Query psy11809
Match_columns 240
No_of_seqs 202 out of 346
Neff 5.2
Searched_HMMs 46136
Date Fri Aug 16 19:34:07 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11809.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11809hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4509|consensus 100.0 5.6E-81 1.2E-85 534.7 16.2 230 2-237 15-247 (247)
2 cd02685 MIT_C MIT_C; domain fo 100.0 5.3E-72 1.2E-76 465.5 16.9 147 84-237 1-148 (148)
3 cd02683 MIT_1 MIT: domain cont 99.9 1.9E-21 4.2E-26 146.2 9.7 73 1-73 5-77 (77)
4 cd02684 MIT_2 MIT: domain cont 99.8 6.2E-20 1.3E-24 137.3 9.1 69 1-69 5-73 (75)
5 cd02681 MIT_calpain7_1 MIT: do 99.8 1E-19 2.3E-24 136.8 8.7 68 1-68 5-73 (76)
6 cd02677 MIT_SNX15 MIT: domain 99.8 5.9E-19 1.3E-23 132.2 8.5 65 1-65 5-69 (75)
7 cd02682 MIT_AAA_Arch MIT: doma 99.8 2.5E-18 5.4E-23 129.1 9.1 65 2-66 6-70 (75)
8 cd02678 MIT_VPS4 MIT: domain c 99.8 4.6E-18 9.9E-23 126.6 9.0 69 1-69 5-73 (75)
9 PF04212 MIT: MIT (microtubule 99.7 1.7E-17 3.6E-22 120.9 9.4 66 1-66 4-69 (69)
10 cd02656 MIT MIT: domain contai 99.7 4.9E-17 1.1E-21 120.3 9.1 69 1-69 5-73 (75)
11 KOG0739|consensus 99.7 9.5E-17 2.1E-21 148.6 10.1 113 1-116 9-134 (439)
12 smart00745 MIT Microtubule Int 99.7 3.9E-16 8.3E-21 115.6 9.3 68 1-68 7-74 (77)
13 cd02680 MIT_calpain7_2 MIT: do 99.6 1.1E-15 2.4E-20 114.8 7.9 64 1-68 5-72 (75)
14 cd02679 MIT_spastin MIT: domai 97.0 0.0045 9.8E-08 47.1 7.6 40 1-40 7-46 (79)
15 PF08969 USP8_dimer: USP8 dime 96.2 0.024 5.2E-07 45.0 7.3 67 2-69 38-111 (115)
16 PF00515 TPR_1: Tetratricopept 92.4 0.37 7.9E-06 29.2 4.5 30 2-31 1-30 (34)
17 PF12063 DUF3543: Domain of un 88.3 1.5 3.3E-05 39.5 6.6 49 18-66 69-135 (238)
18 PF13176 TPR_7: Tetratricopept 87.9 1.3 2.8E-05 27.8 4.3 26 5-30 2-27 (36)
19 PF13181 TPR_8: Tetratricopept 86.5 2 4.4E-05 25.7 4.5 28 4-31 3-30 (34)
20 PF13374 TPR_10: Tetratricopep 84.4 3 6.5E-05 25.5 4.7 35 2-36 2-36 (42)
21 PF07719 TPR_2: Tetratricopept 84.4 3 6.5E-05 24.7 4.5 28 4-31 3-30 (34)
22 KOG2709|consensus 81.8 4.1 8.9E-05 40.3 6.5 68 2-69 22-102 (560)
23 PF13414 TPR_11: TPR repeat; P 81.1 2.9 6.3E-05 28.7 4.0 30 2-31 3-32 (69)
24 PF13091 PLDc_2: PLD-like doma 76.0 2.9 6.3E-05 32.0 3.0 84 98-198 5-88 (126)
25 PRK10775 cell division protein 75.8 12 0.00026 34.3 7.4 46 157-203 168-214 (276)
26 PF04652 DUF605: Vta1 like; I 75.6 10 0.00022 35.5 7.1 108 3-128 4-117 (380)
27 PF13424 TPR_12: Tetratricopep 75.1 5.6 0.00012 28.0 4.1 30 3-32 47-76 (78)
28 PF03704 BTAD: Bacterial trans 73.0 13 0.00029 29.4 6.3 36 14-49 108-143 (146)
29 PRK11263 cardiolipin synthase 72.3 44 0.00096 32.4 10.7 102 90-206 207-309 (411)
30 KOG2880|consensus 70.8 20 0.00043 34.8 7.7 66 2-67 35-105 (424)
31 smart00028 TPR Tetratricopepti 70.0 8.6 0.00019 20.4 3.3 26 5-30 4-29 (34)
32 PRK12452 cardiolipin synthetas 69.2 57 0.0012 32.5 10.9 102 90-206 342-447 (509)
33 cd09240 BRO1_Alix Protein-inte 68.6 23 0.00049 33.3 7.7 60 2-61 255-314 (346)
34 PF01474 DAHP_synth_2: Class-I 67.7 27 0.00059 34.5 8.2 70 117-199 294-364 (439)
35 PF08910 Aida_N: Aida N-termin 67.4 65 0.0014 26.0 9.0 61 5-65 8-72 (106)
36 cd09247 BRO1_Alix_like_2 Prote 67.3 27 0.00059 32.8 7.9 38 2-39 253-290 (346)
37 PRK01642 cls cardiolipin synth 65.6 68 0.0015 31.5 10.6 99 92-205 321-420 (483)
38 PF13424 TPR_12: Tetratricopep 62.8 18 0.00038 25.4 4.5 32 4-36 7-38 (78)
39 PF12063 DUF3543: Domain of un 61.2 58 0.0013 29.4 8.5 62 2-63 165-234 (238)
40 COG1502 Cls Phosphatidylserine 60.7 1.1E+02 0.0025 28.6 10.8 94 92-198 273-368 (438)
41 cd09241 BRO1_ScRim20-like Prot 58.0 46 0.001 31.4 7.7 65 2-66 237-306 (355)
42 KOG2997|consensus 58.0 9.8 0.00021 36.4 3.1 29 2-30 19-47 (366)
43 KOG1840|consensus 57.6 55 0.0012 32.9 8.4 66 2-68 283-350 (508)
44 KOG0603|consensus 56.1 7.8 0.00017 39.7 2.2 63 2-64 100-166 (612)
45 PF14938 SNAP: Soluble NSF att 55.6 57 0.0012 29.3 7.5 50 9-62 121-171 (282)
46 TIGR01358 DAHP_synth_II 3-deox 55.6 37 0.0008 33.7 6.6 70 117-199 291-361 (443)
47 PRK13430 F0F1 ATP synthase sub 55.3 1.7E+02 0.0036 26.8 13.6 78 105-201 173-250 (271)
48 COG0124 HisS Histidyl-tRNA syn 53.8 12 0.00027 36.7 3.1 35 158-209 239-273 (429)
49 cd09239 BRO1_HD-PTP_like Prote 53.3 52 0.0011 31.3 7.2 36 2-37 252-287 (361)
50 cd09242 BRO1_ScBro1_like Prote 52.3 49 0.0011 31.1 6.8 36 2-37 244-279 (348)
51 cd09246 BRO1_Alix_like_1 Prote 52.2 57 0.0012 30.8 7.3 65 2-66 247-317 (353)
52 KOG1840|consensus 51.8 68 0.0015 32.3 8.0 57 9-66 248-316 (508)
53 PLN02291 phospho-2-dehydro-3-d 51.7 43 0.00093 33.4 6.5 71 116-199 310-381 (474)
54 PF13174 TPR_6: Tetratricopept 51.6 23 0.0005 20.4 3.0 26 5-30 3-28 (33)
55 PF12688 TPR_5: Tetratrico pep 51.2 23 0.00051 28.5 3.9 26 5-30 4-29 (120)
56 PF13428 TPR_14: Tetratricopep 51.0 35 0.00077 21.8 4.1 26 5-30 4-29 (44)
57 PF13371 TPR_9: Tetratricopept 50.9 30 0.00064 23.7 4.0 13 37-49 57-69 (73)
58 KOG4514|consensus 49.6 35 0.00075 30.3 4.9 45 20-73 161-205 (222)
59 PLN03088 SGT1, suppressor of 47.8 28 0.0006 32.7 4.4 29 2-30 2-30 (356)
60 KOG4648|consensus 46.7 14 0.0003 36.2 2.2 20 12-31 107-126 (536)
61 PF13414 TPR_11: TPR repeat; P 46.1 39 0.00084 22.9 3.9 29 2-30 22-66 (69)
62 PF09753 Use1: Membrane fusion 45.7 62 0.0013 28.9 6.1 51 21-75 28-78 (251)
63 KOG0543|consensus 45.3 64 0.0014 31.6 6.5 66 2-67 276-354 (397)
64 KOG2003|consensus 45.1 1.1E+02 0.0023 31.3 8.1 59 9-69 667-732 (840)
65 PF14559 TPR_19: Tetratricopep 44.1 19 0.00041 24.4 2.0 17 14-30 3-19 (68)
66 PF03097 BRO1: BRO1-like domai 44.1 2.1E+02 0.0045 26.6 9.6 66 2-67 239-311 (377)
67 KOG3906|consensus 43.7 1.1E+02 0.0024 29.0 7.5 102 16-133 219-320 (399)
68 TIGR02552 LcrH_SycD type III s 43.3 37 0.0008 25.9 3.8 16 14-29 63-78 (135)
69 COG3200 AroG 3-deoxy-D-arabino 42.5 72 0.0016 31.2 6.2 69 118-199 296-365 (445)
70 PF03799 FtsQ: Cell division p 42.3 80 0.0017 23.6 5.5 44 159-203 43-87 (117)
71 PF00070 Pyr_redox: Pyridine n 42.1 56 0.0012 23.4 4.4 50 122-181 12-61 (80)
72 PRK10866 outer membrane biogen 42.1 2.5E+02 0.0054 24.9 10.6 134 4-174 34-178 (243)
73 PF13432 TPR_16: Tetratricopep 41.9 54 0.0012 22.0 4.1 21 9-29 4-24 (65)
74 KOG0553|consensus 41.7 27 0.00058 33.0 3.2 31 1-31 80-110 (304)
75 PF02255 PTS_IIA: PTS system, 41.2 74 0.0016 24.7 5.2 34 2-35 14-47 (96)
76 PRK10370 formate-dependent nit 40.7 98 0.0021 26.5 6.4 19 40-63 176-194 (198)
77 cd00138 PLDc Phospholipase D. 40.7 1.9E+02 0.0041 23.2 8.7 104 84-195 16-124 (176)
78 cd09243 BRO1_Brox_like Protein 40.4 1.5E+02 0.0033 28.3 8.1 65 2-66 248-327 (353)
79 cd00215 PTS_IIA_lac PTS_IIA, P 40.1 78 0.0017 24.8 5.2 34 2-35 15-48 (97)
80 PRK10454 PTS system N,N'-diace 39.8 74 0.0016 25.8 5.1 34 2-35 31-64 (115)
81 PRK09591 celC cellobiose phosp 39.7 78 0.0017 25.1 5.2 34 2-35 20-53 (104)
82 cd09034 BRO1_Alix_like Protein 39.7 94 0.002 28.6 6.5 65 2-66 251-320 (345)
83 PF05168 HEPN: HEPN domain; I 38.7 72 0.0016 23.7 4.7 35 2-36 8-42 (118)
84 KOG1936|consensus 38.6 32 0.00069 34.3 3.3 62 117-209 276-337 (518)
85 KOG2003|consensus 38.4 26 0.00057 35.5 2.7 89 1-99 576-685 (840)
86 PRK02603 photosystem I assembl 37.7 59 0.0013 26.6 4.4 30 2-31 35-64 (172)
87 KOG0547|consensus 35.9 38 0.00082 34.4 3.4 28 4-31 110-144 (606)
88 TIGR00823 EIIA-LAC phosphotran 35.5 1E+02 0.0022 24.2 5.2 34 2-35 17-50 (99)
89 KOG1154|consensus 35.2 98 0.0021 28.8 5.7 39 90-129 104-142 (285)
90 PF13432 TPR_16: Tetratricopep 33.9 53 0.0011 22.1 3.0 16 25-40 13-28 (65)
91 CHL00033 ycf3 photosystem I as 33.5 1E+02 0.0022 25.0 5.1 30 13-42 124-153 (168)
92 PRK12295 hisZ ATP phosphoribos 32.8 48 0.001 31.7 3.5 39 156-209 282-321 (373)
93 PF06552 TOM20_plant: Plant sp 32.7 1.8E+02 0.0039 25.7 6.7 24 40-63 87-110 (186)
94 cd09245 BRO1_UmRIM23-like Prot 32.5 1.8E+02 0.0039 28.4 7.4 33 2-34 296-328 (413)
95 smart00748 HEPN Higher Eukaryt 32.5 1E+02 0.0022 23.6 4.7 36 1-36 3-38 (113)
96 PRK11449 putative deoxyribonuc 32.4 45 0.00097 30.0 3.1 74 114-204 109-182 (258)
97 PRK13434 F0F1 ATP synthase sub 31.5 2.9E+02 0.0062 23.4 7.8 53 133-201 102-154 (184)
98 PF09537 DUF2383: Domain of un 31.4 2.4E+02 0.0051 21.5 6.8 45 26-70 14-58 (111)
99 KOG0543|consensus 31.1 92 0.002 30.5 5.1 46 13-59 219-264 (397)
100 PF15580 Imm33: Immunity prote 31.0 41 0.00088 26.3 2.2 36 192-227 27-65 (90)
101 cd00089 HR1 Protein kinase C-r 31.0 2E+02 0.0044 20.6 6.1 46 24-69 23-68 (72)
102 PF01261 AP_endonuc_2: Xylose 30.9 2.6E+02 0.0056 22.6 7.2 61 117-183 72-134 (213)
103 KOG0545|consensus 30.3 58 0.0013 30.6 3.4 32 8-39 184-215 (329)
104 PLN03098 LPA1 LOW PSII ACCUMUL 30.1 74 0.0016 31.7 4.4 20 158-177 312-331 (453)
105 KOG0547|consensus 29.9 41 0.0009 34.1 2.6 30 1-30 521-565 (606)
106 PRK00977 exodeoxyribonuclease 29.6 2E+02 0.0043 21.7 5.7 30 2-31 15-46 (80)
107 CHL00033 ycf3 photosystem I as 29.6 2.4E+02 0.0052 22.7 6.7 28 4-31 37-64 (168)
108 PF02609 Exonuc_VII_S: Exonucl 29.2 1.9E+02 0.0041 19.7 6.1 29 4-32 6-36 (53)
109 PF13643 DUF4145: Domain of un 29.1 1.7E+02 0.0037 21.1 5.3 62 8-74 2-65 (87)
110 KOG2847|consensus 28.8 24 0.00053 32.8 0.7 86 114-210 48-139 (286)
111 PRK12292 hisZ ATP phosphoribos 28.7 60 0.0013 30.8 3.4 38 157-209 236-273 (391)
112 PRK02603 photosystem I assembl 28.5 1E+02 0.0022 25.1 4.4 27 5-31 75-101 (172)
113 PF02120 Flg_hook: Flagellar h 28.5 83 0.0018 22.7 3.5 27 156-182 50-77 (85)
114 PF12862 Apc5: Anaphase-promot 27.9 1.3E+02 0.0027 22.6 4.5 31 3-33 42-72 (94)
115 PHA02820 phospholipase-D-like 27.2 3.6E+02 0.0079 26.2 8.5 102 91-202 220-339 (424)
116 PF10157 DUF2365: Uncharacteri 27.2 1.9E+02 0.0041 24.5 5.8 44 19-71 87-130 (149)
117 PRK14066 exodeoxyribonuclease 27.1 2.4E+02 0.0051 21.1 5.7 29 3-31 10-40 (75)
118 KOG2460|consensus 26.7 1.3E+02 0.0028 30.9 5.3 57 9-65 429-488 (593)
119 PF03514 GRAS: GRAS domain fam 26.3 2.5E+02 0.0055 26.7 7.2 73 98-181 106-180 (374)
120 PRK15359 type III secretion sy 26.1 76 0.0016 25.5 3.1 23 8-30 64-86 (144)
121 TIGR03265 PhnT2 putative 2-ami 25.6 4E+02 0.0086 25.1 8.3 58 156-213 167-230 (353)
122 PF10516 SHNi-TPR: SHNi-TPR; 25.5 1.1E+02 0.0025 19.8 3.3 23 14-36 13-35 (38)
123 PF06957 COPI_C: Coatomer (COP 25.4 1.6E+02 0.0035 29.0 5.8 54 4-57 206-260 (422)
124 PF06415 iPGM_N: BPG-independe 25.3 1.7E+02 0.0037 26.3 5.5 51 117-175 44-95 (223)
125 PF14853 Fis1_TPR_C: Fis1 C-te 25.3 1.9E+02 0.004 20.1 4.6 39 9-54 8-46 (53)
126 PF14938 SNAP: Soluble NSF att 25.1 1.4E+02 0.0031 26.7 5.0 31 4-34 76-106 (282)
127 PRK14069 exodeoxyribonuclease 24.8 3.5E+02 0.0076 21.3 7.5 29 2-30 13-43 (95)
128 PRK12420 histidyl-tRNA synthet 24.6 79 0.0017 30.3 3.4 39 156-209 239-277 (423)
129 PRK14064 exodeoxyribonuclease 24.4 3E+02 0.0066 20.5 6.1 42 6-64 15-58 (75)
130 PRK15359 type III secretion sy 24.2 3.4E+02 0.0074 21.7 6.7 24 7-30 97-120 (144)
131 PRK14063 exodeoxyribonuclease 24.1 3E+02 0.0064 20.6 5.8 26 6-31 14-41 (76)
132 KOG4234|consensus 23.9 1.7E+02 0.0037 26.9 5.1 28 5-32 98-125 (271)
133 TIGR00990 3a0801s09 mitochondr 23.8 99 0.0021 30.7 4.1 28 3-30 128-155 (615)
134 PF00210 Ferritin: Ferritin-li 23.7 3.3E+02 0.0071 20.6 6.9 51 19-69 86-139 (142)
135 TIGR02795 tol_pal_ybgF tol-pal 23.4 1.6E+02 0.0034 21.3 4.2 27 4-30 4-30 (119)
136 TIGR00511 ribulose_e2b2 ribose 23.2 6E+02 0.013 23.5 11.9 39 28-66 67-105 (301)
137 PLN03088 SGT1, suppressor of 22.9 1.6E+02 0.0035 27.5 5.1 17 13-29 47-63 (356)
138 PRK14070 exodeoxyribonuclease 22.7 1.9E+02 0.004 21.4 4.4 15 17-31 17-31 (69)
139 PRK15179 Vi polysaccharide bio 22.7 1.1E+02 0.0023 32.0 4.1 28 2-29 154-181 (694)
140 PLN02530 histidine-tRNA ligase 22.6 84 0.0018 31.0 3.3 27 158-184 304-330 (487)
141 PRK09452 potA putrescine/sperm 22.0 5.3E+02 0.011 24.6 8.4 58 156-213 177-240 (375)
142 PRK10076 pyruvate formate lyas 21.8 3.8E+02 0.0083 23.5 7.0 90 86-179 109-211 (213)
143 PF14733 ACDC: AP2-coincident 21.5 3.1E+02 0.0067 20.6 5.6 20 20-39 3-22 (91)
144 PLN02972 Histidyl-tRNA synthet 21.4 1.1E+02 0.0023 32.5 3.8 38 157-209 567-604 (763)
145 cd01458 vWA_ku Ku70/Ku80 N-ter 21.0 4.7E+02 0.01 22.3 7.3 62 118-184 108-172 (218)
146 cd00189 TPR Tetratricopeptide 20.9 1.7E+02 0.0036 18.7 3.6 25 6-30 4-28 (100)
147 cd00907 Bacterioferritin Bacte 20.6 4.3E+02 0.0094 20.9 7.4 57 18-74 86-145 (153)
148 PF11389 Porin_OmpL1: Leptospi 20.5 1.2E+02 0.0026 27.9 3.5 38 175-218 122-168 (267)
149 KOG4626|consensus 20.5 1E+02 0.0022 32.6 3.4 31 7-37 393-426 (966)
150 PF14059 DUF4251: Domain of un 20.4 1.8E+02 0.0039 23.7 4.3 54 156-209 3-58 (138)
151 COG2933 Predicted SAM-dependen 20.4 1E+02 0.0022 29.3 3.0 38 156-193 313-350 (358)
152 PF08004 DUF1699: Protein of u 20.3 1.9E+02 0.004 24.2 4.3 40 128-182 36-75 (131)
153 TIGR03822 AblA_like_2 lysine-2 20.3 3.7E+02 0.0081 24.9 6.9 80 96-190 129-212 (321)
154 PRK13361 molybdenum cofactor b 20.1 6.6E+02 0.014 23.1 8.5 36 102-143 62-99 (329)
No 1
>KOG4509|consensus
Probab=100.00 E-value=5.6e-81 Score=534.72 Aligned_cols=230 Identities=38% Similarity=0.722 Sum_probs=223.0
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLS-NKGDQQKIRDKIETYINRAEVLKGKLDEKKKMGNYHEQIE 80 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~-d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ke~g~~~~~~~ 80 (240)
|..++.+||+.|++|+|..||.||++||+++.+++++.+ |...|..++.+++.||+||+.|+++|+.+++.|++|+|++
T Consensus 15 Aa~iL~~AVe~d~e~k~pqALl~YkeGIdLi~e~lk~~~ldna~R~~i~~k~s~Ym~ka~diekYLdqekEdgk~~eQ~K 94 (247)
T KOG4509|consen 15 AAPILCDAVEDDKEGKVPQALLCYKEGIDLIAEALKGMKLDNADRCKIMAKFSDYMDKAADIEKYLDQEKEDGKTHEQIK 94 (247)
T ss_pred hhhHHHHHhcccccccccHHHHHHhhhHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHhhhhccccchhhhhh
Confidence 678899999999999999999999999999999999997 9999999999999999999999999999999999999999
Q ss_pred hcCCCCccchHHhHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEee-cCCCCCCCccccchHHH
Q psy11809 81 IANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLT-TYADRPQHSNKTARVKQ 159 (240)
Q Consensus 81 i~en~~G~sY~~lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T-~~d~~~~~~~~~~~~~q 159 (240)
|++|+||+||++|||.|+++++++|||+|||||..||+.||+|||||+|+.++.++.|||+| +.|++.- ..+|
T Consensus 95 I~~NaTG~SY~~iF~e~~dd~l~~V~ieD~YIr~~HQL~NFlRFCElli~~pckvktihLLtisL~eG~E------~~kn 168 (247)
T KOG4509|consen 95 IAANATGFSYARIFGECCDDRLREVHIEDAYIRAHHQLVNFLRFCELLIKLPCKVKTIHLLTISLDEGEE------ARKN 168 (247)
T ss_pred hhhccCcccHHHHHHHHHhhhhheeeecchHHHHHHHHHHHHHHHHHHcccccccceEEEEEEechhhHH------HHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999 8888763 5567
Q ss_pred HHHHHHHHHHHhccCcEEEEEecCCccceEEEecCCeEEEeCCcccccccC-CCcccccCCCCCccccceEEEEEeccc
Q psy11809 160 EENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHV-PEFSIGFTDLSLRPCKETVVNIFHRAS 237 (240)
Q Consensus 160 ~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw~I~igRGLd~fq~~-~~f~~g~~~~~~R~c~et~v~~~~~~~ 237 (240)
...|++|.+||+++||-|+|+||+|||||+|+|||||+||||||||||++| ++||+|+||+++|||+||+|||||.++
T Consensus 169 q~~~eEieeSL~~~GVl~eVefSssIHDREI~FdNGWmiK~GRGLDYFK~p~~kfsLG~~DfD~RPCHET~idIfhkKh 247 (247)
T KOG4509|consen 169 QAEFEEIEESLAKHGVLFEVEFSSSIHDREIIFDNGWMIKIGRGLDYFKAPDGKFSLGACDFDLRPCHETIIDIFHKKH 247 (247)
T ss_pred hhhHHHHHHHHHhcceEEEEEecccccceeEEecCceEEEecCccccccCCCCceeecccccccCchhHHHHHHhhcCC
Confidence 888999999999999999999999999999999999999999999999999 999999999999999999999999875
No 2
>cd02685 MIT_C MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown.
