Query 003482
Match_columns 816
No_of_seqs 196 out of 776
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 00:16:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003482.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003482hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2063 Vacuolar assembly/sort 100.0 9.1E-92 2E-96 810.1 53.5 664 3-808 185-873 (877)
2 KOG2114 Vacuolar assembly/sort 100.0 6.6E-39 1.4E-43 357.5 39.6 570 23-806 230-876 (933)
3 KOG2066 Vacuolar assembly/sort 100.0 4.4E-34 9.5E-39 317.6 38.5 463 98-801 342-821 (846)
4 KOG2034 Vacuolar sorting prote 100.0 3.5E-27 7.7E-32 266.7 30.3 544 49-801 288-849 (911)
5 PF10367 Vps39_2: Vacuolar sor 99.9 1.7E-24 3.7E-29 197.7 12.5 109 691-800 1-109 (109)
6 PF10366 Vps39_1: Vacuolar sor 99.9 9.7E-22 2.1E-26 176.5 9.0 107 319-429 1-108 (108)
7 smart00299 CLH Clathrin heavy 99.6 1.4E-14 3.1E-19 138.4 12.9 131 443-607 6-138 (140)
8 PF00637 Clathrin: Region in C 99.3 2E-14 4.3E-19 137.9 -5.6 132 443-608 6-139 (143)
9 PF00780 CNH: CNH domain; Int 99.0 9.7E-10 2.1E-14 117.5 8.8 91 4-95 166-274 (275)
10 smart00036 CNH Domain found in 98.6 1.4E-07 2.9E-12 102.1 8.9 84 20-104 214-301 (302)
11 KOG0985 Vesicle coat protein c 98.4 0.00011 2.3E-09 86.0 27.4 390 107-733 1043-1461(1666)
12 PF05131 Pep3_Vps18: Pep3/Vps1 97.9 0.0001 2.2E-09 70.3 11.7 106 50-164 35-147 (147)
13 KOG2114 Vacuolar assembly/sort 97.8 0.00017 3.6E-09 83.5 12.7 113 445-580 398-516 (933)
14 KOG0985 Vesicle coat protein c 97.6 0.0055 1.2E-07 72.3 20.3 237 319-607 1315-1559(1666)
15 KOG2079 Vacuolar assembly/sort 97.5 0.0037 7.9E-08 74.5 18.1 91 713-806 1078-1172(1206)
16 KOG2066 Vacuolar assembly/sort 97.3 0.005 1.1E-07 71.2 16.1 89 323-429 613-701 (846)
17 PF00637 Clathrin: Region in C 97.2 0.00012 2.7E-09 69.9 1.3 98 318-433 43-140 (143)
18 KOG4305 RhoGEF GTPase [Signal 97.2 0.00083 1.8E-08 80.8 7.8 73 21-94 924-997 (1029)
19 smart00299 CLH Clathrin heavy 97.1 0.0042 9E-08 59.0 11.2 94 318-429 42-136 (140)
20 COG5422 ROM1 RhoGEF, Guanine n 97.0 0.0017 3.7E-08 75.3 7.5 73 21-94 1070-1143(1175)
21 PLN03081 pentatricopeptide (PP 95.6 6.1 0.00013 48.2 28.4 60 319-388 261-320 (697)
22 PF10366 Vps39_1: Vacuolar sor 94.7 0.057 1.2E-06 48.8 5.4 65 483-569 3-67 (108)
23 PF13432 TPR_16: Tetratricopep 93.6 0.1 2.2E-06 42.0 4.2 55 118-177 3-57 (65)
24 PLN03218 maturation of RBCL 1; 93.5 29 0.00063 44.2 32.1 60 115-177 373-432 (1060)
25 PRK11447 cellulose synthase su 93.2 22 0.00048 46.1 26.8 50 122-176 279-328 (1157)
26 PF09943 DUF2175: Uncharacteri 93.0 0.024 5.3E-07 49.4 -0.4 33 769-803 3-36 (101)
27 COG4847 Uncharacterized protei 91.7 0.045 9.8E-07 46.5 -0.3 32 768-801 6-38 (103)
28 PF14559 TPR_19: Tetratricopep 91.2 0.17 3.7E-06 41.0 2.7 51 122-177 1-51 (68)
29 PLN03218 maturation of RBCL 1; 90.8 58 0.0013 41.6 25.5 60 113-176 438-497 (1060)
30 PF13639 zf-RING_2: Ring finge 90.6 0.13 2.8E-06 38.2 1.3 31 770-801 2-33 (44)
31 KOG2076 RNA polymerase III tra 90.3 6.8 0.00015 47.1 15.5 143 347-492 154-329 (895)
32 PLN03077 Protein ECB2; Provisi 89.9 62 0.0013 40.5 30.5 61 318-388 324-384 (857)
33 PRK11447 cellulose synthase su 89.6 78 0.0017 41.2 26.1 54 119-177 358-411 (1157)
34 PF14446 Prok-RING_1: Prokaryo 88.3 0.23 4.9E-06 38.3 1.1 38 767-806 4-43 (54)
35 PF13414 TPR_11: TPR repeat; P 87.2 0.57 1.2E-05 38.0 3.0 62 115-181 6-69 (69)
36 PF12895 Apc3: Anaphase-promot 87.1 1.4 3E-05 37.4 5.5 52 119-176 32-83 (84)
37 PLN03077 Protein ECB2; Provisi 86.6 97 0.0021 38.8 31.1 59 318-386 425-483 (857)
38 KOG1920 IkappaB kinase complex 86.1 14 0.00031 45.8 14.8 194 349-581 778-992 (1265)
39 TIGR02917 PEP_TPR_lipo putativ 85.4 1E+02 0.0022 37.9 28.3 55 117-176 402-456 (899)
40 PRK11788 tetratricopeptide rep 85.0 30 0.00065 38.4 16.5 57 116-177 111-167 (389)
41 KOG1734 Predicted RING-contain 84.9 0.22 4.8E-06 50.8 -0.7 34 766-800 222-263 (328)
42 PLN03081 pentatricopeptide (PP 84.1 23 0.0005 43.2 16.1 60 319-388 362-421 (697)
43 PF13923 zf-C3HC4_2: Zinc fing 83.5 0.63 1.4E-05 33.5 1.4 29 771-801 1-29 (39)
44 PF14762 HPS3_Mid: Hermansky-P 83.5 13 0.00029 40.9 12.0 164 24-188 97-322 (374)
45 PRK10747 putative protoheme IX 81.8 20 0.00043 40.4 13.4 174 361-564 190-385 (398)
46 PF12678 zf-rbx1: RING-H2 zinc 81.3 1 2.2E-05 37.5 2.0 32 768-800 19-61 (73)
47 PF13525 YfiO: Outer membrane 81.3 3.9 8.4E-05 41.4 6.7 66 117-191 10-75 (203)
48 smart00132 LIM Zinc-binding do 81.2 1.1 2.4E-05 31.6 2.0 30 770-800 1-30 (39)
49 PF13512 TPR_18: Tetratricopep 80.6 2.5 5.5E-05 40.0 4.6 68 115-191 13-80 (142)
50 PF13371 TPR_9: Tetratricopept 80.5 2.7 6E-05 34.3 4.4 52 121-177 4-55 (73)
51 KOG2034 Vacuolar sorting prote 80.0 5.2 0.00011 48.1 7.8 187 362-579 362-568 (911)
52 PF12895 Apc3: Anaphase-promot 80.0 1.6 3.5E-05 37.1 2.9 57 124-183 1-57 (84)
53 KOG2041 WD40 repeat protein [G 80.0 1.4E+02 0.003 35.5 22.1 215 323-571 828-1051(1189)
54 PF09976 TPR_21: Tetratricopep 79.8 4.6 0.0001 38.3 6.3 55 120-176 56-110 (145)
55 KOG2879 Predicted E3 ubiquitin 79.2 1.2 2.5E-05 46.0 2.0 38 764-803 235-272 (298)
56 KOG2063 Vacuolar assembly/sort 79.2 7.6 0.00016 47.5 9.1 53 516-569 479-532 (877)
57 PF07719 TPR_2: Tetratricopept 79.0 3 6.4E-05 28.3 3.5 25 153-177 3-27 (34)
58 KOG0553 TPR repeat-containing 78.8 4.7 0.0001 42.7 6.3 34 149-182 147-181 (304)
59 PF14763 HPS3_C: Hermansky-Pud 78.5 16 0.00034 38.9 9.9 77 516-602 209-290 (353)
60 PF13424 TPR_12: Tetratricopep 77.4 2.9 6.3E-05 34.7 3.7 58 120-177 13-72 (78)
61 KOG0976 Rho/Rac1-interacting s 77.3 1.5 3.4E-05 51.2 2.4 53 23-75 1141-1193(1265)
62 cd00162 RING RING-finger (Real 77.1 0.67 1.5E-05 33.7 -0.3 30 770-801 1-30 (45)
63 COG5243 HRD1 HRD ubiquitin lig 76.9 2.7 5.9E-05 45.1 3.9 89 708-806 233-338 (491)
64 KOG3617 WD40 and TPR repeat-co 76.3 18 0.0004 43.2 10.5 69 123-191 811-898 (1416)
65 PF00515 TPR_1: Tetratricopept 76.2 2.3 5E-05 29.0 2.3 29 153-181 3-32 (34)
66 PRK10866 outer membrane biogen 76.1 6.8 0.00015 40.9 6.8 66 117-191 37-102 (243)
67 TIGR02917 PEP_TPR_lipo putativ 75.7 2E+02 0.0044 35.2 29.0 56 117-177 436-491 (899)
68 PF13429 TPR_15: Tetratricopep 73.2 11 0.00023 40.2 7.6 25 540-564 214-238 (280)
69 COG3063 PilF Tfp pilus assembl 73.1 2.8 6.1E-05 42.7 2.8 31 151-181 103-133 (250)
70 PF00130 C1_1: Phorbol esters/ 72.7 5.1 0.00011 30.8 3.6 41 764-805 7-50 (53)
71 smart00504 Ubox Modified RING 71.8 2 4.4E-05 34.2 1.3 30 769-801 2-31 (63)
72 PF13920 zf-C3HC4_3: Zinc fing 71.3 2.5 5.4E-05 32.2 1.6 32 767-801 1-33 (50)
73 TIGR02795 tol_pal_ybgF tol-pal 71.1 8.5 0.00018 34.2 5.4 60 116-177 6-65 (119)
74 PF00412 LIM: LIM domain; Int 70.7 4.1 8.9E-05 31.8 2.8 28 771-799 1-28 (58)
75 PF00097 zf-C3HC4: Zinc finger 69.9 2.7 5.9E-05 30.3 1.5 29 771-801 1-29 (41)
76 PF03107 C1_2: C1 domain; Int 69.2 5.4 0.00012 26.9 2.7 28 770-798 2-30 (30)
77 smart00184 RING Ring finger. E 69.0 0.98 2.1E-05 31.5 -1.1 28 771-801 1-28 (39)
78 cd00189 TPR Tetratricopeptide 68.4 9.2 0.0002 31.2 4.8 57 116-177 4-60 (100)
79 PF13174 TPR_6: Tetratricopept 68.3 8.1 0.00017 25.8 3.5 29 155-190 4-32 (33)
80 PRK10803 tol-pal system protei 68.2 13 0.00028 39.3 6.7 66 117-191 147-213 (263)
81 KOG2079 Vacuolar assembly/sort 66.0 31 0.00067 42.6 9.7 233 319-569 543-829 (1206)
82 PRK15359 type III secretion sy 65.8 6.4 0.00014 37.4 3.5 58 115-177 27-84 (144)
83 PF09976 TPR_21: Tetratricopep 64.0 15 0.00033 34.7 5.8 57 118-176 17-73 (145)
