHHCCCCCCcCcCCC
Confidence 446666777999999997
No 297
>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []. ; PDB: 3VP9_B 3VP8_B.
Probab=35.78 E-value=1.6e+02 Score=20.89 Aligned_cols=16 Identities=31% Similarity=0.684 Sum_probs=7.6
Q ss_pred hHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELD 78 (151)
Q Consensus 63 LDQIsKnLdQISK~Ld 78 (151)
||+|+...+..+.++-
T Consensus 6 Ld~ir~Ef~~~~~e~~ 21 (79)
T PF08581_consen 6 LDAIRQEFENLSQEAN 21 (79)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4455555555444333
No 298
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=35.70 E-value=1.6e+02 Score=24.23 Aligned_cols=45 Identities=24% Similarity=0.327 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHH-hhh-h-------hhhHHHHHHHHHHHHHHHHHHHH
Q psy18023 86 LIIKESNQVIKELNLIIK-ESN-Q-------NKLDQIKKELDQMVKELDLTIKE 130 (151)
Q Consensus 86 qISK~l~QiSk~L~qISK-el~-q-------k~LdqIsK~Ldqisk~ld~isK~ 130 (151)
.|.+.+.++...+..+++ .++ . ..+.++.+.+..|...|..++..
T Consensus 175 ~i~~pl~~l~~~~~~ia~gdl~~~~~~~~~~dE~g~l~~~~~~m~~~l~~~~~~ 228 (565)
T PRK10935 175 QVVAPLNQLVTASQQIEKGQFDHIPLDTTLPNELGLLAKAFNQMSSELHKLYRS 228 (565)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556666666666654 233 1 34556666776666665555443
No 299
>COG1498 SIK1 Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]
Probab=35.22 E-value=3.3e+02 Score=24.85 Aligned_cols=24 Identities=38% Similarity=0.638 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 127 TIKELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 127 isK~L~qIsk~l~qI~K~l~q~~~ 150 (151)
.+..++.++..|.+.|+.|.+-++
T Consensus 211 ~i~~~ae~i~~L~~~R~~l~~Yi~ 234 (395)
T COG1498 211 NIRELAEIILELYELREQLEEYIE 234 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356788889999999999887765
No 300
>PRK14068 exodeoxyribonuclease VII small subunit; Provisional
Probab=35.16 E-value=1.6e+02 Score=20.70 Aligned_cols=16 Identities=19% Similarity=0.536 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHhhhh
Q psy18023 92 NQVIKELNLIIKESNQ 107 (151)
Q Consensus 92 ~QiSk~L~qISKel~q 107 (151)
++-.+.|+.|.+.|..
T Consensus 9 Eeal~~Le~IV~~LE~ 24 (76)
T PRK14068 9 EEMMQELEQIVQKLDN 24 (76)
T ss_pred HHHHHHHHHHHHHHHc
Confidence 3344445555555544
No 301
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=35.08 E-value=1.6e+02 Score=20.58 Aligned_cols=12 Identities=17% Similarity=0.376 Sum_probs=5.1
Q ss_pred HHHHHHHHhhhh
Q psy18023 96 KELNLIIKESNQ 107 (151)
Q Consensus 96 k~L~qISKel~q 107 (151)
+.|++|...+..
T Consensus 12 ~~LE~Iv~~LE~ 23 (76)
T PRK14063 12 SQLEHLVSKLEQ 23 (76)
T ss_pred HHHHHHHHHHHC
Confidence 344444444443
No 302
>cd07657 F-BAR_Fes_Fer The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) and Fer (Fes related) tyrosine kinases. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Fes (feline sarcoma), also called Fps (Fujinami poultry sarcoma), and Fer (Fes related) are cytoplasmic (or nonreceptor) tyrosine kinases that play roles in haematopoiesis, inflammation and immunity, growth factor signaling, cytoskeletal regulation, cell migration and adhesion, and the regulation of cell-cell interactions. Although Fes and Fer show redundancy in their biological functions, they show differences in their expression patterns. Fer is ubiquitously expressed while Fes is expressed predominantly in myeloid and endothelial cells. Fes and Fer contain an N-terminal F-BAR domain, an SH2 domain, and a C-terminal catalytic kinase domain. F-BAR domains form banana-shaped dimers with a posit
Probab=35.07 E-value=2.5e+02 Score=22.82 Aligned_cols=81 Identities=16% Similarity=0.263 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 65 QIKKELDQIIKELDQIIKELD-LIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIK 143 (151)
Q Consensus 65 QIsKnLdQISK~LdQIsK~Ld-qISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K 143 (151)
.|-..++++++..++++..|. ++...+..++..+.++.|.... -..++.++|......|+-.-|.-.+-.++...-++
T Consensus 69 ~iL~ete~~A~~~~~~ae~l~~~i~~~l~~l~~~~~~~rK~~~~-~~~kl~~el~~~~~el~k~Kk~Y~~~~~e~e~Ar~ 147 (237)
T cd07657 69 EIMDSTDQLSKLIKQHAEALESGTLDKLTLLIKDKRKAKKAYQE-ERQQIDEQYKKLTDEVEKLKSEYQKLLEDYKAAKS 147 (237)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444332 2334444444444444444432 12344556666666666666666666665555555
Q ss_pred HHH
Q psy18023 144 ELN 146 (151)
Q Consensus 144 ~l~ 146 (151)
++.
T Consensus 148 k~e 150 (237)
T cd07657 148 KFE 150 (237)
T ss_pred HHH
Confidence 543
No 303
>PF04888 SseC: Secretion system effector C (SseC) like family ; InterPro: IPR006972 SseC is a secreted protein that forms a complex together with SecB and SecD on the surface of Salmonella typhimurium. All these proteins are secreted by the type III secretion system []. Many mucosal pathogens use type III secretion systems for the injection of effector proteins into target cells. SecB, SseC and SecD are inserted into the target cell membrane. where they form a small pore or translocon [, ]. In addition to SseC, this family includes the bacterial secreted proteins PopB, PepB, YopB and EspD which are thought to be directly involved in pore formation, and type III secretion system translocon.; GO: 0009405 pathogenesis
Probab=35.05 E-value=2.4e+02 Score=22.72 Aligned_cols=23 Identities=13% Similarity=0.055 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 75 KELDQIIKELDLIIKESNQVIKE 97 (151)
Q Consensus 75 K~LdQIsK~LdqISK~l~QiSk~ 97 (151)
+.......++......+++|.+.
T Consensus 244 ~~~~~~~A~~~~~~a~~~~l~~~ 266 (306)
T PF04888_consen 244 KEAEKLQADQMELQAMMEQLQSI 266 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333
No 304
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=35.05 E-value=1.5e+02 Score=20.34 Aligned_cols=32 Identities=19% Similarity=0.422 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 117 LDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 117 Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
.+.+...+..+.+.+..+-..+..+..+++.+
T Consensus 69 ~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~~ 100 (108)
T PF02403_consen 69 AEELKAEVKELKEEIKELEEQLKELEEELNEL 100 (108)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455556666666666666666666554
No 305
>COG5074 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
Probab=35.03 E-value=2.6e+02 Score=24.81 Aligned_cols=24 Identities=46% Similarity=0.551 Sum_probs=19.5
Q ss_pred ccc-cchHHHHHHHHHHHHHHHHHH
Q psy18023 58 VDF-NKLDQIKKELDQIIKELDQII 81 (151)
Q Consensus 58 ~~~-~~LDQIsKnLdQISK~LdQIs 81 (151)
|-| |+.++|.+|+.++++...||.
T Consensus 21 ~~f~~~i~si~~n~s~~e~~i~qi~ 45 (280)
T COG5074 21 VTFMNKILSINKNLSVYEKEINQID 45 (280)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444 478899999999999988885
No 306
>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function. Several sequences in this family are described as being myosin heavy chain-like.
Probab=34.96 E-value=3.4e+02 Score=24.36 Aligned_cols=85 Identities=24% Similarity=0.353 Sum_probs=40.6
Q ss_pred chHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH-hhhh------------hhhHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKEL---DQIIKELDLIIKESNQVIKELNLIIK-ESNQ------------NKLDQIKKELDQMVKELD 125 (151)
Q Consensus 62 ~LDQIsKnLdQISK~L---dQIsK~LdqISK~l~QiSk~L~qISK-el~q------------k~LdqIsK~Ldqisk~ld 125 (151)
.|.+..+.+.+.-+.+ .++-..|+..+..+..+-+.|.++-. .++. ..|..+.++|++.-..|.
T Consensus 219 ~leeae~~l~~L~~e~~~~k~Le~kL~~a~~~l~~Lq~El~~~~~~~l~~~~~~~~~~~~~~~~l~s~~~ELe~ak~~L~ 298 (522)
T PF05701_consen 219 ELEEAEEELEELKEELEAAKDLESKLAEASAELESLQAELEAAKESKLEEEAEAKEKSSELQSSLASAKKELEEAKKELE 298 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 3566666666555554 12222334444444444444443332 1111 125555555655555555
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy18023 126 LTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 126 ~isK~L~qIsk~l~qI~K~l~ 146 (151)
.+-.++..+-..+.-++.+|.
T Consensus 299 ~~k~E~~~L~~~vesL~~ELe 319 (522)
T PF05701_consen 299 KAKEEASSLRASVESLRSELE 319 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 555555555555555555554
No 307
>KOG1300|consensus
Probab=34.89 E-value=2.9e+02 Score=26.63 Aligned_cols=9 Identities=33% Similarity=0.398 Sum_probs=4.9
Q ss_pred hhhhhcccc
Q psy18023 53 EKECKVDFN 61 (151)
Q Consensus 53 ~~~~~~~~~ 61 (151)
+|+-.+|-+
T Consensus 273 kk~vllde~ 281 (593)
T KOG1300|consen 273 KKEVLLDED 281 (593)
T ss_pred cceeecccC
Confidence 555555544
No 308
>PF06193 Orthopox_A5L: Orthopoxvirus A5L protein-like; InterPro: IPR010396 This family consists of several Orthopoxvirus A5L proteins. The vaccinia virus WR A5L open reading frame (corresponding to open reading frame A4L in vaccinia virus Copenhagen) encodes an immunodominant late protein found in the core of the vaccinia virion. The A5 protein appears to be required for the immature virion to form the brick-shaped intracellular mature virion [].
Probab=34.73 E-value=2.5e+02 Score=23.01 Aligned_cols=8 Identities=38% Similarity=0.526 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q psy18023 127 TIKELNQI 134 (151)
Q Consensus 127 isK~L~qI 134 (151)
+-..+|+|
T Consensus 144 T~~AIn~I 151 (166)
T PF06193_consen 144 TQDAINDI 151 (166)
T ss_pred HHHHHHHH
Confidence 33333443
No 309
>PF03234 CDC37_N: Cdc37 N terminal kinase binding; InterPro: IPR013855 In Saccharomyces cerevisiae (Baker's yeast), cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90 [].
Probab=34.61 E-value=2e+02 Score=23.15 Aligned_cols=31 Identities=29% Similarity=0.382 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 114 KKELDQMVKELDLTIKELNQIIKELNQIIKE 144 (151)
Q Consensus 114 sK~Ldqisk~ld~isK~L~qIsk~l~qI~K~ 144 (151)
...+..+..|++.+-+...++.+.|++..|+
T Consensus 130 ~~~~~~l~~H~~kl~~~~ke~~~kLeeLekE 160 (177)
T PF03234_consen 130 KAELEELQEHRAKLEKEQKELKKKLEELEKE 160 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666666666666666666554
No 310
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=34.60 E-value=3e+02 Score=23.74 Aligned_cols=58 Identities=21% Similarity=0.405 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKEL 124 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~l 124 (151)
.++.|-+++|.=--+..+++..+++.--+++.|-.|-..- +..|.+|+--|.-+.-++
T Consensus 55 ~sr~L~~LIk~EK~vi~s~e~~are~~~~A~~L~~WG~~e-dddl~DIsDklgvLl~e~ 112 (271)
T PF13805_consen 55 LSRKLQRLIKAEKSVIRSLESAARERKAAAKQLSEWGEQE-DDDLSDISDKLGVLLYEI 112 (271)
T ss_dssp TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS--HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHHHH
Confidence 3467777777777777778888888888888888887654 445666666655544433
No 311
>PF10737 GerPC: Spore germination protein GerPC; InterPro: IPR019673 GerPC is required for the formation of functionally normal spores. The gerP locus encodes a number of proteins which are thought to be involved in the establishment of normal spore coat structure and/or permeability, which allows the access of germinants to their receptor [].
Probab=34.27 E-value=2.1e+02 Score=23.24 Aligned_cols=11 Identities=55% Similarity=1.032 Sum_probs=7.6
Q ss_pred CCccCCCCCccc
Q psy18023 25 GLTPVTDGSTEE 36 (151)
Q Consensus 25 ~~~~~~~~~~~~ 36 (151)
|||| +||+.-+
T Consensus 48 Gl~p-~~~~~i~ 58 (176)
T PF10737_consen 48 GLNP-SDGQSIE 58 (176)
T ss_pred ccCC-CCcchHh
Confidence 8999 6666433
No 312
>PF12998 ING: Inhibitor of growth proteins N-terminal histone-binding; InterPro: IPR024610 Histones undergo numerous post-translational modifications, including acetylation and methylation, at residues which are then probable docking sites for various chromatin remodelling complexes. Inhibitor of growth proteins (INGs) specifically bind to residues that have been thus modified. INGs carry a well-characterised C-terminal PHD-type zinc-finger domain, binding with lysine 4-tri-methylated histone H3 (H3K4me3), as well as this N-terminal domain that binds unmodified H3 tails. Although these two regions can bind histones independently, together they increase the apparent association of the ING for the H3 tail. This entry represents the N-terminal histone binding domain found in inhibitor proteins.; PDB: 4AFL_A.
Probab=34.03 E-value=1.4e+02 Score=19.81 Aligned_cols=18 Identities=22% Similarity=0.401 Sum_probs=8.6
Q ss_pred hhhHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELD 125 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld 125 (151)
..+.+|.+.++.+..-.+
T Consensus 61 ~~~~~I~~~~~~~~~l~d 78 (105)
T PF12998_consen 61 ELLKEIQEEYERALELSD 78 (105)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345555555555444333
No 313
>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=34.03 E-value=2.8e+02 Score=23.16 Aligned_cols=12 Identities=25% Similarity=0.182 Sum_probs=4.5
Q ss_pred HHHHHHHHHHHH
Q psy18023 75 KELDQIIKELDL 86 (151)
Q Consensus 75 K~LdQIsK~Ldq 86 (151)
+++.++-+-...
T Consensus 89 ~~~~~fgk~~~l 100 (243)
T cd07666 89 EELKEYGPIYTL 100 (243)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 314
>PF13874 Nup54: Nucleoporin complex subunit 54; PDB: 3T97_B.
Probab=33.76 E-value=2e+02 Score=21.36 Aligned_cols=29 Identities=14% Similarity=0.134 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQV 94 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~Qi 94 (151)
....|+.|.+.++.+.++-...+.-+.++
T Consensus 49 ~~~~l~~i~~~l~~L~~~~~~~~~rl~~~ 77 (141)
T PF13874_consen 49 HRERLKEINDKLEELQKHDLETSARLEEA 77 (141)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 33334444444444433333333333333
No 315
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=33.66 E-value=1e+02 Score=23.16 Aligned_cols=12 Identities=33% Similarity=0.709 Sum_probs=4.8
Q ss_pred HHHHHHHHHHHH
Q psy18023 112 QIKKELDQMVKE 123 (151)
Q Consensus 112 qIsK~Ldqisk~ 123 (151)
++++.+..++.+
T Consensus 26 ~LK~~~~el~EE 37 (110)
T PRK13169 26 ALKKQLAELLEE 37 (110)
T ss_pred HHHHHHHHHHHH
Confidence 344444444433
No 316
>PRK12704 phosphodiesterase; Provisional
Probab=33.54 E-value=3.7e+02 Score=24.44 Aligned_cols=19 Identities=37% Similarity=0.496 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy18023 122 KELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 122 k~ld~isK~L~qIsk~l~q 140 (151)
+.|+.-.+.|++..+.++.
T Consensus 117 ~~Le~re~eLe~~~~~~~~ 135 (520)
T PRK12704 117 KELEQKQQELEKKEEELEE 135 (520)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333
No 317
>PF04558 tRNA_synt_1c_R1: Glutaminyl-tRNA synthetase, non-specific RNA binding region part 1 ; InterPro: IPR007639 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This is a domain found N-terminal to the catalytic domain of glutaminyl-tRNA synthetase (6.1.1.18 from EC) in eukaryotes but not in Escherichia coli. This domain is thought to bind RNA in a non-specific manner, enhancing interactions between the tRNA and enzyme, but is not essential for enzyme function [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 3TL4_X.
Probab=33.42 E-value=56 Score=25.55 Aligned_cols=31 Identities=29% Similarity=0.498 Sum_probs=19.8
Q ss_pred CChhHHHHhhhhhcccc-chHHHHHHHHHHHH
Q psy18023 45 NGIEEQEMEKECKVDFN-KLDQIKKELDQIIK 75 (151)
Q Consensus 45 ~~~~~~~~~~~~~~~~~-~LDQIsKnLdQISK 75 (151)
..+.+.+||++|+|-+. +-+||....++...
T Consensus 100 ~~~d~~~Fe~~cGVGV~VT~E~I~~~V~~~i~ 131 (164)
T PF04558_consen 100 EPIDVAEFEKACGVGVVVTPEQIEAAVEKYIE 131 (164)
T ss_dssp -G--HHHHHHTTTTT----HHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHcCCCeEECHHHHHHHHHHHHH
Confidence 35899999999999875 67777777666543
No 318
>KOG3651|consensus
Probab=33.41 E-value=1.6e+02 Score=27.13 Aligned_cols=47 Identities=21% Similarity=0.368 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 88 IKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKEL 138 (151)
Q Consensus 88 SK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l 138 (151)
+|-=+++-+-|+ -|+|||..+|-++|+-..++++..-.++..|.+..
T Consensus 294 ~kmR~DVleKmE----LLdqKHv~Di~~qL~~l~~tmak~~~~c~~~L~~~ 340 (429)
T KOG3651|consen 294 MKMRDDVLEKME----LLDQKHVRDIAQQLAILAKTMAKCQQECAEILKER 340 (429)
T ss_pred HHHHHHHHHHHH----HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 333344444444 36789999999999888888888888877777654
No 319
>COG1256 FlgK Flagellar hook-associated protein [Cell motility and secretion]
Probab=33.38 E-value=4e+02 Score=24.72 Aligned_cols=8 Identities=38% Similarity=0.779 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q psy18023 129 KELNQIIK 136 (151)
Q Consensus 129 K~L~qIsk 136 (151)
+++|++.+
T Consensus 170 ~~vNsLl~ 177 (552)
T COG1256 170 DEVNSLLK 177 (552)
T ss_pred HHHHHHHH
Confidence 33333333
No 320
>COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]
Probab=33.13 E-value=2.6e+02 Score=22.51 Aligned_cols=67 Identities=16% Similarity=0.328 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 65 QIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIK 136 (151)
Q Consensus 65 QIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk 136 (151)
-+++.||..++.++-+.++++-|-.+-+++----+.+-.-.+.| +..||+..-.+.+++.++.++..
T Consensus 28 kv~~tldevakt~~~l~~qv~gi~~eT~~Ll~K~N~L~eDvq~K-----v~tld~vf~aV~dl~~SV~~ln~ 94 (139)
T COG4768 28 KVSKTLDEVAKTLKGLTSQVDGITHETEELLHKTNTLAEDVQGK-----VATLDPVFDAVKDLGQSVSDLNQ 94 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-----HHhHhHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555555555555544444444333333332 23455555555555544444433
No 321
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=33.12 E-value=1.6e+02 Score=20.13 Aligned_cols=32 Identities=16% Similarity=0.432 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 117 LDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 117 Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
.+-+.+.++.+.+.++.+.+.+..+.+.++++
T Consensus 89 ~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l 120 (129)
T cd00890 89 IEFLKKRLETLEKQIEKLEKQLEKLQDQITEL 120 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444455555555566666666666665554
No 322
>PRK08147 flgK flagellar hook-associated protein FlgK; Validated
Probab=32.89 E-value=3.5e+02 Score=24.00 Aligned_cols=12 Identities=17% Similarity=0.313 Sum_probs=4.3
Q ss_pred HHHHHHHHHHHH
Q psy18023 120 MVKELDLTIKEL 131 (151)
Q Consensus 120 isk~ld~isK~L 131 (151)
.+.++..+.+.|
T Consensus 165 ~V~~iN~l~~~I 176 (547)
T PRK08147 165 SVDQINNYAKQI 176 (547)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 323
>cd07605 I-BAR_IMD Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), a dimerization module that binds and bends membranes. Inverse (I)-BAR (or IMD) is a member of the Bin/Amphiphysin/Rvs (BAR) domain family. It is a dimerization and lipid-binding module that bends membranes and induces membrane protrusions in the opposite direction compared to classical BAR and F-BAR domains, which produce membrane invaginations. IMD domains are found in Insulin Receptor tyrosine kinase Substrate p53 (IRSp53), Missing in Metastasis (MIM), and Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-like (BAIAP2L) proteins. These are multi-domain proteins that act as scaffolding proteins and transducers of a variety of signaling pathways that link membrane dynamics and the underlying actin cytoskeleton. Most members contain an N-terminal IMD, an SH3 domain, and a WASP homology 2 (WH2) actin-binding motif at the C-terminus, exccept for MIM which does not carry an SH3 domain. Some me
Probab=32.45 E-value=2.8e+02 Score=22.74 Aligned_cols=85 Identities=25% Similarity=0.326 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHhhhh---hhhHHHHHHHHHHHH---HHH-
Q psy18023 65 QIKKELDQIIKELDQIIKELDLII------------KESNQVIKELNLIIKESNQ---NKLDQIKKELDQMVK---ELD- 125 (151)
Q Consensus 65 QIsKnLdQISK~LdQIsK~LdqIS------------K~l~QiSk~L~qISKel~q---k~LdqIsK~Ldqisk---~ld- 125 (151)
.|+.-|.+++..--.|...|.++. +.+++|.|.+++.-|.-.. +.-+.|.|.-.+..| -..
T Consensus 65 ~lG~~L~~i~~~~r~ie~~l~~~~~~~~~~li~pLe~k~e~d~k~i~~~~K~y~~E~K~~~~~l~K~~sel~Kl~KKs~~ 144 (223)
T cd07605 65 ELGEALKQIVDTHKSIEASLEQVAKAFHGELILPLEKKLELDQKVINKFEKDYKKEYKQKREDLDKARSELKKLQKKSQK 144 (223)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 455556666655555555555554 3445555555555544333 233444443333222 111
Q ss_pred ----HHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 126 ----LTIKELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 126 ----~isK~L~qIsk~l~qI~K~l~q~~ 149 (151)
....-|++-..+|+...++|.+.+
T Consensus 145 ~~~~k~~~~l~~~~e~v~~k~~ele~~~ 172 (223)
T cd07605 145 SGTGKYQEKLDQALEELNDKQKELEAFV 172 (223)
T ss_pred cCCCcccHHHHHHHHHHHHHHHHHHHHH
Confidence 133345666666666666666553
No 324
>PF14131 DUF4298: Domain of unknown function (DUF4298)
Probab=32.26 E-value=1.8e+02 Score=20.45 Aligned_cols=23 Identities=13% Similarity=0.189 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 67 KKELDQIIKELDQIIKELDLIIK 89 (151)
Q Consensus 67 sKnLdQISK~LdQIsK~LdqISK 89 (151)
.+.++++.+-|.++.+.|++|-+
T Consensus 6 e~~y~~~~~~l~~le~~l~~~~~ 28 (90)
T PF14131_consen 6 EKIYNEWCELLEELEEALEKWQE 28 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444433
No 325
>PRK08412 flgL flagellar hook-associated protein FlgL; Validated
Probab=32.12 E-value=3.5e+02 Score=26.74 Aligned_cols=68 Identities=15% Similarity=0.080 Sum_probs=43.9
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE-SNQNKLDQIKKELDQMVKELDL 126 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe-l~qk~LdqIsK~Ldqisk~ld~ 126 (151)
..+.++|..+|...-...|..-...|+.+.+.|.++.+-+-|.+-. +++..+..|..++.++.++|-.