Probab=100.00 E-value=5.3e-72 Score=465.51 Aligned_cols=147 Identities=45% Similarity=0.786 Sum_probs=144.0
Q ss_pred CCCccchHHhHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHH
Q psy11809 84 NEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENL 163 (240)
Q Consensus 84 n~~G~sY~~lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l 163 (240)
|+||+||++||||||++.|++|+|||||||++||++||||||||+|++|+++++|||+|++|+.+ +++|.++|
T Consensus 1 n~~G~sYd~LFg~Yl~d~~~~I~ieDPYir~~hQi~Nl~~F~El~vk~~~~~~~i~LvT~~d~~~-------~~~Q~~~l 73 (148)
T cd02685 1 NATGFSYDRLFGPYLDDGVTEITVEDPYIRNFHQIRNFLRFCELVVKPPCELKYIHLVTGEDEDN-------GKQQIEAL 73 (148)
T ss_pred CCCcccHHHHHHHHHhCCceEEEEeCccccchHHHHHHHHHHHHHhcCccceEEEEEEecCCCCC-------HHHHHHHH
Confidence 79999999999999997799999999999999999999999999999999999999999999988 89999999
Q ss_pred HHHHHHHhccCcEEEEEecCCccceEEEecCCeEEEeCCcccccccC-CCcccccCCCCCccccceEEEEEeccc
Q psy11809 164 KQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHV-PEFSIGFTDLSLRPCKETVVNIFHRAS 237 (240)
Q Consensus 164 ~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw~I~igRGLd~fq~~-~~f~~g~~~~~~R~c~et~v~~~~~~~ 237 (240)
++|++||+++||+|+|+||+|||||+|+|||||+|||||||||||+| ++||||+|||+||+|+||+|||||+++
T Consensus 74 ~~i~~sl~~~gI~~~~~f~~tiHDR~I~~~nGw~IkigRGLD~fq~~~~~fsig~~d~~~R~C~~t~Vdi~~~~~ 148 (148)
T cd02685 74 EEIKQSLASHGVEFTWEFSDTIHDREIRTDNGWIIKIGRGLDYFKPPEGKFSLGNRDQDFRPCKATEVDIFHTKH 148 (148)
T ss_pred HHHHHHHHhCCcEEEEEECCCccceEEEecCCeEEEECCcccceeCCCCccchhhcchhccceeeeEEEEEEcCC
Confidence 99999999999999999999999999999999999999999999999 899999999999999999999999874
No 3
>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with unknown function, co-occuring with an as yet undescribed domain. The molecular function of the MIT domain is unclear.
Probab=99.86 E-value=1.9e-21 Score=146.22 Aligned_cols=73 Identities=40% Similarity=0.735 Sum_probs=69.9
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhhhhcc
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMG 73 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ke~g 73 (240)
.|++++++||++|++|+|+||+.||++||++|+++++++||+.+|+.++.|+.+||+|||+||++|++.++.|
T Consensus 5 ~a~~l~~~Ave~D~~g~y~eAl~~Y~~aie~l~~~lk~e~d~~~k~~~r~ki~eY~~RAE~Lk~~l~~~~~~~ 77 (77)
T cd02683 5 AAKEVLKRAVELDQEGRFQEALVCYQEGIDLLMQVLKGTKDEAKKKNLRQKISEYMDRAEAIKKRLDQEKEDG 77 (77)
T ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCc
Confidence 3899999999999999999999999999999999999999999999999999999999999999998877654
No 4
>cd02684 MIT_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with an n-terminal serine/threonine kinase domain. The molecular function of the MIT domain is unclear.
Probab=99.82 E-value=6.2e-20 Score=137.35 Aligned_cols=69 Identities=25% Similarity=0.407 Sum_probs=66.7
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEK 69 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ 69 (240)
+|++++++||+.|++|+|++|+.+|++||++|+.++++|+||.+|+.+++|+.+||+|||+||.+|.+.
T Consensus 5 ~Ai~lv~~Av~~D~~g~y~eA~~lY~~ale~~~~~~k~e~~~~~k~~lr~k~~eyl~RAE~LK~~l~~~ 73 (75)
T cd02684 5 KAIALVVQAVKKDQRGDAAAALSLYCSALQYFVPALHYETDAQRKEALRQKVLQYVSRAEELKALIASD 73 (75)
T ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 489999999999999999999999999999999999999999999999999999999999999999763
No 5
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=99.81 E-value=1e-19 Score=136.79 Aligned_cols=68 Identities=24% Similarity=0.362 Sum_probs=65.1
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCC-CChhhHHHHHHHHHHHHHHHHHHHHHhhh
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGL-SNKGDQQKIRDKIETYINRAEVLKGKLDE 68 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e-~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~ 68 (240)
+|++++++||++|++|+|+||+.+|++||++|+.+++++ +||..++.++.|+++||+|||+||+++.+
T Consensus 5 ~Ai~~a~~Ave~D~~g~y~eA~~~Y~~aie~l~~~~~~~~~n~~~k~~ir~K~~eYl~RAE~Lk~~l~~ 73 (76)
T cd02681 5 DAVQFARLAVQRDQEGRYSEAVFYYKEAAQLLIYAEMAGTLNDSHLKTIQEKSNEYLDRAQALHQLVQG 73 (76)
T ss_pred HHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 489999999999999999999999999999999998888 99999999999999999999999999854
No 6
>cd02677 MIT_SNX15 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in sorting nexin 15 and related proteins. The molecular function of the MIT domain is unclear.
Probab=99.78 E-value=5.9e-19 Score=132.25 Aligned_cols=65 Identities=34% Similarity=0.512 Sum_probs=63.1
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHH
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGK 65 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~ 65 (240)
+|++++++||+.|++|+|++|+.+|++||++|+.++++++||.+|+.++.|+.+||+|||+|+..
T Consensus 5 ~A~~l~~~Ave~d~~~~y~eA~~~Y~~~i~~~~~~~k~e~~~~~k~~ir~K~~eYl~RAE~i~~~ 69 (75)
T cd02677 5 QAAELIRLALEKEEEGDYEAAFEFYRAGVDLLLKGVQGDSSPERREAVKRKIAEYLKRAEEILRL 69 (75)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48999999999999999999999999999999999999999999999999999999999999864
No 7
>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.
Probab=99.76 E-value=2.5e-18 Score=129.08 Aligned_cols=65 Identities=23% Similarity=0.332 Sum_probs=64.0
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKL 66 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l 66 (240)
|.+++++||++|+.|+|+||+.||++||+.|+++++.+||+.++..+++|+.+||+|||.||+.+
T Consensus 6 A~~~a~~AVe~D~~gr~~eAi~~Y~~aIe~L~q~~~~~pD~~~k~~yr~ki~eY~~Rae~Lk~~v 70 (75)
T cd02682 6 ARKYAINAVKAEKEGNAEDAITNYKKAIEVLSQIVKNYPDSPTRLIYEQMINEYKRRIEVLEKQN 70 (75)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 78999999999999999999999999999999999999999999999999999999999999987
No 8
>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in intracellular protein transport proteins of the AAA-ATPase family. The molecular function of the MIT domain is unclear.
Probab=99.75 E-value=4.6e-18 Score=126.55 Aligned_cols=69 Identities=32% Similarity=0.469 Sum_probs=66.4
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEK 69 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ 69 (240)
+|+.++++||++|+.|+|++|+.+|.+|+++|+.+++.++||..+..++.|+.+|++|||.||.+|++.
T Consensus 5 ~A~~l~~~Av~~D~~g~y~eA~~~Y~~aie~l~~~~k~e~~~~~k~~~~~k~~eyl~RaE~LK~~l~~~ 73 (75)
T cd02678 5 KAIELVKKAIEEDNAGNYEEALRLYQHALEYFMHALKYEKNPKSKESIRAKCTEYLDRAEKLKEYLAKK 73 (75)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 489999999999999999999999999999999999999999999999999999999999999999653
No 9
>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking.; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....
Probab=99.73 E-value=1.7e-17 Score=120.93 Aligned_cols=66 Identities=36% Similarity=0.575 Sum_probs=64.0
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHh
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKL 66 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l 66 (240)
.|++++++||++|++|+|++|+.+|++|+++|+++++.++||..++.+++|+.+||+|||.||+.|
T Consensus 4 ~A~~~~~~Av~~D~~g~~~~A~~~Y~~ai~~l~~~~~~~~~~~~~~~l~~k~~~yl~RAE~lk~~L 69 (69)
T PF04212_consen 4 KAIELIKKAVEADEAGNYEEALELYKEAIEYLMQALKSESNPERRQALRQKMKEYLERAEKLKEYL 69 (69)
T ss_dssp HHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 388999999999999999999999999999999999999999999999999999999999999876
No 10
>cd02656 MIT MIT: domain contained within Microtubule Interacting and Trafficking molecules. The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar sorting proteins and others. The molecular function of the MIT domain is unclear.
Probab=99.71 E-value=4.9e-17 Score=120.26 Aligned_cols=69 Identities=30% Similarity=0.520 Sum_probs=66.0
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEK 69 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ 69 (240)
+|++++++||+.|+.|+|++|+.+|.+|++.|+.+++.++||..|..++.++.+||+|||.||..+...
T Consensus 5 ~a~~l~~~Av~~D~~g~~~~Al~~Y~~a~e~l~~~~~~~~~~~~k~~l~~k~~~yl~RaE~Lk~~l~~~ 73 (75)
T cd02656 5 QAKELIKQAVKEDEDGNYEEALELYKEALDYLLQALKAEKEPKLRKLLRKKVKEYLDRAEFLKELLKKQ 73 (75)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 488999999999999999999999999999999999999999999999999999999999999998653
No 11
>KOG0739|consensus
Probab=99.69 E-value=9.5e-17 Score=148.57 Aligned_cols=113 Identities=26% Similarity=0.334 Sum_probs=90.2
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCC-CChhhHHHHHHHHHHHHHHHHHHHHHhhhhhhcc-C----
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGL-SNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMG-N---- 74 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e-~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ke~g-~---- 74 (240)
+||+++++|++.|++++|+||+.+|+.|++|||.++||| .+++.|+.+|.|+.||++|||+||.+|+..+..+ +
T Consensus 9 kaI~lv~kA~~eD~a~nY~eA~~lY~~aleYF~~~lKYE~~~~kaKd~IraK~~EYLdRAEkLK~yL~~~~~~~~k~~~~ 88 (439)
T KOG0739|consen 9 KAIDLVKKAIDEDNAKNYEEALRLYQNALEYFLHALKYEANNKKAKDSIRAKFTEYLDRAEKLKAYLKEKEKGAGKKGDE 88 (439)
T ss_pred HHHHHHHHHhhhcchhchHHHHHHHHHHHHHHHHHHHhhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCcc
Confidence 489999999999999999999999999999999999999 6777999999999999999999999998754321 1
Q ss_pred -----cchhhhhcC--CCCccchHHhHHHhhcccccEEEeeCCcccchh
Q psy11809 75 -----YHEQIEIAN--NEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKH 116 (240)
Q Consensus 75 -----~~~~~~i~e--n~~G~sY~~lFg~yl~~~~~~I~ieDPYIr~~h 116 (240)
....-...+ +.-|---.+-+..-|.+ .|.+|.|.|++.-
T Consensus 89 a~a~~~~~k~~ds~~eg~d~~pe~kKLr~~L~s---AIv~EKPNVkWsD 134 (439)
T KOG0739|consen 89 AVATVPKGKKKDSDGEGEDDEPEKKKLRSALNS---AIVREKPNVKWSD 134 (439)
T ss_pred ccCCCCCCCCCCccccccCCChhHHHHHHHhhh---hhhccCCCCchhh
Confidence 111122221 11222346788888876 7999999999753
No 12
>smart00745 MIT Microtubule Interacting and Trafficking molecule domain.
Probab=99.67 E-value=3.9e-16 Score=115.56 Aligned_cols=68 Identities=29% Similarity=0.493 Sum_probs=65.5
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhh
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDE 68 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~ 68 (240)
+|++++.+||++|+.|+|++|+.+|++|++.|+.+++.++||..++.++.|+.+|++|||+||..+..
T Consensus 7 ~A~~li~~Av~~d~~g~~~eAl~~Y~~a~e~l~~~~~~~~~~~~~~~~~~k~~eyl~raE~lk~~~~~ 74 (77)
T smart00745 7 KAKELISKALKADEAGDYEEALELYKKAIEYLLEGIKVESDSKRREAVKAKAAEYLDRAEEIKKSLLE 74 (77)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 48899999999999999999999999999999999999999999999999999999999999999854
No 13
>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=99.63 E-value=1.1e-15 Score=114.80 Aligned_cols=64 Identities=30% Similarity=0.500 Sum_probs=60.8
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHH----HHHHHHHHHHHHhhh
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIE----TYINRAEVLKGKLDE 68 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~----eYl~RAE~LK~~l~~ 68 (240)
+|+.++++|++.|++|+|+||+.+|.+||++|+. ++||..++.++.|+. +||+|||+||.+|.+
T Consensus 5 kai~Lv~~A~~eD~~gny~eA~~lY~~ale~~~~----ekn~~~k~~i~~K~~~~a~~yl~RAE~Lk~~l~~ 72 (75)
T cd02680 5 RAHFLVTQAFDEDEKGNAEEAIELYTEAVELCIN----TSNETMDQALQTKLKQLARQALDRAEALKESMSK 72 (75)
T ss_pred HHHHHHHHHHHhhHhhhHHHHHHHHHHHHHHHHH----hcChhhHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4899999999999999999999999999999998 789999999999996 999999999999864
No 14
>cd02679 MIT_spastin MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in the AAA protein spastin, a probable ATPase involved in the assembly or function of nuclear protein complexes; spastins might also be involved in microtubule dynamics. The molecular function of the MIT domain is unclear.
Probab=96.98 E-value=0.0045 Score=47.07 Aligned_cols=40 Identities=25% Similarity=0.283 Sum_probs=36.6
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCC
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLS 40 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~ 40 (240)
+|.+.+.+|+..|..|..++|+.+|+.|++.|..++.-..
T Consensus 7 ~A~~~I~kaL~~dE~g~~e~Al~~Y~~gi~~l~eg~ai~~ 46 (79)
T cd02679 7 QAFEEISKALRADEWGDKEQALAHYRKGLRELEEGIAVPV 46 (79)
T ss_pred HHHHHHHHHhhhhhcCCHHHHHHHHHHHHHHHHHHcCCCC
Confidence 4788999999999999999999999999999999986653
No 15
>PF08969 USP8_dimer: USP8 dimerisation domain; InterPro: IPR015063 This domain is predominantly found in the amino terminal region of Ubiquitin carboxyl-terminal hydrolase 8 (USP8). It has no known function. ; PDB: 2XZE_B 2A9U_A.
Probab=96.17 E-value=0.024 Score=45.01 Aligned_cols=67 Identities=24% Similarity=0.339 Sum_probs=50.4
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCC----hhhHHH-H-HHHHHHH-HHHHHHHHHHhhhh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSN----KGDQQK-I-RDKIETY-INRAEVLKGKLDEK 69 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d----~~~K~~-l-r~Ki~eY-l~RAE~LK~~l~~~ 69 (240)
|..+.++|..+...|+.+.|+.+|...+.++ ..+..-+| +..... + ..+..+- +++||.||..|+..
T Consensus 38 a~~l~~~A~~~~~egd~E~AYvl~~R~~~L~-~ki~~Hpdy~~~~~~~~~~~~~~~~~~~il~~lE~Lk~~L~~r 111 (115)
T PF08969_consen 38 ANKLLREAEEYRQEGDEEQAYVLYMRYLTLV-EKIPKHPDYKKDKNSYKKLLGKKKLNEVILEELEKLKPSLKER 111 (115)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHHHHHH-CCHCCSCCCCCTHHCCHHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH-HHhhcCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788999999999999999999999999988 77755443 333333 2 3344455 89999999999753
No 16
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=92.39 E-value=0.37 Score=29.21 Aligned_cols=30 Identities=20% Similarity=0.265 Sum_probs=25.0
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTE 31 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~ 31 (240)
|......|......|+|++|+.+|++||++
T Consensus 1 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~ 30 (34)
T PF00515_consen 1 AEAYYNLGNAYFQLGDYEEALEYYQRALEL 30 (34)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence 345678899999999999999999999973
No 17
>PF12063 DUF3543: Domain of unknown function (DUF3543); InterPro: IPR022708 This domain belonging to serine/threonine-protein kinases is functionally uncharacterised. This domain is found in eukaryotes. It is typically between 217 to 291 amino acids in length and is found associated with PF00069 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0004674 protein serine/threonine kinase activity
Probab=88.32 E-value=1.5 Score=39.50 Aligned_cols=49 Identities=22% Similarity=0.333 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHhcC-------------C--CChhhH---HHHHHHHHHHHHHHHHHHHHh
Q psy11809 18 WTESLTFYQDGVTELLKHVRG-------------L--SNKGDQ---QKIRDKIETYINRAEVLKGKL 66 (240)
Q Consensus 18 y~EAl~lY~eaI~~Ll~~lK~-------------e--~d~~~K---~~lr~Ki~eYl~RAE~LK~~l 66 (240)
..||+.+|..|+.+|-.++.. . ++...+ +-+|.+.++.++|||.++..+
T Consensus 69 ~~E~LVLYvKaL~lLa~am~~a~~~w~~~~~~~~~~~~S~~vn~vVqwlr~rfneclekae~lr~~l 135 (238)
T PF12063_consen 69 SAEALVLYVKALSLLAKAMDIASAWWYSKNRGSGSLNPSSRVNQVVQWLRERFNECLEKAEFLRLRL 135 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 689999999999998887642 1 222222 458999999999999999999
No 18
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=87.86 E-value=1.3 Score=27.77 Aligned_cols=26 Identities=12% Similarity=0.365 Sum_probs=20.8
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 5 LLIRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 5 ll~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
+..-|.-+.+.|+|++|+.+|++++.
T Consensus 2 l~~Lg~~~~~~g~~~~Ai~~y~~aL~ 27 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAIEYYEQALA 27 (36)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 34557778899999999999999874
No 19
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=86.50 E-value=2 Score=25.66 Aligned_cols=28 Identities=11% Similarity=0.260 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy11809 4 FLLIRAVELDERGRWTESLTFYQDGVTE 31 (240)
Q Consensus 4 ~ll~~AVe~D~~g~y~EAl~lY~eaI~~ 31 (240)
.....|.-....|++++|+.+|++|+++
T Consensus 3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~ 30 (34)
T PF13181_consen 3 AYYNLGKIYEQLGDYEEALEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 4566788889999999999999999974
No 20
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=84.43 E-value=3 Score=25.54 Aligned_cols=35 Identities=20% Similarity=0.241 Sum_probs=25.0
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHV 36 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~l 36 (240)
|..+-.-|.-+-..|+|++|+.+|+++++..-..+
T Consensus 2 a~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~ 36 (42)
T PF13374_consen 2 ASALNNLANAYRAQGRYEEALELLEEALEIRERLL 36 (42)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHHHHHH----
T ss_pred HHHHHHHHHHHHhhhhcchhhHHHHHHHHHHHHHh
Confidence 34556677888889999999999999998766554
No 21
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=84.36 E-value=3 Score=24.67 Aligned_cols=28 Identities=7% Similarity=0.239 Sum_probs=21.9
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy11809 4 FLLIRAVELDERGRWTESLTFYQDGVTE 31 (240)
Q Consensus 4 ~ll~~AVe~D~~g~y~EAl~lY~eaI~~ 31 (240)
-+-..|.-+=..|+|++|+.+|++|+++
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l 30 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 3456677788899999999999999863
No 22
>KOG2709|consensus
Probab=81.78 E-value=4.1 Score=40.31 Aligned_cols=68 Identities=21% Similarity=0.335 Sum_probs=46.9
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhc-CCC------Chh------hHHHHHHHHHHHHHHHHHHHHHhhh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVR-GLS------NKG------DQQKIRDKIETYINRAEVLKGKLDE 68 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK-~e~------d~~------~K~~lr~Ki~eYl~RAE~LK~~l~~ 68 (240)
|...+.+++-.|..+.+++|+..|..||.+++..+. +++ .+. ..+.++.--.+---|.+-|++.+++
T Consensus 22 A~~~V~~gl~~dE~~~~e~a~~~Ye~gl~~i~~GIpvg~k~k~~~~~~~W~dAcaliQklkes~~~vr~Rl~vL~kqkqs 101 (560)
T KOG2709|consen 22 AYASVEQGLCYDEVNDWENALAMYEKGLNLIVEGIPVGEKMKNARKSEMWKDACALIQKLKESKSSVRHRLNVLKKQKQS 101 (560)
T ss_pred HHHHHHhhcchhhhcCHHHHHHHHHHHHHHHHhcCcccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 456788899999999999999999999999998542 122 111 1123444444555677778776655
Q ss_pred h
Q psy11809 69 K 69 (240)
Q Consensus 69 ~ 69 (240)
.
T Consensus 102 i 102 (560)
T KOG2709|consen 102 I 102 (560)
T ss_pred c
Confidence 3
No 23
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=81.15 E-value=2.9 Score=28.73 Aligned_cols=30 Identities=10% Similarity=0.245 Sum_probs=26.7
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTE 31 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~ 31 (240)
|..+...|..+-..|+|++|+.+|.+||++
T Consensus 3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~ 32 (69)
T PF13414_consen 3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIEL 32 (69)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 566778899999999999999999999974
No 24
>PF13091 PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A 1BYR_A 1V0T_A 1V0U_A 1V0V_A 1V0S_A 1V0R_A 1V0W_A ....
Probab=75.99 E-value=2.9 Score=32.03 Aligned_cols=84 Identities=18% Similarity=0.332 Sum_probs=51.5
Q ss_pred hcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEE
Q psy11809 98 LDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITL 177 (240)
Q Consensus 98 l~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l 177 (240)
|...-++|+|.=||| ..+ ++++.++....+-..|+|+|.....+. .......+..+..-+...|+++
T Consensus 5 i~~A~~~i~i~~~~~-~~~------~i~~~l~~~~~~gv~v~ii~~~~~~~~------~~~~~~~~~~~~~~~~~~~i~v 71 (126)
T PF13091_consen 5 IKSAQKSIWIASPYI-TDP------DIIKALLDAAKRGVKVRIIVDSNQDDS------EAINLASLKELRELLKNAGIEV 71 (126)
T ss_dssp HHT-SSEEEEEESSS--SC------HHHHHHHHHHHTT-EEEEEEECGGGHH------CCCSHHHHHHHHHHHHHTTHCE
T ss_pred HhccCCEEEEEEEec-CcH------HHHHHHHHHHHCCCeEEEEECCCcccc------chhhhHHHHHHHhhhccceEEE
Confidence 344458999999999 222 224444443333457999998743210 1112567888888888899998
Q ss_pred EEEecCCccceEEEecCCeEE
Q psy11809 178 NINYSNTLHDREIVLSNDWVI 198 (240)
Q Consensus 178 ~~~~~~tiHDR~I~~dnGw~I 198 (240)
. ..+|..-+.+|+-+.|
T Consensus 72 ~----~~~H~K~~i~d~~~~i 88 (126)
T PF13091_consen 72 R----NRLHAKFYIIDDKVAI 88 (126)
T ss_dssp E----S-B--EEEEETTTEEE
T ss_pred e----cCCCcceEEecCccEE
Confidence 7 6899999999965444
No 25
>PRK10775 cell division protein FtsQ; Provisional
Probab=75.83 E-value=12 Score=34.32 Aligned_cols=46 Identities=24% Similarity=0.398 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHhccCcEEE-EEecCCccceEEEecCCeEEEeCCc
Q psy11809 157 VKQEENLKQLQESLRKMKITLN-INYSNTLHDREIVLSNDWVIKIGRG 203 (240)
Q Consensus 157 ~~q~~~l~~i~~sl~~~gi~l~-~~~~~tiHDR~I~~dnGw~I~igRG 203 (240)
....+.+.++.+-|...|..+. +.+++ -|.=.|+++||-.|+|||+
T Consensus 168 ~~vl~~~~~l~~~L~~~~~~v~~l~l~~-r~~W~l~L~nGi~v~LGr~ 214 (276)
T PRK10775 168 NEVLQGYREMGQVLAKDKFTLKEAAMTA-RRSWQLTLNNDIRLELGRG 214 (276)
T ss_pred HHHHHHHHHHHHHHHhcCCeeEEEEEcC-CCeEEEEeCCCeEEEECCc
Confidence 3466788899999998887666 33443 6778899999999999997
No 26
>PF04652 DUF605: Vta1 like; InterPro: IPR006745 This family contains proteins from the Eukaryota; functionally they are uncharacterised.; PDB: 2RKK_B 2RKL_B 3MHV_A.