84 PF14634 zf-RING_5: zinc-RING 63.9 1.6 3.5E-05 32.3 -0.8 32 770-802 1-33 (44)
85 PF07649 C1_3: C1-like domain; 63.0 2.7 5.8E-05 28.3 0.2 28 770-798 2-30 (30)
86 PF12569 NARP1: NMDA receptor- 63.0 3E+02 0.0066 32.2 22.9 62 118-191 10-71 (517)
87 PF13181 TPR_8: Tetratricopept 62.7 12 0.00026 25.2 3.6 25 153-177 3-27 (34)
88 PF10886 DUF2685: Protein of u 62.5 4.9 0.00011 31.0 1.5 34 769-804 2-36 (54)
89 PRK15174 Vi polysaccharide exp 61.9 3.6E+02 0.0078 32.7 27.7 59 114-177 44-102 (656)
90 PF13414 TPR_11: TPR repeat; P 61.8 5.1 0.00011 32.2 1.8 36 152-187 4-40 (69)
91 PF13176 TPR_7: Tetratricopept 61.2 12 0.00027 26.1 3.4 24 361-384 2-25 (36)
92 PF11768 DUF3312: Protein of u 60.3 3.2E+02 0.007 31.9 16.0 161 16-178 269-521 (545)
93 PF01535 PPR: PPR repeat; Int 60.0 13 0.00028 24.3 3.2 26 361-386 3-28 (31)
94 KOG1070 rRNA processing protei 59.9 53 0.0012 41.9 10.4 59 319-386 1499-1558(1710)
95 PF12854 PPR_1: PPR repeat 59.6 12 0.00027 25.8 3.1 27 112-138 7-33 (34)
96 PF12861 zf-Apc11: Anaphase-pr 59.2 3.2 7E-05 35.4 0.1 31 769-800 33-63 (85)
97 PLN03088 SGT1, suppressor of 58.7 14 0.0003 41.1 5.0 21 117-137 7-27 (356)
98 KOG3616 Selective LIM binding 58.3 4E+02 0.0087 32.1 20.6 41 344-384 777-817 (1636)
99 COG4105 ComL DNA uptake lipopr 58.2 25 0.00055 36.6 6.4 69 114-191 36-104 (254)
100 TIGR02552 LcrH_SycD type III s 55.4 16 0.00035 33.6 4.2 55 118-177 23-77 (135)
101 PF12854 PPR_1: PPR repeat 55.1 18 0.00039 25.0 3.3 24 360-383 9-32 (34)
102 KOG3617 WD40 and TPR repeat-co 54.7 22 0.00047 42.7 5.7 74 114-187 1095-1181(1416)
103 PF10607 CLTH: CTLH/CRA C-term 53.5 25 0.00054 33.2 5.3 60 117-176 6-65 (145)
104 PLN03088 SGT1, suppressor of 52.9 18 0.0004 40.1 4.8 54 119-177 43-96 (356)
105 TIGR00756 PPR pentatricopeptid 51.8 25 0.00055 23.3 3.7 27 361-387 3-29 (35)
106 PF04423 Rad50_zn_hook: Rad50 51.5 5.4 0.00012 31.0 0.2 12 769-780 21-32 (54)
107 PF07035 Mic1: Colon cancer-as 51.2 1E+02 0.0022 30.2 9.0 34 547-581 82-116 (167)
108 PF13176 TPR_7: Tetratricopept 50.9 22 0.00048 24.7 3.3 22 155-176 3-24 (36)
109 cd00029 C1 Protein kinase C co 49.9 9.3 0.0002 28.7 1.3 37 766-803 9-48 (50)
110 KOG1941 Acetylcholine receptor 49.7 4.4 9.5E-05 43.8 -0.7 32 768-800 365-398 (518)
111 PF13181 TPR_8: Tetratricopept 47.7 36 0.00078 22.8 4.0 26 361-386 4-29 (34)
112 KOG0826 Predicted E3 ubiquitin 47.6 6.5 0.00014 41.8 0.2 42 768-812 300-344 (357)
113 TIGR02552 LcrH_SycD type III s 47.2 28 0.00062 31.9 4.5 56 117-177 56-111 (135)
114 PF13041 PPR_2: PPR repeat fam 47.1 30 0.00065 25.9 3.8 29 361-389 6-34 (50)
115 PF13374 TPR_10: Tetratricopep 46.7 32 0.0007 24.1 3.8 26 361-386 5-30 (42)
116 PHA02929 N1R/p28-like protein; 46.3 7.6 0.00016 40.2 0.4 34 766-800 172-211 (238)
117 PF14561 TPR_20: Tetratricopep 45.8 43 0.00093 29.1 5.0 62 361-429 25-86 (90)
118 PLN03208 E3 ubiquitin-protein 45.5 7.3 0.00016 38.7 0.1 36 762-800 12-47 (193)
119 PF13174 TPR_6: Tetratricopept 45.5 35 0.00075 22.5 3.6 25 362-386 4-28 (33)
120 TIGR02795 tol_pal_ybgF tol-pal 45.1 42 0.0009 29.6 5.2 57 118-176 45-101 (119)
121 PF13374 TPR_10: Tetratricopep 44.9 32 0.00069 24.1 3.5 24 154-177 5-28 (42)
122 PF13428 TPR_14: Tetratricopep 44.6 26 0.00057 25.5 3.0 25 153-177 3-27 (44)
123 PF07719 TPR_2: Tetratricopept 44.4 42 0.0009 22.3 3.9 26 361-386 4-29 (34)
124 KOG0547 Translocase of outer m 44.3 2.3E+02 0.005 32.5 11.3 24 361-384 540-563 (606)
125 smart00028 TPR Tetratricopepti 43.9 26 0.00057 21.8 2.8 25 153-177 3-27 (34)
126 PF12688 TPR_5: Tetratrico pep 43.5 42 0.00092 30.9 4.8 56 120-177 46-101 (120)
127 KOG2168 Cullins [Cell cycle co 43.5 3.1E+02 0.0067 33.6 13.0 304 159-567 333-662 (835)
128 KOG4577 Transcription factor L 43.4 6 0.00013 41.0 -0.8 31 768-799 92-122 (383)
129 TIGR03302 OM_YfiO outer membra 43.1 50 0.0011 33.7 6.0 61 115-177 36-96 (235)
130 PF13812 PPR_3: Pentatricopept 42.5 44 0.00096 22.2 3.8 27 360-386 3-29 (34)
131 PRK14720 transcript cleavage f 42.1 5.8E+02 0.013 32.1 15.4 32 359-390 170-201 (906)
132 PRK15359 type III secretion sy 42.1 40 0.00087 31.9 4.7 54 119-177 65-118 (144)
133 KOG1840 Kinesin light chain [C 42.0 58 0.0013 37.8 6.7 51 123-177 336-393 (508)
134 PF13424 TPR_12: Tetratricopep 41.8 38 0.00081 27.8 4.0 27 151-177 5-31 (78)
135 COG5540 RING-finger-containing 41.1 8.2 0.00018 40.5 -0.3 31 769-800 324-355 (374)
136 smart00668 CTLH C-terminal to 41.1 47 0.001 25.6 4.2 51 116-166 5-55 (58)
137 PRK02603 photosystem I assembl 40.8 64 0.0014 31.3 6.1 57 119-177 42-98 (172)
138 PHA02610 uvsY.-2 hypothetical 40.5 15 0.00031 28.0 1.0 32 769-801 2-33 (53)
139 KOG2659 LisH motif-containing 39.7 60 0.0013 33.3 5.6 60 115-176 67-128 (228)
140 PF13428 TPR_14: Tetratricopep 39.2 49 0.0011 24.0 3.8 27 361-387 4-30 (44)
141 COG5159 RPN6 26S proteasome re 39.1 3.4E+02 0.0075 28.9 10.9 74 117-191 8-97 (421)
142 PF07721 TPR_4: Tetratricopept 39.0 47 0.001 21.2 3.2 22 154-175 4-25 (26)
143 TIGR00540 hemY_coli hemY prote 38.9 3.2E+02 0.0069 30.8 12.2 27 361-387 190-216 (409)
144 PF04053 Coatomer_WDAD: Coatom 38.4 6.6E+02 0.014 28.8 14.4 26 347-372 417-442 (443)
145 KOG4628 Predicted E3 ubiquitin 38.2 47 0.001 36.3 4.9 31 770-801 231-262 (348)
146 PF12569 NARP1: NMDA receptor- 38.1 3.2E+02 0.007 32.0 12.1 30 359-388 39-68 (517)
147 COG4338 Uncharacterized protei 37.4 12 0.00026 27.9 0.1 15 766-780 10-24 (54)
148 smart00109 C1 Protein kinase C 37.3 7.9 0.00017 28.8 -0.8 36 766-802 9-46 (49)
149 TIGR00599 rad18 DNA repair pro 37.1 10 0.00023 42.2 -0.2 33 765-800 23-55 (397)
150 PF13445 zf-RING_UBOX: RING-ty 36.7 18 0.00038 26.8 1.0 28 771-801 1-31 (43)
151 TIGR02521 type_IV_pilW type IV 36.2 67 0.0014 31.7 5.6 55 118-177 37-91 (234)
152 KOG1538 Uncharacterized conser 36.2 27 0.00059 40.7 2.8 49 123-179 784-832 (1081)
153 KOG1840 Kinesin light chain [C 35.2 69 0.0015 37.2 6.0 69 119-187 206-286 (508)
154 COG4068 Uncharacterized protei 35.2 20 0.00042 28.1 1.0 18 764-781 4-21 (64)
155 cd00189 TPR Tetratricopeptide 35.1 55 0.0012 26.3 4.1 56 117-177 39-94 (100)
156 PF10013 DUF2256: Uncharacteri 34.8 21 0.00045 26.1 1.0 14 767-780 7-20 (42)
157 CHL00033 ycf3 photosystem I as 34.5 1.2E+02 0.0027 29.1 7.0 53 121-177 44-98 (168)
158 COG5110 RPN1 26S proteasome re 34.4 64 0.0014 37.1 5.2 37 545-582 246-282 (881)
159 KOG3380 Actin-related protein 33.9 1.1E+02 0.0023 29.1 5.7 70 111-180 34-104 (152)
160 PF13771 zf-HC5HC2H: PHD-like 33.3 29 0.00063 29.8 2.0 33 768-801 36-69 (90)
161 KOG1174 Anaphase-promoting com 33.0 61 0.0013 36.1 4.7 57 119-181 445-502 (564)
162 PF00515 TPR_1: Tetratricopept 33.0 68 0.0015 21.4 3.5 25 361-385 4-28 (34)
163 PF02318 FYVE_2: FYVE-type zin 32.2 3.1E+02 0.0067 25.0 8.7 33 767-800 53-88 (118)
164 CHL00033 ycf3 photosystem I as 31.7 1E+02 0.0022 29.7 5.8 72 120-191 80-153 (168)
165 PF09295 ChAPs: ChAPs (Chs5p-A 31.4 88 0.0019 35.2 5.8 55 117-176 239-293 (395)
166 PF04641 Rtf2: Rtf2 RING-finge 31.3 28 0.00061 36.7 1.9 34 768-802 113-148 (260)
167 KOG0976 Rho/Rac1-interacting s 30.8 25 0.00055 41.7 1.5 46 28-74 1062-1107(1265)
168 PF00412 LIM: LIM domain; Int 30.8 29 0.00063 26.9 1.4 29 769-799 27-55 (58)
169 cd00065 FYVE FYVE domain; Zinc 30.6 27 0.00058 27.1 1.2 34 768-802 2-37 (57)
170 PF03704 BTAD: Bacterial trans 30.3 99 0.0021 28.9 5.3 56 117-177 67-122 (146)
171 KOG1920 IkappaB kinase complex 30.2 6.1E+02 0.013 32.4 12.8 35 350-384 944-978 (1265)
172 TIGR02521 type_IV_pilW type IV 30.2 96 0.0021 30.5 5.6 55 118-177 71-125 (234)