T Consensus 55 el~~l~Qy~~Nis~A~s~L~~aDtALssI~diLqr~RellVqAaNgT~S~~dR~AIA~El~~LleqLv~ 123 (827)
T PRK08412 55 EENTLDQGIDVASSAYTFTLNTDKALNEFSKTMEAFKTKLIQAANDVHSETSREAIANDLEALKEHMIN 123 (827)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 4567788888888888888888888888888887777655555432 2334455555555555444433
No 326
>cd07647 F-BAR_PSTPIP The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine Phosphatase-Interacting Proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Vetebrates contain two Proline-Serine-Threonine Phosphatase-Interacting Proteins (PSTPIPs), PSTPIP1 and PSTPIP2. PSTPIPs are mainly expressed in hematopoietic cells and are involved in the regulation of cell adhesion and motility. Mutations in PSTPIPs have been shown to cause autoinflammatory disorders. PSTPIP1 contains an N-terminal F-BAR domain, PEST motifs, and a C-terminal SH3 domain, while PSTPIP2 contains only the N-terminal F-BAR domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=31.90 E-value=2.6e+02 Score=22.08 Aligned_cols=9 Identities=33% Similarity=0.069 Sum_probs=4.0
Q ss_pred HHHHHHHHH
Q psy18023 95 IKELNLIIK 103 (151)
Q Consensus 95 Sk~L~qISK 103 (151)
++.|..|+|
T Consensus 39 ak~L~kLak 47 (239)
T cd07647 39 GKALLKLSK 47 (239)
T ss_pred HHHHHHHHh
Confidence 444444444
No 327
>PF04344 CheZ: Chemotaxis phosphatase, CheZ; InterPro: IPR007439 This family represents the bacterial chemotaxis phosphatase, CheZ. This protein forms a dimer characterised by a long four-helix bundle, composed of two helices from each monomer. CheZ dephosphorylates CheY in a reaction that is essential to maintain a continuous chemotactic response to environmental changes. It is thought that CheZ's conserved residue Gln 147 orientates a water molecule for nucleophilic attack at the CheY active site. ; GO: 0003824 catalytic activity, 0050920 regulation of chemotaxis, 0009288 bacterial-type flagellum; PDB: 1KMI_Z 2FMK_B 2PMC_F.
Probab=31.82 E-value=2.7e+02 Score=22.31 Aligned_cols=24 Identities=21% Similarity=0.427 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q psy18023 126 LTIKELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 126 ~isK~L~qIsk~l~qI~K~l~q~~ 149 (151)
.+-.-+..|+..|.+|-+.|.+++
T Consensus 132 LTGQ~IkKVv~~l~~vE~~L~~ll 155 (214)
T PF04344_consen 132 LTGQRIKKVVNLLQEVEERLVQLL 155 (214)
T ss_dssp HHHHHHHHHHHHHHHHHHTTTTTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444445556666666666666655
No 328
>PRK12717 flgL flagellar hook-associated protein FlgL; Provisional
Probab=31.74 E-value=3.9e+02 Score=24.18 Aligned_cols=41 Identities=20% Similarity=0.088 Sum_probs=27.4
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 59 DFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELN 99 (151)
Q Consensus 59 ~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~ 99 (151)
....++|..+|.+.....|..-...|.++...|..+-+-+-
T Consensus 55 ~~~~l~qy~~Ni~~a~~~L~~~esaL~~i~~~lqr~rel~v 95 (523)
T PRK12717 55 QQAMLDQYSGNITTIKNSLTQEESTLTSINDTLQRARELAV 95 (523)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566777777777777777777777777766666655443
No 329
>cd07597 BAR_SNX8 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 8. 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. SNX8 and the yeast counterpart Mvp1p are involved in sorting and delivery of late-Golgi proteins, such as carboxypeptidase Y, to vacuoles. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=31.63 E-value=2.7e+02 Score=22.34 Aligned_cols=22 Identities=18% Similarity=0.253 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy18023 111 DQIKKELDQMVKELDLTIKELN 132 (151)
Q Consensus 111 dqIsK~Ldqisk~ld~isK~L~ 132 (151)
..+...|..+++|+...+.-+.
T Consensus 87 ~~l~~~l~~~s~~~~~~s~~~~ 108 (246)
T cd07597 87 GDINEGLSSLSKHFQLLSDLSE 108 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5566666666666655554443
No 330
>PRK13589 flagellin; Provisional
Probab=31.49 E-value=4.8e+02 Score=25.07 Aligned_cols=89 Identities=17% Similarity=0.214 Sum_probs=49.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHhhhh---------hhhHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKE-----------LDLIIKESNQVIKELNLIIKESNQ---------NKLDQIKKELDQMV 121 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~-----------LdqISK~l~QiSk~L~qISKel~q---------k~LdqIsK~Ldqis 121 (151)
.+.++.++-.+.++.+.+++-- =-.|+..|..=...|+|-.+..++ ..|+.+.+-|..|.
T Consensus 14 AlrnL~~~~s~Ls~s~eRLSSGlRINsASDDpAGlAIA~rLrsQi~gL~Qa~rNandgiS~LQTAEgAL~ei~diLQRmR 93 (576)
T PRK13589 14 AHANSVVNSRELDKSLSRLSSGLRINSAADDASGMAIADSLRSQAATLGQAINNGNDAIGILQTADKAMDEQLKILDTIK 93 (576)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCccCChhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566666666666666531 123555555555566665555544 45556666665553
Q ss_pred HHHHHH------HHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 122 KELDLT------IKELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 122 k~ld~i------sK~L~qIsk~l~qI~K~l~q~~~ 150 (151)
.-+-+. .....-|-++++++..+|++|..
T Consensus 94 ELAVQAANGT~S~~DR~AIq~El~qL~eeI~~IAN 128 (576)
T PRK13589 94 TKATQAAQDGQSLKTRTMLQADINRLMEELDNIAN 128 (576)
T ss_pred HHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 222221 23455677788888888777653
No 331
>PRK14011 prefoldin subunit alpha; Provisional
Probab=31.45 E-value=2.5e+02 Score=21.73 Aligned_cols=29 Identities=21% Similarity=0.342 Sum_probs=11.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKES 91 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l 91 (151)
.+.+.++++.+.+.++++.+.++.++..|
T Consensus 97 i~~l~~~~~~l~~~i~~~~~~~~~l~~~L 125 (144)
T PRK14011 97 VEELDKTKKEGNKKIEELNKEITKLRKEL 125 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444444444444443333
No 332
>PRK12806 flagellin; Provisional
Probab=31.44 E-value=4e+02 Score=24.20 Aligned_cols=72 Identities=11% Similarity=0.088 Sum_probs=38.0
Q ss_pred hccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHHHHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE-SNQNKLDQIKKELDQMVKELDLTI 128 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe-l~qk~LdqIsK~Ldqisk~ld~is 128 (151)
....+.++|..+|..+-.-.|..-...|+.+..-|..+-+-.-|-.-. ++.....-|.+++.++..+++.|.
T Consensus 55 ~sqi~~l~qa~~N~~dgis~lqtae~aL~~i~~iLqr~reLavqaaNgt~s~~dR~ai~~Ei~~L~~~i~~ia 127 (475)
T PRK12806 55 TAQIRGMNQAVRNANDGISLAQVAEGAMQETTNILQRMRELSVQAANSTNNSSDRASIQSEISQLKSELERIA 127 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566667777766666666666666666666665555433333221 222344445555555554444443
No 333
>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []. Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus
Probab=31.44 E-value=5e+02 Score=25.28 Aligned_cols=97 Identities=25% Similarity=0.323 Sum_probs=64.6
Q ss_pred HhhhhhccccchHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHH
Q psy18023 52 MEKECKVDFNKLDQIKKELDQIIKELDQ----IIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELD 125 (151)
Q Consensus 52 ~~~~~~~~~~~LDQIsKnLdQISK~LdQ----IsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld 125 (151)
++-.++|--.-..+.+..|..+-..+.+ .....++|--.+....+-+..+.|...+ ..+..+.+.|..++....
T Consensus 357 Le~Ky~vav~Ev~~Lk~ELk~Lk~k~~~~~~~~~~ek~~~~~e~q~L~ekl~~lek~~re~qeri~~LE~ELr~l~~~A~ 436 (717)
T PF09730_consen 357 LECKYKVAVSEVIQLKAELKALKSKYNELEERYKQEKDRLESEVQNLKEKLMSLEKSSREDQERISELEKELRALSKLAG 436 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555666666655443333 3345556666666666677777775544 689999999999999888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 126 LTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 126 ~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
..-.+|+.--.+|...+..|.|+
T Consensus 437 E~q~~LnsAQDELvtfSEeLAqL 459 (717)
T PF09730_consen 437 ESQGSLNSAQDELVTFSEELAQL 459 (717)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 88777777777777777777665
No 334
>cd07669 BAR_SNX33 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 33. 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. SNX33 interacts with Wiskott-Aldrich syndrome protein (WASP) and plays a role in the maintenance of cell shape and cell cycle progression. It modulates the shedding and endocytosis of cellular prion protein (PrP(c)) and amyloid precursor protein (APP). BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=31.41 E-value=2.8e+02 Score=23.29 Aligned_cols=35 Identities=14% Similarity=0.273 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Q psy18023 93 QVIKELNLIIKESNQNKLDQIKKELDQMVKELDLT 127 (151)
Q Consensus 93 QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~i 127 (151)
+-.+.|..+..+...|.....+|+--.|.+.+-.+
T Consensus 26 ~svk~l~~~~~e~~kk~~~~~kkEyqkiG~af~~L 60 (207)
T cd07669 26 DSVLQLSNVASELVRKHLGGFRKEFQKLGNAFQAI 60 (207)
T ss_pred HHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHH
Confidence 33333333444444444444444444444433333
No 335
>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=31.38 E-value=2.2e+02 Score=21.12 Aligned_cols=26 Identities=31% Similarity=0.579 Sum_probs=11.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLII 88 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqIS 88 (151)
+.+..+.++++.+.......++....
T Consensus 90 l~~l~~el~~l~~~~~~~~~~l~~~~ 115 (191)
T PF04156_consen 90 LQQLQEELDQLQERIQELESELEKLK 115 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444333
No 336
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. 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. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=31.35 E-value=3e+02 Score=22.73 Aligned_cols=43 Identities=7% Similarity=0.176 Sum_probs=29.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE 104 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe 104 (151)
-++....+|.+..++++-+.++=..++..+...++++...+..
T Consensus 30 ~ie~LE~qLk~L~k~~~~lv~~r~eLa~~~~eFa~s~~~L~~~ 72 (234)
T cd07665 30 EVECEEQRLRKLHAVVETLVNHRKELALNTALFAKSLAMLGSS 72 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3556666777777777777776666666677777666665544
No 337
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=31.08 E-value=3e+02 Score=22.70 Aligned_cols=8 Identities=50% Similarity=0.663 Sum_probs=3.4
Q ss_pred HHHHHHhh
Q psy18023 98 LNLIIKES 105 (151)
Q Consensus 98 L~qISKel 105 (151)
|+.++|++
T Consensus 65 lE~iIkqa 72 (230)
T PF10146_consen 65 LENIIKQA 72 (230)
T ss_pred HHHHHHHH
Confidence 44444443
No 338
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=30.96 E-value=2.2e+02 Score=21.13 Aligned_cols=19 Identities=32% Similarity=0.613 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy18023 129 KELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 129 K~L~qIsk~l~qI~K~l~q 147 (151)
+.|++....+..+...++.
T Consensus 106 ~~l~~~~~~~~~~~~~~~~ 124 (204)
T PF04740_consen 106 KKLNQLKEQIEDLQDEINS 124 (204)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 3333333344444444433
No 339
>KOG2273|consensus
Probab=30.80 E-value=3.6e+02 Score=23.38 Aligned_cols=43 Identities=16% Similarity=0.359 Sum_probs=27.5
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK 103 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK 103 (151)
+.++++...+..+.+.+..+.+........++++.+.+.+|+.
T Consensus 281 ~~i~~l~~~l~~l~~~~~~~~~~~~~l~~~~~~~g~~~~~l~~ 323 (503)
T KOG2273|consen 281 EKIDKLEQQLKKLSKQVQRLVKRRRELASNLAELGKALAQLSA 323 (503)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555666666666666666666666777776666666654
No 340
>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []. This entry represents proteins annotated as RAB6-interacting golgins.
Probab=30.70 E-value=3e+02 Score=22.62 Aligned_cols=67 Identities=24% Similarity=0.353 Sum_probs=0.0
Q ss_pred HhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh----------hhhHHHHHHHH
Q psy18023 52 MEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ----------NKLDQIKKELD 118 (151)
Q Consensus 52 ~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q----------k~LdqIsK~Ld 118 (151)
|.||...=-...|++-+.|+-..++-..=-+++-.+.+.+|.-.+.=.+..-.|.. |+|.+++|.++
T Consensus 82 ~RkEv~~vRkkID~vNreLkpl~~~cqKKEkEykealea~nEknkeK~~Lv~~L~eLv~eSE~~rmKKLEELsk~ie 158 (159)
T PF04949_consen 82 MRKEVEMVRKKIDSVNRELKPLGQSCQKKEKEYKEALEAFNEKNKEKAQLVTRLMELVSESERLRMKKLEELSKEIE 158 (159)
T ss_pred hHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
No 341
>cd07685 F-BAR_Fes The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) tyrosine kinase. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Fes (feline sarcoma), also called Fps (Fujinami poultry sarcoma), is a cytoplasmic (or nonreceptor) tyrosine kinase whose gene was first isolated from tumor-causing retroviruses. It is expressed in myeloid, vascular endothelial, epithelial, and neuronal cells, and plays important roles in cell growth and differentiation, angiogenesis, inflammation and immunity, and cytoskeletal regulation. Fes kinase has also been implicated as a tumor suppressor in colorectal cancer. It contains an N-terminal F-BAR domain, an SH2 domain, and a C-terminal catalytic kinase domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane def
Probab=30.64 E-value=3.4e+02 Score=23.18 Aligned_cols=72 Identities=11% Similarity=0.280 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh---hhhHHHHHHHHH----HHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhh
Q psy18023 79 QIIKELDLIIKESNQVIKELNLIIKESNQ---NKLDQIKKELDQ----MVKELDLTIKELNQIIK-ELNQIIKELNQIVE 150 (151)
Q Consensus 79 QIsK~LdqISK~l~QiSk~L~qISKel~q---k~LdqIsK~Ldq----isk~ld~isK~L~qIsk-~l~qI~K~l~q~~~ 150 (151)
.|++.-..+....+++|+.+.+-+.+++- ..|+-+.+.-++ ......+|-.++.+... .|+...++-++...
T Consensus 66 ~i~~sW~~il~QTE~isk~~~~~Aeeln~~~~~kLs~L~~~k~~~rK~~~~~~q~i~~e~~~~t~~eveK~Kk~Y~~~c~ 145 (237)
T cd07685 66 PISQSWAVLVSQTETLSQVLRKHAEDLNAGPLSKLSLLIRDKQQLRKTFSEQWQLLKQEYTKTTQQDIEKLKSQYRSLAK 145 (237)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 342
>PRK12714 flgK flagellar hook-associated protein FlgK; Provisional
Probab=30.62 E-value=4.4e+02 Score=24.35 Aligned_cols=9 Identities=22% Similarity=0.700 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q psy18023 130 ELNQIIKEL 138 (151)
Q Consensus 130 ~L~qIsk~l 138 (151)
.+|++.+.+
T Consensus 167 ~IN~l~~~I 175 (624)
T PRK12714 167 EVNRLTQQI 175 (624)
T ss_pred HHHHHHHHH
Confidence 333333333
No 343
>cd07673 F-BAR_FCHO2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 2 protein. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. The specific function of FCH domain Only 2 (FCHO2) is still unknown. It contains an N-terminal F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in FCHO1 and endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=30.57 E-value=3e+02 Score=22.52 Aligned_cols=34 Identities=18% Similarity=0.274 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIK 96 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk 96 (151)
.+.+...++.++..=.+|+..|..+++.+.++.+
T Consensus 69 ~~~~~~e~e~~a~~H~~la~~L~~~~~~l~~~~~ 102 (269)
T cd07673 69 WDVFKTSTEKLANCHLELVRKLQELIKEVQKYGE 102 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444434444444433
No 344
>PF12805 FUSC-like: FUSC-like inner membrane protein yccS
Probab=30.43 E-value=2.8e+02 Score=22.13 Aligned_cols=35 Identities=23% Similarity=0.376 Sum_probs=15.3
Q ss_pred hHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHHH
Q psy18023 48 EEQEMEKECKVDFNKLDQIKKELDQIIKELDQIIKE 83 (151)
Q Consensus 48 ~~~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~ 83 (151)
.-+++.+..+ +-.-++.+...+.+++..+++|...
T Consensus 194 ~y~~l~~~f~-~~~~l~~~~~~l~~~a~~l~~ia~a 228 (284)
T PF12805_consen 194 DYEELREQFK-HSDVLFRFQRLLEQLAQALRQIAQA 228 (284)
T ss_pred cHHHHHHHhc-CChHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444 3333444444444444444444433
No 345
>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]
Probab=30.37 E-value=3.1e+02 Score=22.54 Aligned_cols=36 Identities=22% Similarity=0.350 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 113 IKKELDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 113 IsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
|.-.+.+|-.+|...-..+++++..--+.-+++++.
T Consensus 29 l~Q~ird~~~~l~~ar~~~A~~~a~~k~~e~~~~~~ 64 (225)
T COG1842 29 LEQAIRDMESELAKARQALAQAIARQKQLERKLEEA 64 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333445555555555555555555555555555543
No 346
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=30.36 E-value=1.3e+02 Score=18.31 Aligned_cols=53 Identities=9% Similarity=0.219 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHH
Q psy18023 77 LDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKE 130 (151)
Q Consensus 77 LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~ 130 (151)
...|-+++..--..++.+.+.-..+... ....-+.|.+.+++|....+.+...
T Consensus 43 ~~~~~~ei~~~~~~l~~l~~~~~~L~~~-~~~~~~~i~~~~~~l~~~w~~l~~~ 95 (105)
T PF00435_consen 43 HKELQEEIESRQERLESLNEQAQQLIDS-GPEDSDEIQEKLEELNQRWEALCEL 95 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHT-THTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhhhhHHHHHHHHHHHHHHHHHHHHHc-CCCcHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444455554444444222 2223345555555444444444333
No 347
>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p. 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. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=30.11 E-value=2.7e+02 Score=21.72 Aligned_cols=42 Identities=17% Similarity=0.322 Sum_probs=27.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK 103 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK 103 (151)
.++++..+|...++.++-+.+.=..+...+..+++++...+.
T Consensus 12 ~i~~Le~~Lk~l~~~~~~l~~~r~ela~~~~efa~~~~~L~~ 53 (216)
T cd07627 12 YLDSLESQLKQLYKSLELVSSQRKELASATEEFAETLEALSS 53 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666677777777766666666666666666666666654
No 348
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=30.09 E-value=5.1e+02 Score=24.99 Aligned_cols=51 Identities=31% Similarity=0.577 Sum_probs=28.1
Q ss_pred hccccccCChhHHHHhhhhhcc---cc----chHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 38 EINLESSNGIEEQEMEKECKVD---FN----KLDQIKKELDQIIKELDQIIKELDLII 88 (151)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~---~~----~LDQIsKnLdQISK~LdQIsK~LdqIS 88 (151)
+|..-+-..+||+=.+.|---| |+ .+|+|-.-|+-|-++++||-.+++++.
T Consensus 74 di~~~~fadvEE~lfeAE~~~dkfrF~kA~~~i~~ie~~l~~iE~~i~~il~~l~~Lv 131 (570)
T COG4477 74 DIVTNSFADVEEHLFEAEALADKFRFNKAKHEIDDIEQQLTLIEEDIEQILEDLNELV 131 (570)
T ss_pred HHHHhhcccHHHHHHHHHHhhhhhhhHHhhhhHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455677887777775433 43 345555555555555555555554443
No 349
>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p. 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. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=29.99 E-value=2.7e+02 Score=21.70 Aligned_cols=41 Identities=20% Similarity=0.322 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 67 KKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 67 sKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
+..++++-.+|....+.++.+.+.=.++...+..+++.+..
T Consensus 10 k~~i~~Le~~Lk~l~~~~~~l~~~r~ela~~~~efa~~~~~ 50 (216)
T cd07627 10 KQYLDSLESQLKQLYKSLELVSSQRKELASATEEFAETLEA 50 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444444444444443
No 350
>PF15112 DUF4559: Domain of unknown function (DUF4559)
Probab=29.92 E-value=4e+02 Score=23.68 Aligned_cols=104 Identities=14% Similarity=0.226 Sum_probs=46.9
Q ss_pred cccccCChhHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHH-HHHHHHH---HHHHHHHHHHHHhhhh-hhhH-HH
Q psy18023 40 NLESSNGIEEQEMEKECKVDFNKLDQIKKELDQIIKELDQIIKEL-DLIIKES---NQVIKELNLIIKESNQ-NKLD-QI 113 (151)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~L-dqISK~l---~QiSk~L~qISKel~q-k~Ld-qI 113 (151)
+-+-..++.+..+-..|.++-..+-..++-++-=-+.|..=-.+| .+.-... +++++.|+-+..-|+. +.|. ..
T Consensus 197 ~~d~~v~~~~~d~~Dg~~~~~~~~~~~~~i~e~e~e~Lke~lqel~~~~e~~~~~~ee~~~~l~~~~~fL~~NkDL~~~l 276 (307)
T PF15112_consen 197 TSDWAVHIPEEDQRDGCESETDVYLSESQILEIEMELLKEKLQELYLQAEEQEVLPEEDSKRLEVLKEFLRNNKDLRSNL 276 (307)
T ss_pred hhhhhhcCchhhccchhhhccchhhhHHHHHHHHHHHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHhcHHHHHHH
Confidence 345566777666666666655554444443221111111111122 2222222 5566667666666666 3343 33
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 114 KKELDQMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 114 sK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
+..+ ..|+++-..+.+.-+.|..+....+|
T Consensus 277 ~~e~----qkL~~l~~k~~~~~~~v~~~~~~~~q 306 (307)
T PF15112_consen 277 QEEL----QKLDSLQTKHQKLESDVKELKSQMPQ 306 (307)
T ss_pred HHHH----HHHHHHHHHhcchhhhhhHHHhhccC
Confidence 3333 33333333444444444444444433
No 351
>PRK14011 prefoldin subunit alpha; Provisional
Probab=29.79 E-value=2.6e+02 Score=21.59 Aligned_cols=34 Identities=21% Similarity=0.198 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q psy18023 75 KELDQIIKELDLIIKESNQVIKELNLIIKESNQN 108 (151)
Q Consensus 75 K~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk 108 (151)
+..+.+.+.++.+.+.++++.+.++.|...|.++
T Consensus 95 ~ri~~l~~~~~~l~~~i~~~~~~~~~l~~~L~~k 128 (144)
T PRK14011 95 KSVEELDKTKKEGNKKIEELNKEITKLRKELEKR 128 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444444444455555444443
No 352
>KOG0994|consensus
Probab=29.75 E-value=6e+02 Score=27.48 Aligned_cols=89 Identities=20% Similarity=0.259 Sum_probs=0.0
Q ss_pred chHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-----hhhHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKEL----------DQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-----NKLDQIKKELDQMVKELDL 126 (151)
Q Consensus 62 ~LDQIsKnL----------dQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-----k~LdqIsK~Ldqisk~ld~ 126 (151)
+|.+|++-| .|+++.++-..+.+-..-..|.|+-.-|.+|-.+++- .+|..=...|.+++|+|++
T Consensus 1209 kl~~ir~il~~~svs~~~i~~l~~~~~~lr~~l~~~~e~L~~~E~~Lsdi~~~~~~a~~~LesLq~~~~~l~~~~keL~e 1288 (1758)
T KOG0994|consen 1209 KLEEIRAILSAPSVSAEDIAQLASATESLRRQLQALTEDLPQEEETLSDITNSLPLAGKDLESLQREFNGLLTTYKELRE 1288 (1758)
T ss_pred HHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHH--HHHHHHHHHHHHHHHHhhh
Q psy18023 127 TIKEL--NQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 127 isK~L--~qIsk~l~qI~K~l~q~~~ 150 (151)
-..-| .+|.-.+|-|++.-.|-.+
T Consensus 1289 ~~~~ik~sdi~GA~~~~r~a~~~s~e 1314 (1758)
T KOG0994|consen 1289 QLEKIKESDILGAFNSTRHAYEQSAE 1314 (1758)
T ss_pred HHHHhhccCchhHHHHHHHHHHHHHH
No 353
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=29.73 E-value=2.4e+02 Score=21.53 Aligned_cols=18 Identities=39% Similarity=0.726 Sum_probs=8.1
Q ss_pred hhhHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELD 125 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld 125 (151)
.++|+..++|.++.+.+.