Probab=75.63 E-value=10 Score=35.49 Aligned_cols=108 Identities=19% Similarity=0.188 Sum_probs=64.3
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhhhh------ccCcc
Q psy11809 3 QFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKK------MGNYH 76 (240)
Q Consensus 3 i~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ke------~g~~~ 76 (240)
..++++|.++++.+ ---|+-|..-|++ .+|+... +-..++.-+..-|+..|++|..+..... +-.++
T Consensus 4 ~~~l~~a~e~~~~~-p~v~Y~c~~ya~~---~~l~~~~---~~~e~~~~~~~Ll~~lE~~K~~~~~~~~~~~~~~~~~~v 76 (380)
T PF04652_consen 4 SPFLKRAQELEKRD-PVVAYYCRLYAVE---QILKLKL---RSKECRQFLTSLLDKLEKMKAELGDNEAILDDVAAQAYV 76 (380)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHHH---HHTT-TT-----HHHHHHHHHHHHHHHHHHHCT---CHHC-HHHHHHHH
T ss_pred HHHHHHHHHHhhcC-CEEhHHHHHHHHH---HHcCCCC---CChhHHHHHHHHHHHHHHhhhccCcHHhhcCHHHHHHHH
Confidence 45899999999988 3334444444454 4443321 2233455557789999999998863211 11233
Q ss_pred hhhhhcCCCCccchHHhHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHH
Q psy11809 77 EQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELA 128 (240)
Q Consensus 77 ~~~~i~en~~G~sY~~lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~ 128 (240)
+.+- -+||...+.. .+.=..+.--++.|+=+-+|++.|.++
T Consensus 77 ~~fa----------~~~f~~a~~~-~~~~~~~~~~~~~f~~a~~~~~~l~~f 117 (380)
T PF04652_consen 77 ENFA----------LKLFNRADKE-DRAGRATKQTAKTFYAASTFFEVLNIF 117 (380)
T ss_dssp HHHH----------HHHHHHHHHH-HHSS--SHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHH----------HHHHHHHHHH-HHcCCcHHHHHHHHHHHHHHHHHHHHh
Confidence 3322 3788888865 333334446667888888999888876
No 27
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=75.12 E-value=5.6 Score=28.04 Aligned_cols=30 Identities=20% Similarity=0.247 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy11809 3 QFLLIRAVELDERGRWTESLTFYQDGVTEL 32 (240)
Q Consensus 3 i~ll~~AVe~D~~g~y~EAl~lY~eaI~~L 32 (240)
..+..-|.-....|++++|+.+|++|++++
T Consensus 47 ~~~~~lg~~~~~~g~~~~A~~~~~~al~i~ 76 (78)
T PF13424_consen 47 NTLNNLGECYYRLGDYEEALEYYQKALDIF 76 (78)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence 334455666778889999999999988764
No 28
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=73.04 E-value=13 Score=29.37 Aligned_cols=36 Identities=19% Similarity=0.222 Sum_probs=20.5
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHH
Q psy11809 14 ERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIR 49 (240)
Q Consensus 14 ~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr 49 (240)
..|++.+|+..|......|..-+..+|++..++.++
T Consensus 108 ~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l~~ 143 (146)
T PF03704_consen 108 AQGRRAEALRVYERYRRRLREELGIEPSPETRALYR 143 (146)
T ss_dssp HTT-HHHHHHHHHHHHHHHHHHHS----HHHHHHHH
T ss_pred HCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHHHH
Confidence 467777777777777676666666666666655544
No 29
>PRK11263 cardiolipin synthase 2; Provisional
Probab=72.30 E-value=44 Score=32.36 Aligned_cols=102 Identities=16% Similarity=0.231 Sum_probs=63.6
Q ss_pred hHHhHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHH
Q psy11809 90 YEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQES 169 (240)
Q Consensus 90 Y~~lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~s 169 (240)
-+.++-.-+...=.+|+|+.||.-.... |++=+..+++ .=+.|+|++.... + ..-....=..+-..
T Consensus 207 i~~~~~~~i~~A~~~I~I~tpYf~p~~~---l~~aL~~Aa~---RGV~V~ii~~~~~-d-------~~~~~~a~~~~~~~ 272 (411)
T PRK11263 207 IERHYLKALRQARREVIIANAYFFPGYR---LLRALRNAAR---RGVRVRLILQGEP-D-------MPIVRVGARLLYNY 272 (411)
T ss_pred HHHHHHHHHHHhceEEEEEecCcCCCHH---HHHHHHHHHH---CCCEEEEEeCCCC-C-------cHHHHHHHHHHHHH
Confidence 3566666776666799999999966433 3333333333 3356888875322 2 11111112234556
Q ss_pred HhccCcEEEEEecC-CccceEEEecCCeEEEeCCcccc
Q psy11809 170 LRKMKITLNINYSN-TLHDREIVLSNDWVIKIGRGLDI 206 (240)
Q Consensus 170 l~~~gi~l~~~~~~-tiHDR~I~~dnGw~I~igRGLd~ 206 (240)
|.+.||.+ ++|.+ .+|..-+..|+-|.+.=+=-||.
T Consensus 273 Ll~~Gv~I-~~y~~~~lHaK~~viD~~~~~vGS~Nld~ 309 (411)
T PRK11263 273 LLKGGVQI-YEYCRRPLHGKVALMDDHWATVGSSNLDP 309 (411)
T ss_pred HHHCCCEE-EEecCCCceeEEEEECCCEEEEeCCcCCH
Confidence 77889998 46654 59999999999998765555554
No 30
>KOG2880|consensus
Probab=70.84 E-value=20 Score=34.79 Aligned_cols=66 Identities=23% Similarity=0.283 Sum_probs=47.2
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChh----hHHHHHHHH-HHHHHHHHHHHHHhh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKG----DQQKIRDKI-ETYINRAEVLKGKLD 67 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~----~K~~lr~Ki-~eYl~RAE~LK~~l~ 67 (240)
|.+++++|--+-.+||++-|+.+|..=+.+|+.-+..-+|-. .|+-++.|+ .+-+.|+++|+.-|.
T Consensus 35 g~ei~rmA~VY~~EgN~enafvLy~ry~tLfiEkipkHrDy~s~k~ek~d~~~klk~~~~p~~deL~~~ll 105 (424)
T KOG2880|consen 35 GTEILRMANVYLEEGNVENAFVLYLRYITLFIEKIPKHRDYRSVKPEKEDIRKKLKEEAFPRIDELKAKLL 105 (424)
T ss_pred hHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHhcccCcchhhhchhHHHHHHHHHHHhhhhHHHHHHHHH
Confidence 678899999999999999999999999999998654333321 123334443 345677887776553
No 31
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=69.97 E-value=8.6 Score=20.38 Aligned_cols=26 Identities=19% Similarity=0.368 Sum_probs=21.4
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 5 LLIRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 5 ll~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
....|.-+-..|++++|..+|.+++.
T Consensus 4 ~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 4 LYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 45667778888999999999988875
No 32
>PRK12452 cardiolipin synthetase; Reviewed
Probab=69.21 E-value=57 Score=32.47 Aligned_cols=102 Identities=11% Similarity=0.217 Sum_probs=60.6
Q ss_pred hHHhHHHh---hcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHH
Q psy11809 90 YEKLFGRF---LDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQL 166 (240)
Q Consensus 90 Y~~lFg~y---l~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i 166 (240)
.+.++.-| ++..=++|+|+-||......+ ++-+..++ ..=+.|++++...... .-..... ...
T Consensus 342 ~~~i~~~~l~~I~~A~~~I~I~tpYf~pd~~l---~~aL~~Aa---~rGV~Vrii~p~~~D~-------~~~~~a~-~~~ 407 (509)
T PRK12452 342 DKSIRNTLLAVMGSAKKSIWIATPYFIPDQET---LTLLRLSA---ISGIDVRILYPGKSDS-------IISDQAS-QSY 407 (509)
T ss_pred hHHHHHHHHHHHHHhhhEEEEECCccCCCHHH---HHHHHHHH---HcCCEEEEEcCCCCCh-------HHHHHHH-HHH
Confidence 34444444 455446999999998776433 33333333 2335688988542211 1111111 122
Q ss_pred HHHHhccCcEEEEEecC-CccceEEEecCCeEEEeCCcccc
Q psy11809 167 QESLRKMKITLNINYSN-TLHDREIVLSNDWVIKIGRGLDI 206 (240)
Q Consensus 167 ~~sl~~~gi~l~~~~~~-tiHDR~I~~dnGw~I~igRGLd~ 206 (240)
-..|.+.||.+ ++|.+ -+|..-++.|+-|.+.=+-.+|.
T Consensus 408 ~~~L~~aGv~I-~~y~~~~lHaK~~ivD~~~a~vGS~Nld~ 447 (509)
T PRK12452 408 FTPLLKAGASI-YSYKDGFMHAKIVLVDDKIATIGTANMDV 447 (509)
T ss_pred HHHHHHcCCEE-EEecCCCeeeeEEEECCCEEEEeCcccCH
Confidence 24566689998 56765 49999999999888765566654
No 33
>cd09240 BRO1_Alix Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains. This family contains the N-terminal, Bro1-like domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), also called apoptosis-linked gene-2 interacting protein 1 (AIP1). It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix 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 f
Probab=68.57 E-value=23 Score=33.34 Aligned_cols=60 Identities=12% Similarity=0.082 Sum_probs=39.5
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEV 61 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~ 61 (240)
|+..-..|..+..+++|-||+..++.|.+.+..+.+.-+....-+.+...|.+-+++||+
T Consensus 255 a~A~y~~a~~~~e~~k~GeaIa~L~~A~~~~~~a~~~~~~~~~~~~l~~~i~~~l~~aek 314 (346)
T cd09240 255 ALAEYHQSLVAKAQKKFGEEIARLQHALELIKTAQSRAGEYVDVKDFAAKISRALTAAKK 314 (346)
T ss_pred HHHHHHHHHHhhhhchHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHhh
Confidence 455567888889999999999999999997766655322211122344555555555443
No 34
>PF01474 DAHP_synth_2: Class-II DAHP synthetase family; InterPro: IPR002480 Members of the 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthetase family (2.5.1.54 from EC) catalyse the first step in aromatic amino acid biosynthesis from chorismate. Class I (see IPR006218 from INTERPRO) includes bacterial and yeast enzymes; class II includes higher plants and various microorganisms []. The first step in the common pathway leading to the biosynthesis of aromatic compounds is the stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP). This reaction is catalyzed by DAHP synthase, a metal-activated enzyme, which in microorganisms is the target for negative-feedback regulation by pathway intermediates or by end products.; GO: 0003849 3-deoxy-7-phosphoheptulonate synthase activity, 0009073 aromatic amino acid family biosynthetic process; PDB: 3NUD_A 3KGF_A 2W19_A 3NUE_B 3PFP_A 2B7O_B 3RZI_A 3NV8_B 2W1A_A.
Probab=67.73 E-value=27 Score=34.48 Aligned_cols=70 Identities=19% Similarity=0.293 Sum_probs=49.6
Q ss_pred HHhhHHHHHHHHHhcCCCcc-eEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCC
Q psy11809 117 QCYNFLQFCELAIKNCKNVK-RINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSND 195 (240)
Q Consensus 117 Q~~N~~~f~E~~v~~~~~~~-~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnG 195 (240)
.-..++++|+.| ++.+.. ++.|||...... -.+.|-.|-+.....|....|..|+ +|---+.+++|
T Consensus 294 ~~~~l~~l~~~L--nP~~~pGRltlI~RmGa~~----------v~~~LP~li~aV~~~g~~vvW~cDP-MHGNT~~~~~G 360 (439)
T PF01474_consen 294 TPEELVELCDRL--NPDNEPGRLTLITRMGADK----------VRERLPPLIEAVQAAGHPVVWSCDP-MHGNTITTSSG 360 (439)
T ss_dssp -HHHHHHHHHHH--STT--TTSEEEEE---TTT----------HHHHHHHHHHHHHTTT---EEEE-T-STTSEEE-TTS
T ss_pred CHHHHHHHHHHh--CCCCCCCeEEEEecCCcHH----------HHHHhHHHHHHHHHCCCceEEeccC-CCCCceECCCC
Confidence 345688999988 555655 999999977655 4677999999999999999999997 99999999999
Q ss_pred eEEE
Q psy11809 196 WVIK 199 (240)
Q Consensus 196 w~I~ 199 (240)
.+.+
T Consensus 361 ~KTR 364 (439)
T PF01474_consen 361 YKTR 364 (439)
T ss_dssp SEEE
T ss_pred ccCC
Confidence 8875
No 35
>PF08910 Aida_N: Aida N-terminus; InterPro: IPR015006 This entry represents the axin interactor, dorsalization-associated protein family AIDA [].; PDB: 1UG7_A.
Probab=67.41 E-value=65 Score=25.99 Aligned_cols=61 Identities=20% Similarity=0.244 Sum_probs=38.7
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcC----CCChhhHHHHHHHHHHHHHHHHHHHHH
Q psy11809 5 LLIRAVELDERGRWTESLTFYQDGVTELLKHVRG----LSNKGDQQKIRDKIETYINRAEVLKGK 65 (240)
Q Consensus 5 ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~----e~d~~~K~~lr~Ki~eYl~RAE~LK~~ 65 (240)
-.++|+++|.=|+.-||..-|+.=..-+...+.. .-.+..++.+..-..----|++.|...
T Consensus 8 s~~ka~dfDsWGQlvEA~deY~~La~~l~k~~~~~~~~~fte~qkk~i~Kia~cL~lRs~~Lq~~ 72 (106)
T PF08910_consen 8 SFKKATDFDSWGQLVEAIDEYQRLARQLKKEVQSHQDSDFTEDQKKTIGKIATCLELRSKALQSL 72 (106)
T ss_dssp HHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHT-SS--SS-HHHHHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4689999999999999999999765556666655 123445555554333333477776654
No 36
>cd09247 BRO1_Alix_like_2 Protein-interacting Bro1-like domain of an Uncharacterized family of the BRO1_Alix_like superfamily. This domain family is comprised of uncharacterized proteins. It belongs to the BRO1_Alix_like superfamily which includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20 and Rim23 interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix 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 and Bro1 function in
Probab=67.31 E-value=27 Score=32.81 Aligned_cols=38 Identities=24% Similarity=0.278 Sum_probs=30.3
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCC
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGL 39 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e 39 (240)
|...--.|..++.+++|.||+.+++.|.+.+-.+.+..
T Consensus 253 A~A~~~~a~~~~~~~k~GeaIa~L~~A~~~l~~~~~~~ 290 (346)
T cd09247 253 ARSQLYLARRLKEAGHIGVAVGVLREALRNLKKKLPGS 290 (346)
T ss_pred HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhccC
Confidence 44455668888999999999999999999876666543
No 37
>PRK01642 cls cardiolipin synthetase; Reviewed
Probab=65.57 E-value=68 Score=31.52 Aligned_cols=99 Identities=10% Similarity=0.179 Sum_probs=58.1
Q ss_pred HhHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHh
Q psy11809 92 KLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLR 171 (240)
Q Consensus 92 ~lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~ 171 (240)
..+-.-+...=++|+|+-||.-..- ++++.|...+..=+.|+|++..-... .--.... ...-..|.
T Consensus 321 ~~~~~~I~~A~~~I~I~tpYfip~~------~i~~aL~~Aa~rGV~Vril~p~~~d~-------~~~~~~~-~~~~~~L~ 386 (483)
T PRK01642 321 QFLLTAIYSARERLWITTPYFVPDE------DLLAALKTAALRGVDVRIIIPSKNDS-------LLVFWAS-RAFFTELL 386 (483)
T ss_pred HHHHHHHHHhccEEEEEcCCcCCCH------HHHHHHHHHHHcCCEEEEEeCCCCCc-------HHHHHHH-HHHHHHHH
Confidence 4556666664469999999976543 34444433333335689988643222 1111111 11223456
Q ss_pred ccCcEEEEEecC-CccceEEEecCCeEEEeCCccc
Q psy11809 172 KMKITLNINYSN-TLHDREIVLSNDWVIKIGRGLD 205 (240)
Q Consensus 172 ~~gi~l~~~~~~-tiHDR~I~~dnGw~I~igRGLd 205 (240)
+.||.+ ++|.+ -+|..-++.|+-|.+.=.--+|
T Consensus 387 ~~Gv~I-~~y~~~~~HaK~~ivD~~~~~vGS~N~d 420 (483)
T PRK01642 387 EAGVKI-YRYEGGLLHTKSVLVDDELALVGTVNLD 420 (483)
T ss_pred HcCCEE-EEeCCCceEeEEEEECCCEEEeeCCcCC
Confidence 689988 46654 4999999999887664444444
No 38
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=62.79 E-value=18 Score=25.42 Aligned_cols=32 Identities=22% Similarity=0.309 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q psy11809 4 FLLIRAVELDERGRWTESLTFYQDGVTELLKHV 36 (240)
Q Consensus 4 ~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~l 36 (240)
.+-.-|.-+=..|+|++|+.+|++|+++ ...+
T Consensus 7 ~~~~la~~~~~~~~~~~A~~~~~~al~~-~~~~ 38 (78)
T PF13424_consen 7 AYNNLARVYRELGRYDEALDYYEKALDI-EEQL 38 (78)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHH-HHHT
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH-HHHH
Confidence 3445566677899999999999999997 5444
No 39
>PF12063 DUF3543: Domain of unknown function (DUF3543); InterPro: IPR022708 This domain belonging to serine/threonine-protein kinases is functionally uncharacterised. This domain is found in eukaryotes. It is typically between 217 to 291 amino acids in length and is found associated with PF00069 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0004674 protein serine/threonine kinase activity
Probab=61.20 E-value=58 Score=29.37 Aligned_cols=62 Identities=18% Similarity=0.118 Sum_probs=43.4
Q ss_pred hHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHHhcCC-------CChhhHHHHHHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERG-RWTESLTFYQDGVTELLKHVRGL-------SNKGDQQKIRDKIETYINRAEVLK 63 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g-~y~EAl~lY~eaI~~Ll~~lK~e-------~d~~~K~~lr~Ki~eYl~RAE~LK 63 (240)
|+++.+.|.-.+=.| +...+...|..|+-+|--.+... .++.-|+.+..-+..--.|--.|+
T Consensus 165 ALemsr~AA~~El~g~~~~~ce~~Y~tA~~lLe~Ll~~~~~~~~~~~~~~Dr~~i~k~i~sI~~RL~~Lr 234 (238)
T PF12063_consen 165 ALEMSRTAAVDELFGENLEGCEQRYETAIWLLEALLDDDDLEEENPLDEEDREIIKKYIDSIENRLSALR 234 (238)
T ss_pred HHHHHHHHHHHHHhCcCHhHHHHHHHHHHHHHHHHHhHhhccccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 788888888888888 99999999999995444444444 466777776655444444443333
No 40
>COG1502 Cls Phosphatidylserine/phosphatidylglycerophosphate/cardiolipin synthases and related enzymes [Lipid metabolism]
Probab=60.67 E-value=1.1e+02 Score=28.63 Aligned_cols=94 Identities=11% Similarity=0.224 Sum_probs=66.4
Q ss_pred HhHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHh
Q psy11809 92 KLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLR 171 (240)
Q Consensus 92 ~lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~ 171 (240)
..+-+-+...-.+|.|.-||.-...++.+- +......-+.|.++|....... ...........-..|.
T Consensus 273 ~~~~~~i~~A~~~i~i~~pYf~~~~~~~~a------l~~a~~~Gv~V~ii~~~~~~~d------~~~~~~~~~~~~~~l~ 340 (438)
T COG1502 273 RLLLKAINSARESILIATPYFVPDRELLAA------LKAAARRGVDVRIIIPSLGAND------SAIVHAAYRAYLKELL 340 (438)
T ss_pred HHHHHHHHhhceEEEEEcCCcCCCHHHHHH------HHHHHhcCCEEEEEeCCCCCCC------hHHHHHHHHHHHHHHH
Confidence 467777777788999999999998888733 2222333456899998432221 1222245556667778
Q ss_pred ccCcEEEEEecC--CccceEEEecCCeEE
Q psy11809 172 KMKITLNINYSN--TLHDREIVLSNDWVI 198 (240)
Q Consensus 172 ~~gi~l~~~~~~--tiHDR~I~~dnGw~I 198 (240)
+.|+.. |++.. .+|..-+..|+=|.+
T Consensus 341 ~~gv~i-~~~~~g~~lH~K~~iiD~~~~~ 368 (438)
T COG1502 341 EAGVKV-YEYPGGAFLHSKVMIIDDRTVL 368 (438)
T ss_pred HhCCEE-EEecCCCcceeeEEEEcCCEEE
Confidence 889988 88888 799999999998844
No 41
>cd09241 BRO1_ScRim20-like Protein-interacting, N-terminal, Bro1-like domain of Saccharomyces cerevisiae Rim20 and related proteins. This family contains the N-terminal, Bro1-like domain of Saccharomyces cerevisiae Rim20 (also known as PalA) and related proteins. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Saccharomyces cerevisiae Bro1, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Rim20 and Rim23 participate in the response to the external pH via the Rim101 pathway. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. Bro1-like domains bind comp
Probab=58.04 E-value=46 Score=31.36 Aligned_cols=65 Identities=18% Similarity=0.208 Sum_probs=44.5
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCC--CChh---hHHHHHHHHHHHHHHHHHHHHHh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGL--SNKG---DQQKIRDKIETYINRAEVLKGKL 66 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e--~d~~---~K~~lr~Ki~eYl~RAE~LK~~l 66 (240)
|+..-..|..+..+++|-||+..++.|++.+..+.+.- .++. .-+.++..|.+-+++||+==+.+
T Consensus 237 A~A~y~~a~~~~e~~k~Ge~Ia~L~~A~~~l~~a~~~~~~~~~~~~~~~~~l~~~i~~~l~~aekdNd~I 306 (355)
T cd09241 237 AAAHYRMALVALEKSKYGEEVARLRVALAACKEALKEARYGNKAVLEDLQGLKDIVKESLKRAERDNDLI 306 (355)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHhhccCee
Confidence 45566778888999999999999999999888887531 1222 12335666666666666544443
No 42
>KOG2997|consensus
Probab=57.96 E-value=9.8 Score=36.42 Aligned_cols=29 Identities=28% Similarity=0.477 Sum_probs=27.2
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
|+.+-..||+.++.|+.-+|++.|..|++
T Consensus 19 A~~l~~~av~~Eq~G~l~dai~fYR~Alq 47 (366)
T KOG2997|consen 19 AIALYEKAVLKEQDGSLYDAINFYRDALQ 47 (366)
T ss_pred HHHHHHHHHHHhhcCcHHHHHHHHHhhhc
Confidence 78888999999999999999999999985
No 43
>KOG1840|consensus
Probab=57.63 E-value=55 Score=32.88 Aligned_cols=66 Identities=21% Similarity=0.198 Sum_probs=48.7
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHH--HHHHHHHHHHHHHHhhh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDK--IETYINRAEVLKGKLDE 68 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~K--i~eYl~RAE~LK~~l~~ 68 (240)
|+.+..-|+-+.+.|+|.||..+|..|+++.-. +-....+.....+..- +-+-++++|+-+.+++.