173 COG1885 Uncharacterized protei 29.8 72 0.0016 28.1 3.7 31 753-784 33-64 (115)
174 PRK10803 tol-pal system protei 28.7 1.1E+02 0.0025 32.2 5.9 62 119-191 187-250 (263)
175 PF07035 Mic1: Colon cancer-as 28.3 2.8E+02 0.006 27.2 8.0 65 319-383 31-114 (167)
176 KOG3039 Uncharacterized conser 28.1 29 0.00062 35.5 1.2 47 767-814 220-270 (303)
177 COG3063 PilF Tfp pilus assembl 27.9 50 0.0011 33.9 2.8 54 121-177 112-165 (250)
178 PF13838 Clathrin_H_link: Clat 27.9 1.1E+02 0.0024 25.0 4.2 25 115-139 9-33 (66)
179 TIGR00990 3a0801s09 mitochondr 27.4 80 0.0017 37.8 5.1 25 153-177 401-425 (615)
180 PRK03922 hypothetical protein; 27.3 71 0.0015 28.5 3.3 31 753-784 33-64 (113)
181 PF08394 Arc_trans_TRASH: Arch 27.3 84 0.0018 22.5 3.0 26 771-797 1-26 (37)
182 PRK10370 formate-dependent nit 27.2 81 0.0018 31.7 4.3 24 153-176 146-169 (198)
183 PRK00085 recO DNA repair prote 27.1 62 0.0013 33.6 3.6 81 705-798 97-177 (247)
184 COG2075 RPL24A Ribosomal prote 26.7 69 0.0015 25.9 2.8 32 768-801 3-36 (66)
185 PF07720 TPR_3: Tetratricopept 26.5 72 0.0016 22.5 2.6 19 157-175 7-25 (36)
186 KOG3785 Uncharacterized conser 26.2 1.4E+02 0.003 32.7 5.7 54 119-176 29-82 (557)
187 PRK00420 hypothetical protein; 26.2 45 0.00099 30.2 2.0 27 768-800 23-49 (112)
188 PF14559 TPR_19: Tetratricopep 26.1 72 0.0016 25.2 3.1 28 361-388 28-55 (68)
189 PF13041 PPR_2: PPR repeat fam 25.8 72 0.0016 23.8 2.8 27 113-139 4-30 (50)
190 PRK12370 invasion protein regu 25.8 70 0.0015 37.8 4.1 24 153-176 340-363 (553)
191 PRK11189 lipoprotein NlpI; Pro 25.4 78 0.0017 34.0 4.1 28 360-387 238-265 (296)
192 KOG0978 E3 ubiquitin ligase in 25.4 43 0.00094 40.0 2.1 35 769-806 644-682 (698)
193 PRK11788 tetratricopeptide rep 25.4 1.5E+02 0.0032 32.7 6.5 56 121-177 78-133 (389)
194 COG5194 APC11 Component of SCF 24.8 21 0.00045 29.9 -0.4 31 782-816 48-78 (88)
195 PRK15363 pathogenicity island 24.8 98 0.0021 29.9 4.1 68 105-177 21-95 (157)
196 PF01363 FYVE: FYVE zinc finge 24.4 38 0.00083 27.5 1.1 34 768-802 9-44 (69)
197 PF09889 DUF2116: Uncharacteri 24.2 46 0.00099 26.5 1.4 15 767-781 2-16 (59)
198 PF07282 OrfB_Zn_ribbon: Putat 24.2 1.4E+02 0.003 24.2 4.4 37 757-794 14-57 (69)
199 PLN03098 LPA1 LOW PSII ACCUMUL 24.2 2.4E+02 0.0053 32.1 7.6 59 117-177 80-138 (453)
200 smart00064 FYVE Protein presen 24.1 46 0.00099 26.9 1.5 34 768-802 10-45 (68)
201 COG2888 Predicted Zn-ribbon RN 24.0 55 0.0012 25.9 1.8 32 768-800 9-44 (61)
202 KOG4340 Uncharacterized conser 24.0 1.1E+02 0.0024 32.6 4.6 61 112-177 10-70 (459)
203 KOG2932 E3 ubiquitin ligase in 24.0 25 0.00054 37.1 -0.1 31 769-801 91-121 (389)
204 KOG0276 Vesicle coat complex C 23.9 9.6E+02 0.021 28.5 12.1 135 113-383 638-774 (794)
205 KOG4340 Uncharacterized conser 23.5 1.8E+02 0.0038 31.2 5.9 59 118-177 84-170 (459)
206 PF00628 PHD: PHD-finger; Int 23.4 88 0.0019 23.5 2.9 36 770-806 1-37 (51)
207 PF13432 TPR_16: Tetratricopep 22.9 74 0.0016 24.9 2.5 21 157-177 3-23 (65)
208 COG1729 Uncharacterized protei 22.7 1.1E+02 0.0023 32.4 4.1 61 115-177 144-204 (262)
209 PF10516 SHNi-TPR: SHNi-TPR; 22.5 1.1E+02 0.0024 21.9 3.0 26 152-177 2-27 (38)
210 KOG2110 Uncharacterized conser 22.3 1.7E+02 0.0038 32.0 5.7 67 16-87 48-125 (391)
211 PF12816 Vps8: Golgi CORVET co 22.2 1E+02 0.0022 31.1 3.9 58 321-378 26-86 (196)
212 TIGR02561 HrpB1_HrpK type III 22.2 2.7E+02 0.0059 26.7 6.4 55 121-181 53-110 (153)
213 COG5432 RAD18 RING-finger-cont 22.2 18 0.00039 37.7 -1.5 43 765-810 22-67 (391)
214 PF13913 zf-C2HC_2: zinc-finge 21.7 28 0.0006 22.4 -0.2 15 769-783 3-17 (25)
215 COG2976 Uncharacterized protei 21.6 1.8E+02 0.0038 29.3 5.2 54 119-176 96-151 (207)
216 PRK14891 50S ribosomal protein 21.2 79 0.0017 29.2 2.5 26 769-795 5-32 (131)
217 KOG2002 TPR-containing nuclear 21.1 1.4E+02 0.0029 37.0 5.1 63 119-183 277-340 (1018)
218 PF07754 DUF1610: Domain of un 21.0 55 0.0012 21.0 1.0 18 771-788 1-19 (24)
219 PF12688 TPR_5: Tetratrico pep 20.9 1.6E+02 0.0035 27.1 4.6 56 120-177 9-64 (120)
220 PF10571 UPF0547: Uncharacteri 20.9 38 0.00083 22.1 0.3 15 770-784 2-16 (26)
221 PRK15179 Vi polysaccharide bio 20.9 1.4E+02 0.003 36.4 5.3 54 119-177 127-180 (694)
222 PRK15331 chaperone protein Sic 20.7 1.4E+02 0.0031 29.1 4.3 38 149-187 36-77 (165)
223 PF13371 TPR_9: Tetratricopept 20.3 1.3E+02 0.0027 24.1 3.5 24 541-564 30-53 (73)
224 TIGR00990 3a0801s09 mitochondr 20.3 1.7E+02 0.0036 35.1 5.9 26 152-177 434-459 (615)
225 KOG1127 TPR repeat-containing 20.1 1.8E+02 0.0039 36.2 5.8 63 119-186 9-73 (1238)
No 1
>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=9.1e-92 Score=810.06 Aligned_cols=664 Identities=37% Similarity=0.544 Sum_probs=551.7
Q ss_pred CCCcccccccCC------cccccccc-----cccccceEEEEcCCCccccCCCccccCCCceEEeeCcEEEEecCCceEE
Q 003482 3 THGTIEEAFCVS------PGKRESVF-----SDMMENIGVFVDQNGKLLQADRICWSEAPIAVIIQKPYAIALLPRRVEV 71 (816)
Q Consensus 3 ~~g~~~~lf~~~------~p~~~~~~-----~~~~d~~gvfv~~~G~~~~~~~i~w~~~p~~v~~~~PYli~l~~~~ieV 71 (816)
.+|....+|+++ +|++.++. +.++|++|||||.+|.+..++|+.|+..|.+|++.+||+|++.++.|||
T Consensus 185 ~~~~~~~~~~s~~~~~s~~P~I~~l~~~~~ll~~kd~~gv~vd~~G~~~~~~~l~ws~~P~~v~~~~PYlIa~~~~~veI 264 (877)
T KOG2063|consen 185 SKGVGPNLFPSSMDNESRKPLIKSLSDQSELLLGKDNIGVVVDLNGIIAQRGTLVWSEVPLSVVVESPYLIALLDRSVEI 264 (877)
T ss_pred CCccccceeeeccccccCCCeEEEecCCceEEEccCceEEEEecCCcccCCCceEecccchhhcccCceEEEEccccEEE
Confidence 367888889887 58888875 5699999999999999867999999999999999999999999999999
Q ss_pred EEccCCCcceeEe-eeCCceeeeecCCcEE-EecCCcEEEeccCC-HHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHh
Q 003482 72 RSLRVPYALIQTI-VLQNVRHLIPSSNAVV-VALENSIFGLFPVP-LGAQIVQLTASGDFEEALALCKLLPPEDASLRAA 148 (816)
Q Consensus 72 ~sl~~~~~~vQti-~l~~~~~l~~~~~~v~-v~s~~~I~~l~~~~-~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~ 148 (816)
|+.. +++++|+| +++.+..+++++++++ +++.+.+|+|.|+| +..||++|+...+|++|++|++.... ..+.+..
T Consensus 265 ~s~~-~~qlvQSI~~~~~~~~l~s~~~~i~~~~~~s~v~~L~p~~~~~~qi~~lL~~k~fe~ai~L~e~~~~-~~p~~~~ 342 (877)
T KOG2063|consen 265 RSKL-DGQLVQSITPLSNGRSLLSAHNGIIFVASLSNVWILVPVSNFEKQIQDLLQEKSFEEAISLAEILDS-PNPKEKR 342 (877)
T ss_pred Eecc-CHHHhhccccccccceeeecCCcEEEEEeccceEEEEeccchHHHHHHHHHhhhHHHHHHHHhccCC-CChHHHH
Confidence 9996 88999999 9999988887766655 55559999999999 99999999999999999999998753 3344444
Q ss_pred hHHHHHHHH-HHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCCCCCCCCCCCCCccccccCCCCCCCCCCCCCCCCCCC
Q 003482 149 KEGSIHIRF-AHYLFDTGSYEEAMEHFLASQVDITYALSLYPSIVLPKTTVVPEPERLLDISSDAPSLSRGSSGMSDDME 227 (816)
Q Consensus 149 ~~~~i~~~~-a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~ 227 (816)
.+..++.++ |+.+|.+++|++||.+|.++.+||+.||+|||+++|..... . .+....+.
T Consensus 343 ~i~~~~~l~~a~~lf~q~~f~ea~~~F~~~~~d~~~vi~lfP~l~p~~~~~-~---~~~~~vp~---------------- 402 (877)
T KOG2063|consen 343 QISCIKILIDAFELFLQKQFEEAMSLFEKSEIDPRHVISLFPDLLPSENSS-I---EFTGVVPI---------------- 402 (877)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHhhccChHHHHHhchhhcCCcccc-c---ceeeeccC----------------
Confidence 567777777 89999999999999999999999999999999997644421 0 11111110
Q ss_pred CCCCCCCCcchhhhhhhhhhhhHHHHHHHHHHHHHHhHHHHHhhhccCchhHhhhcccCCCCCCCcccccccCCCCCCCC
Q 003482 228 SSPPAQLSELDENATLKSKKMSHNTLMALIKFLQKKRSSIIEKATAEGTEEVVLDAVGDNFTSHDSTRFKKSSKGRGTIP 307 (816)
Q Consensus 228 ~~~~~~l~~~~~~~~le~~~~~~~a~~~L~~yL~~~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 307 (816)
+.+.+..++ .. .|..+++.||+..|+...++.+...... + +.+++ ...+..