T Consensus 73 Rk~~kl~~el~~~~~~~~ 90 (161)
T PF04420_consen 73 RKLDKLEEELEKLNKSLS 90 (161)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444444444433
No 354
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=29.47 E-value=1.6e+02 Score=19.08 Aligned_cols=34 Identities=12% Similarity=0.249 Sum_probs=18.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQI 141 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI 141 (151)
..+=.+++.+..|...+..+...|..+...+.++
T Consensus 51 ~~fI~as~~I~~m~~~~~~l~~~l~~l~~~~~~l 84 (87)
T PF08700_consen 51 RDFIEASDEISSMENDLSELRNLLSELQQSIQSL 84 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4444556666666666655555555555554443
No 355
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=29.45 E-value=3.7e+02 Score=23.20 Aligned_cols=33 Identities=18% Similarity=0.240 Sum_probs=13.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVI 95 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiS 95 (151)
|.++-|.=--+..+++..+++.--+++.|-.|-
T Consensus 59 L~~LIk~EK~vi~s~e~~are~~~~A~~L~~WG 91 (271)
T PF13805_consen 59 LQRLIKAEKSVIRSLESAARERKAAAKQLSEWG 91 (271)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333333333333444444444444444444443
No 356
>KOG2629|consensus
Probab=29.39 E-value=4.1e+02 Score=23.67 Aligned_cols=13 Identities=31% Similarity=0.710 Sum_probs=6.3
Q ss_pred HHHHHHHHHHhcC
Q psy18023 13 RRHYFALFRMFDG 25 (151)
Q Consensus 13 ~~~~~~~~~~~~~ 25 (151)
-|.||.+--.+-|
T Consensus 83 wrdy~vmAvi~aG 95 (300)
T KOG2629|consen 83 WRDYFVMAVILAG 95 (300)
T ss_pred HHHHHHHHHHHhh
Confidence 3456555444444
No 357
>cd07674 F-BAR_FCHO1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 1 protein. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. FCH domain Only 1 (FCHO1) may be involved in clathrin-coated vesicle formation. It contains an N-terminal F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in FCHO2 and endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=29.34 E-value=3e+02 Score=22.11 Aligned_cols=70 Identities=20% Similarity=0.234 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--------hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 67 KKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--------NKLDQIKKELDQMVKELDLTIKELNQIIKEL 138 (151)
Q Consensus 67 sKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--------k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l 138 (151)
-|+=-...++|..|-+.=..|-+ ..+++|..|+|.... ..++.|..+.+.|+..=.+++..|.++++.+
T Consensus 14 ~k~g~~~~kel~~flkeRa~IEe---~Yak~L~klak~~~~~~e~Gtl~~~w~~~~~~~E~~a~~H~~l~~~L~~~~~~i 90 (261)
T cd07674 14 MKHGQISTKELADFVRERAAIEE---TYSKSMSKLSKMASNGSPLGTFAPMWEVFRVSSDKLALCHLELMRKLNDLIKDI 90 (261)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhcccCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334555666666665554432 456667777765433 4555666666666655555555555544444
Q ss_pred H
Q psy18023 139 N 139 (151)
Q Consensus 139 ~ 139 (151)
.
T Consensus 91 ~ 91 (261)
T cd07674 91 N 91 (261)
T ss_pred H
Confidence 4
No 358
>PF12495 Vip3A_N: Vegetative insecticide protein 3A N terminal ; InterPro: IPR022180 This family of proteins is found in bacteria. Proteins in this family are typically between 170 and 789 amino acids in length. The family is found in association with PF02018 from PFAM. Vip3A represents a novel class of proteins insecticidal to lepidopteran insect larvae.
Probab=29.27 E-value=3.3e+02 Score=22.46 Aligned_cols=86 Identities=31% Similarity=0.440 Sum_probs=43.0
Q ss_pred chHHHHHH---HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhhhh------hhhHHHHHHHH-----------
Q psy18023 62 KLDQIKKE---LDQIIKELDQIIKELDLIIKES---NQVIKELNLIIKESNQ------NKLDQIKKELD----------- 118 (151)
Q Consensus 62 ~LDQIsKn---LdQISK~LdQIsK~LdqISK~l---~QiSk~L~qISKel~q------k~LdqIsK~Ld----------- 118 (151)
.||.|-|| |.|||..||-+--+|.+....= ...+|++-.|..+-++ ++|+.|..-|.
T Consensus 36 tldeilknq~lln~is~kldging~l~dliaqgnln~el~ke~lkianeqn~~ln~vn~~l~~in~~l~~ylpkitsmls 115 (177)
T PF12495_consen 36 TLDEILKNQQLLNQISDKLDGINGSLNDLIAQGNLNSELSKEILKIANEQNQMLNNVNNQLNSINSMLNTYLPKITSMLS 115 (177)
T ss_pred cHHHHHHhHHHHHHhcccccccCCcHHHHHHcCCccHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 57777776 4566666666666655543221 1345555555555444 45555543332
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 119 QMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 119 qisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
+..|.---.|-.+.-.|+.|..|+.+|+-
T Consensus 116 ~vmkqny~lslqie~ls~qlqeisdkldi 144 (177)
T PF12495_consen 116 DVMKQNYVLSLQIEFLSKQLQEISDKLDI 144 (177)
T ss_pred HHHHhhhhhhhhHHHHHHHHHHHhhhcce
Confidence 22222112222344456666666666653
No 359
>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h. Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, different
Probab=29.25 E-value=3e+02 Score=22.38 Aligned_cols=42 Identities=12% Similarity=0.201 Sum_probs=28.4
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLII 102 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qIS 102 (151)
+...-..|+|+.+.+.+|.++.+...+..--.|+++.-.++.
T Consensus 200 ~~~~~le~~l~~l~~~id~l~~e~~~~~~y~r~~~~~~~~~~ 241 (266)
T cd08065 200 STNSFLEKNLELLMESVDELSQEQGKFNYYQRNLARQQAQIQ 241 (266)
T ss_pred cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444456777777777777777777777777666666655543
No 360
>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins. There is a characteristic KxDL motif towards the C terminus. The function is unknown.
Probab=29.09 E-value=2e+02 Score=20.04 Aligned_cols=68 Identities=21% Similarity=0.268 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 78 DQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 78 dQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~ 146 (151)
+.+..-=.++|..++.-...|..... +.+..|..++..+.+=.+.+-.+-+-|+-|-|-+..|..+|.
T Consensus 14 ~~~l~~Q~~~l~~ln~tn~~L~~~n~-~s~~rl~~~~~~f~~~~~~l~~mK~DLd~i~krir~lk~kl~ 81 (88)
T PF10241_consen 14 DEILALQAQTLGRLNKTNEELLNLND-LSQQRLAEARERFARHTKLLKEMKKDLDYIFKRIRSLKAKLA 81 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333344555555555555555432 234567777777777777888888888888888777776664
No 361
>PRK08027 flgL flagellar hook-associated protein FlgL; Reviewed
Probab=28.78 E-value=3.4e+02 Score=22.52 Aligned_cols=37 Identities=5% Similarity=-0.020 Sum_probs=19.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKEL 98 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L 98 (151)
.++|+.+|.+.....|..-...|..++..|..+.+-+
T Consensus 58 ~~~qy~~n~~~a~~~l~~~e~~L~~i~~~l~r~rel~ 94 (317)
T PRK08027 58 QNSQYTLARTFATQKVSLEESVLSQVTTAIQNAQEKI 94 (317)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555555555555555555544433
No 362
>COG1322 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]
Probab=28.75 E-value=4.5e+02 Score=23.95 Aligned_cols=17 Identities=12% Similarity=0.054 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy18023 127 TIKELNQIIKELNQIIK 143 (151)
Q Consensus 127 isK~L~qIsk~l~qI~K 143 (151)
+.++..+-+..+++|.+
T Consensus 152 ~~~s~~~~~~~~~~i~~ 168 (448)
T COG1322 152 IHESAEERSTLLEEIDR 168 (448)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444444444444443
No 363
>cd07673 F-BAR_FCHO2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 2 protein. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. The specific function of FCH domain Only 2 (FCHO2) is still unknown. It contains an N-terminal F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in FCHO1 and endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=28.72 E-value=3.3e+02 Score=22.32 Aligned_cols=29 Identities=24% Similarity=0.299 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 73 IIKELDQIIKELDLIIKESNQVIKELNLIIKE 104 (151)
Q Consensus 73 ISK~LdQIsK~LdqISK~l~QiSk~L~qISKe 104 (151)
..++|..|.|.=..|- +..++.|..|+|.
T Consensus 27 ~~kel~~f~keRa~iE---e~Yak~L~kLak~ 55 (269)
T cd07673 27 STKELSDFIRERATIE---EAYSRSMTKLAKS 55 (269)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHHHhh
Confidence 3444444444433332 2334444444443
No 364
>cd07686 F-BAR_Fer The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fer (Fes related) tyrosine kinase. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Fer (Fes related) is a cytoplasmic (or nonreceptor) tyrosine kinase expressed in a wide variety of tissues, and is found to reside in both the cytoplasm and the nucleus. It plays important roles in neuronal polarization and neurite development, cytoskeletal reorganization, cell migration, growth factor signaling, and the regulation of cell-cell interactions mediated by adherens junctions and focal adhesions. Fer kinase also regulates cell cycle progression in malignant cells. It contains an N-terminal F-BAR domain, an SH2 domain, and a C-terminal catalytic kinase domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membran
Probab=28.53 E-value=3.4e+02 Score=22.50 Aligned_cols=24 Identities=25% Similarity=0.274 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 122 KELDLTIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 122 k~ld~isK~L~qIsk~l~qI~K~l 145 (151)
..|.-.-+.-.+..+.+..-+++.
T Consensus 127 ~~l~K~K~~Y~~~~~~~e~ar~K~ 150 (234)
T cd07686 127 TELEKLKCSYRQLTKEVNSAKEKY 150 (234)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHH
Confidence 334444444555555555555554
No 365
>TIGR03036 trp_2_3_diox tryptophan 2,3-dioxygenase. Members of this family are tryptophan 2,3-dioxygenase, as confirmed by several experimental characterizations, and by conserved operon structure for many of the other members. This enzyme represents the first of a two-step degradation to L-kynurenine, and a three-step pathway (via kynurenine) to anthranilate plus alanine.
Probab=28.47 E-value=2.8e+02 Score=23.74 Aligned_cols=42 Identities=12% Similarity=0.128 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 91 SNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELN 132 (151)
Q Consensus 91 l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~ 132 (151)
+.+|..+|+.+.+.+.+..+....+.|+.+++.+.++..+.+
T Consensus 44 fklil~El~~a~~~l~~~~~~~a~~~L~Rv~~i~~~L~~~~~ 85 (264)
T TIGR03036 44 MKLILHELRAARRAIRADDLPPAFKMLARVSRIQEQLNQAWD 85 (264)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555555566666666777777766666665543
No 366
>PF06419 COG6: Conserved oligomeric complex COG6; InterPro: IPR010490 COG6 is a component of the conserved oligomeric golgi complex, which is composed of eight different subunits and is required for normal golgi morphology and localisation.
Probab=28.41 E-value=4.7e+02 Score=24.00 Aligned_cols=26 Identities=12% Similarity=0.316 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 72 QIIKELDQIIKELDLIIKESNQVIKE 97 (151)
Q Consensus 72 QISK~LdQIsK~LdqISK~l~QiSk~ 97 (151)
.+.+.|+.+..+++.+.+.-+++.+.
T Consensus 42 ~v~~~l~~~~~~v~~l~~~~~~~~~~ 67 (618)
T PF06419_consen 42 PVNRQLKRLQSDVDKLNSSCDQMQDR 67 (618)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444444443333333
No 367
>PF11172 DUF2959: Protein of unknown function (DUF2959); InterPro: IPR021342 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=28.39 E-value=3.6e+02 Score=22.64 Aligned_cols=41 Identities=22% Similarity=0.398 Sum_probs=31.7
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 105 SNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 105 l~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l 145 (151)
||-.-+..++-++..|...++..++..+..+.+-+..++.|
T Consensus 160 LNA~AI~sL~~e~~~~~~di~~Li~~m~~sI~ead~FI~~l 200 (201)
T PF11172_consen 160 LNAQAIASLQGEFSSIESDISQLIKEMERSIAEADAFIASL 200 (201)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44456777888888888888888888888888888877765
No 368
>PRK08871 flgK flagellar hook-associated protein FlgK; Validated
Probab=28.23 E-value=5e+02 Score=24.26 Aligned_cols=9 Identities=44% Similarity=0.781 Sum_probs=3.6
Q ss_pred HHHHHHHHh
Q psy18023 140 QIIKELNQI 148 (151)
Q Consensus 140 qI~K~l~q~ 148 (151)
++.++|.++
T Consensus 201 ~ll~eLS~~ 209 (626)
T PRK08871 201 KLVKELSQY 209 (626)
T ss_pred HHHHHHHhh
Confidence 334444443
No 369
>cd07653 F-BAR_CIP4-like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Cdc42-Interacting Protein 4 and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Cdc42-Interacting Protein 4 (CIP4), Formin Binding Protein 17 (FBP17), FormiN Binding Protein 1-Like (FNBP1L), and similar proteins. CIP4 and FNBP1L are Cdc42 effectors that bind Wiskott-Aldrich syndrome protein (WASP) and function in endocytosis. CIP4 and FBP17 bind to the Fas ligand and may be implicated in the inflammatory response. CIP4 may also play a role in phagocytosis. Members of this subfamily typically contain an N-terminal F-BAR domain and a C-terminal SH3 domain. In addition, some members such as FNBP1L contain a central Cdc42-binding HR1 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged l
Probab=28.09 E-value=2.8e+02 Score=21.37 Aligned_cols=37 Identities=27% Similarity=0.354 Sum_probs=17.5
Q ss_pred hHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELD-QIIKELDLIIKESNQVIKELN 99 (151)
Q Consensus 63 LDQIsKnLdQISK~Ld-QIsK~LdqISK~l~QiSk~L~ 99 (151)
+..++..-.+++..|. ++...|..|.+.+.+..|.+.
T Consensus 74 ~~~~a~~H~~~a~~l~~~v~~~l~~~~~~~~~~rK~~~ 111 (251)
T cd07653 74 VNDIAGQHELIAENLNSNVCKELKTLISELRQERKKHL 111 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444445555443 444555555554444444433
No 370
>PRK06665 flgK flagellar hook-associated protein FlgK; Validated
Probab=28.09 E-value=4.8e+02 Score=24.07 Aligned_cols=19 Identities=16% Similarity=0.466 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy18023 115 KELDQMVKELDLTIKELNQ 133 (151)
Q Consensus 115 K~Ldqisk~ld~isK~L~q 133 (151)
.+++..+.++..+.+.|++
T Consensus 171 ~~i~~~V~~iN~ll~qIa~ 189 (627)
T PRK06665 171 DEIEITVEEINNILRNIAD 189 (627)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444433
No 371
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. 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. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=28.01 E-value=3.4e+02 Score=22.22 Aligned_cols=41 Identities=5% Similarity=0.220 Sum_probs=26.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK 103 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK 103 (151)
++....+|.+..+.++-+.++=..+..++..++++++..+.
T Consensus 31 i~~Le~~Lk~l~k~~~~lv~~rkela~~~~efa~s~~~L~~ 71 (234)
T cd07664 31 FENLDQQLRKLHASVESLVCHRKELSANTAAFAKSAAMLGN 71 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 55566666666666666666666666666666666666655
No 372
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=27.98 E-value=2.3e+02 Score=20.38 Aligned_cols=29 Identities=21% Similarity=0.117 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 78 DQIIKELDLIIKESNQVIKELNLIIKESN 106 (151)
Q Consensus 78 dQIsK~LdqISK~l~QiSk~L~qISKel~ 106 (151)
+.+-.-...|..+++.+|+.+..|-+.|.
T Consensus 36 ~~y~~~~~~iT~~f~~~S~ei~~ie~~L~ 64 (97)
T PF14966_consen 36 EAYRQLCHEITQEFSAISKEILAIEAELR 64 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45555555566666666666666666665
No 373
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=27.83 E-value=2.6e+02 Score=26.06 Aligned_cols=26 Identities=19% Similarity=0.264 Sum_probs=11.7
Q ss_pred hHHHHHHHHHHHHHhcCCccCCCCCc
Q psy18023 9 CLRLRRHYFALFRMFDGLTPVTDGST 34 (151)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 34 (151)
-+..||.+.-|.-..-|..-+.-|+-
T Consensus 6 ~~~~rkQ~~~~~~~~~g~~a~~~g~~ 31 (475)
T PRK13729 6 TIVKRKQYLWLGIVVVGAAAAIGGAL 31 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhceE
Confidence 45555655444334334444444433
No 374
>cd07658 F-BAR_NOSTRIN The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Nitric Oxide Synthase TRaffic INducer (NOSTRIN). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Nitric Oxide Synthase TRaffic INducer (NOSTRIN) is expressed in endothelial and epithelial cells and is involved in the regulation, trafficking and targeting of endothelial NOS (eNOS). NOSTRIN facilitates the endocytosis of eNOS by coordinating the functions of dynamin and the Wiskott-Aldrich syndrome protein (WASP). Increased expression of NOSTRIN may be correlated to preeclampsia. NOSTRIN contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules. The F-BAR domain of NOSTRIN is necessary and sufficient fo
Probab=27.82 E-value=3.2e+02 Score=21.88 Aligned_cols=15 Identities=7% Similarity=0.206 Sum_probs=6.6
Q ss_pred hhhHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVK 122 (151)
Q Consensus 108 k~LdqIsK~Ldqisk 122 (151)
+.++.|..+.+.++.
T Consensus 62 ~aw~~~~~e~e~~a~ 76 (239)
T cd07658 62 SAWTCVAEEMESEAD 76 (239)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444444444443
No 375
>PF10191 COG7: Golgi complex component 7 (COG7); InterPro: IPR019335 The conserved oligomeric Golgi (COG) complex is an eight-subunit (Cog1-8) peripheral Golgi protein involved in membrane trafficking and glycoconjugate synthesis []. COG7 is required for normal Golgi morphology and trafficking. Mutation in COG7 causes a congenital disorder of glycosylation [].
Probab=27.77 E-value=5.3e+02 Score=24.44 Aligned_cols=17 Identities=18% Similarity=0.378 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy18023 131 LNQIIKELNQIIKELNQ 147 (151)
Q Consensus 131 L~qIsk~l~qI~K~l~q 147 (151)
+..|...|..++++|.-
T Consensus 146 ~~~~a~~l~~m~~sL~~ 162 (766)
T PF10191_consen 146 IAKIADRLAEMQRSLAV 162 (766)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 55566666666666643
No 376
>PRK07739 flgK flagellar hook-associated protein FlgK; Validated
Probab=27.75 E-value=4.4e+02 Score=23.44 Aligned_cols=73 Identities=25% Similarity=0.434 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 73 IIKELDQIIKELDLIIKE------SNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKE 144 (151)
Q Consensus 73 ISK~LdQIsK~LdqISK~------l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~ 144 (151)
|+..|++|-..+..++.. =..+..........+++ ..|+++.+.++ ..+......+|.+.+.++++-++
T Consensus 117 l~~~l~~ff~a~~~la~~P~~~~~r~~vl~~a~~La~~~n~~~~~L~~~~~~~~---~~i~~~V~~iN~ll~~Ia~LN~~ 193 (507)
T PRK07739 117 LNKVLDQFWNSLQELSKNPENLGARSVVRQRAQALAETFNYLSQSLTDIQNDLK---SEIDVTVKEINSLASQISDLNKQ 193 (507)
T ss_pred HHHHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHh
Q psy18023 145 LNQI 148 (151)
Q Consensus 145 l~q~ 148 (151)
+-+.
T Consensus 194 I~~~ 197 (507)
T PRK07739 194 IAKV 197 (507)
T ss_pred HHHH
No 377
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=27.53 E-value=3e+02 Score=23.12 Aligned_cols=40 Identities=25% Similarity=0.426 Sum_probs=19.9
Q ss_pred hhhHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDL-----TIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~-----isK~L~qIsk~l~qI~K~l~q 147 (151)
+.+-+.++..++++...-. +-.+++.+-|.|.++++++..
T Consensus 246 ~a~m~~r~~~~~~~e~~L~~l~lPTr~evd~l~k~l~eLrre~r~ 290 (293)
T PF09712_consen 246 NALMDLRKQQQEVVEEYLRSLNLPTRSEVDELYKRLHELRREVRA 290 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 4444455555554433222 234555666666666665543
No 378
>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=27.42 E-value=2.8e+02 Score=21.03 Aligned_cols=19 Identities=32% Similarity=0.349 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy18023 125 DLTIKELNQIIKELNQIIK 143 (151)
Q Consensus 125 d~isK~L~qIsk~l~qI~K 143 (151)
...-++|..-.++++-..|
T Consensus 164 ~~lk~el~~~~~~~~~Lkk 182 (192)
T PF05529_consen 164 EKLKKELEKKEKEIEALKK 182 (192)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333
No 379
>PRK13588 flagellin B; Provisional
Probab=27.37 E-value=5e+02 Score=24.00 Aligned_cols=89 Identities=13% Similarity=0.192 Sum_probs=50.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHhhhh---------hhhHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKE-----------LDLIIKESNQVIKELNLIIKESNQ---------NKLDQIKKELDQMV 121 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~-----------LdqISK~l~QiSk~L~qISKel~q---------k~LdqIsK~Ldqis 121 (151)
.+-.+.++-.+.++.+.+++-- --.|+..|..=...|+|-.+-.++ ..|+.|.+-|..|-
T Consensus 14 a~~~L~~~~~~l~~~~erLSSG~RIn~AsDDpag~aia~~l~sqi~~l~Qa~~N~~dgis~lqtae~aL~~i~~iLqrir 93 (514)
T PRK13588 14 AHAVGVQNNRDLSSSLEKLSSGLRINKAADDASGMAIADSLRSQSANLGQAIRNANDAIGMVQTADKAMDEQIKILDTIK 93 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCccCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666666666666531 123455555555566655554444 55666666666654
Q ss_pred HHHHHH------HHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 122 KELDLT------IKELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 122 k~ld~i------sK~L~qIsk~l~qI~K~l~q~~~ 150 (151)
.-.-+. ......|-+++.++.++|+.|..