T Consensus 283 a~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~-~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~ 350 (508)
T KOG1840|consen 283 AATLNNLAVLYYKQGKFAEAEEYCERALEIYEK-LLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQK 350 (508)
T ss_pred HHHHHHHHHHHhccCChHHHHHHHHHHHHHHHH-hhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence 456677799999999999999999999998777 4455566666655543 34456777777776653
No 44
>KOG0603|consensus
Probab=56.10 E-value=7.8 Score=39.66 Aligned_cols=63 Identities=24% Similarity=0.248 Sum_probs=57.3
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHH-HHHHHHHHHH-hcCCCChhhHHHHHHHHH--HHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFY-QDGVTELLKH-VRGLSNKGDQQKIRDKIE--TYINRAEVLKG 64 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY-~eaI~~Ll~~-lK~e~d~~~K~~lr~Ki~--eYl~RAE~LK~ 64 (240)
+.-++.-|+++|-...+..|++.| .++|.++... ++......+|+.+..++. .|.-||++|-.
T Consensus 100 ~~~~aelaLald~lh~l~iiyrd~k~enilld~~Ghi~~tdfglske~v~~~~~cgt~eymApEI~~ 166 (612)
T KOG0603|consen 100 AFYLAELALALDHLHKLGIAYRDYKLENVLLLLEGHIKLTDFGLSKEAVKEKIACGTYEYRAPEIIN 166 (612)
T ss_pred HHHHHHHHHHHhhcchhHHHHhcccccceeecccCccccCCchhhhHhHhhhhcccchhhhhhHhhh
Confidence 455778899999999999999999 8999999888 888888899999999999 99999999987
No 45
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=55.56 E-value=57 Score=29.25 Aligned_cols=50 Identities=14% Similarity=0.175 Sum_probs=29.0
Q ss_pred HHHHHhc-CCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHH
Q psy11809 9 AVELDER-GRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVL 62 (240)
Q Consensus 9 AVe~D~~-g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~L 62 (240)
|.-+.+. |++++|+.+|++|++++-. +.++..-..+..++....-+..+.
T Consensus 121 A~~ye~~~~d~e~Ai~~Y~~A~~~y~~----e~~~~~a~~~~~~~A~l~~~l~~y 171 (282)
T PF14938_consen 121 AEIYEEQLGDYEKAIEYYQKAAELYEQ----EGSPHSAAECLLKAADLYARLGRY 171 (282)
T ss_dssp HHHHCCTT--HHHHHHHHHHHHHHHHH----TT-HHHHHHHHHHHHHHHHHTT-H
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHH----CCChhhHHHHHHHHHHHHHHhCCH
Confidence 3344666 8999999999999997763 334444444555555544444333
No 46
>TIGR01358 DAHP_synth_II 3-deoxy-7-phosphoheptulonate synthase, class II. Homologs scoring between trusted and noise cutoff include proteins involved in antibiotic biosynthesis; one example is active as this enzyme, while another acts on an amino analog.
Probab=55.56 E-value=37 Score=33.65 Aligned_cols=70 Identities=13% Similarity=0.169 Sum_probs=57.3
Q ss_pred HHhhHHHHHHHHHhcCCCcc-eEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCC
Q psy11809 117 QCYNFLQFCELAIKNCKNVK-RINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSND 195 (240)
Q Consensus 117 Q~~N~~~f~E~~v~~~~~~~-~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnG 195 (240)
.-..++++|+.| ++.+.. ++.|||..-... -.+.|-.|-+.....|-...|..|+ +|---+.+++|
T Consensus 291 ~p~~l~~L~~~L--nP~~epGRlTLI~RmGa~k----------V~~~LP~li~aV~~~G~~VvW~cDP-MHGNT~~t~~G 357 (443)
T TIGR01358 291 TPDELLRLIERL--NPENEPGRLTLISRMGADK----------IADKLPPLLRAVKAAGRRVVWVCDP-MHGNTEEAASG 357 (443)
T ss_pred CHHHHHHHHHHh--CCCCCCceEEEEeccCchH----------HHHhHHHHHHHHHHcCCceEEeecC-CCCCceeCCCC
Confidence 345688888888 455555 999999876533 5678999999999999999999997 99999999999
Q ss_pred eEEE
Q psy11809 196 WVIK 199 (240)
Q Consensus 196 w~I~ 199 (240)
.+.+
T Consensus 358 ~KTR 361 (443)
T TIGR01358 358 YKTR 361 (443)
T ss_pred ccCC
Confidence 8753
No 47
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=55.32 E-value=1.7e+02 Score=26.76 Aligned_cols=78 Identities=13% Similarity=0.130 Sum_probs=44.8
Q ss_pred EEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecCC
Q psy11809 105 IDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNT 184 (240)
Q Consensus 105 I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~t 184 (240)
+.++.|-++...++ +-.|.+++... .+...++++|...= .++|++.|.+.=+..-...|.++++-|++
T Consensus 173 ~lv~~~R~~~l~~i--~~~f~~l~~~~-~~~~~a~VtSA~pL---------s~~q~~~L~~~L~k~~g~~V~l~~~VDps 240 (271)
T PRK13430 173 QAVGRPRGRSIEEG--LDELSNLAAAR-RGRSVATVTTAVPL---------SDEQKQRLAAALSRIYGRPVHLNSEVDPS 240 (271)
T ss_pred HHHhCCChhhHHHH--HHHHHHHHHHH-cCeeEEEEEecCCC---------CHHHHHHHHHHHHHHHCCceEEEeeECcc
Confidence 44455544444444 34455555444 34556666665443 23566555554333334679999999987
Q ss_pred ccceEEEecCCeEEEeC
Q psy11809 185 LHDREIVLSNDWVIKIG 201 (240)
Q Consensus 185 iHDR~I~~dnGw~I~ig 201 (240)
| =-|.+|++|
T Consensus 241 L-------IGGivI~vG 250 (271)
T PRK13430 241 V-------LGGMRVQVG 250 (271)
T ss_pred c-------cCcEEEEEC
Confidence 5 357777776
No 48
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=53.80 E-value=12 Score=36.67 Aligned_cols=35 Identities=26% Similarity=0.411 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCCeEEEeCCccccccc
Q psy11809 158 KQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCH 209 (240)
Q Consensus 158 ~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw~I~igRGLd~fq~ 209 (240)
+-.+.|+++.+-|...||.+ .+|. +|=||||||..
T Consensus 239 e~~~~~~~v~~~L~~~g~~~--~id~---------------~lvRGLDYYtg 273 (429)
T COG0124 239 ESLEHLEELLALLDALGISY--EIDP---------------SLVRGLDYYTG 273 (429)
T ss_pred HHHHHHHHHHHHHHHcCCCE--EEcc---------------ceecchhhccc
Confidence 56788999999999999774 4554 35799999986
No 49
>cd09239 BRO1_HD-PTP_like Protein-interacting, N-terminal, Bro1-like domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains. This family contains the N-terminal, Bro1-like domain of mammalian His-Domain type N23 protein tyrosine phosphatase (HD-PTP) and related domains. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. HD-PTP participates in cell migration and endosomal trafficking. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-l
Probab=53.32 E-value=52 Score=31.34 Aligned_cols=36 Identities=17% Similarity=0.235 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhc
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVR 37 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK 37 (240)
|+..-..|..++.+++|.||+..++.|.+.+-.+.+
T Consensus 252 A~A~y~~a~~~~~~~k~Ge~Ia~L~~A~~~l~~a~~ 287 (361)
T cd09239 252 SIAHLHMGKQSEEQQKMGERVAYYQLANDKLEEAIK 287 (361)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555667888889999999999999999998877764
No 50
>cd09242 BRO1_ScBro1_like Protein-interacting, N-terminal, Bro1-like domain of Saccharomyces cerevisiae Bro1 and related proteins. This family contains the N-terminal, Bro1-like domain of Saccharomyces cerevisiae Bro1 and related proteins. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Saccharomyces cerevisiae Rim20 (also known as PalA), Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Bro1 participates in endosomal trafficking. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. Bro1-like domains bind components of the ESCRT-III complex: Snf7 in the
Probab=52.27 E-value=49 Score=31.14 Aligned_cols=36 Identities=14% Similarity=0.272 Sum_probs=30.3
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhc
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVR 37 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK 37 (240)
|...-..|..++.+++|.||+..++.|.+.+..+.+
T Consensus 244 A~A~y~~a~~~~~~~k~GeaIa~L~~A~~~l~~a~~ 279 (348)
T cd09242 244 SLAAYYHALALEAAGKYGEAIAYLTQAESILKEANP 279 (348)
T ss_pred HHHHHHHHHHhHHhccHHHHHHHHHHHHHHHHHHHH
Confidence 455567788889999999999999999998877765
No 51
>cd09246 BRO1_Alix_like_1 Protein-interacting, N-terminal, Bro1-like domain of an Uncharacterized family of the BRO1_Alix_like superfamily. This domain family is comprised of uncharacterized proteins. It belongs to the BRO1_Alix_like superfamily which includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20 and Rim23 interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix 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 and Bro
Probab=52.25 E-value=57 Score=30.80 Aligned_cols=65 Identities=17% Similarity=0.172 Sum_probs=43.0
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCC---CChhh---HHHHHHHHHHHHHHHHHHHHHh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGL---SNKGD---QQKIRDKIETYINRAEVLKGKL 66 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e---~d~~~---K~~lr~Ki~eYl~RAE~LK~~l 66 (240)
|...-..|..+..+++|.||+..++.|.+.+..+.+.- +.+.. -+.+...|++-+++||.==+.+
T Consensus 247 A~A~~~~a~~~~~~~k~GeaIa~L~~A~~~l~~a~k~~~~~~~~~~~~~~~~l~~~v~~~l~~aekdNd~I 317 (353)
T cd09246 247 AEALYRAAKDLHEKEDIGEEIARLRAASDALAEARKQAKGVNGDELIEAVSELEQVINELLERAEKENDCV 317 (353)
T ss_pred HHHHHHHHHHhHHhcchHHHHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 55566788888999999999999999999887777543 21122 2224445555555555544443
No 52
>KOG1840|consensus
Probab=51.84 E-value=68 Score=32.26 Aligned_cols=57 Identities=23% Similarity=0.362 Sum_probs=45.4
Q ss_pred HHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHH------------HHHHHHHHHHHHHHHh
Q psy11809 9 AVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRD------------KIETYINRAEVLKGKL 66 (240)
Q Consensus 9 AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~------------Ki~eYl~RAE~LK~~l 66 (240)
|+-+=+.++|.||..+|++|+..+-. +.++.+|..-..+-+ ...+|++||=+|.+.+
T Consensus 248 a~~y~~~~k~~eAv~ly~~AL~i~e~-~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~ 316 (508)
T KOG1840|consen 248 ALVYRSLGKYDEAVNLYEEALTIREE-VFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKL 316 (508)
T ss_pred HHHHHHhccHHHHHHHHHHHHHHHHH-hcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHh
Confidence 44556789999999999999986665 457788888776664 5788999999998873
No 53
>PLN02291 phospho-2-dehydro-3-deoxyheptonate aldolase
Probab=51.68 E-value=43 Score=33.45 Aligned_cols=71 Identities=13% Similarity=0.195 Sum_probs=58.0
Q ss_pred hHHhhHHHHHHHHHhcCCCcc-eEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecC
Q psy11809 116 HQCYNFLQFCELAIKNCKNVK-RINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSN 194 (240)
Q Consensus 116 hQ~~N~~~f~E~~v~~~~~~~-~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dn 194 (240)
-.-..++++|+.| ++.++. ++.|||..-.+. -.+.|-.|-+.....|-...|..|+ +|---+.+++
T Consensus 310 ~~pdel~~L~~~L--nP~~epGRlTLI~RmGa~k----------V~~~LP~Li~aV~~~G~~VvW~cDP-MHGNT~~t~~ 376 (474)
T PLN02291 310 MDPEELVKLIEIL--NPQNKPGRLTIIVRMGAEK----------LRVKLPHLIRAVRRAGQIVTWVSDP-MHGNTIKAPS 376 (474)
T ss_pred CCHHHHHHHHHHh--CCCCCCceEEEEeccchHH----------HHHHHHHHHHHHHHcCCceEEeecC-CCCCceeCCC
Confidence 3455689999988 455555 999999865433 5678999999999999999999997 9999999999
Q ss_pred CeEEE
Q psy11809 195 DWVIK 199 (240)
Q Consensus 195 Gw~I~ 199 (240)
|.+.+
T Consensus 377 G~KTR 381 (474)
T PLN02291 377 GLKTR 381 (474)
T ss_pred CccCC
Confidence 98753
No 54
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=51.58 E-value=23 Score=20.42 Aligned_cols=26 Identities=19% Similarity=0.286 Sum_probs=20.6
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 5 LLIRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 5 ll~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
+...|.-..+.|++++|...|++-++
T Consensus 3 ~~~~a~~~~~~g~~~~A~~~~~~~~~ 28 (33)
T PF13174_consen 3 LYRLARCYYKLGDYDEAIEYFQRLIK 28 (33)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHH
Confidence 45667777888999999998888665
No 55
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=51.20 E-value=23 Score=28.49 Aligned_cols=26 Identities=27% Similarity=0.362 Sum_probs=23.6
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 5 LLIRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 5 ll~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
.-..|-..|..|+.++|+.+|+++++
T Consensus 4 ~~~~A~a~d~~G~~~~Ai~~Y~~Al~ 29 (120)
T PF12688_consen 4 LYELAWAHDSLGREEEAIPLYRRALA 29 (120)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence 45678999999999999999999987
No 56
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=51.01 E-value=35 Score=21.82 Aligned_cols=26 Identities=15% Similarity=0.124 Sum_probs=21.6
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 5 LLIRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 5 ll~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
...-|-.+-..|++++|..+|+.+++
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~ 29 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALA 29 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 34567778889999999999999886
No 57
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=50.88 E-value=30 Score=23.74 Aligned_cols=13 Identities=15% Similarity=0.220 Sum_probs=5.1
Q ss_pred cCCCChhhHHHHH
Q psy11809 37 RGLSNKGDQQKIR 49 (240)
Q Consensus 37 K~e~d~~~K~~lr 49 (240)
+..|++.....++
T Consensus 57 ~~~p~~~~~~~~~ 69 (73)
T PF13371_consen 57 ELSPDDPDARALR 69 (73)
T ss_pred HHCCCcHHHHHHH
Confidence 3344444333333
No 58
>KOG4514|consensus
Probab=49.56 E-value=35 Score=30.35 Aligned_cols=45 Identities=11% Similarity=0.338 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhhhhcc
Q psy11809 20 ESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMG 73 (240)
Q Consensus 20 EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ke~g 73 (240)
+-+.+|..|++.|-..+ |...|..|. .+.|||+|-+.++.....+
T Consensus 161 ~~vq~yr~aV~kl~d~~----DanIK~~Y~-----lLAk~EEi~ksm~pv~~La 205 (222)
T KOG4514|consen 161 DNVQVYRNAVNKLTDTL----DANIKCQYQ-----LLAKAEEITKSMKPVEQLA 205 (222)
T ss_pred hHHHHHHHHHHHHHHHh----hhhhHHHHH-----HHHHHHHHHHHHhhHHHHH
Confidence 56789999999998776 555665554 3899999988887654433
No 59
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=47.77 E-value=28 Score=32.70 Aligned_cols=29 Identities=17% Similarity=0.166 Sum_probs=26.6
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
|.++..+|.++=..|+|.+|+.+|.+||+
T Consensus 2 ~~~l~~~a~~a~~~~~~~~Ai~~~~~Al~ 30 (356)
T PLN03088 2 AKDLEDKAKEAFVDDDFALAVDLYTQAID 30 (356)
T ss_pred cHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 66788999999999999999999999996
No 60
>KOG4648|consensus
Probab=46.72 E-value=14 Score=36.17 Aligned_cols=20 Identities=15% Similarity=0.476 Sum_probs=16.7
Q ss_pred HHhcCCHHHHHHHHHHHHHH
Q psy11809 12 LDERGRWTESLTFYQDGVTE 31 (240)
Q Consensus 12 ~D~~g~y~EAl~lY~eaI~~ 31 (240)
+=+.|+|.||+.||..||+.
T Consensus 107 yFKQgKy~EAIDCYs~~ia~ 126 (536)
T KOG4648|consen 107 YFKQGKYEEAIDCYSTAIAV 126 (536)
T ss_pred hhhccchhHHHHHhhhhhcc
Confidence 45678899999999999863
No 61
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=46.12 E-value=39 Score=22.92 Aligned_cols=29 Identities=24% Similarity=0.441 Sum_probs=16.9
Q ss_pred hHHHHHHHHHHH---------------hcC-CHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELD---------------ERG-RWTESLTFYQDGVT 30 (240)
Q Consensus 2 Ai~ll~~AVe~D---------------~~g-~y~EAl~lY~eaI~ 30 (240)
|+....+|++.| ..| +|.+|+..|..||+
T Consensus 22 A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 22 AIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp HHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 555556666654 345 46666666666654
No 62
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=45.73 E-value=62 Score=28.93 Aligned_cols=51 Identities=22% Similarity=0.367 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhhhhccCc
Q psy11809 21 SLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMGNY 75 (240)
Q Consensus 21 Al~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ke~g~~ 75 (240)
=+..|.++++-++.-++.+++...++ .+.+|-.|.+.||..++..+.....
T Consensus 28 rl~~yv~~L~~~l~~L~~~~~~~s~e----~l~eY~~ri~~Lk~l~~~~~~~s~~ 78 (251)
T PF09753_consen 28 RLEKYVETLREMLEELEESLSKPSKE----VLNEYSERIDFLKGLIEAEKLESPT 78 (251)
T ss_pred hHHHHHHHHHHHHHHHHhccCCCCHH----HHHHHHHHHHHHHHHHhcccccccc
Confidence 37789999999999998884444444 4478999999999999876654333
No 63
>KOG0543|consensus
Probab=45.35 E-value=64 Score=31.59 Aligned_cols=66 Identities=20% Similarity=0.237 Sum_probs=45.5
Q ss_pred hHHHHHHHHHHHh--------cCCHHHHHHHHHHHHHHHHHHhcCCCChhh-H---HHHHHHHHHHHHHHHHH-HHHhh
Q psy11809 2 AQFLLIRAVELDE--------RGRWTESLTFYQDGVTELLKHVRGLSNKGD-Q---QKIRDKIETYINRAEVL-KGKLD 67 (240)
Q Consensus 2 Ai~ll~~AVe~D~--------~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~-K---~~lr~Ki~eYl~RAE~L-K~~l~ 67 (240)
|+....++.++|. .|+--.|+.=|..|+..|.++++.+|+.+. + ..+++|+++|.++..++ +.++.
T Consensus 276 Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~ 354 (397)
T KOG0543|consen 276 AIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANMFA 354 (397)
T ss_pred HHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5666677777765 455667777889999999999999876533 2 23677888888874433 44443
No 64
>KOG2003|consensus
Probab=45.13 E-value=1.1e+02 Score=31.30 Aligned_cols=59 Identities=17% Similarity=0.261 Sum_probs=32.4
Q ss_pred HHHHHhcCCHHHHHHHHHHHHHHH-------HHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy11809 9 AVELDERGRWTESLTFYQDGVTEL-------LKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEK 69 (240)
Q Consensus 9 AVe~D~~g~y~EAl~lY~eaI~~L-------l~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ 69 (240)
|-=+-..|+|+.|+.+|++--..| --.++.-.|--.++. +....=++|||++|+.-...
T Consensus 667 asc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl~d~--key~~klek~eki~eir~qr 732 (840)
T KOG2003|consen 667 ASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGLKDA--KEYADKLEKAEKIKEIREQR 732 (840)
T ss_pred HHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccchhH--HHHHHHHHHHHHHHHHHHHh
Confidence 334578999999999998643322 112222223222221 11122267899998875543
No 65
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=44.10 E-value=19 Score=24.41 Aligned_cols=17 Identities=12% Similarity=0.530 Sum_probs=13.6
Q ss_pred hcCCHHHHHHHHHHHHH
Q psy11809 14 ERGRWTESLTFYQDGVT 30 (240)
Q Consensus 14 ~~g~y~EAl~lY~eaI~ 30 (240)
+.|+|++|+.+|+++++
T Consensus 3 ~~~~~~~A~~~~~~~l~ 19 (68)
T PF14559_consen 3 KQGDYDEAIELLEKALQ 19 (68)
T ss_dssp HTTHHHHHHHHHHHHHH
T ss_pred hccCHHHHHHHHHHHHH
Confidence 46888888888888775
No 66
>PF03097 BRO1: BRO1-like domain; InterPro: IPR004328 The BRO1 domain has about 390 residues and occurs in a number of eukaryotic proteins such as yeast BRO1 and human PDCD6IP/Alix that are involved in protein targeting to the vacuole or lysosome. The BRO1 domain of fungal and mammalian proteins binds with multivesicular body components (ESCRT-III proteins) such as yeast Snf7 and mammalian CHMP4b, and can function to target BRO1 domain-containing proteins to endosomes [, , ]. The BRO1 domain has a boomerang shape composed of 14 alpha-helices and 3 beta-sheets. It contains a TPR-like substructure in the central part []. The C terminus is less conserved. This domain is found in a number of signal transduction proteins. The Saccharomyces cerevisiae protein Bro1p is required for sorting endocytic cargo to the lumen of multivesicular bodies (MVBs). Alix appears to be the mammalian orthologue of Bro1p []. Alix is also involved in the ESCRT pathway, which facilitates membrane fission events during enveloped virus budding, multivesicular body formation, and cytokinesis. To promote HIV budding and cytokinesis, the ALIX protein must bind and recruit CHMP4 subunits of the ESCRT-III complex. The Bro1 domain of ALIX binds specifically to C-terminal residues of the human CHMP4 proteins [, ]. Likewise, the Homo sapiens Brox protein has a Bro1 domain. CHMP4 proteins are components of endosomal sorting complex required for transport III, via their Bro1 domains and to play roles in sorting of ubiquitinated cargoes []. Alix also binds to the nucleocapsid (NC) domain of HIV-1 Gag. Alix and the Bro1 domain can be specifically packaged into viral particles via the NC []. Myopic is the Drosophila homologue of the Bro1-domain tyrosine phosphatase HD-PTP, and it promotes the epidermal growth factor receptor (EGFR) signalling []. The Caenorhabditis elegans Bro1-domain protein, ALX-1, interacts with LIN-12/Notch. The EGO-2 protein also contains a Bro1 domain. Notch-type signalling mediates numerous inductive events during development [].; PDB: 2VSV_A 1ZB1_A 3UM3_A 3ULY_A 3R9M_A 3ZXP_A 3UM2_A 3UM0_A 3UM1_D 3RAU_B ....