T Consensus 403 --~~~~~~~~~--------~v--~a~l~~~~ylt~~r~~~~~~l~~~~m~~----------~----~~~~~---~~~s~~ 453 (877)
T KOG2063|consen 403 --RAPELRGGD--------LV--PAVLALIVYLTQSRREENKKLNKYKMLY----------M----NYFKN---TLISEL 453 (877)
T ss_pred --chhhhccCc--------cc--chhhhhhhHhHHHHHHHHHHHHHhhhhH----------H----hhhhc---cCcchh
Confidence 000111111 11 3556899999998887655443221110 0 00000 001111
Q ss_pred CcccHHHHHHHHHHHHHHHHHhcCCchhHHhhhcCCC-cccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHh
Q 003482 308 MYSGAREMAAILDTALLQALLLTGQSSAALELLKGLN-YCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVE 386 (816)
Q Consensus 308 ~~~~~~~~~~~vDT~Llk~yl~~~~~~~l~~ll~~~n-~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~ 386 (816)
...+...++++|||+|||||+++++ ....+++|.+| +|++++++.+|+++++|.+|+.||+.+|+|++||++|+++++
T Consensus 454 ~~~~~~~~~~~IDttLlk~Yl~~n~-~~v~~llrlen~~c~vee~e~~L~k~~~y~~Li~LY~~kg~h~~AL~ll~~l~d 532 (877)
T KOG2063|consen 454 LKSDLNDILELIDTTLLKCYLETNP-GLVGPLLRLENNHCDVEEIETVLKKSKKYRELIELYATKGMHEKALQLLRDLVD 532 (877)
T ss_pred hccchHHHHHHHHHHHHHHHHhcCc-hhhhhhhhccCCCcchHHHHHHHHhcccHHHHHHHHHhccchHHHHHHHHHHhc
Confidence 2234567899999999999999986 46779998876 999999999999999999999999999999999999999998
Q ss_pred hhc-CCCCcccccccCChHHHHHHhcccCCCChHHHHHhHHhhhhhCcccccccccc------CCCChHHHHHHHhhcCh
Q 003482 387 ESK-SNQSQDEHTQKFNPESIIEYLKPLCGTDPMLVLEFSMLVLESCPTQTIELFLS------GNIPADLVNSYLKQYSP 459 (816)
Q Consensus 387 ~~~-~d~~~~~~~~~~~~~~~i~yL~~L~~~~~~li~~y~~wll~~~p~~~i~if~~------~~l~~~~Vl~~L~~~~~ 459 (816)
+.. .|. ....+++.+++||++++.++.++||+|+.|+++++|+.|++||++ +++++++|++||.+..+
T Consensus 533 ~~~~~d~-----~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~~~~~~~sis~~~Vl~~l~~~~~ 607 (877)
T KOG2063|consen 533 EDSDTDS-----FQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSEDKQEAESISRDDVLNYLKSKEP 607 (877)
T ss_pred ccccccc-----chhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeeccChhhhccCCHHHHHHHhhhhCc
Confidence 763 333 233467889999999999999999999999999999999999998 35999999999999999
Q ss_pred hhHHHHHHHHHhhhcCCCCchhHHHHHHHHHHHHHH-HhhhhhhhhccCc-ccchHHHHHHHHHHhhhCCCChHHHhccC
Q 003482 460 SMQGRYLELMLAMNENSISGNLQNEMVQIYLSEVLD-WYSDLSAQQKWDE-KAYSPTRKKLLSALESISGYNPEVLLKRL 537 (816)
Q Consensus 460 ~~~~~YLE~li~~~~~~~~~~~h~~Li~lYl~~l~~-~~~~~~~~~~~~~-~~~~~~r~kL~~fL~~s~~Yd~~~~L~~~ 537 (816)
.+.+.||||+|.+++ ..+..|||.|+.+|++.+.+ ...+ +++++ .+.. +|+||+.||+.|+.|+++.+|..+
T Consensus 608 ~l~I~YLE~li~~~~-~~~~~lht~ll~ly~e~v~~~~~~~----~kg~e~~E~~-~rekl~~~l~~s~~Y~p~~~L~~~ 681 (877)
T KOG2063|consen 608 KLLIPYLEHLISDNR-LTSTLLHTVLLKLYLEKVLEQASTD----GKGEEAPETT-VREKLLDFLESSDLYDPQLLLERL 681 (877)
T ss_pred chhHHHHHHHhHhcc-ccchHHHHHHHHHHHHHHhhccCch----hccccchhhh-HHHHHHHHhhhhcccCcchhhhhc
Confidence 999999999998763 45789999999999999984 2111 11111 1111 599999999999999999999999
Q ss_pred CCCchhHHHHHHHhhcccHHHHHHHHHHhcCCHHHHHHHHHHhhhhccCCCCCCCCccHHHHHHHHhcCCCCCchhhhhh
Q 003482 538 PADALYEERAILLGKMNQHELALSLYVHKLCVPELALAYCDRVYESIAHQPSGKSSGNIYLTLLQIYLNPRRTTKNFEKQ 617 (816)
Q Consensus 538 ~~~~l~~e~a~Ll~rlg~h~~AL~ilv~~L~D~~~Ae~YC~~~~~~~~~~~~~~~~~~l~~~Ll~~yl~~~~~~~~~~~~ 617 (816)
+.+.|++|+++++||+|+|++||+||++.|+|+++|+.||..+|+. +..+.++|.+||++|+.+..+ +
T Consensus 682 ~~~~l~ee~aill~rl~khe~aL~Iyv~~L~d~~~A~~Yc~~~y~~------~~~~~~~y~~lL~~~l~~~~d---~--- 749 (877)
T KOG2063|consen 682 NGDELYEERAILLGRLGKHEEALHIYVHELDDIDAAESYCLPQYES------DKTNKEIYLTLLRIYLNPIHD---Y--- 749 (877)
T ss_pred cchhHHHHHHHHHhhhhhHHHHHHHHHHHhcchhHHHHHHHHhccC------CCcccHHHHHHHHHHhcchhh---c---
Confidence 9999999999999999999999999999999999999999999972 245789999999999986221 0
Q ss_pred hhhcccCCCCCCCCCCCccceeccCCccccchhhhcccccccCCCCCCCCCCCCCCcccccccCCchhcHHHHHHHHhhc
Q 003482 618 ITNLVSSQNTTIPKAGSVTAVKVKGGRTTKKIASIEGAEDMRMSPSSTDSGRSDGDAEEFSEEGDSTIMIDQVLDLLSQR 697 (816)
Q Consensus 618 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~lL~~~ 697 (816)
.++ .-.++.+|++|
T Consensus 750 --------------------------------------------------------------~~~----~~~il~~l~~h 763 (877)
T KOG2063|consen 750 --------------------------------------------------------------KSG----PLYILNFLQKH 763 (877)
T ss_pred --------------------------------------------------------------ccc----chhhhhHHHhh
Confidence 000 24677799999
Q ss_pred cCCCCHHHHhhcCCCccchhhhHHHHHHHHHhHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccceEEECCCCcCCcCCCc
Q 003482 698 WDRINGAQALKLLPRETKLQNLLPFLEPLLRKSSEAHRNLSVIKSLRQSENLQVKDELYNQRKTVVKITSDSMCSLCSKK 777 (816)
Q Consensus 698 ~~~ld~~~vL~~LP~~~~l~~l~~fL~~~lr~~~~~~r~~~i~~~l~~~~~~~~~~el~~~~s~~v~I~~~~~C~vC~k~ 777 (816)
++++|+..|+++||++|++..+.+|+.+.||...+.+|+.++.+++++++++...+++.+.++.+++|+.+..|.+|.|+
T Consensus 764 ~~r~d~~~~~~~Lp~~~sl~~~~~~l~~~Lr~~~~~~r~~q~~~~l~q~E~~~~~~~l~~~~s~~~~l~~~~~C~~C~k~ 843 (877)
T KOG2063|consen 764 ADRLDLAQVLKLLPDDISLKDLCSFLSKLLRKRFEALRTTQVQKSLLQAELLPSTEELNKLRSSKIQLNDESLCSICEKR 843 (877)
T ss_pred hhhcCHHHHHHhCCccCcHhHHHHHHHHHHHHHHHhcchhHHHHHHHHHhhcchHHHHHHhhcceEEEchhhHhHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCceEEEccCCCeEEEeccCCCccchhccc
Q 003482 778 IGTSVFAVYPNGKTIVHFVCFRDSQSMKAVA 808 (816)
Q Consensus 778 l~~~~f~v~p~g~~v~H~~C~~~~~~~~~~~ 808 (816)
||.++|++|||| +++|++|+++.|+...+.
T Consensus 844 i~~s~f~ryp~g-~lvh~~C~~~~q~~~~~~ 873 (877)
T KOG2063|consen 844 IGTSVFVRYPNG-ILVHLSCAKDLQGSKAVK 873 (877)
T ss_pred hcCeeEEECCCC-cEEEEEeechhccccccC
Confidence 999999999999 999999999988775543
No 2
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6.6e-39 Score=357.53 Aligned_cols=570 Identities=16% Similarity=0.221 Sum_probs=398.9
Q ss_pred cccccceEEEEcCCCccccCCCcccc-CCCc-eEEeeCcEEEEecCC-ceEEEEccCCCcceeEee---eCC--------
Q 003482 23 SDMMENIGVFVDQNGKLLQADRICWS-EAPI-AVIIQKPYAIALLPR-RVEVRSLRVPYALIQTIV---LQN-------- 88 (816)
Q Consensus 23 ~~~~d~~gvfv~~~G~~~~~~~i~w~-~~p~-~v~~~~PYli~l~~~-~ieV~sl~~~~~~vQti~---l~~-------- 88 (816)
+.+..+.-.|++++|+ +.-..+. +.-. ...+.+-|++++++. ....-+.. +....+.+. +.+
T Consensus 230 Ica~~e~l~fY~sd~~---~~cfaf~~g~kk~~~~~~~g~~L~v~~~~~~~~~s~s-~ss~~~i~~~~d~~n~~v~ys~v 305 (933)
T KOG2114|consen 230 ICAGSEFLYFYDSDGR---GPCFAFEVGEKKEMLVFSFGLLLCVTTDKGTENTSLS-NSSSNRIFKAYDLRNRYVLYSSV 305 (933)
T ss_pred EEecCceEEEEcCCCc---ceeeeecCCCeEEEEEEecCEEEEEEccCCCCCcccC-ccchhheeehhhhcCcccchHHh
Confidence 4567777788888887 3455555 4443 455566888888762 33322221 111111111 111
Q ss_pred ---c-eeeeecC-CcEEEecCCcEEEeccCCHHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhc
Q 003482 89 ---V-RHLIPSS-NAVVVALENSIFGLFPVPLGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFD 163 (816)
Q Consensus 89 ---~-~~l~~~~-~~v~v~s~~~I~~l~~~~~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~ 163 (816)
. ..++..+ +.+++.+++.+++|.+.+.+.+|+.|+++..|+.|++||++... | ...+..|+.+||.+||.