T Consensus 94 eLavqAaNgt~s~~dR~aiq~Ei~qL~~eI~~ian 128 (514)
T PRK13588 94 TKAVQAAQDGQTLESRRALQSDIQRLLEELDNIAN 128 (514)
T ss_pred HHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 322221 23556777888888888877753
No 380
>PRK11068 phosphatidylglycerophosphatase A; Provisional
Probab=27.15 E-value=29 Score=27.67 Aligned_cols=17 Identities=29% Similarity=0.452 Sum_probs=13.9
Q ss_pred HHHHHHHhcCCccCCCC
Q psy18023 16 YFALFRMFDGLTPVTDG 32 (151)
Q Consensus 16 ~~~~~~~~~~~~~~~~~ 32 (151)
-|.+||.||=+.|-.=+
T Consensus 109 ~F~lFR~FDI~KP~PI~ 125 (164)
T PRK11068 109 GFVIFRILDMWKPWPIR 125 (164)
T ss_pred HHHHHHHHHHccccchH
Confidence 38999999999986543
No 381
>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=27.12 E-value=2.8e+02 Score=21.08 Aligned_cols=27 Identities=22% Similarity=0.297 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHhhhh--hhhHHHHH
Q psy18023 89 KESNQVIKELNLIIKESNQ--NKLDQIKK 115 (151)
Q Consensus 89 K~l~QiSk~L~qISKel~q--k~LdqIsK 115 (151)
+.+.++.+-...|-+.+.+ +.+.+..+
T Consensus 101 ~~~~~~~~~~~~I~~~v~~~P~~l~~a~~ 129 (199)
T PF10112_consen 101 EKVSRIEKIARRIFKYVEKDPERLTQARK 129 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHCHHhHHHHHH
Confidence 4444444444455544444 45555444
No 382
>PF04129 Vps52: Vps52 / Sac2 family ; InterPro: IPR007258 Vps52 complexes with Vps53 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=26.87 E-value=4.6e+02 Score=23.39 Aligned_cols=39 Identities=8% Similarity=0.182 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKE 104 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKe 104 (151)
.-..+..-...|..+..-|..+..+|..+|.++..+-..
T Consensus 19 Lh~~i~~cd~~L~~le~~L~~Fq~~L~~iS~eI~~LQ~~ 57 (508)
T PF04129_consen 19 LHNQIQECDSILESLEEMLSNFQNDLGSISSEIRSLQER 57 (508)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333334444444444555555555555554444333
No 383
>PRK00045 hemA glutamyl-tRNA reductase; Reviewed
Probab=26.87 E-value=4e+02 Score=22.75 Aligned_cols=35 Identities=14% Similarity=0.125 Sum_probs=13.9
Q ss_pred ccchHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKK-ELDQIIKELDQIIKELDLIIKESNQV 94 (151)
Q Consensus 60 ~~~LDQIsK-nLdQISK~LdQIsK~LdqISK~l~Qi 94 (151)
.+.+.++.+ |+..=-+.+.....-+++-.....+|
T Consensus 300 vDdl~~~~~~n~~~r~~~~~~a~~ii~~~~~~f~~~ 335 (423)
T PRK00045 300 VDDLQEIVEENLAQRQEAAEKAEAIVEEEVAEFMEW 335 (423)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444433 44333334444333333333333344
No 384
>PRK09737 EcoKI restriction-modification system protein HsdS; Provisional
Probab=26.62 E-value=2.5e+02 Score=22.69 Aligned_cols=37 Identities=16% Similarity=0.323 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 111 DQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 111 dqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
.+|...|+++....+.+.+++.+-...|+++.++|=|
T Consensus 376 ~kI~~~l~~l~~~~d~i~~~~~~~l~~L~~lKqslLq 412 (461)
T PRK09737 376 AEIVRRVEQLFAYADTIEKQVNNALARVNNLTQSILA 412 (461)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555565555666666666666666777666633
No 385
>PRK05683 flgK flagellar hook-associated protein FlgK; Validated
Probab=26.50 E-value=5.6e+02 Score=24.24 Aligned_cols=7 Identities=29% Similarity=0.771 Sum_probs=2.6
Q ss_pred HHHHHHH
Q psy18023 141 IIKELNQ 147 (151)
Q Consensus 141 I~K~l~q 147 (151)
+.++|.+
T Consensus 202 Ll~eLS~ 208 (676)
T PRK05683 202 AVRQLNE 208 (676)
T ss_pred HHHHHHh
Confidence 3333333
No 386
>KOG1842|consensus
Probab=26.48 E-value=2.9e+02 Score=26.23 Aligned_cols=63 Identities=16% Similarity=0.214 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 72 QIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQI 134 (151)
Q Consensus 72 QISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qI 134 (151)
|--++|.+++|.+++.----..+.-+|+..--..+-|+..+..+..-++-+..|-++|-.+++
T Consensus 276 q~Ye~mq~~~k~v~~~~p~Y~~~l~SL~~get~~tlk~~~dLR~k~~el~~s~D~~sKkI~~l 338 (505)
T KOG1842|consen 276 QHYEHLQVFRKEVDNLLPLYEDSLNSLKEGETTYTLKHAKDLRKKFLELCESIDGTSKKIANL 338 (505)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHhcccccccHhhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445566666777766666666666777766666666899999888888888888888887765
No 387
>PF09577 Spore_YpjB: Sporulation protein YpjB (SpoYpjB); InterPro: IPR014231 Proteins in thie entry, typified by YpjB, are restricted to a subset of the endospore-forming bacteria which includes Bacillus species, but not species. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon []. Sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect, but this gene is not, however, a part of the endospore formation minimal gene set.
Probab=26.42 E-value=3.8e+02 Score=22.35 Aligned_cols=62 Identities=6% Similarity=0.077 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHh---hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 87 IIKESNQVIKELNLIIKE---SNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 87 ISK~l~QiSk~L~qISKe---l~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
--.-|+.+|+.+...... ++-..+-.|+-...++.+.+...+-.-++-..++.++|=-.|-+
T Consensus 24 A~q~l~~fs~~f~~~~~~~~~~t~e~iralT~t~~~a~~al~~~~~~~~e~~~~at~~RLavDAl 88 (232)
T PF09577_consen 24 AKQLLEYFSEQFTSVDFKGRPLTMEEIRALTETIEEAKKALTSVSMSEEEKIRAATQFRLAVDAL 88 (232)
T ss_pred HHHHHHHHHHHHhhccccccccCHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHh
Confidence 333444444444443331 33356667777777777777777766677777777776555544
No 388
>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=26.21 E-value=2.5e+02 Score=20.16 Aligned_cols=13 Identities=23% Similarity=0.473 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHHH
Q psy18023 113 IKKELDQMVKELD 125 (151)
Q Consensus 113 IsK~Ldqisk~ld 125 (151)
++..|+.|.+.++
T Consensus 84 l~~~l~~v~~~~~ 96 (106)
T PF10805_consen 84 LSARLQGVSHQLD 96 (106)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333433333
No 389
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=26.20 E-value=3.8e+02 Score=22.17 Aligned_cols=7 Identities=43% Similarity=0.738 Sum_probs=2.6
Q ss_pred HHHHHHH
Q psy18023 138 LNQIIKE 144 (151)
Q Consensus 138 l~qI~K~ 144 (151)
+|.++++
T Consensus 97 in~~R~e 103 (230)
T PF10146_consen 97 INELRKE 103 (230)
T ss_pred HHHHHHH
Confidence 3333333
No 390
>COG1511 Predicted membrane protein [Function unknown]
Probab=26.13 E-value=5.6e+02 Score=24.17 Aligned_cols=10 Identities=20% Similarity=0.461 Sum_probs=3.7
Q ss_pred hHHHHHHHHH
Q psy18023 63 LDQIKKELDQ 72 (151)
Q Consensus 63 LDQIsKnLdQ 72 (151)
+.++.+.+++
T Consensus 187 ~~~l~~~~~~ 196 (780)
T COG1511 187 AEKLKDGTDE 196 (780)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 391
>PTZ00440 reticulocyte binding protein 2-like protein; Provisional
Probab=26.05 E-value=1e+03 Score=27.11 Aligned_cols=21 Identities=38% Similarity=0.589 Sum_probs=9.6
Q ss_pred hccccchHHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKEL 77 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~L 77 (151)
|.+|=+-|.|...|++++..|
T Consensus 677 Ki~~mk~d~i~~~l~~lk~el 697 (2722)
T PTZ00440 677 KLEFMKSDNIDNIIKNLKKEL 697 (2722)
T ss_pred HHhhchHhhHHHHHHHHHHHH
Confidence 344444444444444444433
No 392
>PRK12687 flagellin; Reviewed
Probab=25.78 E-value=4e+02 Score=22.35 Aligned_cols=43 Identities=14% Similarity=0.154 Sum_probs=26.4
Q ss_pred hccccchHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQIIKELDLI----IKESNQVIKELN 99 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQIsK~LdqI----SK~l~QiSk~L~ 99 (151)
+-+-..+.|..+|+.+-.--|.-....|..+ ...|..+-+-+-
T Consensus 54 ~s~~~~l~q~~~n~~~g~s~l~ta~~al~~i~~~~~~~L~r~relav 100 (311)
T PRK12687 54 RSDNEALSAVSDALGLGAATVDTMYTALTSVVGDSKSGLTALKAKLV 100 (311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence 3445677777777777776676677777776 344444444333
No 393
>PF10824 DUF2580: Protein of unknown function (DUF2580); InterPro: IPR022536 This entry represents the ESX-1 secretion-associated protein EspC protein family.
Probab=25.77 E-value=1.8e+02 Score=18.41 Aligned_cols=33 Identities=27% Similarity=0.342 Sum_probs=25.9
Q ss_pred HhhhhhccccchHHHHHHHHHHHHHHHHHHHHH
Q psy18023 52 MEKECKVDFNKLDQIKKELDQIIKELDQIIKEL 84 (151)
Q Consensus 52 ~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~L 84 (151)
|-.+-+||...|.++...+++++..+......+
T Consensus 1 Ms~~l~Vdp~~Lr~~A~~~~~~A~~~~~~~~~~ 33 (100)
T PF10824_consen 1 MSDPLHVDPEALRQAAAQLDDIADQLAAAASAV 33 (100)
T ss_pred CCCCceECHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 334567899999999998888888888766665
No 394
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=25.62 E-value=5.9e+02 Score=24.26 Aligned_cols=65 Identities=23% Similarity=0.368 Sum_probs=31.7
Q ss_pred CCCccch-hccccccCChhHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 31 DGSTEES-EINLESSNGIEEQEMEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELN 99 (151)
Q Consensus 31 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~ 99 (151)
.|....| -+.+-...|+.+.=++.-..+ +.....+++.+.+.|.+-.+.+.+-...++...+.++
T Consensus 477 ~G~~g~S~a~~iA~~~Glp~~ii~~A~~~----~~~~~~~~~~li~~L~~~~~~~e~~~~~~~~~~~e~~ 542 (771)
T TIGR01069 477 KGIPGESYAFEIAQRYGIPHFIIEQAKTF----YGEFKEEINVLIEKLSALEKELEQKNEHLEKLLKEQE 542 (771)
T ss_pred CCCCCCcHHHHHHHHhCcCHHHHHHHHHH----HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444333 355566678877655544332 3344445555555555444444444444443333333
No 395
>PF14071 YlbD_coat: Putative coat protein
Probab=25.56 E-value=1e+02 Score=24.04 Aligned_cols=37 Identities=22% Similarity=0.344 Sum_probs=17.8
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLI 101 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qI 101 (151)
.+.|-.+-|+|| ++|+.++|+.+++.+..+..-|.|.
T Consensus 67 ~~ql~~~vKkmD-----~nq~q~hl~~~sqai~~vQ~~l~qF 103 (124)
T PF14071_consen 67 MSQLLSMVKKMD-----VNQMQKHLNNVSQAIGSVQQVLSQF 103 (124)
T ss_pred HHHHHHHHHHCC-----HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444445443 3455555555555555544444443
No 396
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=25.52 E-value=2.4e+02 Score=19.75 Aligned_cols=34 Identities=21% Similarity=0.364 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 114 KKELDQMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 114 sK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
.+.++.+.+.++.+.+.++.+.+.+++|...|+|
T Consensus 92 ~~~~~~l~~~~~~l~~~l~~l~~~~~~i~~~l~~ 125 (126)
T TIGR00293 92 KKRIEELEKAIEKLQEALAELASRAQQLEQEAQQ 125 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3344444445555555555555555555555544
No 397
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=25.28 E-value=51 Score=17.12 Aligned_cols=16 Identities=19% Similarity=0.571 Sum_probs=13.5
Q ss_pred hhhccccchHHHHHHH
Q psy18023 55 ECKVDFNKLDQIKKEL 70 (151)
Q Consensus 55 ~~~~~~~~LDQIsKnL 70 (151)
-|.+.|++..++..+|
T Consensus 5 ~C~~~f~s~~~~~~H~ 20 (25)
T PF12874_consen 5 ICNKSFSSENSLRQHL 20 (25)
T ss_dssp TTTEEESSHHHHHHHH
T ss_pred CCCCCcCCHHHHHHHH
Confidence 4889999999888776
No 398
>PF11458 Mistic: Membrane-integrating protein Mistic; InterPro: IPR021078 Mistic is an integral membrane protein that folds autonomously into the membrane []. It is conserved in the Bacilli bacteria. The protein forms a helical bundle with a polar lipid-facing surface. Mistic can be used for high-level production of other membrane proteins in their native conformations [].
Probab=25.00 E-value=3e+02 Score=20.63 Aligned_cols=37 Identities=14% Similarity=0.293 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHhh----hhhhhHHHHHHHHHHHHH
Q psy18023 87 IIKESNQVIKELNLIIKES----NQNKLDQIKKELDQMVKE 123 (151)
Q Consensus 87 ISK~l~QiSk~L~qISKel----~qk~LdqIsK~Ldqisk~ 123 (151)
.|...++.+++|+-++.-. .++-|-|...+-+.+.++
T Consensus 11 LS~AID~mnEGLD~fI~lYNeSe~DepLiql~detael~~~ 51 (84)
T PF11458_consen 11 LSTAIDRMNEGLDTFIQLYNESEKDEPLIQLEDETAELIRQ 51 (84)
T ss_pred HHHHHHHHHhhHHHHHHHHcccccccchhhcchhHHHHHHH
Confidence 3333444444444444333 336666666665555554
No 399
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=24.99 E-value=4.7e+02 Score=22.84 Aligned_cols=31 Identities=26% Similarity=0.359 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 118 DQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 118 dqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
+.+..++..+.+.+....+.+..+..+++++
T Consensus 72 ~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 102 (418)
T TIGR00414 72 EEIKKELKELKEELTELSAALKALEAELQDK 102 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444445555555555555555544
No 400
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=24.97 E-value=4.5e+02 Score=22.60 Aligned_cols=11 Identities=27% Similarity=0.504 Sum_probs=5.2
Q ss_pred hHHHHHHHHHH
Q psy18023 110 LDQIKKELDQM 120 (151)
Q Consensus 110 LdqIsK~Ldqi 120 (151)
++-|.+.|.++
T Consensus 99 ~~~Lq~~Lk~V 109 (230)
T PF03904_consen 99 QDILQDELKDV 109 (230)
T ss_pred HHHHHHHHHhh
Confidence 34444555544
No 401
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=24.95 E-value=4.7e+02 Score=23.05 Aligned_cols=12 Identities=25% Similarity=0.429 Sum_probs=5.3
Q ss_pred hHHHHHHHHHHH
Q psy18023 110 LDQIKKELDQMV 121 (151)
Q Consensus 110 LdqIsK~Ldqis 121 (151)
|+++.|.|.+++
T Consensus 39 l~~~~~~l~~l~ 50 (339)
T PRK00488 39 LTELLKGLGKLP 50 (339)
T ss_pred HHHHHHHHhcCC
Confidence 444444444433
No 402
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=24.86 E-value=2.5e+02 Score=19.64 Aligned_cols=14 Identities=21% Similarity=0.425 Sum_probs=6.2
Q ss_pred HHHHHHHHHHhhhh
Q psy18023 94 VIKELNLIIKESNQ 107 (151)
Q Consensus 94 iSk~L~qISKel~q 107 (151)
-.+.|++|...|..
T Consensus 9 al~~LE~IV~~LE~ 22 (75)
T PRK14066 9 ALKKLEEVVKKLEG 22 (75)
T ss_pred HHHHHHHHHHHHHC
Confidence 33444444444444
No 403
>smart00150 SPEC Spectrin repeats.
Probab=24.73 E-value=1.7e+02 Score=17.81 Aligned_cols=53 Identities=11% Similarity=0.189 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHH
Q psy18023 76 ELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIK 129 (151)
Q Consensus 76 ~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK 129 (151)
.+..|-+++......++.+.+.-+++... ....-+.|...++.+...-+.+..
T Consensus 39 ~~~~~~~e~~~~~~~v~~~~~~~~~L~~~-~~~~~~~i~~~~~~l~~~w~~l~~ 91 (101)
T smart00150 39 KHEALEAELEAHEERVEALNELGEQLIEE-GHPDAEEIEERLEELNERWEELKE 91 (101)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHc-CCCcHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444433333333 122334555555555544444433
No 404
>PF14071 YlbD_coat: Putative coat protein
Probab=24.70 E-value=2.7e+02 Score=21.70 Aligned_cols=14 Identities=21% Similarity=0.271 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHHH
Q psy18023 86 LIIKESNQVIKELN 99 (151)
Q Consensus 86 qISK~l~QiSk~L~ 99 (151)
++.++|+++++.|.
T Consensus 81 q~q~hl~~~sqai~ 94 (124)
T PF14071_consen 81 QMQKHLNNVSQAIG 94 (124)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 405
>PF01765 RRF: Ribosome recycling factor; InterPro: IPR023584 The ribosome recycling factor or ribosome release factor (RRF) dissociates ribosomes from mRNA after termination of translation, and is essential for bacterial growth []. Thus ribosomes are 'recycled' and ready for another round of protein synthesis. This entry represents a domain found in ribosome recycling factors.; PDB: 3R8N_Y 1Y69_8 1ISE_A 1EK8_A 1DD5_A 1WIH_A 2Z4L_6 2QBE_6 2V46_Y 1EH1_A ....
Probab=24.57 E-value=3.1e+02 Score=20.69 Aligned_cols=16 Identities=31% Similarity=0.428 Sum_probs=11.1
Q ss_pred HHHHHhcCCccCCCCC
Q psy18023 18 ALFRMFDGLTPVTDGS 33 (151)
Q Consensus 18 ~~~~~~~~~~~~~~~~ 33 (151)
|+-.---|++|..||.
T Consensus 63 AI~~s~l~l~p~~d~~ 78 (165)
T PF01765_consen 63 AIQKSNLNLNPQNDGN 78 (165)
T ss_dssp HHHHTTSSSEEEEETT
T ss_pred HHHHCCCCCCcccCCc
Confidence 4444445999999993
No 406
>TIGR02131 phaP_Bmeg polyhydroxyalkanoic acid inclusion protein PhaP. This model describes a protein found in polyhydroxyalkanoic acid (PHA) gene regions and incorporated into PHA inclusions in Bacillus cereus and Bacillus megaterium. The role of the protein may include amino acid storage (see McCool,G.J. and Cannon,M.C, 1999).
Probab=24.51 E-value=4.1e+02 Score=21.98 Aligned_cols=28 Identities=29% Similarity=0.353 Sum_probs=15.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQII 135 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIs 135 (151)
+-|.|-...|-....-||.+-|+|.+..
T Consensus 37 e~L~QQQdalhK~t~gvd~leKel~~~~ 64 (165)
T TIGR02131 37 EALEQQQDALHKATEGLDALDKELKAEL 64 (165)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 4455555555555555666666655543
No 407
>PF10392 COG5: Golgi transport complex subunit 5; InterPro: IPR019465 The conserved oligomeric Golgi (COG) complex is a peripheral membrane complex involved in intra-Golgi protein trafficking. Subunit 5 is located in the smaller, B lobe, together with subunits 6-8, and has been shown to bind subunits 1 and 7 [].
Probab=24.50 E-value=2.8e+02 Score=20.18 Aligned_cols=9 Identities=11% Similarity=0.501 Sum_probs=3.2
Q ss_pred HHHHHHHHH
Q psy18023 76 ELDQIIKEL 84 (151)
Q Consensus 76 ~LdQIsK~L 84 (151)
.++.+.+.|
T Consensus 41 ~i~eld~~i 49 (132)
T PF10392_consen 41 DIQELDKRI 49 (132)
T ss_pred HHHHHHHHH
Confidence 333333333
No 408
>KOG3091|consensus
Probab=24.45 E-value=2e+02 Score=27.22 Aligned_cols=24 Identities=33% Similarity=0.458 Sum_probs=13.6
Q ss_pred hhhccccchHHHHHHHHHHHHHHH
Q psy18023 55 ECKVDFNKLDQIKKELDQIIKELD 78 (151)
Q Consensus 55 ~~~~~~~~LDQIsKnLdQISK~Ld 78 (151)
...+|+.++.+++++|.|--+.|.
T Consensus 456 ~~~iD~~~~~e~~e~lt~~~e~l~ 479 (508)
T KOG3091|consen 456 SYWIDFDKLIEMKEHLTQEQEALT 479 (508)
T ss_pred ceeechhhhHHHHHHHHHHHHHHH
Confidence 345666666666666665443333
No 409
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=24.27 E-value=1e+02 Score=24.59 Aligned_cols=33 Identities=36% Similarity=0.466 Sum_probs=14.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
+++|++|..|..=-|.+|+.-|-=+-|.|.|||
T Consensus 90 nkMddvSrRL~aEgKdIdeLKKiN~mIvkrLNQ 122 (128)
T PF15145_consen 90 NKMDDVSRRLTAEGKDIDELKKINSMIVKRLNQ 122 (128)
T ss_pred chHHHHHHHHHhccCCHHHHHHHHHHHHHHHhh
Confidence 555555555444444444443333333444443
No 410
>PF07028 DUF1319: Protein of unknown function (DUF1319); InterPro: IPR010746 This entry is represented by Commelina yellow mottle virus, Orf1. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains a number of viral proteins of unknown function approximately 200 residues long. Family members seem to be restricted to badnaviruses.
Probab=24.16 E-value=3.3e+02 Score=21.42 Aligned_cols=10 Identities=60% Similarity=0.803 Sum_probs=3.6
Q ss_pred HHHHHHHHHH
Q psy18023 114 KKELDQMVKE 123 (151)
Q Consensus 114 sK~Ldqisk~ 123 (151)
...++.++++
T Consensus 66 ~~~l~~l~~e 75 (126)
T PF07028_consen 66 KQELDVLSKE 75 (126)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 411
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=24.16 E-value=2.6e+02 Score=19.56 Aligned_cols=13 Identities=23% Similarity=0.378 Sum_probs=5.5
Q ss_pred HHHHHHHHHhhhh
Q psy18023 95 IKELNLIIKESNQ 107 (151)
Q Consensus 95 Sk~L~qISKel~q 107 (151)
.+.|++|...+..
T Consensus 16 ~~~LEeIv~~LE~ 28 (80)
T PRK00977 16 LAELEEIVTRLES 28 (80)
T ss_pred HHHHHHHHHHHHC
Confidence 3344444444443
No 412
>PRK12718 flgL flagellar hook-associated protein FlgL; Provisional
Probab=24.14 E-value=5.7e+02 Score=23.53 Aligned_cols=20 Identities=15% Similarity=0.225 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q psy18023 129 KELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 129 K~L~qIsk~l~qI~K~l~q~ 148 (151)
...+.|..+|.+++++|-.+
T Consensus 105 ~dR~aia~El~~l~~qL~~l 124 (510)
T PRK12718 105 ADRQALVIALKGAREELVGL 124 (510)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34555666666666666554
No 413
>TIGR00255 conserved hypothetical protein TIGR00255. The apparent ortholog from Aquifex aeolicus as reported is split into two consecutive reading frames.