Probab=44.10 E-value=2.1e+02 Score=26.65 Aligned_cols=66 Identities=17% Similarity=0.165 Sum_probs=50.7
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCC-------CChhhHHHHHHHHHHHHHHHHHHHHHhh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGL-------SNKGDQQKIRDKIETYINRAEVLKGKLD 67 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e-------~d~~~K~~lr~Ki~eYl~RAE~LK~~l~ 67 (240)
|+.....|.....+++|.+|+.+++.|.+.+-.+.+.. .-...-..+.+.+..-++++|+-=+.+-
T Consensus 239 A~A~y~~A~~~~~~~~~G~aia~L~~A~~~l~~a~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~~kdNd~Iy 311 (377)
T PF03097_consen 239 ALAHYHQALAAEEAKKYGEAIARLRRAEEALKEASKLAKKCSKSSSLQDDLKSLLDQIQEKLEKAEKDNDFIY 311 (377)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHCCCHSCCSTTTHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhhhhcccchHHHHHHHHHHHHHHHHHHHHHHhcccccc
Confidence 45556788889999999999999999999999888542 2244456677888888888888877664
No 67
>KOG3906|consensus
Probab=43.74 E-value=1.1e+02 Score=28.95 Aligned_cols=102 Identities=18% Similarity=0.284 Sum_probs=67.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhcCCCCccchHHhHH
Q psy11809 16 GRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMGNYHEQIEIANNEKGVTYEKLFG 95 (240)
Q Consensus 16 g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ke~g~~~~~~~i~en~~G~sY~~lFg 95 (240)
++|++.+.-|.++. +..+. +|..-+..-.++.+|-.+||.+...+... .|+| .|..|.+-.||..|=|
T Consensus 219 ~K~eksv~r~Le~~--~~~a~----~~~~~eek~~qlae~~K~~ev~~SifDp~-----~He~-lir~G~RrlShrAlqG 286 (399)
T KOG3906|consen 219 IKYEKSVNRYLEDL--AKQAA----DPSNTEEKAKQLAEYHKTAEVFQSIFDPR-----QHEQ-LIRNGNRRLSHRALQG 286 (399)
T ss_pred HHHHHHHHHHHHHH--HHHhh----CCcchHHHHHHHHHHHHHHHHHHHhcChH-----HHHH-HHhccchhhchhhhcC
Confidence 35666666666543 23332 23333334556799999999999988653 3444 3678889999986554
Q ss_pred HhhcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCC
Q psy11809 96 RFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCK 133 (240)
Q Consensus 96 ~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~ 133 (240)
.-|- -.--++|-..++||+.-|+.=+.-|.....
T Consensus 287 A~MI----yFYRdePRFsqP~QlLT~LMDIDSL~TKWR 320 (399)
T KOG3906|consen 287 AMMI----YFYRDEPRFSQPYQLLTFLMDIDSLFTKWR 320 (399)
T ss_pred cEEE----EEecCCCcccCcHHHHHHHHhHHHHHHHHh
Confidence 4332 234579999999999998777777766644
No 68
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=43.29 E-value=37 Score=25.90 Aligned_cols=16 Identities=13% Similarity=0.179 Sum_probs=7.7
Q ss_pred hcCCHHHHHHHHHHHH
Q psy11809 14 ERGRWTESLTFYQDGV 29 (240)
Q Consensus 14 ~~g~y~EAl~lY~eaI 29 (240)
..|++.+|+..|.+++
T Consensus 63 ~~~~~~~A~~~~~~~~ 78 (135)
T TIGR02552 63 MLKEYEEAIDAYALAA 78 (135)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3445555555554444
No 69
>COG3200 AroG 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=42.48 E-value=72 Score=31.19 Aligned_cols=69 Identities=16% Similarity=0.171 Sum_probs=51.5
Q ss_pred HhhHHHHHHHHHhcCCCcc-eEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCCe
Q psy11809 118 CYNFLQFCELAIKNCKNVK-RINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDW 196 (240)
Q Consensus 118 ~~N~~~f~E~~v~~~~~~~-~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw 196 (240)
-.+++++|+.|- +.|.. +.+|+-... .++-.+.|-.|-+....-|-.+-|.-|+ +|--.|..+||+
T Consensus 296 ~d~ll~l~d~Ln--P~nepGRLtLi~RmG----------~dKV~d~LP~li~av~~eG~~VvWs~DP-MHGNTi~a~~gy 362 (445)
T COG3200 296 PDELLELIDRLN--PHNEPGRLTLIARMG----------ADKVGDRLPPLVEAVEAEGHQVIWSSDP-MHGNTIKASTGY 362 (445)
T ss_pred HHHHHHHHHhcC--CCCCCceEEeehhhc----------chHHhhhhhHHHHHHHHcCCceEEecCC-CCCceeecCCCC
Confidence 345666666652 33333 666766543 3456888999999999999999999887 999999999999
Q ss_pred EEE
Q psy11809 197 VIK 199 (240)
Q Consensus 197 ~I~ 199 (240)
+-+
T Consensus 363 KTR 365 (445)
T COG3200 363 KTR 365 (445)
T ss_pred ccc
Confidence 854
No 70
>PF03799 FtsQ: Cell division protein FtsQ; InterPro: IPR005548 FtsQ is one of several cell division proteins. FtsQ interacts with other Fts proteins, reviewed in []. The precise function of FtsQ is unknown.; PDB: 2VH1_B 2VH2_B 2ALJ_A 1YR1_A.
Probab=42.32 E-value=80 Score=23.59 Aligned_cols=44 Identities=20% Similarity=0.321 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhccCcEE-EEEecCCccceEEEecCCeEEEeCCc
Q psy11809 159 QEENLKQLQESLRKMKITL-NINYSNTLHDREIVLSNDWVIKIGRG 203 (240)
Q Consensus 159 q~~~l~~i~~sl~~~gi~l-~~~~~~tiHDR~I~~dnGw~I~igRG 203 (240)
..+.+.++.+-+....-.+ .+.+++ -.+=.|.++||..|++|+.
T Consensus 43 ~~~~~~~l~~~~~~~~~~i~~i~~~~-~~~~~l~l~dg~~V~lg~~ 87 (117)
T PF03799_consen 43 LLELLRELAALPPPLRSQISEISYDP-RGSWTLYLDDGVEVKLGRS 87 (117)
T ss_dssp HHHHHHHHHHHHHHTTHS-SEEEEET-TSCEEEE-SSS-EEEEESS
T ss_pred HHHHHHHHHHHHHHHhceeeEEEECC-CCeEEEEECCCcEEEEcCc
Confidence 3555555544444433222 122332 3335889999999999998
No 71
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=42.15 E-value=56 Score=23.35 Aligned_cols=50 Identities=20% Similarity=0.199 Sum_probs=32.2
Q ss_pred HHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEe
Q psy11809 122 LQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINY 181 (240)
Q Consensus 122 ~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~ 181 (240)
++|.+.+.... +.|+|++..+..- +.--.+.-..+.+.|.+.||++.+.-
T Consensus 12 ~E~A~~l~~~g---~~vtli~~~~~~~-------~~~~~~~~~~~~~~l~~~gV~v~~~~ 61 (80)
T PF00070_consen 12 IELAEALAELG---KEVTLIERSDRLL-------PGFDPDAAKILEEYLRKRGVEVHTNT 61 (80)
T ss_dssp HHHHHHHHHTT---SEEEEEESSSSSS-------TTSSHHHHHHHHHHHHHTTEEEEESE
T ss_pred HHHHHHHHHhC---cEEEEEeccchhh-------hhcCHHHHHHHHHHHHHCCCEEEeCC
Confidence 45556665443 5799999888643 11124455666778888999987544
No 72
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=42.11 E-value=2.5e+02 Score=24.92 Aligned_cols=134 Identities=13% Similarity=0.109 Sum_probs=78.1
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHH-------HHHHHHHHHHHHHHHHhhhhhhccCcc
Q psy11809 4 FLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIR-------DKIETYINRAEVLKGKLDEKKKMGNYH 76 (240)
Q Consensus 4 ~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr-------~Ki~eYl~RAE~LK~~l~~~ke~g~~~ 76 (240)
++-.+|.+.=++|+|.+|+..|.+.+. ..|++.....-. -+.++|..-++..+..++..-....
T Consensus 34 ~~Y~~A~~~~~~g~y~~Ai~~f~~l~~-------~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~-- 104 (243)
T PRK10866 34 EIYATAQQKLQDGNWKQAITQLEALDN-------RYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPN-- 104 (243)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHH-------hCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCc--
Confidence 344678888888999988888887554 223322222111 3456666666667667654211111
Q ss_pred hhhhhcCCCCccchHH----hHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCcc
Q psy11809 77 EQIEIANNEKGVTYEK----LFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSN 152 (240)
Q Consensus 77 ~~~~i~en~~G~sY~~----lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~ 152 (240)
+.-..=..|.|+.. .|.+|+. .|+.-|...+.++=+.-++.+|+.-|+ ..+
T Consensus 105 --~~~a~Y~~g~~~~~~~~~~~~~~~~--------~~~~~rD~~~~~~A~~~~~~li~~yP~------------S~y--- 159 (243)
T PRK10866 105 --IDYVLYMRGLTNMALDDSALQGFFG--------VDRSDRDPQHARAAFRDFSKLVRGYPN------------SQY--- 159 (243)
T ss_pred --hHHHHHHHHHhhhhcchhhhhhccC--------CCccccCHHHHHHHHHHHHHHHHHCcC------------Chh---
Confidence 11111223444322 2344432 366778888888888888888877554 122
Q ss_pred ccchHHHHHHHHHHHHHHhccC
Q psy11809 153 KTARVKQEENLKQLQESLRKMK 174 (240)
Q Consensus 153 ~~~~~~q~~~l~~i~~sl~~~g 174 (240)
.++-...|..|+.-|+.+-
T Consensus 160 ---a~~A~~rl~~l~~~la~~e 178 (243)
T PRK10866 160 ---TTDATKRLVFLKDRLAKYE 178 (243)
T ss_pred ---HHHHHHHHHHHHHHHHHHH
Confidence 5566678888888887653
No 73
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=41.85 E-value=54 Score=22.03 Aligned_cols=21 Identities=19% Similarity=0.493 Sum_probs=10.4
Q ss_pred HHHHHhcCCHHHHHHHHHHHH
Q psy11809 9 AVELDERGRWTESLTFYQDGV 29 (240)
Q Consensus 9 AVe~D~~g~y~EAl~lY~eaI 29 (240)
|..+=+.|+|++|+.+|++++
T Consensus 4 a~~~~~~g~~~~A~~~~~~~l 24 (65)
T PF13432_consen 4 ARALYQQGDYDEAIAAFEQAL 24 (65)
T ss_dssp HHHHHHCTHHHHHHHHHHHHH
T ss_pred HHHHHHcCCHHHHHHHHHHHH
Confidence 444444555555555555443
No 74
>KOG0553|consensus
Probab=41.70 E-value=27 Score=33.00 Aligned_cols=31 Identities=19% Similarity=0.259 Sum_probs=0.0
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTE 31 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~ 31 (240)
+|-+|=.+.=++=++++|+||+.+|.+||++
T Consensus 80 ~AE~LK~eGN~~m~~~~Y~eAv~kY~~AI~l 110 (304)
T KOG0553|consen 80 LAESLKNEGNKLMKNKDYQEAVDKYTEAIEL 110 (304)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
No 75
>PF02255 PTS_IIA: PTS system, Lactose/Cellobiose specific IIA subunit; InterPro: IPR003188 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIA PTS system enzymes. This family of proteins normally function as a homotrimer, stabilised by a centrally located metal ion []. Separation into subunits is thought to occur after phosphorylation.; GO: 0005351 sugar:hydrogen symporter activity, 0006810 transport, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016020 membrane; PDB: 3L8R_D 2E2A_B 1E2A_C 3K1S_C 2LRK_C 2LRL_A 2WY2_A 1WCR_A 2WWV_C.
Probab=41.23 E-value=74 Score=24.74 Aligned_cols=34 Identities=26% Similarity=0.401 Sum_probs=27.8
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKH 35 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~ 35 (240)
|.+.+-+|++.=++|+|++|-.+..+|=+.|..+
T Consensus 14 Ars~~~eAl~~a~~~~fe~A~~~l~~a~~~l~~A 47 (96)
T PF02255_consen 14 ARSLAMEALKAAREGDFEEAEELLKEADEELLKA 47 (96)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence 5677888999999999999999999888877765
No 76
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=40.75 E-value=98 Score=26.49 Aligned_cols=19 Identities=26% Similarity=0.358 Sum_probs=11.5
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHH
Q psy11809 40 SNKGDQQKIRDKIETYINRAEVLK 63 (240)
Q Consensus 40 ~d~~~K~~lr~Ki~eYl~RAE~LK 63 (240)
++..+++.++ . +++|+.+.
T Consensus 176 ~~~~r~~~i~-~----i~~a~~~~ 194 (198)
T PRK10370 176 PRVNRTQLVE-S----INMAKLLQ 194 (198)
T ss_pred CCccHHHHHH-H----HHHHHHHh
Confidence 5666666662 2 67777764
No 77
>cd00138 PLDc Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent. Phosphatidic acid is a compound that is heavily involved in signal transduction. The common features of the family members are that they can bind to a phosphodiester moiety, and that most of these enzymes are active as bi-lobed monomers or dimers.
Probab=40.67 E-value=1.9e+02 Score=23.20 Aligned_cols=104 Identities=9% Similarity=0.096 Sum_probs=63.3
Q ss_pred CCCccchHHhHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHH
Q psy11809 84 NEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENL 163 (240)
Q Consensus 84 n~~G~sY~~lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l 163 (240)
...|.++...+-..|...-++|.|+-||+...- -.-.-.+++.|.+.+..=..|++++....... .......+
T Consensus 16 ~~~~~~~~~~i~~~I~~A~~~I~i~~~~~~~~~-~~~~~~l~~~L~~a~~rGv~V~il~~~~~~~~------~~~~~~~~ 88 (176)
T cd00138 16 RVGGRSDLDALLEAISNAKKSIYIASFYLSPLI-TEYGPVILDALLAAARRGVKVRILVDEWSNTD------LKISSAYL 88 (176)
T ss_pred CcCcchHHHHHHHHHHhhheEEEEEEeEecccc-cccchHHHHHHHHHHHCCCEEEEEEcccccCC------chHHHHHH
Confidence 346667777777888776789999999888521 00012233344444333457999988765441 12445556
Q ss_pred HHHHHHHhccCcEEEEEe-----cCCccceEEEecCC
Q psy11809 164 KQLQESLRKMKITLNINY-----SNTLHDREIVLSND 195 (240)
Q Consensus 164 ~~i~~sl~~~gi~l~~~~-----~~tiHDR~I~~dnG 195 (240)
..|.+.+ ..||.+.+-- ....|..-+++|+-
T Consensus 89 ~~l~~~~-~~~i~~~~~~~~~~~~~~~H~K~~iiD~~ 124 (176)
T cd00138 89 DSLRALL-DIGVRVFLIRTDKTYGGVLHTKLVIVDDE 124 (176)
T ss_pred HHHHHhh-cCceEEEEEcCCcccccceeeeEEEEcCC
Confidence 6665543 3467765321 25689998988875
No 78
>cd09243 BRO1_Brox_like Protein-interacting Bro1-like domain of human Brox1 and related proteins. This family contains the Bro1-like domain of a single-domain protein, human Brox, and related domains. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. Bro1-like domains bind components of the ESCRT-III complex: CHMP4 in the case of Brox. Human Brox can bind to human immunodeficiency virus type 1 (
Probab=40.40 E-value=1.5e+02 Score=28.31 Aligned_cols=65 Identities=12% Similarity=0.005 Sum_probs=43.1
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcC--------CCCh-------hhHHHHHHHHHHHHHHHHHHHHHh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRG--------LSNK-------GDQQKIRDKIETYINRAEVLKGKL 66 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~--------e~d~-------~~K~~lr~Ki~eYl~RAE~LK~~l 66 (240)
|...-..|..++.+++|-||+.+++.|.+.+-.+.+. .++. .--+.+...|+..++|||.-=+++
T Consensus 248 A~A~y~~a~~l~e~~k~GeaIa~L~~A~~~~k~a~~~~k~y~~~~~~~~~~~~~~~~~~~~l~~~I~~~L~~aeKDNdfI 327 (353)
T cd09243 248 AYAYCYHGETLLAKDKCGEAIRSLQESEKLYNKAEALCKEYAKTKGPGTTAKPDQHLFFRKLGPLVKRTLEKCERENGFI 327 (353)
T ss_pred HHHHHHHHHHhHhcchHHHHHHHHHHHHHHHHHHHHHHHhhhhccCccccccchhhHHHHHHHHHHHHHHHHHhhhhcee
Confidence 4555667888899999999999999999977665321 1111 112235567777777776655554
No 79
>cd00215 PTS_IIA_lac PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. This family of proteins normally function as a homotrimer, stabilized by a centrally located metal ion. Separation into subunits is thought to occur after phosphorylation.
Probab=40.06 E-value=78 Score=24.75 Aligned_cols=34 Identities=15% Similarity=0.248 Sum_probs=27.7
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKH 35 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~ 35 (240)
|.+.+-+|++.=++|+|++|-.+..+|=+.|..+
T Consensus 15 Ars~~~eAl~~a~~g~fe~A~~~l~ea~~~l~~A 48 (97)
T cd00215 15 ARSKALEALKAAKEGDFAEAEELLEEANDSLNEA 48 (97)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence 6677888888888999998888888887777655
No 80
>PRK10454 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIA; Provisional
Probab=39.84 E-value=74 Score=25.79 Aligned_cols=34 Identities=15% Similarity=0.211 Sum_probs=28.2
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKH 35 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~ 35 (240)
|.+.+-+|++.=++|+|++|-.+..+|=+.|..+
T Consensus 31 ArS~~~eAl~~Ak~gdfe~A~~~l~eA~e~l~~A 64 (115)
T PRK10454 31 ARSLAYAALKQAKQGDFAAAKAMMDQSRMALNEA 64 (115)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence 6678888899999999999988888888777655
No 81
>PRK09591 celC cellobiose phosphotransferase system IIA component; Reviewed
Probab=39.75 E-value=78 Score=25.11 Aligned_cols=34 Identities=18% Similarity=0.124 Sum_probs=28.5
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKH 35 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~ 35 (240)
|.+.+-+|++.=++|+|++|-.+..+|=+.|..+
T Consensus 20 Ars~~~eAl~~ak~gdf~~A~~~l~eA~~~l~~A 53 (104)
T PRK09591 20 ARTEVHEAFAAMREGNFDLAEQKLNQSNEELLEA 53 (104)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence 6678888999999999999999888888777655
No 82
>cd09034 BRO1_Alix_like Protein-interacting Bro1-like domain of mammalian Alix and related domains. This superfamily includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and Rhophilin-2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, and related domains. Alix, HD-PTP, Brox, Bro1 and Rim20 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
Probab=39.68 E-value=94 Score=28.60 Aligned_cols=65 Identities=23% Similarity=0.280 Sum_probs=43.1
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCCh-----hhHHHHHHHHHHHHHHHHHHHHHh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNK-----GDQQKIRDKIETYINRAEVLKGKL 66 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~-----~~K~~lr~Ki~eYl~RAE~LK~~l 66 (240)
|+.....|..++..+++.+|+.+++.|...+-.+.+..... ..-+.+.++|..-+++||.--+.+
T Consensus 251 a~a~~~~a~~~~e~~~~G~aia~L~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~~kdNd~I 320 (345)
T cd09034 251 ALAYYYHGLKLDEANKIGEAIARLQAALELLKESERLCKSFLLDVWGNLKKLKEKIEKELEKAERENDFI 320 (345)
T ss_pred HHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHhhhhHh
Confidence 55566778888999999999999999999777776532111 112335555555555555555544
No 83
>PF05168 HEPN: HEPN domain; InterPro: IPR007842 The HEPN (higher eukaryotes and prokaryotes nucleotide-binding) domain is a region of 110 residues found in the C terminus of sacsin, a chaperonin implicated in an early-onset neurodegenerative disease in human, and in many bacterial and archeabacterial proteins. There are three classes of proteins with HEPN domain: Single-domain HEPN proteins found in many bacteria. Two-domain proteins with N-terminal nucleotidyltransferase (NT) and C- terminal HEPN domains. This N-terminal NT domain belongs to a large family of NTs, which includes several classes of enzymes that are responsible for some types of bacterial resistance to aminoglycosides. These enzymes deactivate various antibiotics by transferring a nucleotidyl group to the drug. A multidomain sacsin protein in genomes of fish and mammals. The HEPN domain is located at the C terminus of the protein, directly after the DnaJ domain (see PDOC00553 from PROSITEDOC). The crystal structure of the HEPN domain from the TM0613 protein of Thermotoga maritima indicates that it is structurally similar to the C-terminal all- alpha-helical domain of kanamycin nucleotidyltransferases (KNTases). It is composed of five alpha helices, three of which form an up- and-down helical bundle, with a pair of short helices on the side. The distant structural similarity suggests that the HEPN domain might be involved in nucleotide binding [].; PDB: 1O3U_A 1WOL_A 3O10_D 2HSB_A 1UFB_A.
Probab=38.66 E-value=72 Score=23.71 Aligned_cols=35 Identities=26% Similarity=0.150 Sum_probs=30.0
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHV 36 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~l 36 (240)
|.+.++.|-.+=+.|.|..|..+..+|++..++++
T Consensus 8 A~~~l~~A~~~~~~~~~~~a~~~a~~a~e~~lkAl 42 (118)
T PF05168_consen 8 AEEDLKAAEILLEEGDYNWAVFHAYQAVEKALKAL 42 (118)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 66778888888889999999999999999998886
No 84
>KOG1936|consensus
Probab=38.63 E-value=32 Score=34.34 Aligned_cols=62 Identities=26% Similarity=0.311 Sum_probs=40.3
Q ss_pred HHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCCe
Q psy11809 117 QCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDW 196 (240)
Q Consensus 117 Q~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw 196 (240)
++....+++|.+...++ +++.+. ..+-.+-|.+|=+-|...|+.=.+.||-
T Consensus 276 ~~~g~~eL~e~l~~d~~-------l~~n~~---------a~eal~dlk~Lf~y~~~fg~s~~isfDl------------- 326 (518)
T KOG1936|consen 276 SLKGLDELLEKLIADPK-------LSQNEA---------AKEALADLKQLFEYLEIFGISERISFDL------------- 326 (518)
T ss_pred hhccHHHHHHHHhcCCc-------ccccHH---------HHHHHHHHHHHHHHHHHcCCcceEEeeh-------------
Confidence 45566888888876632 111111 2234455666667788899988788875
Q ss_pred EEEeCCccccccc
Q psy11809 197 VIKIGRGLDIFCH 209 (240)
Q Consensus 197 ~I~igRGLd~fq~ 209 (240)
+|-||||||--
T Consensus 327 --SLARGLDYYTG 337 (518)
T KOG1936|consen 327 --SLARGLDYYTG 337 (518)
T ss_pred --HHhccchhhhc
Confidence 56899999974
No 85
>KOG2003|consensus
Probab=38.37 E-value=26 Score=35.49 Aligned_cols=89 Identities=18% Similarity=0.247 Sum_probs=52.6
Q ss_pred ChHHHHHHHHH---------------HHhcCCHHHHHHHHHHHHHHH------HHHhcCCCChhhHHHHHHHHHHHHHHH
Q psy11809 1 LAQFLLIRAVE---------------LDERGRWTESLTFYQDGVTEL------LKHVRGLSNKGDQQKIRDKIETYINRA 59 (240)
Q Consensus 1 ~Ai~ll~~AVe---------------~D~~g~y~EAl~lY~eaI~~L------l~~lK~e~d~~~K~~lr~Ki~eYl~RA 59 (240)
|||+++.+|+. .|+.|+...|+.||-++-.|| +.|+-.. -.-..+..|.-.|++||
T Consensus 576 qaie~~~q~~slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ay---yidtqf~ekai~y~eka 652 (840)
T KOG2003|consen 576 QAIELLMQANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAY---YIDTQFSEKAINYFEKA 652 (840)
T ss_pred HHHHHHHHhcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHH---HHhhHHHHHHHHHHHHH
Confidence 46666666654 499999999999998776655 2232111 11123778889999998
Q ss_pred HHHHHHhhhhhhccCcchhhhhcCCCCccchHHhHHHhhc
Q psy11809 60 EVLKGKLDEKKKMGNYHEQIEIANNEKGVTYEKLFGRFLD 99 (240)
Q Consensus 60 E~LK~~l~~~ke~g~~~~~~~i~en~~G~sY~~lFg~yl~ 99 (240)
--+..-..+....-...- -.+| .|++-|.-|-+
T Consensus 653 aliqp~~~kwqlmiasc~------rrsg-nyqka~d~yk~ 685 (840)
T KOG2003|consen 653 ALIQPNQSKWQLMIASCF------RRSG-NYQKAFDLYKD 685 (840)
T ss_pred HhcCccHHHHHHHHHHHH------Hhcc-cHHHHHHHHHH
Confidence 765544333221111111 1122 58888887765
No 86
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=37.72 E-value=59 Score=26.59 Aligned_cols=30 Identities=17% Similarity=0.312 Sum_probs=24.5
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTE 31 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~ 31 (240)
|......|..+-..|+|++|+.+|.+|+..