T Consensus 306 l~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk~~~~-d----~d~~~~i~~kYgd~Ly~ 380 (933)
T KOG2114|consen 306 LEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAKSQHL-D----EDTLAEIHRKYGDYLYG 380 (933)
T ss_pred HHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHHhcCC-C----HHHHHHHHHHHHHHHHh
Confidence 0 1112223 45667889999999999999999999999999999999998642 2 23677899999999999
Q ss_pred CCCHHHHHHHHHH--cCCCHHHHHHhCCCCCCCCCCCCCCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCcchhhh
Q 003482 164 TGSYEEAMEHFLA--SQVDITYALSLYPSIVLPKTTVVPEPERLLDISSDAPSLSRGSSGMSDDMESSPPAQLSELDENA 241 (816)
Q Consensus 164 ~~~f~~A~~~f~~--~~~dP~~vi~LFp~l~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~ 241 (816)
+|+|++|+++|++ +.+||.+||..|++-
T Consensus 381 Kgdf~~A~~qYI~tI~~le~s~Vi~kfLda-------------------------------------------------- 410 (933)
T KOG2114|consen 381 KGDFDEATDQYIETIGFLEPSEVIKKFLDA-------------------------------------------------- 410 (933)
T ss_pred cCCHHHHHHHHHHHcccCChHHHHHHhcCH--------------------------------------------------
Confidence 9999999999998 479999999999644
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHhHHHHHhhhccCchhHhhhcccCCCCCCCcccccccCCCCCCCCCcccHHHHHHHHHH
Q 003482 242 TLKSKKMSHNTLMALIKFLQKKRSSIIEKATAEGTEEVVLDAVGDNFTSHDSTRFKKSSKGRGTIPMYSGAREMAAILDT 321 (816)
Q Consensus 242 ~le~~~~~~~a~~~L~~yL~~~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vDT 321 (816)
+.+..|+.||+..+++.++ + +.+.|
T Consensus 411 ---------q~IknLt~YLe~L~~~gla--~--------------------------------------------~dhtt 435 (933)
T KOG2114|consen 411 ---------QRIKNLTSYLEALHKKGLA--N--------------------------------------------SDHTT 435 (933)
T ss_pred ---------HHHHHHHHHHHHHHHcccc--c--------------------------------------------chhHH
Confidence 5789999999999976432 1 13678
Q ss_pred HHHHHHHhcCCchhHHhhhcCCC----cccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCcccc
Q 003482 322 ALLQALLLTGQSSAALELLKGLN----YCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEESKSNQSQDEH 397 (816)
Q Consensus 322 ~Llk~yl~~~~~~~l~~ll~~~n----~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~ 397 (816)
+||.||++.+|.+.+..|++.-. ..|++.+.++|++.+++.+.-.|..+.++|+++|.++.+.
T Consensus 436 lLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~he~vl~ille~------------- 502 (933)
T KOG2114|consen 436 LLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATKFKKHEWVLDILLED------------- 502 (933)
T ss_pred HHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhccCHHHHHHHHHH-------------
Confidence 99999999999999999997532 5689999999999999999999999999999999999874
Q ss_pred cccCChHHHHHHhcccCCCC-hHHHHHhHHhhhhhCcccccccccc---CC--CChH-------HHHHHHhh--cChhhH
Q 003482 398 TQKFNPESIIEYLKPLCGTD-PMLVLEFSMLVLESCPTQTIELFLS---GN--IPAD-------LVNSYLKQ--YSPSMQ 462 (816)
Q Consensus 398 ~~~~~~~~~i~yL~~L~~~~-~~li~~y~~wll~~~p~~~i~if~~---~~--l~~~-------~Vl~~L~~--~~~~~~ 462 (816)
.+++..+++|++.|+.++ ...+.+|++||++++|++++.+|.+ +. .+.. .-+.++.- .++...
T Consensus 503 --~~ny~eAl~yi~slp~~e~l~~l~kyGk~Ll~h~P~~t~~ili~~~t~~~~~~~~~~~s~~~~~~~~i~if~~~~~~~ 580 (933)
T KOG2114|consen 503 --LHNYEEALRYISSLPISELLRTLNKYGKILLEHDPEETMKILIELITELNSQGKGKSLSNIPDSIEFIGIFSQNYQIL 580 (933)
T ss_pred --hcCHHHHHHHHhcCCHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHhhcCCCCCCchhhcCccchhheeeeccCHHHH
Confidence 345788999999998766 4688999999999999999999875 11 0000 11111111 246667
Q ss_pred HHHHHHHHhhhcCCCC--chhHHHHHHHHHHHH-----------HHHhhhhh-hhhc-cCccc-----------------
Q 003482 463 GRYLELMLAMNENSIS--GNLQNEMVQIYLSEV-----------LDWYSDLS-AQQK-WDEKA----------------- 510 (816)
Q Consensus 463 ~~YLE~li~~~~~~~~--~~~h~~Li~lYl~~l-----------~~~~~~~~-~~~~-~~~~~----------------- 510 (816)
..||+.+.... ++.. .++-..+.++++-.- .....-+. ..+. .|+..
T Consensus 581 ~~Fl~~~~E~s-~~s~e~~~i~~t~~~~~l~~~sf~~~~~~~n~~~~l~h~~~~~~~~sdpq~kt~~~~~l~~~~~~~~~ 659 (933)
T KOG2114|consen 581 LNFLESMSEIS-PDSEEVLEIIYTLLELSLMQKSFVTKPFEFNLEAELAHYQQYEGFDSDPQVKTTTLYDLYLELDAEDV 659 (933)
T ss_pred HHHHHHHHhcC-CCchhhhccccchhhhhhhhccccccchhhccHHHHHHHHhhcccccChhhhhccchhhHHHHHhhhc
Confidence 77777655422 1111 122223333443220 00000000 0000 00000
Q ss_pred --chHHHHHHHHHHhh-hCCCChHHHhccCCCCchhHHHHHHHhhcccHHHHHHHHHHhcCCHHHHHHHHHHhhhhccCC
Q 003482 511 --YSPTRKKLLSALES-ISGYNPEVLLKRLPADALYEERAILLGKMNQHELALSLYVHKLCVPELALAYCDRVYESIAHQ 587 (816)
Q Consensus 511 --~~~~r~kL~~fL~~-s~~Yd~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv~~L~D~~~Ae~YC~~~~~~~~~~ 587 (816)
......|--.++.. -+.||.+.+|-.++.+++.....++|+|+|...+-+..+- +..|++.+...|...+..
T Consensus 660 ~~~~~~l~ksn~l~d~~~~nvd~d~al~l~qm~df~dg~ly~~~k~k~~~dl~~~~~-q~~d~E~~it~~~~~g~~---- 734 (933)
T KOG2114|consen 660 PERTIILRKSNKLLDYAASNVDEDAALLLSQMSDFTDGLLYSYEKLKEGQDLMLYFQ-QISDPETVITLCERLGKE---- 734 (933)
T ss_pred ccccchhhhhcchhhhhhccccchHHHHHHHHhCCCchHHHHHhhccchHHHHHHHH-HhhChHHHHHHHHHhCcc----
Confidence 00011111112221 2358889999999888999999999999999999997776 889999999999998743
Q ss_pred CCCCCCccHHHHHHHHhcCCCCCchhhhhhhhhcccCCCCCCCCCCCccceeccCCccccchhhhcccccccCCCCCCCC
Q 003482 588 PSGKSSGNIYLTLLQIYLNPRRTTKNFEKQITNLVSSQNTTIPKAGSVTAVKVKGGRTTKKIASIEGAEDMRMSPSSTDS 667 (816)
Q Consensus 588 ~~~~~~~~l~~~Ll~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 667 (816)
++++|..+|+++.+... |.
T Consensus 735 -----~p~l~~~~L~yF~~~~~-------------------i~------------------------------------- 753 (933)
T KOG2114|consen 735 -----DPSLWLHALKYFVSEES-------------------IE------------------------------------- 753 (933)
T ss_pred -----ChHHHHHHHHHHhhhcc-------------------hh-------------------------------------
Confidence 78999999998754321 00
Q ss_pred CCCCCCcccccccCCchhcHHHHHHHHhhccCCCCHHHHhhcCCC--ccchhhhHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 003482 668 GRSDGDAEEFSEEGDSTIMIDQVLDLLSQRWDRINGAQALKLLPR--ETKLQNLLPFLEPLLRKSSEAHRNLSVIKSLRQ 745 (816)
Q Consensus 668 ~~~~~~~~~~~~~~~~~~~~~~~l~lL~~~~~~ld~~~vL~~LP~--~~~l~~l~~fL~~~lr~~~~~~r~~~i~~~l~~ 745 (816)
.+ .+.+.+++..+. ....|.|..||+.|.+ ...+..+++++.+.|+.+..+..+..-.-...+
T Consensus 754 -------------~~-~~~v~~vl~~I~-~~~~ippl~VL~~Lakn~~ltls~IkD~ii~~l~~~~~~I~qd~~~Ie~yk 818 (933)
T KOG2114|consen 754 -------------DC-YEIVYKVLEAIE-MQERIPPLHVLQILAKNGTLTLSVIKDYIIKWLNKYSTIIEQDEDAIEVYK 818 (933)
T ss_pred -------------hH-HHHHHHHHHHHH-hcccCCHHHHHHHHhcCCceEEehhHHHHHHHHHhhhHHHHhhHHHHHHHH
Confidence 00 123566666665 4688999999999986 578899999999999998876443332222334
Q ss_pred hhhHHHHHHHHhcccceEEECCCCcCCcCCCccCCceEEEccCCCeEEEeccCCCccchhc
Q 003482 746 SENLQVKDELYNQRKTVVKITSDSMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRDSQSMKA 806 (816)
Q Consensus 746 ~~~~~~~~el~~~~s~~v~I~~~~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~~~~~~ 806 (816)
.+.-+...++..++.+. +|-+.++|+.|+-+|..+.++ |.|| |.+|++|+.+....|+
T Consensus 819 ~~i~e~r~~l~~lr~sa-~i~q~skCs~C~~~LdlP~Vh-F~Cg-HsyHqhC~e~~~~~CP 876 (933)
T KOG2114|consen 819 KDIEEKRQELETLRTSA-QIFQVSKCSACEGTLDLPFVH-FLCG-HSYHQHCLEDKEDKCP 876 (933)
T ss_pred HHHHHHHHHHHHhhccc-ceeeeeeecccCCccccceee-eecc-cHHHHHhhccCcccCC
Confidence 45545666666666544 344679999999999999998 9999 9999999997777776
No 3
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.4e-34 Score=317.57 Aligned_cols=463 Identities=17% Similarity=0.232 Sum_probs=353.5
Q ss_pred cEEEecCCcEEEeccCCHHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 98 AVVVALENSIFGLFPVPLGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 98 ~v~v~s~~~I~~l~~~~~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
..|+.|.+.|....+...++.|+.|++.++|+||+..++.... .. .......+-..|-.+|+..++|++|....-.
T Consensus 342 ~yyIvspkDiV~a~~~~~~Dhi~Wll~~k~yeeAl~~~k~~~~--~~-~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~- 417 (846)
T KOG2066|consen 342 LYYIVSPKDIVVAKERDQEDHIDWLLEKKKYEEALDAAKASIG--NE-ERFVIKKVGKTYIDHLLFEGKYDEAASLCPK- 417 (846)
T ss_pred eEEEecCCceEEEeecCcchhHHHHHHhhHHHHHHHHHHhccC--Cc-cccchHHHHHHHHHHHHhcchHHHHHhhhHH-
Confidence 4788999999999999999999999999999999999998742 21 1124567888888999999999999765532
Q ss_pred CCCHHHHHHhCCCCCCCCCCCCCCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCcchhhhhhhhhhhhHHHHHHHH
Q 003482 178 QVDITYALSLYPSIVLPKTTVVPEPERLLDISSDAPSLSRGSSGMSDDMESSPPAQLSELDENATLKSKKMSHNTLMALI 257 (816)
Q Consensus 178 ~~dP~~vi~LFp~l~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~le~~~~~~~a~~~L~ 257 (816)
++ +.. ...