Probab=24.02 E-value=4.5e+02 Score=22.31 Aligned_cols=19 Identities=11% Similarity=0.284 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy18023 127 TIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 127 isK~L~qIsk~l~qI~K~l 145 (151)
|+.+|..+--|++|.+.-|
T Consensus 218 I~EEl~RL~sHl~~f~~~L 236 (291)
T TIGR00255 218 IAEEIDRLDSHVKEFYNIL 236 (291)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555444
No 414
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=24.01 E-value=5.6e+02 Score=23.41 Aligned_cols=25 Identities=16% Similarity=0.333 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 124 LDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 124 ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
+..+++.|..+-..++++..+++++
T Consensus 77 ~~~l~~~l~~~e~~~~~~~~~l~~~ 101 (429)
T COG0172 77 VKELKEKLKELEAALDELEAELDTL 101 (429)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHH
Confidence 3334444444444444444444433
No 415
>PF11568 Med29: Mediator complex subunit 29; InterPro: IPR021018 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. Med29, along with Med11 and Med28, in mammals, is part of the core head-region of the complex. Med29 is the apparent orthologue of the Drosophila melanogaster Intersex protein, which interacts directly with, and functions as a transcriptional coactivator for, the DNA-binding transcription factor Doublesex, so it is likely that mammalian Med29 serves as a target for one or more DNA-binding transcriptional activators []. ; GO: 0016592 mediator complex
Probab=23.90 E-value=2.6e+02 Score=22.24 Aligned_cols=85 Identities=15% Similarity=0.160 Sum_probs=50.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh---h---hHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQN---K---LDQIKKELDQMVKELDLTIKELNQII 135 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk---~---LdqIsK~Ldqisk~ld~isK~L~qIs 135 (151)
..-+|.|+|+.|----|||.-.|.-..+-+.|.+++.--+--...-+ . ..+-...-.|-.-++..-+....+|-
T Consensus 50 ~~~RFdK~lEeFysiCDQIEl~L~ta~ec~~Q~~~S~rylP~~V~~~~~~~~~~~~~~~l~Y~qyl~tV~sqv~~ak~ih 129 (148)
T PF11568_consen 50 PVPRFDKNLEEFYSICDQIELHLKTAIECLSQLSSSQRYLPGPVMPNRVDKNTTIQTEQLSYPQYLNTVRSQVACAKEIH 129 (148)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCccccccCCCCCcccccccCchhHHHHHHHHHHHHHHHH
Confidence 34577888888888888887777777777777666432221111112 1 11234455666666666666666677
Q ss_pred HHHHHHHHHHH
Q psy18023 136 KELNQIIKELN 146 (151)
Q Consensus 136 k~l~qI~K~l~ 146 (151)
+.|.+-.+.+.
T Consensus 130 d~L~~~aq~i~ 140 (148)
T PF11568_consen 130 DTLLDAAQNIS 140 (148)
T ss_pred HHHHHHHHhcC
Confidence 77666665543
No 416
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=23.80 E-value=5.5e+02 Score=23.23 Aligned_cols=50 Identities=28% Similarity=0.459 Sum_probs=27.5
Q ss_pred HHHhhhhh-ccccchHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 50 QEMEKECK-VDFNKLDQ-----IKKELDQIIKELDQIIKELDLIIKESNQVIKELN 99 (151)
Q Consensus 50 ~~~~~~~~-~~~~~LDQ-----IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~ 99 (151)
++..+.|+ .+|+.+.= -++.+.++.+.++++.+.+.++.+.+++..+...
T Consensus 191 ~~~~~~l~~~~f~~~~~p~~~~p~~~l~~l~~~l~~l~~~~~~~~~~l~~~~~~~~ 246 (646)
T PRK05771 191 DEVEEELKKLGFERLELEEEGTPSELIREIKEELEEIEKERESLLEELKELAKKYL 246 (646)
T ss_pred HHHHHHHHHCCCEEecCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666663 46655532 4555556666666666655555555555554443
No 417
>KOG0161|consensus
Probab=23.72 E-value=9.8e+02 Score=26.14 Aligned_cols=81 Identities=17% Similarity=0.239 Sum_probs=0.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHH-HHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQI-IKE 137 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qI-sk~ 137 (151)
+.|....-.+-++.--+++-...+.++.|...+....+..+.-++.. +...-.+|...++...|....+.|.+- -.+
T Consensus 1069 ~~l~kke~El~~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~e~le~er~~r~K~ek~r~dL~~ele~l~~~Lee~~~~t 1148 (1930)
T KOG0161|consen 1069 NQLKKKESELSQLQSKLEDEQAEVAQLQKQIKELEARIKELEEELEAERASRAKAERQRRDLSEELEELKEELEEQGGTT 1148 (1930)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q ss_pred HHHH
Q psy18023 138 LNQI 141 (151)
Q Consensus 138 l~qI 141 (151)
..++
T Consensus 1149 ~~q~ 1152 (1930)
T KOG0161|consen 1149 AAQL 1152 (1930)
T ss_pred HHHH
No 418
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. 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. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=23.56 E-value=4.1e+02 Score=21.72 Aligned_cols=42 Identities=5% Similarity=0.201 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
.+.-++..-.+|.+..+.++.+.++=..+..++..+++.++.
T Consensus 27 ~k~yi~~Le~~Lk~l~k~~~~lv~~rkela~~~~efa~s~~~ 68 (234)
T cd07664 27 KQQQFENLDQQLRKLHASVESLVCHRKELSANTAAFAKSAAM 68 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555555555555555555555555554
No 419
>TIGR02889 spore_YpeB germination protein YpeB. Members of this family are YpeB, a protein usually encoded with the putative spore-cortex-lytic enzyme SleB and required, together with SleB, for normal germination. This family is retricted to endospore-forming species in the Firmicutes lineage of bacteria, and found in all such species to date except Clostridium perfringens. The matching phenotypes of mutants in SleB (called a lytic transglycosylase) and YpeB suggests that YpeB is necessary to allow SleB to function.
Probab=23.42 E-value=3.7e+02 Score=24.24 Aligned_cols=64 Identities=14% Similarity=0.120 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh----hhhHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHh
Q psy18023 85 DLIIKESNQVIKELNLIIKESNQ----NKLDQIKKELDQMVKELDLTIKELNQI---IKELNQIIKELNQI 148 (151)
Q Consensus 85 dqISK~l~QiSk~L~qISKel~q----k~LdqIsK~Ldqisk~ld~isK~L~qI---sk~l~qI~K~l~q~ 148 (151)
++..+.+-+.+-++++|--.|.. ++-.|.++.|+++.|.-......|.|+ --.++...|-|.||
T Consensus 35 n~YqRaf~dL~~~vd~l~~~L~k~l~~~s~~q~~~~l~~vwr~as~A~~~l~qLPl~~~~~~~T~kFLsqi 105 (435)
T TIGR02889 35 AQYQRAFYELTYHVEQIEAQLGKTLAMGSQRQNTPVLADVWRHASAANESLSQLPLTQESLEKTSKFLSQV 105 (435)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhCCHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcchhhHHHHHHHH
No 420
>PF07083 DUF1351: Protein of unknown function (DUF1351); InterPro: IPR009785 This entry is represented by Lactobacillus prophage Lj928, Orf309. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacterial and phage proteins of around 230 residues in length. The function of this family is unknown.
Probab=23.40 E-value=3.9e+02 Score=21.32 Aligned_cols=71 Identities=24% Similarity=0.412 Sum_probs=39.1
Q ss_pred hhhhccccchHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh----hhhHHHHHHHHHHH
Q psy18023 54 KECKVDFNKLDQIKKELD--------QIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ----NKLDQIKKELDQMV 121 (151)
Q Consensus 54 ~~~~~~~~~LDQIsKnLd--------QISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q----k~LdqIsK~Ldqis 121 (151)
+++|-+...|--+.+.|+ ++++-+++|.+-+..+.+-+.+.+..++.=.|+..+ ...+.|...++.+.
T Consensus 42 k~aKk~rA~LNKl~k~id~~RK~ikk~~~~P~~~Fe~~~K~l~~~i~~~~~~I~~~ik~~Ee~~k~~k~~~i~~~~~~~~ 121 (215)
T PF07083_consen 42 KDAKKDRAELNKLKKAIDDKRKEIKKEYSKPIKEFEAKIKELIAPIDEASDKIDEQIKEFEEKEKEEKREKIKEYFEEMA 121 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444 334445566666666666666666666666665555 55666666666665
Q ss_pred HHH
Q psy18023 122 KEL 124 (151)
Q Consensus 122 k~l 124 (151)
...
T Consensus 122 ~~~ 124 (215)
T PF07083_consen 122 EEY 124 (215)
T ss_pred HHc
Confidence 443
No 421
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=23.39 E-value=2.2e+02 Score=18.59 Aligned_cols=27 Identities=22% Similarity=0.278 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy18023 81 IKELDLIIKESNQVIKELNLIIKESNQ 107 (151)
Q Consensus 81 sK~LdqISK~l~QiSk~L~qISKel~q 107 (151)
.+...-+.|.++.+-+.+..+.+-|+.
T Consensus 3 ~~E~~rL~Kel~kl~~~i~~~~~kL~n 29 (66)
T PF10458_consen 3 EAEIERLEKELEKLEKEIERLEKKLSN 29 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 344444444445555555555554443
No 422
>PF14322 SusD-like_3: Starch-binding associating with outer membrane; PDB: 3NQP_B 3SNX_A 3I4G_A 3HDX_A 3IHV_A 3JQ0_A 3MCX_A 3QNK_C 3MYV_B 3IV0_A ....
Probab=23.38 E-value=1.3e+02 Score=20.88 Aligned_cols=20 Identities=35% Similarity=0.668 Sum_probs=14.2
Q ss_pred HHHH-HHHHHHHHhcCCccCCC
Q psy18023 11 RLRR-HYFALFRMFDGLTPVTD 31 (151)
Q Consensus 11 ~~~~-~~~~~~~~~~~~~~~~~ 31 (151)
-||- .||-|.|+|.| .|+.+
T Consensus 112 ~lRA~~yf~L~~~yg~-vP~~~ 132 (190)
T PF14322_consen 112 FLRAYYYFQLVRLYGD-VPYIT 132 (190)
T ss_dssp HHHHHHHHHHHHHHSS-BBGGG
T ss_pred HHHHHHHHHHHHHhCC-Ceeec
Confidence 3443 57899999977 47665
No 423
>cd07681 F-BAR_PACSIN3 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons 3 (PACSIN3). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins, also called Synaptic dynamin-associated proteins (Syndapins), act as regulators of cytoskeletal and membrane dynamics. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSIN 3 or Syndapin III is expressed ubiquitously and regulates glucose uptake in adipocytes through its role in GLUT1 trafficking. It also modulates the subcellular localization and stimulus-specific function of the cation channel TRPV4. PACSIN 3 contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to
Probab=23.33 E-value=4.5e+02 Score=22.11 Aligned_cols=78 Identities=18% Similarity=0.299 Sum_probs=47.1
Q ss_pred hHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHhhhh---hhhHHHHHHHHHHHHHHHHHHH-HH
Q psy18023 63 LDQIKKELDQIIKELDQIIK-------ELDLIIKESNQVIKELNLIIKESNQ---NKLDQIKKELDQMVKELDLTIK-EL 131 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK-------~LdqISK~l~QiSk~L~qISKel~q---k~LdqIsK~Ldqisk~ld~isK-~L 131 (151)
-+|+.|..+...|.-.+..| .+..+.+-=..|-+.|...-...-+ +-|+-++-.|.++.++||.+.+ ++
T Consensus 167 ~~q~~K~~~kleK~~~~~~k~~~~Y~~~v~~L~~~~~~w~e~m~~~~d~~Q~~EeeRi~flK~~L~~~~~~l~~~~~~~~ 246 (258)
T cd07681 167 QEQLRKLQDRVEKCTQEAEKAKEQYEKALEELNRYNPRYMEDMEQAFEICQEAERKRLCFFKEMLLDLHQHLDLSSSDSF 246 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccH
Confidence 45666655544444433333 3333444444555555555444433 7888888899999999977665 47
Q ss_pred HHHHHHHHH
Q psy18023 132 NQIIKELNQ 140 (151)
Q Consensus 132 ~qIsk~l~q 140 (151)
.+|-++|.|
T Consensus 247 ~~~~~~l~~ 255 (258)
T cd07681 247 HALYRDLHQ 255 (258)
T ss_pred HHHHHHHHh
Confidence 777777665
No 424
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=23.24 E-value=2.4e+02 Score=20.92 Aligned_cols=12 Identities=25% Similarity=0.265 Sum_probs=0.0
Q ss_pred CCcccc-chhHHH
Q psy18023 1 MFRRKN-HDCLRL 12 (151)
Q Consensus 1 ~~~~~~-~~~~~~ 12 (151)
|+|..- -.|.+.
T Consensus 1 m~r~~~~~~~~~~ 13 (100)
T PF04568_consen 1 MLRQSIVRPLRRA 13 (100)
T ss_dssp -------------
T ss_pred Ccccccccccccc
Confidence 455443 345443
No 425
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=23.18 E-value=6.3e+02 Score=25.34 Aligned_cols=43 Identities=23% Similarity=0.282 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHH
Q psy18023 85 DLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIK 129 (151)
Q Consensus 85 dqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK 129 (151)
+++|..++|+.+.++... .++-.+.++.-.++|++++++..+-
T Consensus 68 ~~Lsq~L~~~~~r~n~~~--~dd~~l~~l~~ql~q~~r~i~eq~~ 110 (835)
T COG3264 68 DQLSQALNQQTERLNALA--SDDRQLANLLLQLLQSSRTIREQIA 110 (835)
T ss_pred HHHHHHHHHHHHHhhhhh--hhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444332 2334566666666666666654443
No 426
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=23.18 E-value=2e+02 Score=22.12 Aligned_cols=37 Identities=22% Similarity=0.315 Sum_probs=25.4
Q ss_pred hhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 53 EKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIK 89 (151)
Q Consensus 53 ~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK 89 (151)
+.-|+.|...=+.+.+|+..+.+.|+++.+.+.+..+
T Consensus 110 ~~L~~~~P~~~~~y~~N~~~~~~~L~~l~~~~~~~~~ 146 (256)
T PF01297_consen 110 DALSELDPANKDYYEKNAEKYLKELDELDAEIKEKLA 146 (256)
T ss_dssp HHHHHHTGGGHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHhCccchHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3456677777777777777777777777766665544
No 427
>PF04108 APG17: Autophagy protein Apg17 ; InterPro: IPR007240 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Autophagy protein 17 (Apg17) is required for activating Apg1 protein kinases. This entry also contains Autophagy protein 11 which is involved in cytoplasm to vacuole transport (Cvt) and pexophagy. ; GO: 0006914 autophagy
Probab=23.16 E-value=5e+02 Score=22.55 Aligned_cols=11 Identities=18% Similarity=0.356 Sum_probs=4.6
Q ss_pred HHHHHHHHHhh
Q psy18023 139 NQIIKELNQIV 149 (151)
Q Consensus 139 ~qI~K~l~q~~ 149 (151)
.+...+|+++.
T Consensus 370 ~~~~eeL~~l~ 380 (412)
T PF04108_consen 370 REANEELDKLR 380 (412)
T ss_pred HHHHHHHHHHH
Confidence 33344444443
No 428
>PF08393 DHC_N2: Dynein heavy chain, N-terminal region 2; InterPro: IPR013602 Dyneins are described as motor proteins of eukaryotic cells, as they can convert energy derived from the hydrolysis of ATP to force and movement along cytoskeletal polymers, such as microtubules. Dyneins generally contain one to three heavy chains, where each heavy chain consists of a C-terminal globular head, a flexible microtubule-binding stalk, and a flexible N-terminal tail known as the cargo-binding domain []. The two categories of dyneins are the axonemal dyneins, which produce the bending motions that propagate along cilia and flagella, and the cytosolic dyneins, which drive a variety of fundamental cellular processes including nuclear migration, organisation of the mitotic spindle, chromosome separation during mitosis, and the positioning and function of many intracellular organelles. Cytoplasmic dyneins contain several accessory subunits ranging from light to intermediate chains. This entry represents a region found C-terminal to the dynein heavy chain N-terminal region 1 (IPR013594 from INTERPRO) in many members of this family. No functions seem to have been attributed specifically to this region. ; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=23.04 E-value=4.2e+02 Score=21.68 Aligned_cols=70 Identities=24% Similarity=0.307 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh-------------------hh--hhhHHHHHHHHHHHHHH------------HHH
Q psy18023 81 IKELDLIIKESNQVIKELNLIIKES-------------------NQ--NKLDQIKKELDQMVKEL------------DLT 127 (151)
Q Consensus 81 sK~LdqISK~l~QiSk~L~qISKel-------------------~q--k~LdqIsK~Ldqisk~l------------d~i 127 (151)
......|.+-|+.+.+-|+.|.+-- .. +....|.+..-.+.+.+ ..+
T Consensus 203 ~~~v~~w~~~L~~~~~il~~w~~~Q~~W~yL~~if~~~di~~~lp~e~~~F~~i~~~~~~i~~~~~~~~~v~~~~~~~~~ 282 (408)
T PF08393_consen 203 RDEVEEWEKKLNNIQEILEEWMEVQRKWMYLEPIFSSSDIKKQLPKEAKKFSSIDKEWRSIMKRAQKDPNVLSVCSNPDL 282 (408)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCHCCCTHHHHHHHHHHHHHHHHHHHHHHCT-CCHHHCCSTTH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHcChHHHHHHHHHHhCcchhHHhhHhhH
Confidence 4455566666666666666554421 11 44445555555555544 224
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 128 IKELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 128 sK~L~qIsk~l~qI~K~l~q~~~ 150 (151)
...|.++...|..|.|.|+..+|
T Consensus 283 ~~~l~~~~~~l~~i~k~L~~~Le 305 (408)
T PF08393_consen 283 LEKLESINESLEKIQKSLNDYLE 305 (408)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhHHHH
Confidence 56778888888888888887664
No 429
>COG3890 ERG8 Phosphomevalonate kinase [Lipid metabolism]
Probab=22.93 E-value=3.5e+02 Score=24.53 Aligned_cols=53 Identities=23% Similarity=0.198 Sum_probs=29.8
Q ss_pred HHHHHHHHHhhhhhhhHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy18023 95 IKELNLIIKESNQNKLDQIKKELDQM-VKELDLTIKELNQIIKELNQIIKELNQIVEE 151 (151)
Q Consensus 95 Sk~L~qISKel~qk~LdqIsK~Ldqi-sk~ld~isK~L~qIsk~l~qI~K~l~q~~~~ 151 (151)
.+..++|+++-. ..+.|.+|.+ ++-|+.+.-+|+..-.+..-||++|+.|-||
T Consensus 210 V~kv~~w~ns~~----peelkc~de~nsrvl~l~~~sLdE~~s~~~~irrslrritee 263 (337)
T COG3890 210 VCKVNKWRNSIL----PEELKCNDEMNSRVLNLIKLSLDESNSKSKAIRRSLRRITEE 263 (337)
T ss_pred HHHHHHHhhcCC----hHHHHhHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 344445554433 3333455554 3445556666776666667777777777653
No 430
>PRK12802 flagellin; Provisional
Probab=22.89 E-value=4.1e+02 Score=21.42 Aligned_cols=71 Identities=11% Similarity=0.040 Sum_probs=38.1
Q ss_pred hccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhhhhHHHHHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK-ESNQNKLDQIKKELDQMVKELDLT 127 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK-el~qk~LdqIsK~Ldqisk~ld~i 127 (151)
+-+.+.+.|..+|...-.-.|..-...|..++.-|..+-+-+-+..- .++......|..++.++.+++..+
T Consensus 55 ~~~~~~~~q~~~n~~~~~s~l~~ad~~l~~i~~~l~r~rel~v~a~ngt~s~~dr~ai~~ei~~l~~~i~~~ 126 (282)
T PRK12802 55 TSQIRGQTQAIKNANDGISIAQTAEGALQESTNILQRMRELAVQSRNDSNDSTDRAALNKEFTTMLDEITRI 126 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 33445666666776666666666666666666666665544333321 222344444555555444444443
No 431
>PRK14147 heat shock protein GrpE; Provisional
Probab=22.87 E-value=3.8e+02 Score=21.08 Aligned_cols=85 Identities=14% Similarity=0.171 Sum_probs=52.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQII 142 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~ 142 (151)
++...+.++.+-..+--.-++++.+-|-+ .+..+.+.+...++-+..+---+|.+-+.|....+....+..-+.-|.
T Consensus 27 l~~l~~e~~elkd~~lR~~Ad~eN~rkR~---~kE~e~~~~~a~~~~~~~lLpv~DnlerAl~~~~~~~~~l~~Gv~mi~ 103 (172)
T PRK14147 27 VESLRSEIALVKADALRERADLENQRKRI---ARDVEQARKFANEKLLGELLPVFDSLDAGLTAAGTEPSPLRDGLELTY 103 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHhcccchHHHHHHHHHHHH
Confidence 44455555555555545555555555543 456666666666666666666677777776655555566667777777
Q ss_pred HHHHHhhh
Q psy18023 143 KELNQIVE 150 (151)
Q Consensus 143 K~l~q~~~ 150 (151)
|.|..+++
T Consensus 104 k~l~~~L~ 111 (172)
T PRK14147 104 KQLLKVAA 111 (172)
T ss_pred HHHHHHHH
Confidence 77776654
No 432
>cd07656 F-BAR_srGAP The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Slit-Robo GTPase Activating Proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Slit-Robo GTPase Activating Proteins (srGAPs) are Rho GAPs that interact with Robo1, the transmembrane receptor of Slit proteins. Slit proteins are secreted proteins that control axon guidance and the migration of neurons and leukocytes. Vertebrates contain three isoforms of srGAPs, all of which are expressed during embryonic and early development in the nervous system but with different localization and timing. srGAPs contain an N-terminal F-BAR domain, a Rho GAP domain, and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=22.87 E-value=4.2e+02 Score=21.58 Aligned_cols=79 Identities=13% Similarity=0.207 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhh------hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 72 QIIKELDQIIKELDLIIKESNQ-VIKELNLIIKESNQ------NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKE 144 (151)
Q Consensus 72 QISK~LdQIsK~LdqISK~l~Q-iSk~L~qISKel~q------k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~ 144 (151)
.+-...+++++....+|..++. |...|..+++.+.+ .-..++..+|....++|+-.-|.-.+-.++-.....+
T Consensus 74 ~lL~qt~~~a~~h~~lse~l~~~i~~~l~~l~~d~~~~~Kk~~e~~~~lq~el~~~~~eL~k~kK~Y~~~~~ea~~A~~K 153 (241)
T cd07656 74 TLLVQTKQESRDHSTLSDIYSNNLVQRLGQMSEDLQRISKKCREIGSQLHDELLRVLNELQTAMKTYHTYHAESKSAERK 153 (241)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHhhh
Q psy18023 145 LNQIVE 150 (151)
Q Consensus 145 l~q~~~ 150 (151)
+.....
T Consensus 154 ~~~ae~ 159 (241)
T cd07656 154 LKEAEK 159 (241)
T ss_pred HHHHHH
No 433
>PTZ00440 reticulocyte binding protein 2-like protein; Provisional
Probab=22.85 E-value=1.1e+03 Score=26.76 Aligned_cols=32 Identities=16% Similarity=0.205 Sum_probs=17.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 109 KLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 109 ~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
..+.|-.....|..+-..+-..|-+|...+++
T Consensus 2469 n~~~Id~~i~~I~~~n~e~~~~l~~i~~~l~~ 2500 (2722)
T PTZ00440 2469 NAEKIDDLIENVTSHNEKIKSELLIINDALRR 2500 (2722)
T ss_pred cHhHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence 34555555555665555555555555544444
No 434
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=22.80 E-value=2.1e+02 Score=18.07 Aligned_cols=13 Identities=15% Similarity=0.378 Sum_probs=6.6
Q ss_pred HHHHHHHHHhhhh
Q psy18023 95 IKELNLIIKESNQ 107 (151)
Q Consensus 95 Sk~L~qISKel~q 107 (151)
.+.|++|.+.+..