T Consensus 35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~ 64 (172)
T PRK02603 35 AFVYYRDGMSAQADGEYAEALENYEEALKL 64 (172)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 445567788888899999999999998864
No 87
>KOG0547|consensus
Probab=35.91 E-value=38 Score=34.41 Aligned_cols=28 Identities=18% Similarity=0.347 Sum_probs=21.5
Q ss_pred HHHHHHHHHHh-------cCCHHHHHHHHHHHHHH
Q psy11809 4 FLLIRAVELDE-------RGRWTESLTFYQDGVTE 31 (240)
Q Consensus 4 ~ll~~AVe~D~-------~g~y~EAl~lY~eaI~~ 31 (240)
+.++.|+++-+ +|+|.+|+.+|..||++
T Consensus 110 ~~~k~A~~lK~~GN~~f~~kkY~eAIkyY~~AI~l 144 (606)
T KOG0547|consen 110 ERLKYAAALKTKGNKFFRNKKYDEAIKYYTQAIEL 144 (606)
T ss_pred HHHHHHHHHHhhhhhhhhcccHHHHHHHHHHHHhc
Confidence 45667777655 56799999999999974
No 88
>TIGR00823 EIIA-LAC phosphotransferase system enzyme II, lactose-specific, factor III. operon. While the Lac permeases consist of two polypeptide chains (IIA and IICB), the Chb permease of E. coli consists of three (IIA, IIB and IIC). In B. subtilis, a PTS permease similar to the Chb permease of E. coli is believed to transport lichenan (a b-1,3;1,4 glucan) degradation products, oligosaccharides of 2-4 glucose units. This model is specific for the IIA subunit of the Lac PTS family.
Probab=35.52 E-value=1e+02 Score=24.22 Aligned_cols=34 Identities=12% Similarity=0.151 Sum_probs=27.0
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLKH 35 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~ 35 (240)
|.+.+-+|++.=++|+|++|-.+..+|=+.|..+
T Consensus 17 Ars~~~eAl~~a~~gdfe~A~~~l~eA~~~l~~A 50 (99)
T TIGR00823 17 ARSKALEALKAAKAGDFAKARALVEQAGMCLNEA 50 (99)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence 5677788888888888888888888877766654
No 89
>KOG1154|consensus
Probab=35.20 E-value=98 Score=28.76 Aligned_cols=39 Identities=26% Similarity=0.277 Sum_probs=33.3
Q ss_pred hHHhHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHHH
Q psy11809 90 YEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAI 129 (240)
Q Consensus 90 Y~~lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v 129 (240)
||.||..|=.- +-+|.|++|-|+.--|..|+-.=++-|+
T Consensus 104 ye~lF~Qy~~~-iAQvLvT~~Di~d~~~r~Nl~~Ti~eLL 142 (285)
T KOG1154|consen 104 YETLFTQYGIT-IAQVLVTRNDILDEQQRKNLQNTISELL 142 (285)
T ss_pred HHHHHHHhccc-hheeeecCcchhhHHHHHHHHHHHHHHH
Confidence 99999999754 8999999999999999999977665554
No 90
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=33.89 E-value=53 Score=22.08 Aligned_cols=16 Identities=6% Similarity=0.322 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHhcCCC
Q psy11809 25 YQDGVTELLKHVRGLS 40 (240)
Q Consensus 25 Y~eaI~~Ll~~lK~e~ 40 (240)
|.+|+..|-.+++..|
T Consensus 13 ~~~A~~~~~~~l~~~P 28 (65)
T PF13432_consen 13 YDEAIAAFEQALKQDP 28 (65)
T ss_dssp HHHHHHHHHHHHCCST
T ss_pred HHHHHHHHHHHHHHCC
Confidence 4555555555555443
No 91
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=33.50 E-value=1e+02 Score=24.96 Aligned_cols=30 Identities=7% Similarity=0.059 Sum_probs=24.8
Q ss_pred HhcCCHHHHHHHHHHHHHHHHHHhcCCCCh
Q psy11809 13 DERGRWTESLTFYQDGVTELLKHVRGLSNK 42 (240)
Q Consensus 13 D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~ 42 (240)
-..|++++|+..|.+|+..+-.++..+|+.
T Consensus 124 ~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~ 153 (168)
T CHL00033 124 IEQGDSEIAEAWFDQAAEYWKQAIALAPGN 153 (168)
T ss_pred HHcccHHHHHHHHHHHHHHHHHHHHhCccc
Confidence 378999999999999999998888666543
No 92
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=32.80 E-value=48 Score=31.68 Aligned_cols=39 Identities=21% Similarity=0.304 Sum_probs=28.5
Q ss_pred hHHHHHHHHHHHHHHhccCcEE-EEEecCCccceEEEecCCeEEEeCCccccccc
Q psy11809 156 RVKQEENLKQLQESLRKMKITL-NINYSNTLHDREIVLSNDWVIKIGRGLDIFCH 209 (240)
Q Consensus 156 ~~~q~~~l~~i~~sl~~~gi~l-~~~~~~tiHDR~I~~dnGw~I~igRGLd~fq~ 209 (240)
..+-.+.|.++-+.|..+|+.. .+.||. .++||||||--
T Consensus 282 ~~~al~~L~~l~~~l~~~g~~~~~v~~D~---------------~~vrgl~YYTG 321 (373)
T PRK12295 282 LDAALDRFEARLAALAARGIDLERLRFSA---------------SFGRPLDYYTG 321 (373)
T ss_pred HHHHHHHHHHHHHHHHHcCCCcceEEEec---------------ccccCCccccc
Confidence 4456777888889999999863 255554 36899999875
No 93
>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins. Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.
Probab=32.73 E-value=1.8e+02 Score=25.68 Aligned_cols=24 Identities=13% Similarity=0.239 Sum_probs=11.9
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHH
Q psy11809 40 SNKGDQQKIRDKIETYINRAEVLK 63 (240)
Q Consensus 40 ~d~~~K~~lr~Ki~eYl~RAE~LK 63 (240)
+|...-+.+-.+..+|..+|..++
T Consensus 87 ~d~~~A~~~F~kA~~~FqkAv~~~ 110 (186)
T PF06552_consen 87 PDTAEAEEYFEKATEYFQKAVDED 110 (186)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHH-
T ss_pred CChHHHHHHHHHHHHHHHHHHhcC
Confidence 344444455556666666665554
No 94
>cd09245 BRO1_UmRIM23-like Protein-interacting, Bro1-like domain of Ustilago maydis Rim23 (PalC), and related domains. This family contains the Bro1-like domain of Ustilago maydis Rim23 (also known as PalC), and related proteins. It belongs to the BRO1_Alix_like superfamily which includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23 interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Rim20 and Rim23 participate in the response to the external pH via the Rim101 pathway. Through its Bro1-like domain, Rim23 allows the interaction between the endosomal and plasma membrane complexes. Bro1-like domains are boomerang-shape, and part of the domain is a tetratricop
Probab=32.55 E-value=1.8e+02 Score=28.37 Aligned_cols=33 Identities=18% Similarity=0.242 Sum_probs=26.0
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGVTELLK 34 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~ 34 (240)
|...--.|+.++.+|++-||+...+.|...|-.
T Consensus 296 A~A~~~~g~d~~e~~k~GeaIa~L~~A~~~L~~ 328 (413)
T cd09245 296 ALACKFLGIDAGENGKVGEAIGWLRAAKKELED 328 (413)
T ss_pred HHHHHHHHHhhHhcCCHHHHHHHHHHHHHHHHH
Confidence 344445677789999999999999999986543
No 95
>smart00748 HEPN Higher Eukarytoes and Prokaryotes Nucleotide-binding domain.
Probab=32.45 E-value=1e+02 Score=23.62 Aligned_cols=36 Identities=22% Similarity=0.078 Sum_probs=31.1
Q ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q psy11809 1 LAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHV 36 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~l 36 (240)
+|.+.+..|-.+=+.|.|..|...-++|+++.++++
T Consensus 3 ~A~~~l~~A~~~~~~g~y~~a~f~aqqavEk~lKA~ 38 (113)
T smart00748 3 RAKRFLEAAKLDLEKGFYDLAAFLSQQAAELALKAL 38 (113)
T ss_pred hHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHHH
Confidence 466777888878899999999999999999998886
No 96
>PRK11449 putative deoxyribonuclease YjjV; Provisional
Probab=32.37 E-value=45 Score=30.02 Aligned_cols=74 Identities=12% Similarity=0.072 Sum_probs=46.8
Q ss_pred chhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEec
Q psy11809 114 NKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLS 193 (240)
Q Consensus 114 ~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~d 193 (240)
..+|..=|-+++|++.+.... ..||. ... ..+.++-|++.-...+..|.+ |+++.--=+-.++
T Consensus 109 ~~~Q~~vf~~ql~lA~~~~~P-v~iH~--r~a-------------~~~~~~il~~~~~~~~~i~H~-fsG~~~~a~~~l~ 171 (258)
T PRK11449 109 FERQQWLLDEQLKLAKRYDLP-VILHS--RRT-------------HDKLAMHLKRHDLPRTGVVHG-FSGSLQQAERFVQ 171 (258)
T ss_pred HHHHHHHHHHHHHHHHHhCCC-EEEEe--cCc-------------cHHHHHHHHhcCCCCCeEEEc-CCCCHHHHHHHHH
Confidence 368999999999999988554 23444 321 133444444321233567776 8888543344467
Q ss_pred CCeEEEeCCcc
Q psy11809 194 NDWVIKIGRGL 204 (240)
Q Consensus 194 nGw~I~igRGL 204 (240)
.||-|.+|--+
T Consensus 172 ~G~~iS~~g~i 182 (258)
T PRK11449 172 LGYKIGVGGTI 182 (258)
T ss_pred CCCEEEeCccc
Confidence 89999988655
No 97
>PRK13434 F0F1 ATP synthase subunit delta; Provisional
Probab=31.47 E-value=2.9e+02 Score=23.43 Aligned_cols=53 Identities=15% Similarity=0.199 Sum_probs=31.5
Q ss_pred CCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCCeEEEeC
Q psy11809 133 KNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIG 201 (240)
Q Consensus 133 ~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw~I~ig 201 (240)
.+...+.++|...-. ++|.+.+.+.=+......|.|+.+-|++| =-|++|++|
T Consensus 102 ~~~~~~~V~sA~~Ls---------~~q~~~l~~~L~k~~g~~v~l~~~vDpsL-------IGG~ii~ig 154 (184)
T PRK13434 102 KGRVRAQIVSYPSLE---------PAQVDKLGSILSEKFKSEFILEVSEDKNL-------LGGFVVQFN 154 (184)
T ss_pred cCeEEEEEEEcCCCC---------HHHHHHHHHHHHHHHCCEeEEEeeeChHH-------cCceEEEEC
Confidence 445677777664432 24444444333223335788888888864 368888887
No 98
>PF09537 DUF2383: Domain of unknown function (DUF2383); InterPro: IPR019052 This entry represents a functionally uncharacterised ferritin like domain.; PDB: 3FSE_B.
Probab=31.40 E-value=2.4e+02 Score=21.50 Aligned_cols=45 Identities=16% Similarity=0.186 Sum_probs=34.2
Q ss_pred HHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q psy11809 26 QDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKK 70 (240)
Q Consensus 26 ~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~k 70 (240)
..|++-+-.++..-.||..|..+...+.+.-.-+++|..++....
T Consensus 14 ~d~~~~Y~~a~~~~~~~~lk~~f~~~~~~~~~~~~~L~~~i~~~G 58 (111)
T PF09537_consen 14 HDGIEGYEKAAEKAEDPELKSLFQEFAQERQQHAEELQAEIQELG 58 (111)
T ss_dssp HHHHHHHHHHHHH--SHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 344555555554556899999999999999999999999997644
No 99
>KOG0543|consensus
Probab=31.10 E-value=92 Score=30.54 Aligned_cols=46 Identities=17% Similarity=0.191 Sum_probs=32.0
Q ss_pred HhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHH
Q psy11809 13 DERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRA 59 (240)
Q Consensus 13 D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RA 59 (240)
=+.|+|..|...|..|+.+|- .....+++..+...--|+.-|++=|
T Consensus 219 fK~gk~~~A~~~Yerav~~l~-~~~~~~~ee~~~~~~~k~~~~lNlA 264 (397)
T KOG0543|consen 219 FKEGKFKLAKKRYERAVSFLE-YRRSFDEEEQKKAEALKLACHLNLA 264 (397)
T ss_pred HhhchHHHHHHHHHHHHHHhh-ccccCCHHHHHHHHHHHHHHhhHHH
Confidence 357899999999999997544 4444455666666666666666644
No 100
>PF15580 Imm33: Immunity protein 33
Probab=31.05 E-value=41 Score=26.30 Aligned_cols=36 Identities=19% Similarity=0.264 Sum_probs=22.7
Q ss_pred ecC-CeEEEeC-CcccccccC-CCcccccCCCCCccccc
Q psy11809 192 LSN-DWVIKIG-RGLDIFCHV-PEFSIGFTDLSLRPCKE 227 (240)
Q Consensus 192 ~dn-Gw~I~ig-RGLd~fq~~-~~f~~g~~~~~~R~c~e 227 (240)
+|| ||.|+|+ .+-+...++ ....+...+.|--.|+-
T Consensus 27 lDNPGW~v~Idl~eT~l~~~~~~~i~~~~~~~DW~~~~v 65 (90)
T PF15580_consen 27 LDNPGWSVEIDLSETGLEGKKFEWIIIERSENDWIHCKV 65 (90)
T ss_pred ccCCCeEEEEecccccccccccceEeccCCCCCeEEEEE
Confidence 577 9999998 544444443 55666555555555554
No 101
>cd00089 HR1 Protein kinase C-related kinase homology region 1 domain; also known as the ACC (antiparallel coiled-coil) finger domain or Rho-binding domain. Found in vertebrate PRK1 and yeast PKC1 protein kinases C; those found in rhophilin bind RhoGTP; those in PRK1 bind RhoA and RhoB. Rho family members function as molecular switches, cycling between inactive and active forms, controlling a variety of cellular processes. HR1 repeats often occur in tandem repeat arrangments, seperated by a short linker region.
Probab=31.02 E-value=2e+02 Score=20.63 Aligned_cols=46 Identities=17% Similarity=0.200 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy11809 24 FYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEK 69 (240)
Q Consensus 24 lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ 69 (240)
-+.+|++-++.++...++.........++.+...+.+.|+..|..-
T Consensus 23 ~~r~Gaenm~~~~~~~~~~~~~~~~~~~l~es~~ki~~Lr~~L~k~ 68 (72)
T cd00089 23 KVKEGAENLLRLYSDEKKKKLLAEAEQMLRESKQKLELLKMQLEKL 68 (72)
T ss_pred HHHHHHHHHHHHHhcCCCccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999988777766677888899999999999999988653
No 102
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=30.89 E-value=2.6e+02 Score=22.56 Aligned_cols=61 Identities=11% Similarity=0.138 Sum_probs=37.7
Q ss_pred HHhhHHHHHHHHHhcCCCcceEEEeec--CCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecC
Q psy11809 117 QCYNFLQFCELAIKNCKNVKRINLLTT--YADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSN 183 (240)
Q Consensus 117 Q~~N~~~f~E~~v~~~~~~~~i~L~T~--~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~ 183 (240)
++...+++++.+ ..+.|.+..+ ..... .+...+.+.-.+.|.+|.+-++++||.+.++.-.
T Consensus 72 ~~~~~i~~a~~l-----g~~~i~~~~g~~~~~~~-~~~~~~~~~~~~~l~~l~~~a~~~gv~i~lE~~~ 134 (213)
T PF01261_consen 72 YLKKAIDLAKRL-----GAKYIVVHSGRYPSGPE-DDTEENWERLAENLRELAEIAEEYGVRIALENHP 134 (213)
T ss_dssp HHHHHHHHHHHH-----TBSEEEEECTTESSSTT-SSHHHHHHHHHHHHHHHHHHHHHHTSEEEEE-SS
T ss_pred HHHHHHHHHHHh-----CCCceeecCcccccccC-CCHHHHHHHHHHHHHHHHhhhhhhcceEEEeccc
Confidence 344455555555 2455666655 11111 1233446677888999999999999999988654
No 103
>KOG0545|consensus
Probab=30.30 E-value=58 Score=30.60 Aligned_cols=32 Identities=19% Similarity=0.200 Sum_probs=24.5
Q ss_pred HHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCC
Q psy11809 8 RAVELDERGRWTESLTFYQDGVTELLKHVRGL 39 (240)
Q Consensus 8 ~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e 39 (240)
+.=.+=+.|+|.||..+|.+||-.|-...--|
T Consensus 184 ~GN~lfk~~~ykEA~~~YreAi~~l~~L~lkE 215 (329)
T KOG0545|consen 184 EGNRLFKLGRYKEASSKYREAIICLRNLQLKE 215 (329)
T ss_pred hhhhhhhhccHHHHHHHHHHHHHHHHHHHhcc
Confidence 44456678999999999999998776655333
No 104
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=30.13 E-value=74 Score=31.67 Aligned_cols=20 Identities=15% Similarity=0.157 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHhccCcEE
Q psy11809 158 KQEENLKQLQESLRKMKITL 177 (240)
Q Consensus 158 ~q~~~l~~i~~sl~~~gi~l 177 (240)
.-....+..++.|.+.||-+
T Consensus 312 ~al~~ae~~r~~L~~r~Vlv 331 (453)
T PLN03098 312 LAMQKAERYRTELLKRGVLL 331 (453)
T ss_pred HHHHHhHHHHHHHHHcCcEE
Confidence 34445566688888888654
No 105
>KOG0547|consensus
Probab=29.92 E-value=41 Score=34.15 Aligned_cols=30 Identities=33% Similarity=0.605 Sum_probs=23.4
Q ss_pred ChHHHHHHHHHHHh---------------cCCHHHHHHHHHHHHH
Q psy11809 1 LAQFLLIRAVELDE---------------RGRWTESLTFYQDGVT 30 (240)
Q Consensus 1 ~Ai~ll~~AVe~D~---------------~g~y~EAl~lY~eaI~ 30 (240)
+|+.|+.+|++.|. .|+..||+.++.++++
T Consensus 521 ~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~ 565 (606)
T KOG0547|consen 521 QAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ 565 (606)
T ss_pred HHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 48899999999986 4566778777777775
No 106
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=29.63 E-value=2e+02 Score=21.70 Aligned_cols=30 Identities=33% Similarity=0.279 Sum_probs=18.9
Q ss_pred hHHHHHHHHHHHhcCC--HHHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGR--WTESLTFYQDGVTE 31 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~--y~EAl~lY~eaI~~ 31 (240)
|.+-+...|..=..|+ .++++.+|.+|+.+
T Consensus 15 a~~~LEeIv~~LE~~~l~Lees~~lyeeg~~L 46 (80)
T PRK00977 15 ALAELEEIVTRLESGDLPLEESLAAFERGVAL 46 (80)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence 3444455555544444 47889999998873
No 107
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=29.57 E-value=2.4e+02 Score=22.74 Aligned_cols=28 Identities=14% Similarity=0.274 Sum_probs=17.2
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy11809 4 FLLIRAVELDERGRWTESLTFYQDGVTE 31 (240)
Q Consensus 4 ~ll~~AVe~D~~g~y~EAl~lY~eaI~~ 31 (240)
.....|+..-..|+|++|+.+|..|+..
T Consensus 37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l 64 (168)
T CHL00033 37 TYYRDGMSAQSEGEYAEALQNYYEAMRL 64 (168)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence 3445555666666666666666666654
No 108
>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=29.23 E-value=1.9e+02 Score=19.74 Aligned_cols=29 Identities=34% Similarity=0.426 Sum_probs=17.7
Q ss_pred HHHHHHHHHHhcC--CHHHHHHHHHHHHHHH
Q psy11809 4 FLLIRAVELDERG--RWTESLTFYQDGVTEL 32 (240)
Q Consensus 4 ~ll~~AVe~D~~g--~y~EAl~lY~eaI~~L 32 (240)
.-+...|+.=..| ..++++.+|.+|..++
T Consensus 6 ~~Le~Iv~~Le~~~~sLdes~~lyeeg~~l~ 36 (53)
T PF02609_consen 6 ERLEEIVEKLESGELSLDESLKLYEEGMELI 36 (53)
T ss_dssp HHHHHHHHHHHTT-S-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence 3344444443333 3579999999999743
No 109
>PF13643 DUF4145: Domain of unknown function (DUF4145)
Probab=29.06 E-value=1.7e+02 Score=21.08 Aligned_cols=62 Identities=15% Similarity=0.183 Sum_probs=42.8
Q ss_pred HHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHH--HHHHHHhhhhhhccC
Q psy11809 8 RAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRA--EVLKGKLDEKKKMGN 74 (240)
Q Consensus 8 ~AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RA--E~LK~~l~~~ke~g~ 74 (240)
+|..+=..+ |..|...+..+++.++..+...++. .+.++|......- +.+.+.+..-...|-
T Consensus 2 eA~~~~~~~-~~~a~~~~R~~lE~~~~~~~~~~~~----~L~~~I~~l~~~~~~~~~~~~~~~iR~~GN 65 (87)
T PF13643_consen 2 EAERCYNSD-PRAAAVMARRALEFIVKELGIKKGK----NLNEKINKLRKKGLPPDIRDWLHAIRKIGN 65 (87)
T ss_pred HHHHHHhcC-HHHHHHHHHHHHHHHHHHHhhccCC----CHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 566666666 9999999999999999998633332 4777777665554 566666655444443
No 110
>KOG2847|consensus
Probab=28.79 E-value=24 Score=32.78 Aligned_cols=86 Identities=20% Similarity=0.143 Sum_probs=63.0
Q ss_pred chhHHhhHHHHHHHHHhcCCCcceEEEeecCC------CCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecCCccc
Q psy11809 114 NKHQCYNFLQFCELAIKNCKNVKRINLLTTYA------DRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHD 187 (240)
Q Consensus 114 ~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d------~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHD 187 (240)
+.-|++|.=.|.+++-+.++| +-|+|..+ +.- ---+-.-.---+++.++.+|+.++|.|+=.|-+++
T Consensus 48 Nk~~v~n~e~l~~l~~~Rp~n---~PLiTVSNH~S~vDDP~--~W~~L~~~~f~~~~~~RWtlaAhdICF~n~~~S~f-- 120 (286)
T KOG2847|consen 48 NKLLVHNRETLTALLESRPPN---RPLITVSNHMSCVDDPL--VWGILKLRLFLNLKNIRWTLAAHDICFTNPFHSNF-- 120 (286)
T ss_pred cccccccHHHHHHHHHcCCCC---CCeEEEecchhccCCce--eEEEechhhhcchhhhheehhhhhchhccHHHHHH--
Confidence 455788888888888888777 45555432 210 00000223455678999999999999998887777
Q ss_pred eEEEecCCeEEEeCCcccccccC
Q psy11809 188 REIVLSNDWVIKIGRGLDIFCHV 210 (240)
Q Consensus 188 R~I~~dnGw~I~igRGLd~fq~~ 210 (240)
|+.|=.|-+-||--+||+.