T Consensus 418 -------------m~-gn~-----~~e----------------------------------------------------- 425 (846)
T KOG2066|consen 418 -------------ML-GNN-----AAE----------------------------------------------------- 425 (846)
T ss_pred -------------Hh-cch-----HHH-----------------------------------------------------
Confidence 21 000 000
Q ss_pred HHHHHHhHHHHHhhhccCchhHhhhcccCCCCCCCcccccccCCCCCCCCCcccHHHHHHHHHHHHHHHHHhcCCchhHH
Q 003482 258 KFLQKKRSSIIEKATAEGTEEVVLDAVGDNFTSHDSTRFKKSSKGRGTIPMYSGAREMAAILDTALLQALLLTGQSSAAL 337 (816)
Q Consensus 258 ~yL~~~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vDT~Llk~yl~~~~~~~l~ 337 (816)
.+.|+.++.. ......+ -.++|-...+ +...|.-++|..|+. .+...+.
T Consensus 426 --We~~V~~f~e---~~~l~~I------a~~lPt~~~r-------------------L~p~vYemvLve~L~-~~~~~F~ 474 (846)
T KOG2066|consen 426 --WELWVFKFAE---LDQLTDI------APYLPTGPPR-------------------LKPLVYEMVLVEFLA-SDVKGFL 474 (846)
T ss_pred --HHHHHHHhcc---ccccchh------hccCCCCCcc-------------------cCchHHHHHHHHHHH-HHHHHHH
Confidence 1112222110 0000000 0011111111 122355555555555 3322333
Q ss_pred hhhcC------CCcccHHHHHHHHHhcCC----HHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCcccccccCChHHHH
Q 003482 338 ELLKG------LNYCDVKICEEILQKKNH----YTALLELYKSNARHREALKLLHELVEESKSNQSQDEHTQKFNPESII 407 (816)
Q Consensus 338 ~ll~~------~n~c~~~~~~~~L~~~~~----~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~~~~~~~~~~i 407 (816)
.+++. ...|..+..+..++++.. -+.|+.||...++|.+|++++.++.+.+ +.
T Consensus 475 e~i~~Wp~~Lys~l~iisa~~~q~~q~Se~~~L~e~La~LYl~d~~Y~~Al~~ylklk~~~-----------------vf 537 (846)
T KOG2066|consen 475 ELIKEWPGHLYSVLTIISATEPQIKQNSESTALLEVLAHLYLYDNKYEKALPIYLKLQDKD-----------------VF 537 (846)
T ss_pred HHHHhCChhhhhhhHHHhhcchHHHhhccchhHHHHHHHHHHHccChHHHHHHHHhccChH-----------------HH
Confidence 33332 245667777777776533 3679999999999999999999875533 23
Q ss_pred HHhcccCCCChHHHHHhHHhhhhhCcccccccccc--CCCChHHHHHHHhhcChhhHHHHHHHHHhhhcCCCCchhHHHH
Q 003482 408 EYLKPLCGTDPMLVLEFSMLVLESCPTQTIELFLS--GNIPADLVNSYLKQYSPSMQGRYLELMLAMNENSISGNLQNEM 485 (816)
Q Consensus 408 ~yL~~L~~~~~~li~~y~~wll~~~p~~~i~if~~--~~l~~~~Vl~~L~~~~~~~~~~YLE~li~~~~~~~~~~~h~~L 485 (816)
+.+.+- .-.+.+.+-..-++..+.+.++++|++ +.+||..|++.+.. .|.++..||..+...+. .....+|+.+
T Consensus 538 ~lI~k~--nL~d~i~~~Iv~Lmll~skka~~lLldn~d~ip~a~Vveql~~-~P~~l~~YL~kl~~rd~-~~~~~y~dk~ 613 (846)
T KOG2066|consen 538 DLIKKH--NLFDQIKDQIVLLMLLDSKKAIDLLLDNRDSISPSEVVEQLED-NPKLLYCYLHKLFKRDH-FMGSEYHDKQ 613 (846)
T ss_pred HHHHHH--hhHHHHHHHHHHHHccchhhHHHHHhhccccCCHHHHHHHHhc-ChHHHHHHHHHHhhcCc-cccchhhhHH
Confidence 333211 224566666677788888899999987 46999999999984 59999999999997653 5678999999
Q ss_pred HHHHHHHHHHHhhhhhhhhccCcccchHHHHHHHHHHhhhCCCChHHHhccCCCCchhHHHHHHHhhcccHHHHHHHHHH
Q 003482 486 VQIYLSEVLDWYSDLSAQQKWDEKAYSPTRKKLLSALESISGYNPEVLLKRLPADALYEERAILLGKMNQHELALSLYVH 565 (816)
Q Consensus 486 i~lYl~~l~~~~~~~~~~~~~~~~~~~~~r~kL~~fL~~s~~Yd~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv~ 565 (816)
+++|.+. .|.+|+.||+.|..|+++++++.|...++++|.++||||||++.+||.++++
T Consensus 614 I~LYAEy---------------------Drk~LLPFLr~s~~Y~lekA~eiC~q~~~~~E~VYlLgrmGn~k~AL~lII~ 672 (846)
T KOG2066|consen 614 IELYAEY---------------------DRKKLLPFLRKSQNYNLEKALEICSQKNFYEELVYLLGRMGNAKEALKLIIN 672 (846)
T ss_pred HHHHHHH---------------------hHhhhhHHHHhcCCCCHHHHHHHHHhhCcHHHHHHHHHhhcchHHHHHHHHH
Confidence 9999876 5899999999999999999999999999999999999999999999999999
Q ss_pred hcCCHHHHHHHHHHhhhhccCCCCCCCCccHHHHHHHHhcCCCCCchhhhhhhhhcccCCCCCCCCCCCccceeccCCcc
Q 003482 566 KLCVPELALAYCDRVYESIAHQPSGKSSGNIYLTLLQIYLNPRRTTKNFEKQITNLVSSQNTTIPKAGSVTAVKVKGGRT 645 (816)
Q Consensus 566 ~L~D~~~Ae~YC~~~~~~~~~~~~~~~~~~l~~~Ll~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 645 (816)
+|+|+++|++||..+. +++||..|+.+.+..|
T Consensus 673 el~die~AIefvKeq~-----------D~eLWe~LI~~~ldkP------------------------------------- 704 (846)
T KOG2066|consen 673 ELRDIEKAIEFVKEQD-----------DSELWEDLINYSLDKP------------------------------------- 704 (846)
T ss_pred HhhCHHHHHHHHHhcC-----------CHHHHHHHHHHhhcCc-------------------------------------
Confidence 9999999999999876 5799999998766432
Q ss_pred ccchhhhcccccccCCCCCCCCCCCCCCcccccccCCchhcHHHHHHHHhhccCCCCHHHHhhcCCCccchhhhHHHHHH
Q 003482 646 TKKIASIEGAEDMRMSPSSTDSGRSDGDAEEFSEEGDSTIMIDQVLDLLSQRWDRINGAQALKLLPRETKLQNLLPFLEP 725 (816)
Q Consensus 646 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~lL~~~~~~ld~~~vL~~LP~~~~l~~l~~fL~~ 725 (816)
+.+..+|+ -+.++||..|+..||++..|+.+++-|.+
T Consensus 705 ------------------------------------------e~~~~ll~-i~~~~dpl~ii~kip~g~~IPnLrdsl~K 741 (846)
T KOG2066|consen 705 ------------------------------------------EFIKALLN-IGEHEDPLLIIRKIPDGLEIPNLRDSLVK 741 (846)
T ss_pred ------------------------------------------HHHHHHHH-hhhcccHHHHHhcCCCCCCCccHHHHHHH
Confidence 23333333 34459999999999999999999999999
Q ss_pred HHHhHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccceEEECCCCcCCcCCCccCC-----ceEEEccCCCeEEEeccCCC
Q 003482 726 LLRKSSEAHRNLSVIKSLRQSENLQVKDELYNQRKTVVKITSDSMCSLCSKKIGT-----SVFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 726 ~lr~~~~~~r~~~i~~~l~~~~~~~~~~el~~~~s~~v~I~~~~~C~vC~k~l~~-----~~f~v~p~g~~v~H~~C~~~ 800 (816)
.+++++.+....+-+..+...+...+..++.+.++++|.+..+.+|..|..++-. ..|+||-|| |++|..|...
T Consensus 742 il~dy~~q~el~~~c~~i~~nd~~~l~~k~~~~~~~Gv~v~~e~rc~~c~~~~l~~~~~~~~~~v~~c~-h~yhk~c~~~ 820 (846)
T KOG2066|consen 742 ILQDYNLQLELRQGCYDILKNDSKSLLNKFLKTARRGVLVSVEERCSSCFEPNLPSGAAFDSVVVFHCG-HMYHKECLMM 820 (846)
T ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCeeEeehhhhhhhcccccccCcccceeeEEEcc-chhhhccccc
Confidence 9999999988888899999999999999999999999999999999999999764 468889999 9999999976
Q ss_pred c
Q 003482 801 S 801 (816)
Q Consensus 801 ~ 801 (816)
.
T Consensus 821 ~ 821 (846)
T KOG2066|consen 821 E 821 (846)
T ss_pred H
Confidence 4
No 4
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.96 E-value=3.5e-27 Score=266.70 Aligned_cols=544 Identities=15% Similarity=0.193 Sum_probs=381.4
Q ss_pred CCCceEEeeCcEEEEecCCceEEEEccCCCcceeEeeeCC---ceee--e--ecCCcEEEecCCcEEEeccCCHHHHHHH
Q 003482 49 EAPIAVIIQKPYAIALLPRRVEVRSLRVPYALIQTIVLQN---VRHL--I--PSSNAVVVALENSIFGLFPVPLGAQIVQ 121 (816)
Q Consensus 49 ~~p~~v~~~~PYli~l~~~~ieV~sl~~~~~~vQti~l~~---~~~l--~--~~~~~v~v~s~~~I~~l~~~~~~~qi~~ 121 (816)
++|.+++...=+++-++.++|.+-|+. +++.+=.-++.. +.++ + +..+.+|+.|.+.|+.+....-..-|+.