T Consensus 5 ~~~Le~Iv~~Le~ 17 (53)
T PF02609_consen 5 MERLEEIVEKLES 17 (53)
T ss_dssp HHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHc
Confidence 3445555555554
No 435
>PTZ00464 SNF-7-like protein; Provisional
Probab=22.72 E-value=4.2e+02 Score=21.54 Aligned_cols=45 Identities=18% Similarity=0.280 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q psy18023 87 IIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKEL 131 (151)
Q Consensus 87 ISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L 131 (151)
+-..|.+-++.|..+-+.++=.++++|--.+.+....-+.|+..|
T Consensus 103 vv~amk~g~kaLK~~~k~i~id~Vd~l~Dei~E~~e~~~EI~e~L 147 (211)
T PTZ00464 103 QVDAMKQAAKTLKKQFKKLNVDKVEDLQDELADLYEDTQEIQEIM 147 (211)
T ss_pred HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666677777777777654444444444443333344444444
No 436
>PHA03089 late transcription factor VLTF-4; Provisional
Probab=22.67 E-value=3.1e+02 Score=23.06 Aligned_cols=43 Identities=26% Similarity=0.390 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Q psy18023 78 DQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLT 127 (151)
Q Consensus 78 dQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~i 127 (151)
++|+|+|-.|.--..-+|--|+ +-.+..|++..-+++|.++..
T Consensus 128 ~~I~KdlK~i~~RVsAlsTVLe-------DvQAa~i~Rqftsl~K~i~~L 170 (191)
T PHA03089 128 ENIIKDLKKINSRVSAVSTVLE-------DVQAASISRQYTSLIKEIDKL 170 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-------HHHhhcccHHHHHHHHHHHHH
Confidence 4444444444444444444444 444555566555555555543
No 437
>KOG3119|consensus
Probab=22.67 E-value=3.2e+02 Score=22.62 Aligned_cols=29 Identities=28% Similarity=0.344 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 118 DQMVKELDLTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 118 dqisk~ld~isK~L~qIsk~l~qI~K~l~ 146 (151)
++|...+.+..|+.+..-..+.|.+++|.
T Consensus 218 ~e~~~r~~~leken~~lr~~v~~l~~el~ 246 (269)
T KOG3119|consen 218 DEMAHRVAELEKENEALRTQVEQLKKELA 246 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444444444443
No 438
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=22.55 E-value=3.7e+02 Score=20.75 Aligned_cols=34 Identities=21% Similarity=0.494 Sum_probs=14.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQIIKELNQI 141 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI 141 (151)
+.+.++.++....-..+.++.+.|...-+.|..+
T Consensus 29 ~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~ 62 (188)
T PF10018_consen 29 ARIQQLRAEIEELDEQIRDILKQLKEARKELRTL 62 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444333334444444444444444433
No 439
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=22.55 E-value=3.5e+02 Score=20.58 Aligned_cols=26 Identities=27% Similarity=0.460 Sum_probs=13.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 108 NKLDQIKKELDQMVKELDLTIKELNQ 133 (151)
Q Consensus 108 k~LdqIsK~Ldqisk~ld~isK~L~q 133 (151)
-+-..+...+|++.+++....+++..
T Consensus 66 AkwaKl~Rk~~kl~~el~~~~~~~~~ 91 (161)
T PF04420_consen 66 AKWAKLNRKLDKLEEELEKLNKSLSS 91 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344555555555555555554443
No 440
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=22.53 E-value=5.1e+02 Score=22.43 Aligned_cols=21 Identities=14% Similarity=0.360 Sum_probs=8.1
Q ss_pred chHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIK 82 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK 82 (151)
||++|.+-+..+.+.+.++++
T Consensus 19 SL~~ld~~i~~l~~~i~~ld~ 39 (383)
T PF04100_consen 19 SLSNLDELIAKLRKEIRELDE 39 (383)
T ss_pred HHHhHHHHHHHHHHHHHHHHH
Confidence 344443333333333333333
No 441
>PF08060 NOSIC: NOSIC (NUC001) domain; InterPro: IPR012976 This is the central domain in Nop56/SIK1-like proteins [].; PDB: 3PLA_K 3ICX_B 3ID6_A 3ID5_E 3NVM_A 3NMU_B 2NNW_C 3NVI_A 3NVK_A 2OZB_E ....
Probab=22.47 E-value=2e+02 Score=18.41 Aligned_cols=23 Identities=30% Similarity=0.291 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 72 QIIKELDQIIKELDLIIKESNQV 94 (151)
Q Consensus 72 QISK~LdQIsK~LdqISK~l~Qi 94 (151)
|..+-+++|.++++.+.+-+..|
T Consensus 4 ~~~~l~~~id~ei~~~~~~lre~ 26 (53)
T PF08060_consen 4 QANELLDDIDKEINLLHMRLREW 26 (53)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555554444
No 442
>PF08192 Peptidase_S64: Peptidase family S64; InterPro: IPR012985 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This family of fungal proteins is involved in the processing of membrane bound transcription factor Stp1 [] and belongs to MEROPS petidase family S64 (clan PA). The processing causes the signalling domain of Stp1 to be passed to the nucleus where several permease genes are induced. The permeases are important for uptake of amino acids, and processing of tp1 only occurs in an amino acid-rich environment. This family is predicted to be distantly related to the trypsin family (MEROPS peptidase family S1) and to have a typical trypsin-like catalytic triad [].
Probab=22.45 E-value=7.6e+02 Score=24.39 Aligned_cols=44 Identities=30% Similarity=0.385 Sum_probs=28.8
Q ss_pred cchHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 61 NKLDQIKKELDQIIKEL----DQIIKELDLIIKESNQVIKELNLIIKE 104 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~L----dQIsK~LdqISK~l~QiSk~L~qISKe 104 (151)
+..++|.++|.|..++| +||....--+|+..=+.++.+.+.+..
T Consensus 164 ~~~~~i~~~L~~L~~~l~~lm~q~~qsv~NlS~aVi~~Ie~fK~F~~~ 211 (695)
T PF08192_consen 164 DSLEQIEDELKQLEEDLSYLMDQINQSVTNLSKAVINAIECFKEFINF 211 (695)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHhhhc
Confidence 45678888888877664 455555555677777777766666443
No 443
>PF08397 IMD: IRSp53/MIM homology domain; InterPro: IPR013606 The IMD (IRSp53 and MIM (missing in metastases) homology) domain is a BAR-like domain of approximately 250 amino acids found at the N-terminal in the insulin receptor tyrosine kinase substrate p53 (IRSp53) and in the evolutionarily related IRSp53/MIM family. In IRSp53, a ubiquitous regulator o the actin cytoskeleton, the IMD domain acts as conserved F-actin bundling domain involved in filopodium formation. Filopodium-inducing IMD activity is regulated by Cdc42 and Rac1 (Rho-family GTPases) and is SH3-independent [, , ]. The IRSp53/MIM family is a novel F-actin bundling protein family that includes invertebrate relatives: Vertebrate MIM (missing in metastasis), an actin-binding scaffold protein that may be involved in cancer metastasis. Vertebrate ABBA-1, a MIM-related protein. Vertebrate brain-specific angiogenesis inhibitor 1-associated protein 2 (BAI1-associated protein 2) or insulin receptor tyrosine kinase substrate p53 (IRSp53), a multifunctional adaptor protein that links Rac1 with a Wiskott-Aldrich syndrome family verprolin-homologous protein 2 (WAVE2) to induce lamellipodia or Cdc42 with Mena to induce filopodia []. Vertebrate brain-specific angiogenesis inhibitor 1-associated protein 2-like proteins 1 and 2 (BAI1-associated protein 2-like proteins 1 and 2). Drosophila melanogaster (Fruit fly) CG32082-PA. Caenorhabditis elegans M04F3.5 protein. The vertebrate IRSp53/MIM family is divided into two major groups: the IRSp53 subfamily and the MIM/ABBA subfamily. The putative invertebrate homologues are positioned between them. The IRSp53 subfamily members contain an SH3 domain, and the MIM/ABBA subfamily proteins contain a WH2 (WASP-homology 2) domain. The vertebrate SH3-containing subfamily is further divided into three groups according to the presence or absence of the WWB and the half-CRIB motif. The IMD domain can bind to and bundle actin filaments, bind to membranes and interact with the small GTPase Rac [, ]. The IMD domain folds as a coiled coil of three extended alpha-helices and a shorter C-terminal helix. Helix 4 packs tightly against the other three helices, and thus represents an integral part of the domain. The fold of the IMD domain closely resembles that of the BAR (Bin-Amphiphysin-RVS) domain, a functional module serving both as a sensor and inducer of membrane curvature []. The WH2 domain performs a scaffolding function [].; GO: 0008093 cytoskeletal adaptor activity, 0017124 SH3 domain binding, 0007165 signal transduction, 0046847 filopodium assembly; PDB: 2D1L_A 3OK8_B 1WDZ_B 1Y2O_A 2YKT_A.
Probab=22.44 E-value=3.8e+02 Score=20.90 Aligned_cols=88 Identities=14% Similarity=0.227 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-NKLDQIKKELDQMVKELDLTIKELNQIIKELNQ- 140 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q- 140 (151)
|+|++-.++++...=....+.|...+.........|..+...-.. ..-.+|-..|-+|+-....|--.+..+.+.+..
T Consensus 5 ~~~~~P~~e~lv~~~~kY~~al~~~~~a~~~f~dal~ki~~~A~~s~~s~~lG~~L~~~s~~~r~i~~~~~~~~~~~~~~ 84 (219)
T PF08397_consen 5 MEDFNPAWENLVSLGKKYQKALRAMSQAAAAFFDALQKIGDMASNSRGSKELGDALMQISEVHRRIENELEEVFKAFHSE 84 (219)
T ss_dssp HHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHhhh
Q psy18023 141 IIKELNQIVE 150 (151)
Q Consensus 141 I~K~l~q~~~ 150 (151)
++..|.+-++
T Consensus 85 li~pLe~~~e 94 (219)
T PF08397_consen 85 LIQPLEKKLE 94 (219)
T ss_dssp THHHHHHHHH
T ss_pred HHHHHHHHHH
No 444
>TIGR01725 phge_HK97_gp10 phage protein, HK97 gp10 family. This model represents an uncharacterized, highly divergent bacteriophage family. The family includes gp10 from HK022 and HK97. It appears related to TIGR01635, a phage morphogenesis family believed to be involved in tail completion.
Probab=22.32 E-value=2.6e+02 Score=19.02 Aligned_cols=38 Identities=24% Similarity=0.376 Sum_probs=0.0
Q ss_pred ccchHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELDQ--IIKELDLIIKESNQVIKE 97 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~LdQ--IsK~LdqISK~l~QiSk~ 97 (151)
|+-|+++.++|+++.+..+. +.+.|..-.+.+.+-.+.
T Consensus 1 ~~Gl~~l~~~l~~l~~~~~~~~~~~al~~~a~~~~~~~k~ 40 (119)
T TIGR01725 1 FTGLDELLQKLEKLGKKVDKEKVRKALKAGANVIRAKLKS 40 (119)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
No 445
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=22.32 E-value=2.4e+02 Score=18.58 Aligned_cols=85 Identities=14% Similarity=0.365 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-----------------hhhHHHHHHHHHHHHHHHHH
Q psy18023 65 QIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-----------------NKLDQIKKELDQMVKELDLT 127 (151)
Q Consensus 65 QIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-----------------k~LdqIsK~Ldqisk~ld~i 127 (151)
++-..+...-..+..+...+.++...++...-.++.+..--++ .-...+.+..+.+...++.+
T Consensus 2 e~~~~~~~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~~~~y~~vG~~fv~~~~~~~~~~L~~~~~~~~~~i~~l 81 (106)
T PF01920_consen 2 ELQNKFQELNQQLQQLEQQIQQLERQLRELELTLEELEKLDDDRKVYKSVGKMFVKQDKEEAIEELEERIEKLEKEIKKL 81 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSTT-EEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q psy18023 128 IKELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 128 sK~L~qIsk~l~qI~K~l~q~~ 149 (151)
.+.+..+.+.+....+.|...+
T Consensus 82 ~~~~~~l~~~l~~~~~~l~~~~ 103 (106)
T PF01920_consen 82 EKQLKYLEKKLKELKKKLYELF 103 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
No 446
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=22.30 E-value=61 Score=17.12 Aligned_cols=17 Identities=24% Similarity=0.591 Sum_probs=0.0
Q ss_pred hhhhccccchHHHHHHH
Q psy18023 54 KECKVDFNKLDQIKKEL 70 (151)
Q Consensus 54 ~~~~~~~~~LDQIsKnL 70 (151)
..|...|+++..+.+++
T Consensus 5 ~~C~~~F~~~~~l~~H~ 21 (27)
T PF13912_consen 5 DECGKTFSSLSALREHK 21 (27)
T ss_dssp TTTTEEESSHHHHHHHH
T ss_pred CccCCccCChhHHHHHh
No 447
>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=22.25 E-value=5.3e+02 Score=22.46 Aligned_cols=67 Identities=6% Similarity=0.212 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 80 IIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 80 IsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~ 146 (151)
+.....|-.++--+....|+.|.-.+..=+..|++-..++....++.-.+.+++.-+.++....++.
T Consensus 39 ~yQ~~EQAr~~A~~fA~~ld~~~~kl~~Ms~~ql~~~~~k~~~si~~q~~~i~~l~~~i~~l~~~i~ 105 (301)
T PF06120_consen 39 FYQNAEQARQEAIEFADSLDELKEKLKEMSSTQLRANIAKAEESIAAQKRAIEDLQKKIDSLKDQIK 105 (301)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 448
>cd01145 TroA_c Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=22.13 E-value=1.4e+02 Score=22.64 Aligned_cols=41 Identities=12% Similarity=0.288 Sum_probs=0.0
Q ss_pred hhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 53 EKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQ 93 (151)
Q Consensus 53 ~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~Q 93 (151)
+.-|++|...=+.+.+|...+.+.|+++.+.+.+..+...+
T Consensus 126 ~~L~~~dP~~~~~y~~N~~~~~~~l~~l~~~~~~~l~~~~~ 166 (203)
T cd01145 126 DALIELDPSEQEEYKENLRVFLAKLNKLLREWERQFEGLKG 166 (203)
T ss_pred HHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC
No 449
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=22.11 E-value=4.1e+02 Score=24.80 Aligned_cols=52 Identities=12% Similarity=0.175 Sum_probs=0.0
Q ss_pred HHHHHHHhhhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 97 ELNLIIKESNQ-NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 97 ~L~qISKel~q-k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
...+.|+--.+ .++.++.|.|+.+-+++..+++.+.+-...|+.+.-++.++
T Consensus 64 dkVnqSALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~L 116 (475)
T PRK13729 64 DKVRQHATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAAL 116 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH
No 450
>PF10786 G6PD_bact: Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); InterPro: IPR019722 This entry represents proteins conserved in Firmicutes and Proteobacteria. Several members are annotated as being glucose-6-phosphate 1-dehydrogenase (1.1.1.49 from EC) but this could not be confirmed.
Probab=22.04 E-value=46 Score=28.19 Aligned_cols=10 Identities=50% Similarity=1.202 Sum_probs=0.0
Q ss_pred HHHHHHHHHH
Q psy18023 12 LRRHYFALFR 21 (151)
Q Consensus 12 ~~~~~~~~~~ 21 (151)
+|-||||.||
T Consensus 73 vRaHFfA~fk 82 (215)
T PF10786_consen 73 VRAHFFAYFK 82 (215)
T ss_pred hhhhHHHHHh
No 451
>cd07651 F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe Cdc15, and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Schizosaccharomyces pombe Cdc15 and Imp2, and similar proteins. These proteins contain an N-terminal F-BAR domain and a C-terminal SH3 domain. S. pombe Cdc15 and Imp2 play both distinct and overlapping roles in the maintenance and strengthening of the contractile ring at the division site, which is required in cell division. Cdc15 is a component of the actomyosin ring and is required in normal cytokinesis. Imp2 colocalizes with the medial ring during septation and is required for normal septation. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation
Probab=21.98 E-value=3.9e+02 Score=20.83 Aligned_cols=85 Identities=14% Similarity=0.165 Sum_probs=0.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELD-LIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELN 139 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~Ld-qISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~ 139 (151)
++++.|...++.+++.=.+|+..|. ++.+.+..|.+.+..--|.+ ........+......+.|...-+...+--+.++
T Consensus 60 ~a~~~i~~e~e~~a~~H~~~a~~L~~~v~~~l~~~~~~~~~~rK~~-~~~~~k~~k~~~~~~~~l~KaK~~Y~~~c~~~e 138 (236)
T cd07651 60 NSLDTLRLETESMAKSHLKFAKQIRQDLEEKLAAFASSYTQKRKKI-QSHMEKLLKKKQDQEKYLEKAREKYEADCSKIN 138 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q ss_pred HHHHHHH
Q psy18023 140 QIIKELN 146 (151)
Q Consensus 140 qI~K~l~ 146 (151)
..+...+
T Consensus 139 ~~~~~~~ 145 (236)
T cd07651 139 SYTLQSQ 145 (236)
T ss_pred HHHHHHc
No 452
>PF13315 DUF4085: Protein of unknown function (DUF4085)
Probab=21.96 E-value=2.7e+02 Score=23.20 Aligned_cols=40 Identities=23% Similarity=0.270 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh---hhhHHHHHHHHHHHHHH
Q psy18023 85 DLIIKESNQVIKELNLIIKESNQ---NKLDQIKKELDQMVKEL 124 (151)
Q Consensus 85 dqISK~l~QiSk~L~qISKel~q---k~LdqIsK~Ldqisk~l 124 (151)
..+.+.+.||++.-+---+.+.+ ++..+|+++|.+-+++|
T Consensus 79 ~~l~~~~~ew~~~~~~~~~~~~~~Y~e~~~sI~~~lp~~v~ql 121 (208)
T PF13315_consen 79 EKLKKAITEWCEDYEKRVKRLCQAYYEYYNSIKEKLPQNVQQL 121 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
No 453
>cd07649 F-BAR_GAS7 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Growth Arrest Specific protein 7. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Growth Arrest Specific protein 7 (GAS7) is mainly expressed in the brain and is required for neurite outgrowth. It may also play a role in the protection and migration of embryonic stem cells. Treatment-related acute myeloid leukemia (AML) has been reported resulting from mixed-lineage leukemia (MLL)-GAS7 translocations as a complication of primary cancer treatment. GAS7 contains an N-terminal SH3 domain, followed by a WW domain, and a central F-BAR domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=21.95 E-value=4.4e+02 Score=21.40 Aligned_cols=69 Identities=17% Similarity=0.176 Sum_probs=0.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---hhhHHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ---NKLDQIKKELDQMVKELDLTIKE 130 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q---k~LdqIsK~Ldqisk~ld~isK~ 130 (151)
+-+++.|-=+...|.-+...+..+..-+...+|-+.|...+..+-+ ..|..++--|-++...+.+++..
T Consensus 152 s~~~~~K~~~K~~Ka~~e~~~~ve~y~~~r~~we~~m~~~~~~~Q~~Ee~Rl~~lk~~L~~y~~~~~~~~~~ 223 (233)
T cd07649 152 TEEDIKKARRKSTQAGDDLMRCVDLYNQAQSKWFEEMVTTSLELERLEVERIEMIRQHLCQYTQLRHETDMF 223 (233)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHH
No 454
>PRK12584 flagellin A; Reviewed
Probab=21.95 E-value=6.1e+02 Score=23.12 Aligned_cols=91 Identities=16% Similarity=0.150 Sum_probs=0.0
Q ss_pred ccchHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELDQII------------------KELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQ 119 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~LdQIs------------------K~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldq 119 (151)
.+.+-.+.++-.++++.++|++ ..|..=...++|..+..++-+..+.. ..|.++.+-|..
T Consensus 12 ~~a~~~l~~~~~~l~~~~~qLSSG~rIn~asDDpag~aia~~l~~~i~~l~q~~~N~~~g~s~lqtae~aL~~i~~~Lqr 91 (510)
T PRK12584 12 LNAHVQSALTQNALKTSLEKLSSGLRINKAADDASGMTIADSLRSQASSLGQAIANTNDGMGIIQVADKAMDEQLKILDT 91 (510)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCccCChhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHH------HHHHHHHHHHHHHHHHHHhhh
Q psy18023 120 MVKELDLTIK------ELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 120 isk~ld~isK------~L~qIsk~l~qI~K~l~q~~~ 150 (151)
|-.-+-+..- ....|-.++.++..+|+.|..
T Consensus 92 ~relavqaangt~s~~dR~ai~~Ei~~L~~ei~~ian 128 (510)
T PRK12584 92 IKVKATQAAQDGQTTESRKAIQSDIVRLIQGLDNIGN 128 (510)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHh
No 455
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=21.93 E-value=2.5e+02 Score=18.65 Aligned_cols=44 Identities=25% Similarity=0.354 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 107 QNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 107 qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~~~ 150 (151)
+..+.++...++.+.+.++..-+..+--.+.+..+.+.|+.|.+
T Consensus 5 ~e~l~~ie~~l~~~~~~i~~lE~~~~~~e~~i~~~~~~l~~I~~ 48 (71)
T PF10779_consen 5 KEKLNRIETKLDNHEERIDKLEKRDAANEKDIKNLNKQLEKIKS 48 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 456
>cd08915 V_Alix_like Protein-interacting V-domain of mammalian Alix and related domains. This superfamily contains the V-shaped (V) domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, and related domains. Alix, HD-PTP, Bro1, and Rim20 all interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP functions in cell migration and endosomal trafficking, Bro1 in endosomal trafficking, and Rim20 in the response to the external pH via the Rim101 pathway. The Alix V-domain contains
Probab=21.91 E-value=4.5e+02 Score=21.58 Aligned_cols=90 Identities=14% Similarity=0.189 Sum_probs=0.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
..+..+...|++-+++=.++..-++++...+.-.+.+.+.+.+.+. ..-+.........++.|..+...|+.|.++=.+
T Consensus 133 ~~~~k~~~~L~~A~~sD~~l~~~~~~~~~~l~lL~~~~~~l~~~~P-s~~~~~~~~~~~~v~~Lr~~l~~l~~lk~eR~~ 211 (342)
T cd08915 133 EKVTKLRGYLEQASNSDNEVLQCYESIDPNLVLLCGGYKELKAFIP-SPYPALDPEVSEVVSSLRPLLNEVSELEKERER 211 (342)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcCChHHHHHhCC-CccccCCchhhHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHhhhC
Q psy18023 141 IIKELNQIVEE 151 (151)
Q Consensus 141 I~K~l~q~~~~ 151 (151)
+.+.|...+..
T Consensus 212 ~~~~lk~~~~~ 222 (342)
T cd08915 212 FISELEIKSRN 222 (342)
T ss_pred HHHHHHHHhhh
No 457
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=21.89 E-value=3.6e+02 Score=20.45 Aligned_cols=86 Identities=16% Similarity=0.134 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Q psy18023 64 DQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELD-LTIKELNQIIKELNQII 142 (151)
Q Consensus 64 DQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld-~isK~L~qIsk~l~qI~ 142 (151)
+.|.+.|+...+...+..+-+.+.-+.+.+..+.-.+|.+.....--....+.+++.-++.+ .+...-.+|..+-.+.+
T Consensus 58 ~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~A~~ea~~ii~~A~~~ae~~~~~il~~A~~ea~~~~~~a~~~ie~Ek~~a~ 137 (184)
T CHL00019 58 QTILNTIRNSEERREEAIEKLEKARARLRQAELEADEIRVNGYSEIEREKENLINQAKEDLERLENYKNETIRFEQQRAI 137 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHhh
Q psy18023 143 KELNQIV 149 (151)
Q Consensus 143 K~l~q~~ 149 (151)
++|.+-+
T Consensus 138 ~~l~~ei 144 (184)
T CHL00019 138 NQVRQQV 144 (184)
T ss_pred HHHHHHH
No 458
>PRK11677 hypothetical protein; Provisional
Probab=21.87 E-value=3.8e+02 Score=20.70 Aligned_cols=47 Identities=21% Similarity=0.219 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh------hhhHHHHHHHHHHHHHHHHHHHHH
Q psy18023 85 DLIIKESNQVIKELNLIIKESNQ------NKLDQIKKELDQMVKELDLTIKEL 131 (151)
Q Consensus 85 dqISK~l~QiSk~L~qISKel~q------k~LdqIsK~Ldqisk~ld~isK~L 131 (151)
...-+.|++.-..|++--.++++ .-|+++.+.-.++..||+..+..|
T Consensus 32 ~~le~eLe~~k~ele~YkqeV~~HFa~TA~Ll~~L~~~Y~~Ly~HlA~~s~~L 84 (134)
T PRK11677 32 QALQYELEKNKAELEEYRQELVSHFARSAELLDTMAKDYRQLYQHMAKSSSEL 84 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 459
>PF09823 DUF2357: Domain of unknown function (DUF2357); InterPro: IPR018633 This entry was previously the N-terminal portion of DUF524 (IPR007505 from INTERPRO) before it was split into two. This domain has no known function. It is predicted to adopt an all beta secondary structure pattern followed by mainly alpha-helical structures [].