T Consensus 121 ----FslGkclPi~RG~GvYQ~g 139 (286)
T KOG2847|consen 121 ----FSLGKCLPIVRGEGVYQKG 139 (286)
T ss_pred ----HhcCceEeeeccCcccccc
Confidence 8999999999999999974
No 111
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=28.73 E-value=60 Score=30.84 Aligned_cols=38 Identities=21% Similarity=0.304 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCCeEEEeCCccccccc
Q psy11809 157 VKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCH 209 (240)
Q Consensus 157 ~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw~I~igRGLd~fq~ 209 (240)
..-.+.|.++-+.|...|+...+.||.+ +-||||||--
T Consensus 236 ~~~l~~L~~l~~~l~~~~~~~~i~~D~~---------------lvrgl~YYtG 273 (391)
T PRK12292 236 KRALDELEALAEALEKYGYGIPLSLDLG---------------LLRHLDYYTG 273 (391)
T ss_pred HHHHHHHHHHHHHHHHhCCCceEEEehh---------------hccCCcCccc
Confidence 3567888899999999988766677764 4677777764
No 112
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=28.50 E-value=1e+02 Score=25.13 Aligned_cols=27 Identities=15% Similarity=0.340 Sum_probs=21.3
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHH
Q psy11809 5 LLIRAVELDERGRWTESLTFYQDGVTE 31 (240)
Q Consensus 5 ll~~AVe~D~~g~y~EAl~lY~eaI~~ 31 (240)
....|+-+...|+|++|+..|.+|++.
T Consensus 75 ~~~la~~~~~~g~~~~A~~~~~~al~~ 101 (172)
T PRK02603 75 LYNMGIIYASNGEHDKALEYYHQALEL 101 (172)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 455667778889999999999888874
No 113
>PF02120 Flg_hook: Flagellar hook-length control protein FliK; InterPro: IPR021136 This entry represents the C-terminal domain of the flagellar hook-length control protein FliK. This entry also includes YscP of the Yersinia type III secretion system, and equivalent proteins in other pathogenic bacterial type III secretion systems. During flagellar morphogenesis in Salmonella typhimurium and Escherichia coli, flagellar hook-length control protein (FliK) controls the length of the hook by directly measuring the hook length [, ]. It is considered unlikely that FliK functions as a molecular ruler for determining hook length, but that it is more likely to be employing a novel mechanism. The deduced amino acid sequences of FliK proteins from S. typhimurium and E. coli have molecular masses of 41,748 and 39,246 Da, respectively, and are fairly hydrophilic []. Sequence comparison reveals around 50% identity, with greatest conservation in the C-terminal region, with 71% identity in the last 154 amino acids - mutagenesis of this conserved region completely abolishes motility. The central and C-terminal regions are rich in proline and glutamine respectively; it is thought that they may constitute distinct domains [].; PDB: 2RRL_A.
Probab=28.49 E-value=83 Score=22.72 Aligned_cols=27 Identities=22% Similarity=0.336 Sum_probs=21.3
Q ss_pred hHHHHHHHHHHHHHHhccCcEEE-EEec
Q psy11809 156 RVKQEENLKQLQESLRKMKITLN-INYS 182 (240)
Q Consensus 156 ~~~q~~~l~~i~~sl~~~gi~l~-~~~~ 182 (240)
...-.+.+.+|++.|...|+.+. +.++
T Consensus 50 ~~~L~~~~~~L~~~L~~~G~~~~~~~v~ 77 (85)
T PF02120_consen 50 KELLRQNLPELKERLQAQGLEVVNLSVS 77 (85)
T ss_dssp HHHHHHTHHHHHHHHHTTT-EEEEEEEE
T ss_pred HHHHHHHHHHHHHHHHHCCCCeEEEEEE
Confidence 55678889999999999999987 4443
No 114
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=27.92 E-value=1.3e+02 Score=22.58 Aligned_cols=31 Identities=19% Similarity=0.119 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q psy11809 3 QFLLIRAVELDERGRWTESLTFYQDGVTELL 33 (240)
Q Consensus 3 i~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll 33 (240)
..++..|.-.-.-|++++|+....+||++--
T Consensus 42 ~all~lA~~~~~~G~~~~A~~~l~eAi~~Ar 72 (94)
T PF12862_consen 42 YALLNLAELHRRFGHYEEALQALEEAIRLAR 72 (94)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence 4567777777888999999999999997544
No 115
>PHA02820 phospholipase-D-like protein; Provisional
Probab=27.24 E-value=3.6e+02 Score=26.23 Aligned_cols=102 Identities=12% Similarity=0.066 Sum_probs=58.5
Q ss_pred HHhHHHhhcccccEEEeeCCcccch-----hHHhhHHHHHHHHHh-cCCCcceEEEeecCCCCCCCccccchHHHHHHHH
Q psy11809 91 EKLFGRFLDENVEQIDVTDPYIHNK-----HQCYNFLQFCELAIK-NCKNVKRINLLTTYADRPQHSNKTARVKQEENLK 164 (240)
Q Consensus 91 ~~lFg~yl~~~~~~I~ieDPYIr~~-----hQ~~N~~~f~E~~v~-~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~ 164 (240)
...+-.-+...=+.|+|.-||.=-. .+...-=.+...|.+ ....=+.|+|+...-... ..-....+.
T Consensus 220 ~~~~l~~I~~Ak~~I~I~tpyfvP~~~~~~~~~~yw~~i~~AL~~AA~~RGV~VriLvp~~~d~-------~~~~~a~~~ 292 (424)
T PHA02820 220 LTALLSCIRNASKFVYVSVMNFIPIIYSKAGKILFWPYIEDELRRAAIDRKVSVKLLISCWQRS-------SFIMRNFLR 292 (424)
T ss_pred HHHHHHHHHHHhhEEEEEEccccceeeccCCcccchHHHHHHHHHHHHhCCCEEEEEEeccCCC-------CccHHHHHH
Confidence 3666677777668999999998776 211222233333332 111124688877632111 112234555
Q ss_pred HHHHHHhccCcEEE---EEe---------cCCccceEEEecCCeEEEeCC
Q psy11809 165 QLQESLRKMKITLN---INY---------SNTLHDREIVLSNDWVIKIGR 202 (240)
Q Consensus 165 ~i~~sl~~~gi~l~---~~~---------~~tiHDR~I~~dnGw~I~igR 202 (240)
.+++ |...|+.+. |.+ ..=+|..-+++| +| .-||=
T Consensus 293 ~l~~-L~~~gv~I~Vk~y~~p~~~~~~~~~~f~HaK~~vvD-~~-a~IGT 339 (424)
T PHA02820 293 SIAM-LKSKNINIEVKLFIVPDADPPIPYSRVNHAKYMVTD-KT-AYIGT 339 (424)
T ss_pred HHHH-HhccCceEEEEEEEcCcccccCCcceeeeeeEEEEc-cc-EEEEC
Confidence 5533 445788775 322 345999999999 68 77763
No 116
>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=27.21 E-value=1.9e+02 Score=24.50 Aligned_cols=44 Identities=25% Similarity=0.353 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q psy11809 19 TESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKK 71 (240)
Q Consensus 19 ~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ke 71 (240)
-+.+.+|..+++.+-..+ |...|. +-.+|+++|+|-+.++.-..
T Consensus 87 v~~~~~y~~sv~~~cdsv----D~sik~-----~y~liakceELn~~M~~v~~ 130 (149)
T PF10157_consen 87 VEHMETYKDSVDKLCDSV----DASIKS-----MYTLIAKCEELNESMKPVYK 130 (149)
T ss_pred HHHHHHHHHHHHHHHHHH----HHHHHH-----HHHHHHHHHHHHHHHHHHHH
Confidence 367788888888888776 444443 34568888888777765433
No 117
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=27.11 E-value=2.4e+02 Score=21.11 Aligned_cols=29 Identities=28% Similarity=0.334 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHhcCC--HHHHHHHHHHHHHH
Q psy11809 3 QFLLIRAVELDERGR--WTESLTFYQDGVTE 31 (240)
Q Consensus 3 i~ll~~AVe~D~~g~--y~EAl~lY~eaI~~ 31 (240)
+.-+.+-|+.=.+|+ .++|+.+|.+|+.+
T Consensus 10 l~~LE~IV~~LE~g~l~Leesl~lyeeG~~L 40 (75)
T PRK14066 10 LKKLEEVVKKLEGGELSLDDSLKAFEEGVKH 40 (75)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence 344445555545554 47899999999973
No 118
>KOG2460|consensus
Probab=26.68 E-value=1.3e+02 Score=30.85 Aligned_cols=57 Identities=19% Similarity=0.214 Sum_probs=37.3
Q ss_pred HHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChh--hH-HHHHHHHHHHHHHHHHHHHH
Q psy11809 9 AVELDERGRWTESLTFYQDGVTELLKHVRGLSNKG--DQ-QKIRDKIETYINRAEVLKGK 65 (240)
Q Consensus 9 AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~--~K-~~lr~Ki~eYl~RAE~LK~~ 65 (240)
|+.+-..++|.||+.+|..|..++..+.+.-.+.+ .. ..+.+-+.+--.|-+.++..
T Consensus 429 A~sY~a~~K~~EAlALy~Ra~sylqe~~~~l~s~~e~l~~~~~~eli~el~k~k~s~~a~ 488 (593)
T KOG2460|consen 429 AVSYQAKKKYSEALALYVRAYSYLQEVNSELESFKESLLPLLLLELISELQKRKESLGAA 488 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchhhcccchHHHHHHHHHHHHHHhhhhh
Confidence 66667789999999999999999999875432222 22 33444445544454554443
No 119
>PF03514 GRAS: GRAS domain family; InterPro: IPR005202 Sequence analysis of the products of the GRAS (GAI, RGA, SCR) gene family indicates that they share a variable N terminus and a highly conserved C terminus that contains five recognizable motifs []. Proteins in the GRAS family are transcription factors that seem to be involved in development and other processes. Mutation of the SCARECROW (SCR) gene results in a radial pattern defect, loss of a ground tissue layer, in the root. The PAT1 protein is involved in phytochrome A signal transduction []. GRAS proteins contain a conserved region of about 350 amino acids that can be divided in 5 motifs, found in the following order: leucine heptad repeat I, the VHIID motif, leucine heptad repeat II, the PFYRE motif and the SAW motif [, ]. Plant specific GRAS proteins have parallels in their motif structure to the animal Signal Transducers and Activators of Transcription (STAT) family of proteins [] which suggests also some parallels in their functions.
Probab=26.27 E-value=2.5e+02 Score=26.70 Aligned_cols=73 Identities=14% Similarity=0.087 Sum_probs=44.1
Q ss_pred hcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCC--CcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCc
Q psy11809 98 LDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCK--NVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKI 175 (240)
Q Consensus 98 l~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~--~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi 175 (240)
+.| ...|+|.|=-|..-.|--.||+-+- ..+. ..-+|+-+..+.... ...-.+.=..|.+-.+..||
T Consensus 106 ~~g-~~~vHIID~~i~~G~QW~~LiqaLa---~R~~gpp~LrIT~i~~~~~~~-------~~~l~~~g~rL~~fA~~lgv 174 (374)
T PF03514_consen 106 FEG-ERRVHIIDFGIGFGVQWPSLIQALA---SRPGGPPSLRITGIGPPNSGS-------ADELQETGRRLAEFARSLGV 174 (374)
T ss_pred hcc-CcceEEEeccCCcchHHHHHHHHHh---cCCCCCCeEEEEeccCCCCCc-------HHHHHHHHHHHHHHHHHcCc
Confidence 444 4899999999999999999887654 3322 233555555544433 33333333333344445688
Q ss_pred EEEEEe
Q psy11809 176 TLNINY 181 (240)
Q Consensus 176 ~l~~~~ 181 (240)
.|.+.-
T Consensus 175 ~fef~~ 180 (374)
T PF03514_consen 175 PFEFHP 180 (374)
T ss_pred cEEEEe
Confidence 887654
No 120
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=26.10 E-value=76 Score=25.53 Aligned_cols=23 Identities=17% Similarity=0.219 Sum_probs=12.9
Q ss_pred HHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 8 RAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 8 ~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
.|.-+-..|+|++|+.+|..|+.
T Consensus 64 lg~~~~~~g~~~~A~~~y~~Al~ 86 (144)
T PRK15359 64 LAGTWMMLKEYTTAINFYGHALM 86 (144)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHh
Confidence 33344555666666666666654
No 121
>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein. This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.
Probab=25.58 E-value=4e+02 Score=25.05 Aligned_cols=58 Identities=17% Similarity=0.339 Sum_probs=42.4
Q ss_pred hHHHHHHHHHHHHHHhccCcEEEEEecC-----CccceEEEecCCeEEEeCCcccccccC-CCc
Q psy11809 156 RVKQEENLKQLQESLRKMKITLNINYSN-----TLHDREIVLSNDWVIKIGRGLDIFCHV-PEF 213 (240)
Q Consensus 156 ~~~q~~~l~~i~~sl~~~gi~l~~~~~~-----tiHDR~I~~dnGw~I~igRGLd~fq~~-~~f 213 (240)
...+......|++-..+.|+++-+---+ .+-||-+++++|-++-.|.--++|..| +.|
T Consensus 167 ~~~r~~l~~~L~~l~~~~~~tvi~vTHd~~ea~~l~d~i~vl~~G~i~~~g~~~~~~~~p~~~~ 230 (353)
T TIGR03265 167 ARVREHLRTEIRQLQRRLGVTTIMVTHDQEEALSMADRIVVMNHGVIEQVGTPQEIYRHPATPF 230 (353)
T ss_pred HHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHHhCCEEEEEECCEEEEEcCHHHHHhCCCCHH
Confidence 4456666777776666678765443211 267999999999999999988899877 444
No 122
>PF10516 SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetratrico peptide repeat region (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. This entry represents SHNi-TPR (Sim3-Hif1-NASP interrupted TPR), a sequence that is an interrupted form of TPR repeat [].
Probab=25.48 E-value=1.1e+02 Score=19.83 Aligned_cols=23 Identities=9% Similarity=0.206 Sum_probs=18.5
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHh
Q psy11809 14 ERGRWTESLTFYQDGVTELLKHV 36 (240)
Q Consensus 14 ~~g~y~EAl~lY~eaI~~Ll~~l 36 (240)
..++|.+|+.=|++|+++....+
T Consensus 13 e~e~f~qA~~D~~~aL~i~~~l~ 35 (38)
T PF10516_consen 13 ENENFEQAIEDYEKALEIQEELL 35 (38)
T ss_pred HhccHHHHHHHHHHHHHHHHHhc
Confidence 36789999999999998766554
No 123
>PF06957 COPI_C: Coatomer (COPI) alpha subunit C-terminus; InterPro: IPR010714 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the C terminus (approximately 500 residues) of the eukaryotic coatomer alpha subunit [, ]. This domain is found along with the IPR006692 from INTERPRO domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat; PDB: 3MKR_B 3MV2_E 3MKQ_B 3MV3_A.
Probab=25.41 E-value=1.6e+02 Score=28.98 Aligned_cols=54 Identities=13% Similarity=0.225 Sum_probs=36.4
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh-cCCCChhhHHHHHHHHHHHHH
Q psy11809 4 FLLIRAVELDERGRWTESLTFYQDGVTELLKHV-RGLSNKGDQQKIRDKIETYIN 57 (240)
Q Consensus 4 ~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~~l-K~e~d~~~K~~lr~Ki~eYl~ 57 (240)
+.++.|-++=++|+++||+..+++.|..+...+ ....+...-+.+-..+.||+-
T Consensus 206 ~~Lk~gyk~~t~gKF~eA~~~Fr~iL~~i~l~vv~~~~E~~e~~eli~icrEYil 260 (422)
T PF06957_consen 206 ERLKEGYKLFTAGKFEEAIEIFRSILHSIPLLVVESREEEDEAKELIEICREYIL 260 (422)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHC--BSSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHhheeeecCHHHHHHHHHHHHHHHHHHH
Confidence 467888899999999999999999886544333 222333444456667788864
No 124
>PF06415 iPGM_N: BPG-independent PGAM N-terminus (iPGM_N); InterPro: IPR011258 This family represents the N-terminal region of the 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (or phosphoglyceromutase or BPG-independent PGAM) protein (5.4.2.1 from EC). The family is found in conjunction with Metalloenzyme (located in the C-terminal region of the protein). ; GO: 0004619 phosphoglycerate mutase activity, 0030145 manganese ion binding, 0006007 glucose catabolic process, 0005737 cytoplasm; PDB: 1EQJ_A 1EJJ_A 1O99_A 1O98_A 3IGZ_B 3IGY_B 3NVL_A 2IFY_A.
Probab=25.27 E-value=1.7e+02 Score=26.34 Aligned_cols=51 Identities=20% Similarity=0.244 Sum_probs=37.3
Q ss_pred HHhhHHHHHHHHHhcCCCcceEEEee-cCCCCCCCccccchHHHHHHHHHHHHHHhccCc
Q psy11809 117 QCYNFLQFCELAIKNCKNVKRINLLT-TYADRPQHSNKTARVKQEENLKQLQESLRKMKI 175 (240)
Q Consensus 117 Q~~N~~~f~E~~v~~~~~~~~i~L~T-~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi 175 (240)
.+..|.-+++++.+.--.-..||++| ++|..+ ..=...|++|.+.|.+.|+
T Consensus 44 h~~Hl~al~~~a~~~gv~~V~vH~f~DGRDt~P--------~S~~~yl~~l~~~l~~~~~ 95 (223)
T PF06415_consen 44 HIDHLFALIKLAKKQGVKKVYVHAFTDGRDTPP--------KSALKYLEELEEKLAEIGI 95 (223)
T ss_dssp -HHHHHHHHHHHHHTT-SEEEEEEEE-SSSS-T--------TTHHHHHHHHHHHHHHHTC
T ss_pred cHHHHHHHHHHHHHcCCCEEEEEEecCCCCCCc--------chHHHHHHHHHHHHHhhCC
Confidence 45778889999988864556899999 566644 3457789999999998665
No 125
>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A.
Probab=25.27 E-value=1.9e+02 Score=20.10 Aligned_cols=39 Identities=13% Similarity=0.187 Sum_probs=22.0
Q ss_pred HHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHH
Q psy11809 9 AVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIET 54 (240)
Q Consensus 9 AVe~D~~g~y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~e 54 (240)
|+..=+-|+|.+|..+ .-.+++.||+-..-..|+..|.+
T Consensus 8 Aig~ykl~~Y~~A~~~-------~~~lL~~eP~N~Qa~~L~~~i~~ 46 (53)
T PF14853_consen 8 AIGHYKLGEYEKARRY-------CDALLEIEPDNRQAQSLKELIED 46 (53)
T ss_dssp HHHHHHTT-HHHHHHH-------HHHHHHHTTS-HHHHHHHHHHHH
T ss_pred HHHHHHhhhHHHHHHH-------HHHHHhhCCCcHHHHHHHHHHHH
Confidence 5555566777766654 33444568877666666655554
No 126
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=25.09 E-value=1.4e+02 Score=26.67 Aligned_cols=31 Identities=13% Similarity=0.151 Sum_probs=24.0
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy11809 4 FLLIRAVELDERGRWTESLTFYQDGVTELLK 34 (240)
Q Consensus 4 ~ll~~AVe~D~~g~y~EAl~lY~eaI~~Ll~ 34 (240)
.....|..+=+.+++++|+.+|.+|+++++.
T Consensus 76 ~~~~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~ 106 (282)
T PF14938_consen 76 KAYEEAANCYKKGDPDEAIECYEKAIEIYRE 106 (282)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhCHHHHHHHHHHHHHHHHh
Confidence 4445677777777999999999999988764
No 127
>PRK14069 exodeoxyribonuclease VII small subunit; Provisional
Probab=24.85 E-value=3.5e+02 Score=21.33 Aligned_cols=29 Identities=34% Similarity=0.295 Sum_probs=18.7
Q ss_pred hHHHHHHHHHHHhcCC--HHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGR--WTESLTFYQDGVT 30 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~--y~EAl~lY~eaI~ 30 (240)
|+.-+..-|+.=..|+ .++|+.+|.+|+.
T Consensus 13 al~~LEeIV~~LEsgdl~LEesl~lyeeGv~ 43 (95)
T PRK14069 13 ALRELEQIAEKLERQDFSLEESLKAYERGME 43 (95)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence 3344445555544454 4789999999987
No 128
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=24.62 E-value=79 Score=30.29 Aligned_cols=39 Identities=26% Similarity=0.382 Sum_probs=29.0
Q ss_pred hHHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCCeEEEeCCccccccc
Q psy11809 156 RVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCH 209 (240)
Q Consensus 156 ~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw~I~igRGLd~fq~ 209 (240)
..+-.+.|.+|...|...|+...+.||.+ +-||||||--
T Consensus 239 ~~~~l~~l~~l~~~l~~~g~~~~i~~Dl~---------------~vr~l~YYtG 277 (423)
T PRK12420 239 VAEGVNELQQLQQYLIALGINENCIFNPF---------------LARGLTMYTG 277 (423)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCcEEEecc---------------ccCCCcccce
Confidence 44567789999999999998866677764 3577777753
No 129
>PRK14064 exodeoxyribonuclease VII small subunit; Provisional
Probab=24.44 E-value=3e+02 Score=20.50 Aligned_cols=42 Identities=29% Similarity=0.372 Sum_probs=24.4
Q ss_pred HHHHHHHHhcCC--HHHHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHH
Q psy11809 6 LIRAVELDERGR--WTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKG 64 (240)
Q Consensus 6 l~~AVe~D~~g~--y~EAl~lY~eaI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~ 64 (240)
+..-|..=..|+ .++|+.+|.+|+. +-+.+...++.||+--.
T Consensus 15 LE~IV~~LE~~~l~Leesl~~ye~G~~-----------------L~k~c~~~L~~ae~kv~ 58 (75)
T PRK14064 15 LETIVEALENGSASLEDSLDMYQKGIE-----------------LTKLCQDKLQSAEKRMA 58 (75)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHH
Confidence 333344333343 4788888888886 23344566777775433
No 130
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=24.17 E-value=3.4e+02 Score=21.66 Aligned_cols=24 Identities=17% Similarity=0.081 Sum_probs=17.2
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 7 IRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 7 ~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
..|+-+-..|++++|+..|..+|.