T Consensus 288 ~~p~~ivLT~yH~LLl~~d~V~avs~L-n~~vI~~~~~n~s~~g~~LGlv~D~va~~~w~YTq~~vf~~~vndE~R~vWk 366 (911)
T KOG2034|consen 288 EPPKAIVLTEFHFLLLYADRVLAVSLL-NGEVIYRDQFNESELGGILGLVSDSVAETFWLYTQTSVFEYGVNDEARDVWK 366 (911)
T ss_pred CCcceehHHHHHHHHHhcCceeeeecc-CccccchhccCchhcccceeeeeccccceEEEEEeceeeeeeeccchHHHHH
Confidence 456666654333343667889998886 342221112222 2222 2 2346788999999999999987777665
Q ss_pred H-HhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCCCCCCCCCCC
Q 003482 122 L-TASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPSIVLPKTTVVP 200 (816)
Q Consensus 122 L-l~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l~~~~~~~~~ 200 (816)
. +++|+|+.|++.|+.-+ ..+..+..+.|..+|..++|..|.+.+.+......+|.-.|-..- +
T Consensus 367 ~yLd~g~y~kAL~~ar~~p--------~~le~Vl~~qAdf~f~~k~y~~AA~~yA~t~~~FEEVaLKFl~~~--~----- 431 (911)
T KOG2034|consen 367 TYLDKGEFDKALEIARTRP--------DALETVLLKQADFLFQDKEYLRAAEIYAETLSSFEEVALKFLEIN--Q----- 431 (911)
T ss_pred HHHhcchHHHHHHhccCCH--------HHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhhHHHHHHHHHhcC--C-----
Confidence 4 89999999999997632 356678899999999999999999999998777788888887662 1
Q ss_pred CCccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCcchhhhhhhhhhhhHHHHHHHHHHHHHHhHHHHHhhhccCchhHh
Q 003482 201 EPERLLDISSDAPSLSRGSSGMSDDMESSPPAQLSELDENATLKSKKMSHNTLMALIKFLQKKRSSIIEKATAEGTEEVV 280 (816)
Q Consensus 201 ~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~le~~~~~~~a~~~L~~yL~~~R~~~~~~~~~~~~~~~~ 280 (816)
.+.+.. .+.+. +++. + .+ + +-...+|..||.+.--..++...+ +
T Consensus 432 -~~~L~~------~L~KK-------L~~l-----t-~~-----d-----k~q~~~Lv~WLlel~L~~Ln~l~~--~---- 475 (911)
T KOG2034|consen 432 -ERALRT------FLDKK-------LDRL-----T-PE-----D-----KTQRDALVTWLLELYLEQLNDLDS--T---- 475 (911)
T ss_pred -HHHHHH------HHHHH-------HhhC-----C-hH-----H-----HHHHHHHHHHHHHHHHHHHhcccc--c----
Confidence 111100 00000 0000 0 00 0 134557777777655433221110 0
Q ss_pred hhcccCCCCCCCcccccccCCCCCCCCCcccHHHHHHHHHHHHHHHHHhcCCchhHHhhhcC-CCcccHHHHHHHHHhcC
Q 003482 281 LDAVGDNFTSHDSTRFKKSSKGRGTIPMYSGAREMAAILDTALLQALLLTGQSSAALELLKG-LNYCDVKICEEILQKKN 359 (816)
Q Consensus 281 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vDT~Llk~yl~~~~~~~l~~ll~~-~n~c~~~~~~~~L~~~~ 359 (816)
.+......|+.. ++ .. ..+..++.. ...-+-+.|.+++.+++
T Consensus 476 -------------------------------de~~~en~~~~~-~~-~~----re~~~~~~~~~~~~nretv~~l~~~~~ 518 (911)
T KOG2034|consen 476 -------------------------------DEEALENWRLEY-DE-VQ----REFSKFLVLHKDELNRETVYQLLASHG 518 (911)
T ss_pred -------------------------------ChhHHHHHHHHH-HH-HH----HHHHHHHHhhHHhhhHHHHHHHHHHcc
Confidence 011111111111 00 00 011122211 11346778888888899
Q ss_pred CHHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCcccccccCChHHHHHHhcccCCCChHHHHHhHHhhhhhCccccccc
Q 003482 360 HYTALLELYKSNARHREALKLLHELVEESKSNQSQDEHTQKFNPESIIEYLKPLCGTDPMLVLEFSMLVLESCPTQTIEL 439 (816)
Q Consensus 360 ~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~~~~~~~~~~i~yL~~L~~~~~~li~~y~~wll~~~p~~~i~i 439 (816)
+.++++.+.--.++++..+..|..... .+.+.+.|.+ ..+.++.++|++-|+.+.|.+++..
T Consensus 519 ~~e~ll~fA~l~~d~~~vv~~~~q~e~----------------yeeaLevL~~--~~~~el~yk~ap~Li~~~p~~tV~~ 580 (911)
T KOG2034|consen 519 RQEELLQFANLIKDYEFVVSYWIQQEN----------------YEEALEVLLN--QRNPELFYKYAPELITHSPKETVSA 580 (911)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHH----------------HHHHHHHHHh--ccchhhHHHhhhHHHhcCcHHHHHH
Confidence 988888888888888888888876422 3455666653 2667899999999999999999999
Q ss_pred ccc--CCCChHHHHHHHhhc-------ChhhHHHHHHHHHhhhcCCCCchhHHHHHHHHHHHHHHHhhhhhhhhccCccc
Q 003482 440 FLS--GNIPADLVNSYLKQY-------SPSMQGRYLELMLAMNENSISGNLQNEMVQIYLSEVLDWYSDLSAQQKWDEKA 510 (816)
Q Consensus 440 f~~--~~l~~~~Vl~~L~~~-------~~~~~~~YLE~li~~~~~~~~~~~h~~Li~lYl~~l~~~~~~~~~~~~~~~~~ 510 (816)
++. +..|+..+...|.-. -+...++|||+.+... +..++.+||.|..+|+...- .
T Consensus 581 wm~~~d~~~~~li~~~L~~~~~~~~~~~~~~~i~yl~f~~~~l-~~~~~~ihn~ll~lya~~~~---------------~ 644 (911)
T KOG2034|consen 581 WMAQKDLDPNRLIPPILSYFSNWHSEYEENQAIRYLEFCIEVL-GMTNPAIHNSLLHLYAKHER---------------D 644 (911)
T ss_pred HHHccccCchhhhHHHHHHHhcCCccccHHHHHHHHHHHHHhc-cCcCHHHHHHHHHHhhcCCc---------------c
Confidence 987 346666555554421 2457899999998764 45689999999999986411 0
Q ss_pred chHHHHHHHHHHhhhCCCChHHHhccCCCCchhHHHHHHHhhcccHHHHHHHHHHhcCCHHHHHHHHHHhhhhccCCCCC
Q 003482 511 YSPTRKKLLSALESISGYNPEVLLKRLPADALYEERAILLGKMNQHELALSLYVHKLCVPELALAYCDRVYESIAHQPSG 590 (816)
Q Consensus 511 ~~~~r~kL~~fL~~s~~Yd~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv~~L~D~~~Ae~YC~~~~~~~~~~~~~ 590 (816)
.-.++.....|-++...||+..+++.|-...-....++||..|+.|++|.++.+. -|.+.|..-+...++..
T Consensus 645 ~ll~~le~~~~~~~~~~YDl~~alRlc~~~~~~ra~V~l~~~l~l~~~aVdlAL~--~d~dlak~~A~~~ee~e------ 716 (911)
T KOG2034|consen 645 DLLLYLEIIKFMKSRVHYDLDYALRLCLKFKKTRACVFLLCMLNLFEDAVDLALQ--FDIDLAKVIANDPEEDE------ 716 (911)
T ss_pred chHHHHHHHhhccccceecHHHHHHHHHHhCccceeeeHHHHHHHHHHHHHHHhh--cCHHHHhhhhcChhhHH------
Confidence 0112333344444567999999999998877788999999999999999999984 46999998888776542
Q ss_pred CCCccHHHHHHHHhcCCCCCchhhhhhhhhcccCCCCCCCCCCCccceeccCCccccchhhhcccccccCCCCCCCCCCC
Q 003482 591 KSSGNIYLTLLQIYLNPRRTTKNFEKQITNLVSSQNTTIPKAGSVTAVKVKGGRTTKKIASIEGAEDMRMSPSSTDSGRS 670 (816)
Q Consensus 591 ~~~~~l~~~Ll~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 670 (816)
..++.+|....+.++..
T Consensus 717 ~lrKkLWLkIAkh~v~~--------------------------------------------------------------- 733 (911)
T KOG2034|consen 717 DLRKKLWLKIAKHVVKQ--------------------------------------------------------------- 733 (911)
T ss_pred HHHHHHHHHHHHHHHHh---------------------------------------------------------------
Confidence 13567998877665431
Q ss_pred CCCcccccccCCchhcHHHHHHHHhhccCCCCHHHHhhcCCCccchhhhHHHHHHHHHhHHHHHHHHHHHHHHHHhhhHH
Q 003482 671 DGDAEEFSEEGDSTIMIDQVLDLLSQRWDRINGAQALKLLPRETKLQNLLPFLEPLLRKSSEAHRNLSVIKSLRQSENLQ 750 (816)
Q Consensus 671 ~~~~~~~~~~~~~~~~~~~~l~lL~~~~~~ld~~~vL~~LP~~~~l~~l~~fL~~~lr~~~~~~r~~~i~~~l~~~~~~~ 750 (816)
+..+..++.+|+. .+.|...++|+.+|+...|..+++-++..+++..++.++.+...+=++.-..+
T Consensus 734 -------------~~~ikk~i~~Lk~-~~lLkiedlLpffpdf~~id~~keaic~~L~~~n~rieel~~em~eat~~a~~ 799 (911)
T KOG2034|consen 734 -------------ENDIKKAIRFLKE-NELLTIEDLLPFFPDFTKIDNLKEAICDFLEDYNKRIEELQEEMIEATELADE 799 (911)
T ss_pred -------------hccHHHHHHHhcc-CcccchhhhhccccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1226788999987 78889999999999999999999999999999999877777665555555567
Q ss_pred HHHHHHhcccceEEECCCCcCCcCCCccCCceEEEccCCCeEEEeccCCCc
Q 003482 751 VKDELYNQRKTVVKITSDSMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 751 ~~~el~~~~s~~v~I~~~~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~ 801 (816)
...++.+.++|+.+|.+...|.+|+++|...+|+||||| |.+|..|....
T Consensus 800 I~~~~~~l~~ry~v~ep~d~C~~C~~~ll~~pF~vf~Cg-H~FH~~Cl~~~ 849 (911)
T KOG2034|consen 800 IRTEISKLRQRYRVLEPQDSCDHCGRPLLIKPFYVFPCG-HCFHRDCLIRH 849 (911)
T ss_pred HHhHHHHhhcceEEecCccchHHhcchhhcCcceeeecc-chHHHHHHHHH
Confidence 888899999999999999999999999999999999999 99999998643
No 5
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=99.91 E-value=1.7e-24 Score=197.69 Aligned_cols=109 Identities=42% Similarity=0.682 Sum_probs=105.9
Q ss_pred HHHHhhccCCCCHHHHhhcCCCccchhhhHHHHHHHHHhHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccceEEECCCCc
Q 003482 691 LDLLSQRWDRINGAQALKLLPRETKLQNLLPFLEPLLRKSSEAHRNLSVIKSLRQSENLQVKDELYNQRKTVVKITSDSM 770 (816)
Q Consensus 691 l~lL~~~~~~ld~~~vL~~LP~~~~l~~l~~fL~~~lr~~~~~~r~~~i~~~l~~~~~~~~~~el~~~~s~~v~I~~~~~ 770 (816)
+++|+++++.|||.+||++||++|+|+.+++||.++++.+.+++++.++.+++.++++.+++.++.+.++++|+|++++.
T Consensus 1 l~lL~~~~~~ld~~~vL~~LP~~~~l~~l~~fl~~~l~~~~~~~~~~~i~~~l~~~~~~~~~~~l~~~~~~~v~i~~~~~ 80 (109)
T PF10367_consen 1 LELLNEHGSRLDPIDVLKLLPDDWPLSDLSDFLCKSLRKYSNRKRESQIEKNLLKSENLQLKYELVKLRSRSVVITESTK 80 (109)
T ss_pred ChhHHhccccCCHHHHHHhCcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhcCceEEECCCCC
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcCCCccCCceEEEccCCCeEEEeccCCC
Q 003482 771 CSLCSKKIGTSVFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 771 C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~ 800 (816)
|++|+|+||+++|+||||| |+||++|+++
T Consensus 81 C~vC~k~l~~~~f~~~p~~-~v~H~~C~~r 109 (109)
T PF10367_consen 81 CSVCGKPLGNSVFVVFPCG-HVVHYSCIKR 109 (109)
T ss_pred ccCcCCcCCCceEEEeCCC-eEEecccccC
Confidence 9999999999999999999 9999999863
No 6
>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.
Probab=99.86 E-value=9.7e-22 Score=176.50 Aligned_cols=107 Identities=36% Similarity=0.584 Sum_probs=91.9
Q ss_pred HHHHHHHHHHhcCCchhHHhhhcCCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCccccc
Q 003482 319 LDTALLQALLLTGQSSAALELLKGLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEESKSNQSQDEHT 398 (816)
Q Consensus 319 vDT~Llk~yl~~~~~~~l~~ll~~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~~ 398 (816)
|||+||+||+.++ +..+.+|+|.+|+|++++|+++|+++++|.+|+.||+.+|+|++||++|+++++++..+. .+ .