Probab=21.86 E-value=2.3e+02 Score=21.45 Aligned_cols=40 Identities=25% Similarity=0.551 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhh
Q psy18023 110 LDQIKKELDQMVKELDLTIKELNQ--IIKELNQIIKELNQIV 149 (151)
Q Consensus 110 LdqIsK~Ldqisk~ld~isK~L~q--Isk~l~qI~K~l~q~~ 149 (151)
|..+.+-|.++.+.+....+..+. +.+++.++.+.|.++.
T Consensus 173 L~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~l 214 (248)
T PF09823_consen 173 LQRLEKRLERLKKRLEEKQRRSETQRFLKELEEMQRELERLL 214 (248)
T ss_pred HHHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHHHHHHH
No 460
>PF10280 Med11: Mediator complex protein ; InterPro: IPR019404 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med11 of the Mediator complex []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3R84_S 3RJ1_O.
Probab=21.76 E-value=3.2e+02 Score=19.85 Aligned_cols=67 Identities=19% Similarity=0.302 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 74 IKELDQIIKELDLIIKESNQVIKELNLIIK--ESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 74 SK~LdQIsK~LdqISK~l~QiSk~L~qISK--el~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
.+.|+.|.+.+.++-++..++...|.--.. ......-.+...+-.+.-++|..|-..|..=++.|.+
T Consensus 5 L~~L~~Idk~I~~lL~~A~~ai~~Ls~~~~~~~~~~~~k~~f~~~~~~f~~~L~~V~~~Lr~qI~~L~e 73 (117)
T PF10280_consen 5 LQQLNEIDKKIVSLLQHAGQAIQELSNPKSPDQDPESSKEAFESATSEFFSTLSSVEVELRRQIKYLEE 73 (117)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---TGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 461
>PRK13858 type IV secretion system T-DNA border endonuclease VirD1; Provisional
Probab=21.74 E-value=3e+02 Score=21.96 Aligned_cols=53 Identities=8% Similarity=0.250 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhhh--hhhHHHHHHHHHH
Q psy18023 68 KELDQIIKELDQIIKELDLIIKESNQVI-KELNLIIKESNQ--NKLDQIKKELDQM 120 (151)
Q Consensus 68 KnLdQISK~LdQIsK~LdqISK~l~QiS-k~L~qISKel~q--k~LdqIsK~Ldqi 120 (151)
+.|.++..+|..+.--|+||.+..|++- -..+.+..|-.. +.+.++.--|.-|
T Consensus 73 e~~~~lir~l~gianNLNQLAr~aN~~~~~~~~~l~~er~~~g~~~~~l~~~l~~~ 128 (147)
T PRK13858 73 EKMEAILQSIGTLSSNIAALLSAYAENPRPDLEALRAERIAFGKEFADLDGLLRSI 128 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
No 462
>PF08654 DASH_Dad2: DASH complex subunit Dad2; InterPro: IPR013963 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=21.71 E-value=2.8e+02 Score=20.48 Aligned_cols=45 Identities=16% Similarity=0.293 Sum_probs=0.0
Q ss_pred hccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLI 101 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qI 101 (151)
+-.+..|-||..--++....|+.++..+++...+-+-++.-|..|
T Consensus 10 k~ELe~L~~l~~lS~~L~~qle~L~~kl~~m~dg~e~Va~Vl~NW 54 (103)
T PF08654_consen 10 KAELEALKQLRDLSADLASQLEALSEKLETMADGAEAVASVLANW 54 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHhH
No 463
>PF07817 GLE1: GLE1-like protein; InterPro: IPR012476 The members of this family are sequences that are similar to the human protein GLE1 (O75458 from SWISSPROT). This protein is localised at the nuclear pore complexes and functions in poly(A)+ RNA export to the cytoplasm []. ; GO: 0016973 poly(A)+ mRNA export from nucleus, 0005643 nuclear pore; PDB: 3PEV_B 3RRN_B 3PEU_B 3RRM_B.
Probab=21.71 E-value=1.7e+02 Score=23.65 Aligned_cols=72 Identities=17% Similarity=0.154 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 75 KELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 75 K~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
+.+.|+.+.+....+.-.++-+...++-|..+ .++-||+.+-.|+.+-..+|...|+.....+.++....++
T Consensus 3 ~~i~~~k~~~~~~~~~d~~lKk~~~~~kr~I~-~~vgQls~~~~qi~~i~~~i~~ll~~~~~~~~~~~~~~~~ 74 (256)
T PF07817_consen 3 QKIKQIKQALKEPVKSDPSLKKLRFDLKRKIN-PKVGQLSNSSSQINRIINQISNLLSGQPVKSNDLQQSKND 74 (256)
T ss_dssp HHHHHHHHHTHHHHHS-HHHHHHHHHHHHHHC-CHHHC--SBHHHHHHHHHHHHHH----------HHTTTT-
T ss_pred HHHHHHHHHHHHHhhcCHHHHHHHHHhhhhCc-CcHhhccCcHHHHHHHHHHHHHHhhhhhhchhhhhhhccC
No 464
>PHA02682 ORF080 virion core protein; Provisional
Probab=21.61 E-value=1.8e+02 Score=25.44 Aligned_cols=34 Identities=21% Similarity=0.255 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 111 DQIKKELDQMVKELDLTIKELNQIIKELNQIIKE 144 (151)
Q Consensus 111 dqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~ 144 (151)
+-|+|+|++|...|.+++.+-+-+-+.+.+-+..
T Consensus 211 ~~ikkeladiadsvrdl~aeS~~LtrDIE~AKst 244 (280)
T PHA02682 211 DLIKKELADIADSVRDLNAESLSLTRDIENAKST 244 (280)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHhh
No 465
>PRK08471 flgK flagellar hook-associated protein FlgK; Validated
Probab=21.54 E-value=6.5e+02 Score=23.29 Aligned_cols=84 Identities=14% Similarity=0.232 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHhhhh---hhhHHHHHHHHHHHHHHHHHHH
Q psy18023 66 IKKELDQIIKELDQIIK-------------ELDLIIKESNQVIKELNLIIKESNQ---NKLDQIKKELDQMVKELDLTIK 129 (151)
Q Consensus 66 IsKnLdQISK~LdQIsK-------------~LdqISK~l~QiSk~L~qISKel~q---k~LdqIsK~Ldqisk~ld~isK 129 (151)
|+..|++|-..+..+++ ....+...+++.+..|++.....++ ...++|-.-|.+|.+-=.+|.+
T Consensus 110 l~~~l~~ff~al~~ls~~P~~~~~R~~vl~~a~~L~~~~n~~~~~L~~~~~~~~~~i~~~V~~iN~ll~~Ia~LN~qI~~ 189 (613)
T PRK08471 110 ILKDLQDYFNAWNDFASNPKDSAQKQALAQKTETLTNNIKDTRERLDTLQKKVNEELKVTVDEINSLGKQIAEINKQIKE 189 (613)
T ss_pred HHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q ss_pred --------HHHHHHHHHHHHHHHHHHhh
Q psy18023 130 --------ELNQIIKELNQIIKELNQIV 149 (151)
Q Consensus 130 --------~L~qIsk~l~qI~K~l~q~~ 149 (151)
.-++....-+++.++|.++|
T Consensus 190 ~~~~g~~~~~ndL~DqRD~ll~eLS~~v 217 (613)
T PRK08471 190 VEAGKTLKHANELRDKRDELELTLSKLV 217 (613)
T ss_pred hhcCCCCCCchhhHHHHHHHHHHHHhhc
No 466
>COG0803 LraI ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]
Probab=21.48 E-value=1.8e+02 Score=23.81 Aligned_cols=35 Identities=14% Similarity=0.289 Sum_probs=0.0
Q ss_pred hhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 56 CKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKE 90 (151)
Q Consensus 56 ~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~ 90 (151)
|+.|...-+.+.+|+..+.+.|+++.++.......
T Consensus 154 ~~~dP~~~~~y~~N~~~y~~kL~~l~~~~~~~~~~ 188 (303)
T COG0803 154 VELDPENKETYEKNAEAYLKKLNKLDEEAKAKLSK 188 (303)
T ss_pred HHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhc
No 467
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=21.47 E-value=6.8e+02 Score=23.48 Aligned_cols=139 Identities=17% Similarity=0.238 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhc--CCccCCCCCccchhccccccCChh-------------HHHHhhh-hhccccchHHHHHHHHHHH
Q psy18023 11 RLRRHYFALFRMFD--GLTPVTDGSTEESEINLESSNGIE-------------EQEMEKE-CKVDFNKLDQIKKELDQII 74 (151)
Q Consensus 11 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~-~~~~~~~LDQIsKnLdQIS 74 (151)
|++.+....||-.. |-+++..+++......+-.+++.+ .+++... -.+--.+.......-....
T Consensus 248 ~l~~~l~e~lr~~~~~~~~~~~~~~s~~dl~~~l~~~~~~~~~k~s~f~~~ek~~~~~~~~~~~~~~~~~~~~~~~~~~~ 327 (594)
T PF05667_consen 248 RLQKRLAEQLRQAASASSDNHFRASSSDDLADVLHKFSGEAWDKGSRFTHSEKPQEAAPAAAVVPPKEKETEEDEQEEQE 327 (594)
T ss_pred HHHHHHHHHHHHhhcccccccccccchhHHHHHHHhccccccccccccccccchhhhhhccccCCcccccchhhhHHHHH
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy18023 75 KELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQIVE 150 (151)
Q Consensus 75 K~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q~~~ 150 (151)
+.|+.+.+.|+.+...+..+-..+.....++.+ ..+.+.......+-+.+. +-+.+-.+.-.-..-+.+|+.+|+
T Consensus 328 ~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~-l~~k~~~lL~d~e~ni~kL~~~v~ 404 (594)
T PF05667_consen 328 QELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELK-LKKKTVELLPDAEENIAKLQALVE 404 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhcCcHHHHHHHHHHHH
No 468
>cd07603 BAR_ACAPs The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of ACAPs (ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins), which are Arf GTPase activating proteins (GAPs) containing an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. Vertebrates contain at least three members, ACAP1, ACAP2, and ACAP3. ACAP1 and ACAP2 are Arf6-specific GAPs, involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration, by mediating Arf6 signaling. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=21.46 E-value=4.2e+02 Score=21.05 Aligned_cols=99 Identities=11% Similarity=0.206 Sum_probs=0.0
Q ss_pred HHHhhhhhccccchHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q psy18023 50 QEMEKECKVDFNKLDQIKKELDQIIKELDQII----------KELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQ 119 (151)
Q Consensus 50 ~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIs----------K~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldq 119 (151)
..|-|.|+.=.++.-....+--.|+.+|.++. ..|..++..+..|.....-.....+.--.+.|..=+..
T Consensus 19 ~kl~K~~~~~~~ag~~~~~a~~~F~~~L~~~~~~~~~d~~i~~~l~kF~~~l~el~~~~~~L~~q~~~~i~~pL~~F~k~ 98 (200)
T cd07603 19 EKLLKLCNGMVDSGKTYVNANSLFVNSLNDLSDYFRDDSLVQNCLNKFIQALQEMNNFHTILLDQAQRTVSTQLQNFVKE 98 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy18023 120 MVKELDLTIKELNQIIKELNQIIKELNQI 148 (151)
Q Consensus 120 isk~ld~isK~L~qIsk~l~qI~K~l~q~ 148 (151)
=.+.+-+.-|.++.+++..++-..+.-++
T Consensus 99 dL~~vKE~kk~Fdk~s~~yd~al~k~~~~ 127 (200)
T cd07603 99 DIKKVKESKKHFEKISDDLDNALVKNAQA 127 (200)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhcc
No 469
>PF08649 DASH_Dad1: DASH complex subunit Dad1; InterPro: IPR013958 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules []. Throughout the cell cycle Dad1 remains bound to kinetochores and its association is dependent on the Mis6 and Mal2 [].
Probab=21.41 E-value=2.8e+02 Score=19.06 Aligned_cols=41 Identities=12% Similarity=0.345 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIK 103 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISK 103 (151)
+.+|+++|+++--++..+-.+|....--=.+...-=..|++
T Consensus 11 i~eI~~~~e~vl~nlN~LNRsLE~~i~VGkEF~~V~~LW~~ 51 (58)
T PF08649_consen 11 IQEISESMESVLNNLNALNRSLESVISVGKEFESVSSLWSQ 51 (58)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhHHHHHHHHHH
No 470
>PF07072 DUF1342: Protein of unknown function (DUF1342); InterPro: IPR009777 This family consists of several hypothetical bacterial proteins of around 250 residues in length. Members of this family are often known as YacF after the Escherichia coli protein P36680 from SWISSPROT. The function of this family is unknown.; PDB: 2OEZ_A.
Probab=21.37 E-value=1.7e+02 Score=23.78 Aligned_cols=62 Identities=26% Similarity=0.392 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHh--hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 85 DLIIKESNQVIKELNLIIKE--SNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELNQ 147 (151)
Q Consensus 85 dqISK~l~QiSk~L~qISKe--l~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~q 147 (151)
.++.|+|+.-...|..|..+ .++..|+++-..|++.+..|....-.+.+-.|+ |.+...+.|
T Consensus 43 ~eLlKELeRq~~~L~~~~~~p~vd~~~l~~~l~~l~~~~~~L~~~~gr~gq~Lre-ne~L~siRQ 106 (211)
T PF07072_consen 43 SELLKELERQRQKLNQWRDNPGVDQEALDALLQELDQALQALQQAPGRIGQHLRE-NEFLMSIRQ 106 (211)
T ss_dssp HHHHHHHHHHHHHHHCTTT-TTS-HHHHHHHHHHHHHHHHHHHH---STTHHHHC--HHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHhCcchhhhhhhH-hHHHHHHHH
No 471
>PF04523 Herpes_U30: Herpes virus tegument protein U30; InterPro: IPR007611 This family is named after the human herpesvirus protein, but has been characterised in cytomegalovirus as UL47. Cytomegalovirus UL47 is a component of the tegument, which is a protein layer surrounding the viral capsid. UL47 co-precipitates with UL48 and UL69 tegument proteins, and the major capsid protein UL86. A UL47-containing complex is thought to be involved in the release of viral DNA from the disassembling virus particle [].; GO: 0019068 virion assembly
Probab=21.25 E-value=7.9e+02 Score=24.16 Aligned_cols=78 Identities=12% Similarity=0.223 Sum_probs=0.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhh----HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 62 KLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-NKL----DQIKKELDQMVKELDLTIKELNQIIK 136 (151)
Q Consensus 62 ~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-k~L----dqIsK~Ldqisk~ld~isK~L~qIsk 136 (151)
++-.++.-+..+.+.-.++...|.+++..+..+-.-|-++++.... +.= ++-.-.+.+|++.+..+.+.++.+--
T Consensus 698 ~l~~f~~ti~~l~~~~~~l~~~l~~~~~~l~~~~~rl~~~l~d~~~i~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 777 (887)
T PF04523_consen 698 SLPTFKSTIKALQDQCRELIDRLTQLSERLQTIYRRLLQILEDIEKIKQHPIWISFSHPNFRELKKSYLKCFSRLKTLES 777 (887)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccchhHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHH
Q psy18023 137 ELN 139 (151)
Q Consensus 137 ~l~ 139 (151)
.+.
T Consensus 778 ~l~ 780 (887)
T PF04523_consen 778 RLS 780 (887)
T ss_pred HHH
No 472
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=21.25 E-value=2.5e+02 Score=18.35 Aligned_cols=91 Identities=15% Similarity=0.296 Sum_probs=0.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHhhhh---hhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESN----QVIKELNLIIKESNQ---NKLDQIKKELDQMVKELDLTIKELNQ 133 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~----QiSk~L~qISKel~q---k~LdqIsK~Ldqisk~ld~isK~L~q 133 (151)
+.+..+.+..+.+...+.++...+..+.+..+ +|....+.+...|++ .-|.+|.+.-..-.+.|..-.+.|.+
T Consensus 7 ~~l~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~~~~~~~~~l~~q~~~l~~ 86 (127)
T smart00502 7 ELLTKLRKKAAELEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQLLEDLEEQKENKLKVLEQQLESLTQ 86 (127)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHhhhC
Q psy18023 134 IIKELNQIIKELNQIVEE 151 (151)
Q Consensus 134 Isk~l~qI~K~l~q~~~~ 151 (151)
-...|...+....+.+.+
T Consensus 87 ~l~~l~~~~~~~e~~l~~ 104 (127)
T smart00502 87 KQEKLSHAINFTEEALNS 104 (127)
T ss_pred HHHHHHHHHHHHHHHHHc
No 473
>PLN02320 seryl-tRNA synthetase
Probab=21.23 E-value=6.7e+02 Score=23.28 Aligned_cols=91 Identities=11% Similarity=0.142 Sum_probs=0.0
Q ss_pred HHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHH
Q psy18023 50 QEMEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIK 129 (151)
Q Consensus 50 ~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK 129 (151)
+.+.+-|+.-.-.++ -..+-+.-+..-++...++..-..-|.+||.+.+ -........+..+...+.+.+..+-.
T Consensus 77 ~~v~~~l~~R~~~~~--vd~l~~ld~~~r~~~~~~~~lr~ern~~sk~i~~---~~~~~~~~~l~~~~k~lk~~i~~le~ 151 (502)
T PLN02320 77 EAVAINIRNRNSNAN--LELVLELYENMLALQKEVERLRAERNAVANKMKG---KLEPSERQALVEEGKNLKEGLVTLEE 151 (502)
T ss_pred HHHHHHHHhcCCCcC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHH
Q psy18023 130 ELNQIIKELNQIIKEL 145 (151)
Q Consensus 130 ~L~qIsk~l~qI~K~l 145 (151)
.+..+...+.++.-.|
T Consensus 152 ~~~~~~~~l~~~~l~i 167 (502)
T PLN02320 152 DLVKLTDELQLEAQSI 167 (502)
T ss_pred HHHHHHHHHHHHHHhC
No 474
>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=21.21 E-value=4.1e+02 Score=20.79 Aligned_cols=73 Identities=10% Similarity=0.237 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIK----ELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQII 135 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk----~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIs 135 (151)
+.++...+.+..+.|.+....+.+++..+..-.+ .+..-+..+.. ..-.++...++.+..+++.+.+-++++.
T Consensus 220 i~~l~~~~n~m~~~l~~~~~~~~~~~~~~~h~l~tpl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ll 298 (457)
T TIGR01386 220 LRELAQSFNAMLGRLEDAFQRLSQFSADLAHELRTPLTNLLGQTQVALSQPRTGEEYREVLESNLEELERLSRMVSDML 298 (457)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
No 475
>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=21.11 E-value=3.8e+02 Score=20.44 Aligned_cols=87 Identities=14% Similarity=0.311 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESN--QNKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~--qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
..+....+..+.+.+++..+.+.+-.+.++..-..|..-...+. ........+.+.+...++...-..+.++...+..
T Consensus 65 ~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~ 144 (302)
T PF10186_consen 65 IEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLSASQDLVESRQEQLEELQNELEERKQRLSQLQSQLAR 144 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHhh
Q psy18023 141 IIKELNQIV 149 (151)
Q Consensus 141 I~K~l~q~~ 149 (151)
.+..+-+-+
T Consensus 145 ~r~~l~~~l 153 (302)
T PF10186_consen 145 RRRQLIQEL 153 (302)
T ss_pred HHHHHHHHH
No 476
>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=21.11 E-value=4.3e+02 Score=21.01 Aligned_cols=83 Identities=12% Similarity=0.150 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVKELDLTIKELNQIIKELNQ 140 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~q 140 (151)
...|+.-|.+++-.|.+.-..|+.-.....+-..-.....+.+.. ++...++..-..++++|..--..|++-...|..
T Consensus 180 ~~~i~~~L~~~~~kL~Dl~~~l~eA~~~~~ea~~ln~~n~~~l~~~~~k~~~l~~~~~~~~~~L~~a~~~L~~a~~ll~~ 259 (264)
T PF06008_consen 180 AEAIRDDLNDYNAKLQDLRDLLNEAQNKTREAEDLNRANQKNLEDLEKKKQELSEQQNEVSETLKEAEDLLDQANDLLQE 259 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHH
Q psy18023 141 IIKEL 145 (151)
Q Consensus 141 I~K~l 145 (151)
+.+++
T Consensus 260 ~~~~~ 264 (264)
T PF06008_consen 260 MQDSQ 264 (264)
T ss_pred hhhcC
No 477
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=21.04 E-value=5.1e+02 Score=21.86 Aligned_cols=86 Identities=24% Similarity=0.436 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ--NKLDQIK--KELDQMVKELDLTIKELNQIIKEL 138 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q--k~LdqIs--K~Ldqisk~ld~isK~L~qIsk~l 138 (151)
|+.....++.+.+.+...-..+..+-+..-|+...+..+++-.+. +.|.-++ +++.+.-.+++..-..++.+..+|
T Consensus 33 l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el 112 (239)
T COG1579 33 LKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDEL 112 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHh
Q psy18023 139 NQIIKELNQI 148 (151)
Q Consensus 139 ~qI~K~l~q~ 148 (151)
.++.+.+..+
T Consensus 113 ~~l~~~~~~l 122 (239)
T COG1579 113 AELMEEIEKL 122 (239)
T ss_pred HHHHHHHHHH
No 478
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=20.97 E-value=32 Score=31.03 Aligned_cols=117 Identities=21% Similarity=0.375 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhcC--CccCCCCCccchhccccccCChhHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 11 RLRRHYFALFRMFDG--LTPVTDGSTEESEINLESSNGIEEQEMEKECKVDFNKLDQIKKELDQIIKELDQIIKELDLII 88 (151)
Q Consensus 11 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~LdqIS 88 (151)
+.+.+-|+|.|.-.| ++|+.||.. +.+.|+++- +-..-.+|.++++.+-+.|.++-..+.+|-
T Consensus 138 ~A~~~gf~l~~t~~G~~~~P~~~G~~------------l~~eef~~L---~~e~r~~i~~~~~~l~~~l~~~l~~l~~~e 202 (509)
T PF13654_consen 138 EAEEKGFALKRTPSGFVFIPLKDGKP------------LTEEEFEAL---PEEEREEIEEKIEELQEELQEILRQLRELE 202 (509)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccccccccccccccccccccccccc------------ccccccccc---cccccccccccccccccccccccccccccc
Q ss_pred HHHHHHHHHHH-HHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 89 KESNQVIKELN-LIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQII 142 (151)
Q Consensus 89 K~l~QiSk~L~-qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~ 142 (151)
+.+.+-.+.|+ ++.+..-...++.+.....+-.+-+.=+..--++|..++..+.