T Consensus 97 ~lg~~l~~~g~~~eAi~~~~~Al~ 120 (144)
T PRK15359 97 QTGVCLKMMGEPGLAREAFQTAIK 120 (144)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHH
Confidence 344445667888888888888775
No 131
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=24.08 E-value=3e+02 Score=20.58 Aligned_cols=26 Identities=23% Similarity=0.482 Sum_probs=16.2
Q ss_pred HHHHHHHHhcCC--HHHHHHHHHHHHHH
Q psy11809 6 LIRAVELDERGR--WTESLTFYQDGVTE 31 (240)
Q Consensus 6 l~~AVe~D~~g~--y~EAl~lY~eaI~~ 31 (240)
+..-|..=..|+ .++|+.+|.+|+.+
T Consensus 14 LE~Iv~~LE~~~l~Leesl~lyeeG~~L 41 (76)
T PRK14063 14 LEHLVSKLEQGDVPLEEAISYFKEGMEL 41 (76)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence 333333333443 47899999999973
No 132
>KOG4234|consensus
Probab=23.92 E-value=1.7e+02 Score=26.89 Aligned_cols=28 Identities=25% Similarity=0.328 Sum_probs=17.5
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy11809 5 LLIRAVELDERGRWTESLTFYQDGVTEL 32 (240)
Q Consensus 5 ll~~AVe~D~~g~y~EAl~lY~eaI~~L 32 (240)
+=...-++=+.|.|.+|..-|.+||+..
T Consensus 98 lK~EGN~~F~ngdyeeA~skY~~Ale~c 125 (271)
T KOG4234|consen 98 LKKEGNELFKNGDYEEANSKYQEALESC 125 (271)
T ss_pred HHHHHHHhhhcccHHHHHHHHHHHHHhC
Confidence 3344445556677777777777777643
No 133
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=23.81 E-value=99 Score=30.74 Aligned_cols=28 Identities=7% Similarity=0.198 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 3 QFLLIRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 3 i~ll~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
..+..++..+-+.|+|++|+.+|.+||.
T Consensus 128 ~~~k~~G~~~~~~~~~~~Ai~~y~~al~ 155 (615)
T TIGR00990 128 AKLKEKGNKAYRNKDFNKAIKLYSKAIE 155 (615)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 3455677778888888888888888764
No 134
>PF00210 Ferritin: Ferritin-like domain; InterPro: IPR008331 Ferritin is one of the major non-haem iron storage proteins in animals, plants, and microorganisms []. It consists of a mineral core of hydrated ferric oxide, and a multi-subunit protein shell that encloses the former and assures its solubility in an aqueous environment. In animals the protein is mainly cytoplasmic and there are generally two or more genes that encode closely related subunits - in mammals there are two subunits which are known as H(eavy) and L(ight). In plants ferritin is found in the chloroplast []. This entry represents the main structural domain of ferritin. The domain is also found in other ferritin-like proteins such as members of the DNA protection during starvation (DPS) family and bacterioferritins.; GO: 0008199 ferric iron binding, 0006879 cellular iron ion homeostasis; PDB: 1N1Q_C 4DYU_E 2YJJ_D 2YJK_B 2VXX_B 3FVB_A 2WLU_A 2XGW_A 2WLA_A 1Z4A_D ....
Probab=23.69 E-value=3.3e+02 Score=20.63 Aligned_cols=51 Identities=10% Similarity=0.079 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHhc---CCCChhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy11809 19 TESLTFYQDGVTELLKHVR---GLSNKGDQQKIRDKIETYINRAEVLKGKLDEK 69 (240)
Q Consensus 19 ~EAl~lY~eaI~~Ll~~lK---~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ 69 (240)
+.|+..+...++.+..+++ ...|+...+.+..-+.+.......|+.+|..-
T Consensus 86 ~~~l~~e~~~~~~~~~l~~~a~~~~D~~t~~~~~~~l~~~~~~~~~l~~~l~~l 139 (142)
T PF00210_consen 86 EAALEDEKEIIEEYRELIKLAEKEGDPETADFLDEFLEEEEKHIWMLQAHLTNL 139 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455555555555555443 33799999999999999999999999998753
No 135
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=23.42 E-value=1.6e+02 Score=21.32 Aligned_cols=27 Identities=11% Similarity=0.158 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 4 FLLIRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 4 ~ll~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
.+...|..+-+.|+|++|+..|.++++
T Consensus 4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~ 30 (119)
T TIGR02795 4 AYYDAALLVLKAGDYADAIQAFQAFLK 30 (119)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 456778888889999999999988875
No 136
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=23.24 E-value=6e+02 Score=23.50 Aligned_cols=39 Identities=15% Similarity=0.350 Sum_probs=24.7
Q ss_pred HHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHh
Q psy11809 28 GVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKL 66 (240)
Q Consensus 28 aI~~Ll~~lK~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l 66 (240)
|++.++..+.....+..|+.+.+.+.+++++.++-.+.+
T Consensus 67 ai~~~~~~i~~~~~~~~k~~l~~~~~~~~~e~~~a~~~I 105 (301)
T TIGR00511 67 AVRYVLKYMSGEDVETLRETVIERADAFINQSDKAQERI 105 (301)
T ss_pred HHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555444445567777777777777766666555
No 137
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=22.86 E-value=1.6e+02 Score=27.53 Aligned_cols=17 Identities=18% Similarity=0.264 Sum_probs=8.2
Q ss_pred HhcCCHHHHHHHHHHHH
Q psy11809 13 DERGRWTESLTFYQDGV 29 (240)
Q Consensus 13 D~~g~y~EAl~lY~eaI 29 (240)
-..|+|++|+..+..||
T Consensus 47 ~~~g~~~eAl~~~~~Al 63 (356)
T PLN03088 47 IKLGNFTEAVADANKAI 63 (356)
T ss_pred HHcCCHHHHHHHHHHHH
Confidence 34455555555444444
No 138
>PRK14070 exodeoxyribonuclease VII small subunit; Provisional
Probab=22.74 E-value=1.9e+02 Score=21.45 Aligned_cols=15 Identities=27% Similarity=0.503 Sum_probs=12.5
Q ss_pred CHHHHHHHHHHHHHH
Q psy11809 17 RWTESLTFYQDGVTE 31 (240)
Q Consensus 17 ~y~EAl~lY~eaI~~ 31 (240)
..++|+.+|++|+.+
T Consensus 17 ~Leesl~lyeeG~~L 31 (69)
T PRK14070 17 PLEESIKLFERGVEL 31 (69)
T ss_pred CHHHHHHHHHHHHHH
Confidence 357999999999973
No 139
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=22.66 E-value=1.1e+02 Score=31.99 Aligned_cols=28 Identities=21% Similarity=0.246 Sum_probs=21.7
Q ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy11809 2 AQFLLIRAVELDERGRWTESLTFYQDGV 29 (240)
Q Consensus 2 Ai~ll~~AVe~D~~g~y~EAl~lY~eaI 29 (240)
|..+...|+.+.+-|+|+||+.+|.+++
T Consensus 154 ~~~~~~~a~~l~~~g~~~~A~~~y~~~~ 181 (694)
T PRK15179 154 AREILLEAKSWDEIGQSEQADACFERLS 181 (694)
T ss_pred HHHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence 3455677888888888888888888877
No 140
>PLN02530 histidine-tRNA ligase
Probab=22.63 E-value=84 Score=30.95 Aligned_cols=27 Identities=15% Similarity=0.092 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHhccCcEEEEEecCC
Q psy11809 158 KQEENLKQLQESLRKMKITLNINYSNT 184 (240)
Q Consensus 158 ~q~~~l~~i~~sl~~~gi~l~~~~~~t 184 (240)
+..+.|++|.+.|...|+.-.+.||.+
T Consensus 304 ~~l~~L~~l~~~l~~~g~~~~i~~Dl~ 330 (487)
T PLN02530 304 EAVADLKQLFSLAEAYGYQDWLVFDAS 330 (487)
T ss_pred HHHHHHHHHHHHHHHcCCCccEEEecc
Confidence 467788888889999998744555543
No 141
>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed
Probab=22.04 E-value=5.3e+02 Score=24.56 Aligned_cols=58 Identities=21% Similarity=0.272 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHHHHHhccCcEEEEEecC-----CccceEEEecCCeEEEeCCcccccccC-CCc
Q psy11809 156 RVKQEENLKQLQESLRKMKITLNINYSN-----TLHDREIVLSNDWVIKIGRGLDIFCHV-PEF 213 (240)
Q Consensus 156 ~~~q~~~l~~i~~sl~~~gi~l~~~~~~-----tiHDR~I~~dnGw~I~igRGLd~fq~~-~~f 213 (240)
...+......|++-..+.|+++-+---+ .+-||-+++++|-++-.|.--++|+.| +.|
T Consensus 177 ~~~r~~l~~~L~~l~~~~g~tiI~vTHd~~ea~~laDri~vl~~G~i~~~g~~~~i~~~p~~~~ 240 (375)
T PRK09452 177 YKLRKQMQNELKALQRKLGITFVFVTHDQEEALTMSDRIVVMRDGRIEQDGTPREIYEEPKNLF 240 (375)
T ss_pred HHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHhCCEEEEEECCEEEEEcCHHHHHhCcccHH
Confidence 3445555666665555667765443221 267999999999999999999999987 444
No 142
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=21.84 E-value=3.8e+02 Score=23.48 Aligned_cols=90 Identities=14% Similarity=0.137 Sum_probs=52.6
Q ss_pred CccchHHhHH--HhhcccccEEEeeCCcccchh-HHhhHHHHHHHHHhcCCCcceEEEeecCCCCC---------C-Ccc
Q psy11809 86 KGVTYEKLFG--RFLDENVEQIDVTDPYIHNKH-QCYNFLQFCELAIKNCKNVKRINLLTTYADRP---------Q-HSN 152 (240)
Q Consensus 86 ~G~sY~~lFg--~yl~~~~~~I~ieDPYIr~~h-Q~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~---------~-~~~ 152 (240)
||.+.+.++. .+|.+.-..|+|.-|.|-... ...++-++++.+... ++..|||+--+.-+. + -++
T Consensus 109 tG~~~~~il~nl~~l~~~g~~v~iR~~vIPg~nd~~e~i~~ia~~l~~l--~~~~~~llpyh~~g~~Ky~~lg~~y~~~~ 186 (213)
T PRK10076 109 VKMNLPRVLENLRLLVSEGVNVIPRLPLIPGFTLSRENMQQALDVLIPL--GIKQIHLLPFHQYGEPKYRLLGKTWSMKE 186 (213)
T ss_pred HCCCHHHHHHHHHHHHhCCCcEEEEEEEECCCCCCHHHHHHHHHHHHHc--CCceEEEecCCccchhHHHHcCCcCccCC
Confidence 6778888876 567664468999999887642 444555555544433 355788875433100 0 000
Q ss_pred ccchHHHHHHHHHHHHHHhccCcEEEE
Q psy11809 153 KTARVKQEENLKQLQESLRKMKITLNI 179 (240)
Q Consensus 153 ~~~~~~q~~~l~~i~~sl~~~gi~l~~ 179 (240)
..++. .+.++++++-+.++|+...+
T Consensus 187 ~~~~~--~~~l~~~~~~~~~~gl~~~i 211 (213)
T PRK10076 187 VPAPS--SADVATMREMAERAGFQVTV 211 (213)
T ss_pred CCCcC--HHHHHHHHHHHHHcCCeEEe
Confidence 00111 34577777778888988754
No 143
>PF14733 ACDC: AP2-coincident C-terminal
Probab=21.55 E-value=3.1e+02 Score=20.62 Aligned_cols=20 Identities=10% Similarity=0.353 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHhcCC
Q psy11809 20 ESLTFYQDGVTELLKHVRGL 39 (240)
Q Consensus 20 EAl~lY~eaI~~Ll~~lK~e 39 (240)
+.+.++++||.+++.=++.-
T Consensus 3 ~~L~l~K~Ai~~iL~DL~~~ 22 (91)
T PF14733_consen 3 QRLSLCKEAILLILSDLKDN 22 (91)
T ss_pred chHHHHHHHHHHHHHHHHHh
Confidence 46788999998888777643
No 144
>PLN02972 Histidyl-tRNA synthetase
Probab=21.36 E-value=1.1e+02 Score=32.54 Aligned_cols=38 Identities=24% Similarity=0.353 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCCeEEEeCCccccccc
Q psy11809 157 VKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCH 209 (240)
Q Consensus 157 ~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw~I~igRGLd~fq~ 209 (240)
.+-.+.|.+|-+.|...|+.-.+.||.+ +.||||||--
T Consensus 567 ~~aL~eL~~L~~~L~~~gv~~~I~fDls---------------LvRGLDYYTG 604 (763)
T PLN02972 567 RAALDELEIMFKALEKSKAIGKIVFDLS---------------LARGLDYYTG 604 (763)
T ss_pred HHHHHHHHHHHHHHHhcCCCccEEECCc---------------ccCCCcccCc
Confidence 4567788888899999998655667654 4788888874
No 145
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=21.01 E-value=4.7e+02 Score=22.26 Aligned_cols=62 Identities=21% Similarity=0.167 Sum_probs=38.5
Q ss_pred HhhHHHHHHHHHhcC---CCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEecCC
Q psy11809 118 CYNFLQFCELAIKNC---KNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNT 184 (240)
Q Consensus 118 ~~N~~~f~E~~v~~~---~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~~t 184 (240)
+.+-+..|--+...+ ...++|-|+|..+..... ...-.+.+.++..+|...||.+.+-+=++
T Consensus 108 l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~~-----~~~~~~~~~~~a~~l~~~gI~i~~i~i~~ 172 (218)
T cd01458 108 LSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHGG-----DSIKDSQAAVKAEDLKDKGIELELFPLSS 172 (218)
T ss_pred HHHHHHHHHHHHHhccccccccEEEEECCCCCCCCC-----CHHHHHHHHHHHHHHHhCCcEEEEEecCC
Confidence 444444444444432 245799999986654210 12334557788999999999998876544
No 146
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=20.89 E-value=1.7e+02 Score=18.69 Aligned_cols=25 Identities=20% Similarity=0.361 Sum_probs=17.6
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHHHH
Q psy11809 6 LIRAVELDERGRWTESLTFYQDGVT 30 (240)
Q Consensus 6 l~~AVe~D~~g~y~EAl~lY~eaI~ 30 (240)
...|..+-..|++++|+..+.++++
T Consensus 4 ~~~a~~~~~~~~~~~A~~~~~~~~~ 28 (100)
T cd00189 4 LNLGNLYYKLGDYDEALEYYEKALE 28 (100)
T ss_pred HHHHHHHHHHhcHHHHHHHHHHHHh
Confidence 3455556667888888888777765
No 147
>cd00907 Bacterioferritin Bacterioferritin, ferritin-like diiron-binding domain. Bacterioferritins, also known as cytochrome b1, are members of a broad superfamily of ferritin-like diiron-carboxylate proteins. Similar to ferritin in architecture, Bfr forms an oligomer of 24 subunits that assembles to form a hollow sphere with 432 symmetry. Up to 12 heme cofactor groups (iron protoporphyrin IX or coproporphyrin III) are bound between dimer pairs. The role of the heme is unknown, although it may be involved in mediating iron-core reduction and iron release. Each subunit is composed of a four-helix bundle which carries a diiron ferroxidase center; it is here that initial oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical products, and storage of ferric-hydroxyphosphate at the core. Some bacterioferritins are composed of two subunit types, one conferring heme-binding ability (alpha) and the other (beta) best
Probab=20.55 E-value=4.3e+02 Score=20.86 Aligned_cols=57 Identities=16% Similarity=0.231 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHHHHHhc---CCCChhhHHHHHHHHHHHHHHHHHHHHHhhhhhhccC
Q psy11809 18 WTESLTFYQDGVTELLKHVR---GLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMGN 74 (240)
Q Consensus 18 y~EAl~lY~eaI~~Ll~~lK---~e~d~~~K~~lr~Ki~eYl~RAE~LK~~l~~~ke~g~ 74 (240)
++.++..+.++++.+..++. .+.|+...+.+..-+.++...+..++..+..-+..|.
T Consensus 86 l~~~l~~E~~~~~~y~~~~~~A~~~~D~~t~~~l~~~~~~e~~h~~~l~~~l~~~~~~g~ 145 (153)
T cd00907 86 LENDLALEYEAIAALNEAIALCEEVGDYVSRDLLEEILEDEEEHIDWLETQLDLIDKMGL 145 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCH
Confidence 45555566655555555433 3589999999999999999999999999987666654
No 148
>PF11389 Porin_OmpL1: Leptospira porin protein OmpL1; InterPro: IPR021058 OmpL1 is a member of the outer membrane (OM) proteins in the mammalian pathogen Leptospira, related proteins are restricted to the Spirochaetes. Specifically, it is a porin [].
Probab=20.52 E-value=1.2e+02 Score=27.90 Aligned_cols=38 Identities=26% Similarity=0.541 Sum_probs=24.5
Q ss_pred cEEEEEecCCccceEEEecCCeE--------EEeCCcccccccCCCccc-ccC
Q psy11809 175 ITLNINYSNTLHDREIVLSNDWV--------IKIGRGLDIFCHVPEFSI-GFT 218 (240)
Q Consensus 175 i~l~~~~~~tiHDR~I~~dnGw~--------I~igRGLd~fq~~~~f~~-g~~ 218 (240)
++.+|.|+. + +|-+.=|.+ +=+|-||+||+ ++||+ |..
T Consensus 122 ~DmtW~ysa-i---~IP~~vGiKl~V~EDaavY~GAGl~YF~--GGWsl~G~n 168 (267)
T PF11389_consen 122 VDMTWSYSA-I---QIPITVGIKLNVTEDAAVYIGAGLHYFR--GGWSLNGMN 168 (267)
T ss_pred EEeEeeeeE-E---EeeeEEEEEEeeccccceeeccceeeec--cceeccccc
Confidence 577888875 2 333333332 23689999999 78888 544
No 149
>KOG4626|consensus
Probab=20.47 E-value=1e+02 Score=32.59 Aligned_cols=31 Identities=10% Similarity=0.242 Sum_probs=24.1
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHHHH---HHHHhc
Q psy11809 7 IRAVELDERGRWTESLTFYQDGVTE---LLKHVR 37 (240)
Q Consensus 7 ~~AVe~D~~g~y~EAl~lY~eaI~~---Ll~~lK 37 (240)
.-|+-+-+.|++++|+.||++||.+ |-+++.
T Consensus 393 NLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~ 426 (966)
T KOG4626|consen 393 NLASIYKQQGNLDDAIMCYKEALRIKPTFADALS 426 (966)
T ss_pred hHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHH
Confidence 4567778899999999999999964 555543
No 150
>PF14059 DUF4251: Domain of unknown function (DUF4251); PDB: 3FYF_B.
Probab=20.36 E-value=1.8e+02 Score=23.75 Aligned_cols=54 Identities=19% Similarity=0.420 Sum_probs=35.0
Q ss_pred hHHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEec-CCeEEEeCCc-cccccc
Q psy11809 156 RVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLS-NDWVIKIGRG-LDIFCH 209 (240)
Q Consensus 156 ~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~d-nGw~I~igRG-Ld~fq~ 209 (240)
.++..+..+++++.|....-.|+++.--....+.|.++ |+|-|+|--. ++.|=|
T Consensus 3 ~~~~~~~~~~~~~~l~~~~f~i~~~~~~p~~g~~~~l~~~~~~i~v~~dsv~~~Lp 58 (138)
T PF14059_consen 3 AEKKAQKFAQVKEALESRNFKIEVDRAYPMRGRSIYLTGNPYFIEVSGDSVDSYLP 58 (138)
T ss_dssp -----HHHHHHHHHHHTT-EEEEEEEEEETTS-EEE--TTTSEEEEETTEEEEEES
T ss_pred chhhHHHHHHHHHHHHcCCeEEEEEEEEeCCCCcEEecCCCCEEEEECCEEEEEec
Confidence 34456689999999999998888777655778899999 9999988544 444444
No 151
>COG2933 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=20.35 E-value=1e+02 Score=29.34 Aligned_cols=38 Identities=29% Similarity=0.285 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEec
Q psy11809 156 RVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLS 193 (240)
Q Consensus 156 ~~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~d 193 (240)
-++-+..|+.|..+|.++||.+++.-..--||||=+|-
T Consensus 313 y~Ev~~~L~~~~~~l~~~g~~~~i~aKqLYHDREEvTv 350 (358)
T COG2933 313 YEEVRLCLARLEEQLDEHGINAQIQAKQLYHDREEVTV 350 (358)
T ss_pred HHHHHHHHHHHHHHHHhcCCceeechhhhccchhheEE
Confidence 34677899999999999999999999888999986653
No 152
>PF08004 DUF1699: Protein of unknown function (DUF1699); InterPro: IPR012546 This family contains many archaeal proteins which have very conserved sequences.
Probab=20.30 E-value=1.9e+02 Score=24.23 Aligned_cols=40 Identities=20% Similarity=0.280 Sum_probs=28.3
Q ss_pred HHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHhccCcEEEEEec
Q psy11809 128 AIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYS 182 (240)
Q Consensus 128 ~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~~~gi~l~~~~~ 182 (240)
||+.|++++.|+|=.+ -.+..=..++.-|.-.||+| ++=|
T Consensus 36 Lv~~CP~lk~iqiP~S--------------Y~~t~Sksi~mfL~mqgI~L-leGD 75 (131)
T PF08004_consen 36 LVERCPNLKAIQIPPS--------------YYKTLSKSIKMFLEMQGIEL-LEGD 75 (131)
T ss_pred HHHhCCCCeEEeCChH--------------HHHHHhHHHHHHHHhcCcee-eccc
Confidence 5688999999998222 24444566778888899999 4443
No 153
>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in Rhodopseudomonas, Caulobacter crescentus, Bradyrhizobium, etc.
Probab=20.28 E-value=3.7e+02 Score=24.87 Aligned_cols=80 Identities=15% Similarity=0.212 Sum_probs=44.5
Q ss_pred Hhhcc--cccEEEee--CCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchHHHHHHHHHHHHHHh
Q psy11809 96 RFLDE--NVEQIDVT--DPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLR 171 (240)
Q Consensus 96 ~yl~~--~~~~I~ie--DPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~~q~~~l~~i~~sl~ 171 (240)
.||.+ .+.+|.++ ||.+..... |.++++.+.+. +.++.|++.|.--..+ +.. ...++-+.|.
T Consensus 129 ~~i~~~~~I~~VilSGGDPl~~~~~~---L~~ll~~l~~i-~~v~~iri~Tr~~v~~-------p~r---it~ell~~L~ 194 (321)
T TIGR03822 129 AYIADHPEIWEVILTGGDPLVLSPRR---LGDIMARLAAI-DHVKIVRFHTRVPVAD-------PAR---VTPALIAALK 194 (321)
T ss_pred HHHHhCCCccEEEEeCCCcccCCHHH---HHHHHHHHHhC-CCccEEEEeCCCcccC-------hhh---cCHHHHHHHH
Confidence 57753 36777774 999875444 55555555543 4567788877532222 110 1224444555
Q ss_pred ccCcEEEEEecCCccceEE
Q psy11809 172 KMKITLNINYSNTLHDREI 190 (240)
Q Consensus 172 ~~gi~l~~~~~~tiHDR~I 190 (240)
+.|..+.+..+. .|.|++
T Consensus 195 ~~g~~v~i~l~~-~h~~el 212 (321)
T TIGR03822 195 TSGKTVYVALHA-NHAREL 212 (321)
T ss_pred HcCCcEEEEecC-CChhhc
Confidence 556555555554 577876
No 154
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=20.11 E-value=6.6e+02 Score=23.08 Aligned_cols=36 Identities=19% Similarity=0.249 Sum_probs=21.5
Q ss_pred ccEEEe--eCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeec
Q psy11809 102 VEQIDV--TDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTT 143 (240)
Q Consensus 102 ~~~I~i--eDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~ 143 (240)
+..|.+ -+|-+|. +|.++++.+.+.. .+..|.++|.
T Consensus 62 v~~I~~tGGEPllr~-----dl~~li~~i~~~~-~l~~i~itTN 99 (329)
T PRK13361 62 VRKIRLTGGEPLVRR-----GCDQLVARLGKLP-GLEELSLTTN 99 (329)
T ss_pred CCEEEEECcCCCccc-----cHHHHHHHHHhCC-CCceEEEEeC
Confidence 566666 3687763 5667777765442 2345666654
Done!