T Consensus 203 ~e~~e~l~~L~~~~~~~~v~~~~~~l~~~y~~~~~v~~yL~~v~~di~~~i~~f~ 257 (509)
T PF13654_consen 203 REAREKLKELNREIALFAVEPLIEELREKYADNPKVLAYLEAVKEDILENIELFL 257 (509)
T ss_dssp -------------------------------------------------------
T ss_pred ccccccccccccccccccccccccccccccccccccccccccccccccccccccc
No 479
>PF01601 Corona_S2: Coronavirus S2 glycoprotein; InterPro: IPR002552 The type I glycoprotein S of Coronavirus, trimers of which constitute the typical viral spikes, is assembled into virions through noncovalent interactions with the M protein. The spike glycoprotein is translated as a large polypeptide that is subsequently cleaved to S1 IPR002551 from INTERPRO and S2 []. Both chimeric S proteins appeared to cause cell fusion when expressed individually, suggesting that they were biologically fully active []. The spike is a type I membrane glycoprotein that possesses a conserved transmembrane anchor and an unusual cysteine-rich (cys) domain that bridges the putative junction of the anchor and the cytoplasmic tail [].; GO: 0006944 cellular membrane fusion, 0046813 virion attachment, binding of host cell surface receptor, 0016021 integral to membrane, 0019031 viral envelope; PDB: 2BEQ_B 2FXP_A 1ZVB_A 1WNC_D 1ZV8_H 1ZV7_B 1WYY_B 1ZVA_A 2BEZ_F 1WDG_A ....
Probab=20.88 E-value=7.8e+02 Score=23.91 Aligned_cols=63 Identities=19% Similarity=0.264 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Q psy18023 64 DQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLT 127 (151)
Q Consensus 64 DQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~i 127 (151)
..|-|.|..|.+.+.-.+..|.+|-.-.|+=...|++.-+.|. +...-||-++.+|-..||.+
T Consensus 255 ~sFN~Ai~~I~~g~~t~~~Al~KiQ~VVN~q~~aL~~L~~qL~-nnF~AISssI~dIy~RLd~l 317 (610)
T PF01601_consen 255 NSFNKAIGNIQLGFTTTASALNKIQDVVNQQGQALNQLTSQLS-NNFGAISSSIQDIYNRLDQL 317 (610)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhhhHHHHHHHHHHHHHH
No 480
>cd07668 BAR_SNX9 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9. 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. SNX9, also known as SH3PX1, is a cytosolic protein that interacts with proteins associated with clathrin-coated pits such as Cdc-42-associated tyrosine kinase 2 (ACK2). It binds class I polyproline sequences found in dynamin 1/2 and the WASP/N-WASP actin regulators. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosi
Probab=20.82 E-value=5.2e+02 Score=21.82 Aligned_cols=76 Identities=24% Similarity=0.281 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHH
Q psy18023 76 ELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKE-----------LNQIIKELNQIIKE 144 (151)
Q Consensus 76 ~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~-----------L~qIsk~l~qI~K~ 144 (151)
..++=...-.++.|.|++-.+.|..+..+...|....++|+--.|...+-.+++. |++-+.+-..+--.
T Consensus 9 ~VE~kid~f~~F~k~MD~svk~l~~~~~e~~kk~~~~~KkEyqkiG~af~~LsqaFe~d~~~~~~~L~~Ai~~tg~~y~~ 88 (210)
T cd07668 9 EIEQKCEAVGRFTKAMDDGVKELLTVGQEHWKRCTGPLPKEYQKIGKALQSLATVFSTSGYQGETDLNDAITEAGKTYEE 88 (210)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHHHH
Q ss_pred HHHhhhC
Q psy18023 145 LNQIVEE 151 (151)
Q Consensus 145 l~q~~~~ 151 (151)
+-+++.|
T Consensus 89 IG~~fae 95 (210)
T cd07668 89 IASLVAE 95 (210)
T ss_pred HHHHHHh
No 481
>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function. It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.
Probab=20.77 E-value=3.9e+02 Score=20.38 Aligned_cols=63 Identities=29% Similarity=0.304 Sum_probs=0.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhhHHHHHHHHHHHHHHHHH
Q psy18023 61 NKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-NKLDQIKKELDQMVKELDLT 127 (151)
Q Consensus 61 ~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-k~LdqIsK~Ldqisk~ld~i 127 (151)
+.|.-|.--++++ ..-.||.+--..+-+-=+||.+--.++- .+ +.|+-|-+.|..|.+.||-+
T Consensus 37 q~L~kiE~~~~~l-~qgeqI~kL~e~V~~QGEqIkel~~e~k---~qgktL~~I~~~L~~inkRLD~~ 100 (102)
T PF01519_consen 37 QRLTKIENKLDQL-AQGEQINKLTEKVDKQGEQIKELQVEQK---AQGKTLQLILKTLQSINKRLDKM 100 (102)
T ss_dssp TB-BHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhhc
No 482
>PF15456 Uds1: Up-regulated During Septation
Probab=20.75 E-value=3.8e+02 Score=20.25 Aligned_cols=82 Identities=18% Similarity=0.277 Sum_probs=0.0
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh---------hHHHHHHHHHHHHHHHHHHHH
Q psy18023 60 FNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNK---------LDQIKKELDQMVKELDLTIKE 130 (151)
Q Consensus 60 ~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~---------LdqIsK~Ldqisk~ld~isK~ 130 (151)
|.-+|+.+|.+-..+.-++...+-+..-+|--+ ...-+++-....+ ..+-..+|++..+-+++.+..
T Consensus 21 ~eEVe~LKkEl~~L~~R~~~lr~kl~le~k~Rd----Aa~sl~~l~~~~~~~~~~~~~~~~~~eeel~~~~rk~ee~~~e 96 (124)
T PF15456_consen 21 FEEVEELKKELRSLDSRLEYLRRKLALESKIRD----AAHSLSRLYSSSSRRARFSRESSLKAEEELAESDRKCEELAQE 96 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHhcCCCccccCCCcchHHHHHHHHHHHHhhHHHHHHH
Q ss_pred HHHHHHHHHHHHHHH
Q psy18023 131 LNQIIKELNQIIKEL 145 (151)
Q Consensus 131 L~qIsk~l~qI~K~l 145 (151)
|.++.+-+..++..|
T Consensus 97 L~~le~R~~~~~~rL 111 (124)
T PF15456_consen 97 LWKLENRLAEVRQRL 111 (124)
T ss_pred HHHHHHHHHHHHHHH
No 483
>smart00806 AIP3 Actin interacting protein 3. Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.
Probab=20.74 E-value=6e+02 Score=23.52 Aligned_cols=74 Identities=22% Similarity=0.358 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHhh
Q psy18023 78 DQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQII--------KELNQIV 149 (151)
Q Consensus 78 dQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~--------K~l~q~~ 149 (151)
..++.+-|.+-.-.+++-.-++.+-|-.-+....=-.+.|+.+.|.++...|+|......++... ++|+.++
T Consensus 213 ~kL~~~Sd~lltkVDDLQD~vE~LRkDV~~RgVRp~~~qLe~v~kdi~~a~keL~~m~~~i~~eKP~WkKiWE~EL~~Vc 292 (426)
T smart00806 213 KKLSEDSDSLLTKVDDLQDIIEALRKDVAQRGVRPSKKQLETVQKELETARKELKKMEEYIDIEKPIWKKIWEAELDKVC 292 (426)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHH
Q ss_pred hC
Q psy18023 150 EE 151 (151)
Q Consensus 150 ~~ 151 (151)
||
T Consensus 293 EE 294 (426)
T smart00806 293 EE 294 (426)
T ss_pred HH
No 484
>PF15469 Sec5: Exocyst complex component Sec5
Probab=20.69 E-value=3.6e+02 Score=20.00 Aligned_cols=73 Identities=19% Similarity=0.352 Sum_probs=0.0
Q ss_pred HHhhhhhccccchHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHH
Q psy18023 51 EMEKECKVDFNKLDQIKKELDQIIKELDQIIKE------LDLIIKESNQVIKELNLIIKESNQ--NKLDQIKKELDQMVK 122 (151)
Q Consensus 51 ~~~~~~~~~~~~LDQIsKnLdQISK~LdQIsK~------LdqISK~l~QiSk~L~qISKel~q--k~LdqIsK~Ldqisk 122 (151)
++..-|+-.|++.=..+..+|++-+.+...... ++.+.+.++.++...+.+.+.+-. .+.+.+.+.|.=+-+
T Consensus 3 ~lk~LV~~Nf~~Fv~~k~tid~i~~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~~pll~~~~k~~~l~~~l~~l~r 82 (182)
T PF15469_consen 3 DLKSLVKENFDKFVSCKDTIDDIYEEFRNMKTEAQQDSGTEKLEESLNEASSKANSVFKPLLERREKADKLRNALEFLQR 82 (182)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHH
Q ss_pred H
Q psy18023 123 E 123 (151)
Q Consensus 123 ~ 123 (151)
.
T Consensus 83 ~ 83 (182)
T PF15469_consen 83 N 83 (182)
T ss_pred H
No 485
>PF11083 Streptin-Immun: Lantibiotic streptin immunity protein; InterPro: IPR021112 Streptococcal species produce a lantibiotic, streptin, in a similar manner to the production of nisin and subtilin by other lactic acid bacteria, in order to compete against competing bacteria within the environment []. The immunity protein protects the bacterium from destruction by its own lantibiotic. In general, there is little homology between the immunity proteins of different genera of bacteria.
Probab=20.67 E-value=3.9e+02 Score=20.35 Aligned_cols=38 Identities=29% Similarity=0.638 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 109 KLDQIKKELDQMVKELDLTIKELNQIIKELNQIIKELN 146 (151)
Q Consensus 109 ~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~K~l~ 146 (151)
.|+|+.|++.-+...|+.-+.+-..+.+.|....|-||
T Consensus 53 tle~ve~Ei~~lQ~qL~~~ldeYE~~VrrLE~fvkvLn 90 (99)
T PF11083_consen 53 TLEQVEKEIRELQNQLGLYLDEYEKLVRRLEKFVKVLN 90 (99)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
No 486
>PHA03089 late transcription factor VLTF-4; Provisional
Probab=20.66 E-value=3.9e+02 Score=22.47 Aligned_cols=44 Identities=25% Similarity=0.318 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHH
Q psy18023 78 DQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMV 121 (151)
Q Consensus 78 dQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqis 121 (151)
++|+|+|-.|.--..-+|--|+++.-..--+..++..|.++.+.
T Consensus 128 ~~I~KdlK~i~~RVsAlsTVLeDvQAa~i~Rqftsl~K~i~~Lk 171 (191)
T PHA03089 128 ENIIKDLKKINSRVSAVSTVLEDVQAASISRQYTSLIKEIDKLK 171 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHH
No 487
>PF12896 Apc4: Anaphase-promoting complex, cyclosome, subunit 4; InterPro: IPR024790 Apc4 is one of the larger of the subunits of the anaphase-promoting complex (APC) or cyclosome. The anaphase-promoting complex is a multiprotein subunit E3 ubiquitin ligase complex that controls segregation of chromosomes and exit from mitosis in eukaryotes [, ]. Results in Caenorhabditis elegans show that the primary essential role of the spindle assembly checkpoint is not in the chromosome segregation process itself but rather in delaying anaphase onset until all chromosomes are properly attached to the spindle. The APC is likely to be required for all metaphase-to-anaphase transitions in a multicellular organism []. This entry represents the long domain downstream of the WD40 repeat/s that are present on the Apc4 subunits.
Probab=20.64 E-value=3.7e+02 Score=20.12 Aligned_cols=62 Identities=23% Similarity=0.325 Sum_probs=0.0
Q ss_pred hccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q psy18023 57 KVDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQ 119 (151)
Q Consensus 57 ~~~~~~LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldq 119 (151)
.+|.+-+...+.++-.++....+|..-+.-+..+++++.+.....-... +++++.+.+.|.+
T Consensus 6 ~~d~~~l~~~~~~l~~la~~~~~i~~ll~yi~~~l~~i~~~w~~~~~~~-~~~l~~~~~~l~~ 67 (210)
T PF12896_consen 6 TLDLTFLSSSSRELVELARKSSQIQSLLRYIKDTLDAIQEEWEEALQEF-DRKLTNLADELQE 67 (210)
T ss_pred EEeCchHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHh
No 488
>KOG4117|consensus
Probab=20.58 E-value=1.6e+02 Score=21.61 Aligned_cols=24 Identities=29% Similarity=0.426 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 111 DQIKKELDQMVKELDLTIKELNQI 134 (151)
Q Consensus 111 dqIsK~Ldqisk~ld~isK~L~qI 134 (151)
|||-...|+|+...|+.-|.++++
T Consensus 37 DQII~RiDDM~~riDDLEKnIaDL 60 (73)
T KOG4117|consen 37 DQIIGRIDDMSSRIDDLEKNIADL 60 (73)
T ss_pred HHHHHHHhhhhhhhHHHHHHHHHH
No 489
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=20.57 E-value=4.7e+02 Score=22.46 Aligned_cols=46 Identities=13% Similarity=0.336 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHhhhh------hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 89 KESNQVIKELNLIIKESNQ------NKLDQIKKELDQMVKELDLTIKELNQI 134 (151)
Q Consensus 89 K~l~QiSk~L~qISKel~q------k~LdqIsK~Ldqisk~ld~isK~L~qI 134 (151)
+.+.|+...|+++-+-.++ +.+.+.+..|..|...+...-+.+++|
T Consensus 18 Eti~qi~~aL~~L~~v~~diF~rI~~Rv~~~~~~l~~i~~Ri~~~qaKi~~l 69 (297)
T PF11945_consen 18 ETILQIADALEYLDKVSNDIFSRISARVERNRERLQAIQQRIEVAQAKIEKL 69 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 490
>PF10232 Med8: Mediator of RNA polymerase II transcription complex subunit 8; InterPro: IPR019364 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. Arc32, or Med8, is one of the subunits of the Mediator complex of RNA polymerase II. The region conserved contains two alpha helices putatively necessary for binding to other subunits within the core of the Mediator complex. The N terminus of Med8 binds to the essential core Head part of Mediator and the C terminus hinges to Med18 on the non-essential part of the Head that also includes Med20 []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3C0T_B 3RJ1_J 2HZS_I.
Probab=20.51 E-value=55 Score=26.55 Aligned_cols=54 Identities=19% Similarity=0.256 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh----hhhHHHHHHHHHHHHHH
Q psy18023 71 DQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ----NKLDQIKKELDQMVKEL 124 (151)
Q Consensus 71 dQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q----k~LdqIsK~Ldqisk~l 124 (151)
+|+.+.||++..-|.|+..++..+.-.|+.-....+- .++.=|+..|.-|+++|
T Consensus 7 ~ql~~aLe~ir~Rl~qL~~SL~~l~~~L~~~~~lp~W~slq~qf~il~~qL~sL~~~L 64 (226)
T PF10232_consen 7 KQLEKALEAIRQRLAQLKHSLQSLIDKLEQSQPLPPWPSLQDQFAILSSQLSSLSKTL 64 (226)
T ss_dssp ----TTTSTTTHHHHHHHHHHHHHHHHHT-T-SS---HHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCcHHHHHHHHHHHHHHHHHHHHH
No 491
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=20.48 E-value=4e+02 Score=20.44 Aligned_cols=54 Identities=19% Similarity=0.298 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHH
Q psy18023 87 IIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDL------TIKELNQIIKELNQ 140 (151)
Q Consensus 87 ISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~------isK~L~qIsk~l~q 140 (151)
+...+..+-.-++....+..-+.+++++|.|+-+-.+|.. +...|.+|++.|+.
T Consensus 44 i~~~~~~L~~v~~~~~~~~~kr~~~D~~KRL~iLfd~ln~g~Ls~~v~~~L~~L~~aL~~ 103 (157)
T PF07304_consen 44 IEEVLRELQRVLEACPPSIKKRVVDDIEKRLNILFDHLNNGKLSKPVVDKLHQLAQALQA 103 (157)
T ss_dssp HHHHHHHHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHHHT-S-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcccccchhHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHc
No 492
>PF15191 Synaptonemal_3: Synaptonemal complex central element protein 3
Probab=20.46 E-value=3.3e+02 Score=20.79 Aligned_cols=33 Identities=18% Similarity=0.422 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 67 KKELDQIIKELDQIIKELDLIIKESNQVIKELN 99 (151)
Q Consensus 67 sKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~ 99 (151)
.+|-+.|++.+.++-++|...-++|+.+|=.++
T Consensus 8 ~~~~~n~~~m~~~ln~dlEkm~e~mEk~Svq~t 40 (95)
T PF15191_consen 8 EQNYDNFLKMLSDLNQDLEKMTEEMEKISVQLT 40 (95)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 493
>PRK00034 gatC aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed
Probab=20.33 E-value=1.4e+02 Score=20.22 Aligned_cols=26 Identities=12% Similarity=0.312 Sum_probs=0.0
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHH
Q psy18023 104 ESNQNKLDQIKKELDQMVKELDLTIK 129 (151)
Q Consensus 104 el~qk~LdqIsK~Ldqisk~ld~isK 129 (151)
++++..++++.+.|..|...++.+..
T Consensus 18 ~l~~ee~~~~~~~l~~il~~~~~l~~ 43 (95)
T PRK00034 18 ELSEEELEKFAGQLNKILDFVEQLNE 43 (95)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHhh
No 494
>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=20.26 E-value=4.5e+02 Score=20.87 Aligned_cols=82 Identities=11% Similarity=0.157 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 63 LDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQII 142 (151)
Q Consensus 63 LDQIsKnLdQISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~qIsk~l~qI~ 142 (151)
.+.+..+|..+.+--..+.+..-.+.+.+.......+.||..= ..+...|..+...+|..+..+...+.....+.
T Consensus 23 ~~~L~~~l~~iekv~~Rl~~r~~~l~~~~~e~g~~f~~ls~~E-----~~l~~~le~~g~~~d~~~~~~~~~~~~~~~f~ 97 (201)
T cd07622 23 SDELQTNLNNLLKVRARLAERLYGVYKIHANYGRVFSEWSAIE-----KEMGDGLQKAGHYMDSYAASIDNGLEDEELIA 97 (201)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-----hhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Q ss_pred HHHHHhh
Q psy18023 143 KELNQIV 149 (151)
Q Consensus 143 K~l~q~~ 149 (151)
-.|...+
T Consensus 98 e~LkEy~ 104 (201)
T cd07622 98 DQLKEYL 104 (201)
T ss_pred HHHHHHH
No 495
>PRK12715 flgK flagellar hook-associated protein FlgK; Provisional
Probab=20.16 E-value=7.3e+02 Score=23.31 Aligned_cols=73 Identities=14% Similarity=0.272 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhhHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 73 IIKELDQIIKELDLIIKESNQVIKELNLIIKESNQ-NKLDQIKKELDQ----MVKELDLTIKELNQIIKELNQIIKEL 145 (151)
Q Consensus 73 ISK~LdQIsK~LdqISK~l~QiSk~L~qISKel~q-k~LdqIsK~Ldq----isk~ld~isK~L~qIsk~l~qI~K~l 145 (151)
++..|++|-..+..++..=+....--.-+++--.= ..+..+...|++ +-..+....+.+|++.+.++++-+++
T Consensus 105 ls~~l~~ff~a~q~la~~P~~~~~Rq~vl~~A~~L~~~fn~~~~~L~~~~~~~n~~I~~~V~~iN~l~~qIA~LN~qI 182 (649)
T PRK12715 105 ISVPLQTFFDSIGQLNSTPDNIATRGVVLKQSQLLAQQFNSLQTKLEEYERNSTLQVTESVKIINRITKELAEVNGKL 182 (649)
T ss_pred HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 496
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=20.14 E-value=5.6e+02 Score=21.96 Aligned_cols=57 Identities=18% Similarity=0.316 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 75 KELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQ 133 (151)
Q Consensus 75 K~LdQIsK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~isK~L~q 133 (151)
+-++.+.+.++++.+.++++.+.|.+-- -..+++.+..+.|+...|.++++..-++.
T Consensus 242 ~~~~~l~~~~~~~~~~i~~l~~~l~~~~--k~~~k~~~~~~q~~~~~k~~~~~~~~~~~ 298 (406)
T PF02388_consen 242 EYLESLQEKLEKLEKEIEKLEEKLEKNP--KKKNKLKELEEQLASLEKRIEEAEELIAE 298 (406)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH-T--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCc--chhhHHHHHHHHHHHHHHHHHHHHHHHHh
No 497
>PF01452 Rota_NSP4: Rotavirus non structural protein; InterPro: IPR002107 This entry contains rotaviral non-structural protein 4 (NSP4) as well as related proteins: NSP5, NS28, and NCVP5. The final steps in the assembly of rotavirus occur in the lumen of the endoplasmic reticulum (ER). Targeting of the immature inner capsid particle (ICP) to this compartment is mediated by the cytoplasmic tail of NSP4, located in the ER membrane [, ].; PDB: 2O1J_D 1G1J_B 1G1I_B 2O1K_B 3MIW_A.
Probab=20.09 E-value=3.4e+02 Score=22.60 Aligned_cols=56 Identities=29% Similarity=0.283 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-hhhh-hhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy18023 78 DQIIKELDLIIKESNQVIKELNLIIK-ESNQ-NKLDQIKKELDQMVKELDLTIKELNQ 133 (151)
Q Consensus 78 dQIsK~LdqISK~l~QiSk~L~qISK-el~q-k~LdqIsK~Ldqisk~ld~isK~L~q 133 (151)
|.|.+.||.|-|+|.+--+-.++.-+ |+.| +-|..|-.-|--=.-.--+++|+.||
T Consensus 93 Deie~qmdrivkemrrQlemidkLTtREiEQVeLLkrI~d~Li~k~~~~idMskE~Nq 150 (173)
T PF01452_consen 93 DEIEKQMDRIVKEMRRQLEMIDKLTTREIEQVELLKRIYDMLIVKPVDEIDMSKEFNQ 150 (173)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhccCCccccccchhhhh
No 498
>PRK09720 cybC cytochrome b562; Provisional
Probab=20.05 E-value=3.9e+02 Score=20.11 Aligned_cols=43 Identities=12% Similarity=0.197 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHH
Q psy18023 81 IKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKE 123 (151)
Q Consensus 81 sK~LdqISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ 123 (151)
|.++-.+-.+|++++..++.--+--++-+|++-++...++..+
T Consensus 49 s~e~K~y~~Gld~lI~qID~A~~La~~GkL~eAK~~a~~l~~~ 91 (100)
T PRK09720 49 SPEMKDFRHGFDILVGQIDDALKLANEGKVKEAQAAAEQLKTT 91 (100)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
No 499
>cd07626 BAR_SNX9_like The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9 and Similar Proteins. 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 SNX9, SNX18, SNX33, and similar proteins. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosis, while SNX18 is localized to peripheral endosomal structures, and acts in a trafficking pathway that is clathrin-independent but relies on AP-1 and PACS1. BAR domains for
Probab=20.01 E-value=4.7e+02 Score=21.08 Aligned_cols=66 Identities=23% Similarity=0.283 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHhhhC
Q psy18023 86 LIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTI-----------KELNQIIKELNQIIKELNQIVEE 151 (151)
Q Consensus 86 qISK~l~QiSk~L~qISKel~qk~LdqIsK~Ldqisk~ld~is-----------K~L~qIsk~l~qI~K~l~q~~~~ 151 (151)
.+.|.|+.-.|.|.++..+...|+....+|+.-.|....-..+ ..|.+-..+++++-..+.++..+
T Consensus 11 ~f~~~md~svk~l~~~~~~~~kk~~~~~kkeyqk~G~af~~L~~af~~d~~~~~t~Ls~Al~~~g~~~e~Ig~l~~e 87 (199)
T cd07626 11 KFVKSMDDSVKNLINIAQEQAKKHQGPYKKEYQKIGQAFTSLGTAFELDETPTSVPLTQAIKHTGQAYEEIGELFAE 87 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHccCCCccchHHHHHHHHHHHHHHHHHHHHHH
Done!