T Consensus 1 VDTaLlk~Yl~~~-~~~l~~llr~~N~C~~~~~e~~L~~~~~~~eL~~lY~~kg~h~~AL~ll~~l~~~~~~~~--~~-~ 76 (108)
T PF10366_consen 1 VDTALLKCYLETN-PSLLGPLLRLPNYCDLEEVEEVLKEHGKYQELVDLYQGKGLHRKALELLKKLADEEDSDE--ED-P 76 (108)
T ss_pred CcHHHHHHHHHhC-HHHHHHHHccCCcCCHHHHHHHHHHcCCHHHHHHHHHccCccHHHHHHHHHHhccccccc--cc-c
Confidence 6999999999995 578999999999999999999999999999999999999999999999999998532111 11 1
Q ss_pred ccCChHHH-HHHhcccCCCChHHHHHhHHhhh
Q 003482 399 QKFNPESI-IEYLKPLCGTDPMLVLEFSMLVL 429 (816)
Q Consensus 399 ~~~~~~~~-i~yL~~L~~~~~~li~~y~~wll 429 (816)
...++..+ ++||++|+.++.++|++|+.|++
T Consensus 77 ~~~~~~~~iv~yL~~L~~~~~dLI~~~s~WvL 108 (108)
T PF10366_consen 77 FLSGVKETIVQYLQKLGNEDLDLIFEYSDWVL 108 (108)
T ss_pred cccCchhHHHHHHHhCChhhhHHHHHhccccC
Confidence 12344444 99999999999999999999985
No 7
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=99.58 E-value=1.4e-14 Score=138.37 Aligned_cols=131 Identities=22% Similarity=0.249 Sum_probs=116.8
Q ss_pred CCCChHHHHHHHhhc-ChhhHHHHHHHHHhhhcCCCCchhHHHHHHHHHHHHHHHhhhhhhhhccCcccchHHHHHHHHH
Q 003482 443 GNIPADLVNSYLKQY-SPSMQGRYLELMLAMNENSISGNLQNEMVQIYLSEVLDWYSDLSAQQKWDEKAYSPTRKKLLSA 521 (816)
Q Consensus 443 ~~l~~~~Vl~~L~~~-~~~~~~~YLE~li~~~~~~~~~~~h~~Li~lYl~~l~~~~~~~~~~~~~~~~~~~~~r~kL~~f 521 (816)
+.+++++|++.+... .+...+.|||+++..+ ..++.+||+|+++|++. .+.+++.|
T Consensus 6 ~~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~--~~~~~~~~~li~ly~~~---------------------~~~~ll~~ 62 (140)
T smart00299 6 DPIDVSEVVELFEKRNLLEELIPYLESALKLN--SENPALQTKLIELYAKY---------------------DPQKEIER 62 (140)
T ss_pred CcCCHHHHHHHHHhCCcHHHHHHHHHHHHccC--ccchhHHHHHHHHHHHH---------------------CHHHHHHH
Confidence 468999999999843 5889999999999764 36789999999999854 36899999
Q ss_pred Hh-hhCCCChHHHhccCCCCchhHHHHHHHhhcccHHHHHHHHHHhcCCHHHHHHHHHHhhhhccCCCCCCCCccHHHHH
Q 003482 522 LE-SISGYNPEVLLKRLPADALYEERAILLGKMNQHELALSLYVHKLCVPELALAYCDRVYESIAHQPSGKSSGNIYLTL 600 (816)
Q Consensus 522 L~-~s~~Yd~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv~~L~D~~~Ae~YC~~~~~~~~~~~~~~~~~~l~~~L 600 (816)
|+ +++.||++.+++.|...++++|.++||+|+|+|++|+++++..++|++.|.+||.+.. ++++|..+
T Consensus 63 l~~~~~~yd~~~~~~~c~~~~l~~~~~~l~~k~~~~~~Al~~~l~~~~d~~~a~~~~~~~~-----------~~~lw~~~ 131 (140)
T smart00299 63 LDNKSNHYDIEKVGKLCEKAKLYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEYFVKQN-----------NPELWAEV 131 (140)
T ss_pred HHhccccCCHHHHHHHHHHcCcHHHHHHHHHhhcCHHHHHHHHHHcccCHHHHHHHHHhCC-----------CHHHHHHH
Confidence 99 8999999999999999999999999999999999999999999999999999999854 46899999
Q ss_pred HHHhcCC
Q 003482 601 LQIYLNP 607 (816)
Q Consensus 601 l~~yl~~ 607 (816)
++.++..
T Consensus 132 ~~~~l~~ 138 (140)
T smart00299 132 LKALLDK 138 (140)
T ss_pred HHHHHcc
Confidence 9988754
No 8
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized 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. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=99.34 E-value=2e-14 Score=137.89 Aligned_cols=132 Identities=26% Similarity=0.403 Sum_probs=112.1
Q ss_pred CCCChHHHHHHHhh-cChhhHHHHHHHHHhhhcCCCCchhHHHHHHHHHHHHHHHhhhhhhhhccCcccchHHH-HHHHH
Q 003482 443 GNIPADLVNSYLKQ-YSPSMQGRYLELMLAMNENSISGNLQNEMVQIYLSEVLDWYSDLSAQQKWDEKAYSPTR-KKLLS 520 (816)
Q Consensus 443 ~~l~~~~Vl~~L~~-~~~~~~~~YLE~li~~~~~~~~~~~h~~Li~lYl~~l~~~~~~~~~~~~~~~~~~~~~r-~kL~~ 520 (816)
+..++..|+..+.+ ..+.....|||.++..+ ...++.+||.|+.+|++. .+ ++|+.
T Consensus 6 ~~~~~~~vi~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~~L~~ly~~~---------------------~~~~~l~~ 63 (143)
T PF00637_consen 6 DPLEISEVISAFEERNQPEELIEYLEALVKEN-KENNPDLHTLLLELYIKY---------------------DPYEKLLE 63 (143)
T ss_dssp TTSCSCCCHHHCTTTT-GGGCTCCHHHHHHTS-TC-SHHHHHHHHHHHHCT---------------------TTCCHHHH
T ss_pred CccCHHHHHHHHHhCCCHHHHHHHHHHHHhcc-cccCHHHHHHHHHHHHhc---------------------CCchHHHH
Confidence 34666777777765 35788999999999653 345799999999999964 23 79999
Q ss_pred HHhhhCCCChHHHhccCCCCchhHHHHHHHhhcccHHHHHHHHHHhcCCHHHHHHHHHHhhhhccCCCCCCCCccHHHHH
Q 003482 521 ALESISGYNPEVLLKRLPADALYEERAILLGKMNQHELALSLYVHKLCVPELALAYCDRVYESIAHQPSGKSSGNIYLTL 600 (816)
Q Consensus 521 fL~~s~~Yd~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv~~L~D~~~Ae~YC~~~~~~~~~~~~~~~~~~l~~~L 600 (816)
||+++..||++.+++.|...++++|.++||+|+|+|++|+++ +++++|++.|++||.+.. ++++|..+
T Consensus 64 ~L~~~~~yd~~~~~~~c~~~~l~~~a~~Ly~~~~~~~~al~i-~~~~~~~~~a~e~~~~~~-----------~~~l~~~l 131 (143)
T PF00637_consen 64 FLKTSNNYDLDKALRLCEKHGLYEEAVYLYSKLGNHDEALEI-LHKLKDYEEAIEYAKKVD-----------DPELWEQL 131 (143)
T ss_dssp TTTSSSSS-CTHHHHHHHTTTSHHHHHHHHHCCTTHTTCSST-SSSTHCSCCCTTTGGGCS-----------SSHHHHHH
T ss_pred HcccccccCHHHHHHHHHhcchHHHHHHHHHHcccHHHHHHH-HHHHccHHHHHHHHHhcC-----------cHHHHHHH
Confidence 999999999999999999999999999999999999999998 779999999999999875 47999999
Q ss_pred HHHhcCCC
Q 003482 601 LQIYLNPR 608 (816)
Q Consensus 601 l~~yl~~~ 608 (816)
++.+++..
T Consensus 132 ~~~~l~~~ 139 (143)
T PF00637_consen 132 LKYCLDSK 139 (143)
T ss_dssp HHHHCTST
T ss_pred HHHHHhcC
Confidence 99998754
No 9
>PF00780 CNH: CNH domain; InterPro: IPR001180 Based on sequence similarities a domain of homology has been identified in the following proteins []: Citron and Citron kinase. These two proteins interact with the GTP-bound forms of the small GTPases Rho and Rac but not with Cdc42. Myotonic dystrophy kinase-related Cdc42-binding kinase (MRCKalpha). This serine/threonine kinase interacts with the GTP-bound form of the small GTPase Cdc42 and to a lesser extent with that of Rac. NCK Interacting Kinase (NIK), a serine/threonine protein kinase. ROM-1 and ROM-2, from yeast. These proteins are GDP/GTP exchange proteins (GEPs) for the small GTP binding protein Rho1. This domain, called the citron homology domain, is often found after cysteine rich and pleckstrin homology (PH) domains at the C-terminal end of the proteins []. It acts as a regulatory domain and could be involved in macromolecular interactions [, ].; GO: 0005083 small GTPase regulator activity
Probab=98.99 E-value=9.7e-10 Score=117.51 Aligned_cols=91 Identities=38% Similarity=0.534 Sum_probs=77.8
Q ss_pred CCcccccccCCc-------------c-cc----cccccccccceEEEEcCCCccccCCCccccCCCceEEeeCcEEEEec
Q 003482 4 HGTIEEAFCVSP-------------G-KR----ESVFSDMMENIGVFVDQNGKLLQADRICWSEAPIAVIIQKPYAIALL 65 (816)
Q Consensus 4 ~g~~~~lf~~~~-------------p-~~----~~~~~~~~d~~gvfv~~~G~~~~~~~i~w~~~p~~v~~~~PYli~l~ 65 (816)
+|...++|+.+. | .+ +..++.+.++.|+|+|.+|.++++++|+|++.|.++++.+|||+++.
T Consensus 166 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Ll~~~~~g~fv~~~G~~~r~~~i~W~~~p~~~~~~~pyli~~~ 245 (275)
T PF00780_consen 166 TGSPSELLDPSDSSSSFKSRNSSSKPLGIFQLSDNEFLLCYDNIGVFVNKNGEPSRKSTIQWSSAPQSVAYSSPYLIAFS 245 (275)
T ss_pred CCCceEEeCccCCcchhhhcccCCCceEEEEeCCceEEEEecceEEEEcCCCCcCcccEEEcCCchhEEEEECCEEEEEC
Confidence 677888876531 1 11 23457799999999999999998899999999999999999999999
Q ss_pred CCceEEEEccCCCcceeEeeeCCceeeeec
Q 003482 66 PRRVEVRSLRVPYALIQTIVLQNVRHLIPS 95 (816)
Q Consensus 66 ~~~ieV~sl~~~~~~vQti~l~~~~~l~~~ 95 (816)
++.||||++. ++.++|+|++++.++++++
T Consensus 246 ~~~iEV~~~~-~~~lvQ~i~~~~~~~l~~~ 274 (275)
T PF00780_consen 246 SNSIEVRSLE-TGELVQTIPLPNIRLLCSG 274 (275)
T ss_pred CCEEEEEECc-CCcEEEEEECCCEEEEecC
Confidence 9999999996 8999999999999887654
No 10
>smart00036 CNH Domain found in NIK1-like kinases, mouse citron and yeast ROM1, ROM2. Unpublished observations.
Probab=98.58 E-value=1.4e-07 Score=102.06 Aligned_cols=84 Identities=23% Similarity=0.425 Sum_probs=74.1
Q ss_pred ccccccccceEEEEcCCC-ccccCCCccccCCCceEEeeCcEEEEecCCceEEEEccCCCcceeEee---eCCceeeeec
Q 003482 20 SVFSDMMENIGVFVDQNG-KLLQADRICWSEAPIAVIIQKPYAIALLPRRVEVRSLRVPYALIQTIV---LQNVRHLIPS 95 (816)
Q Consensus 20 ~~~~~~~d~~gvfv~~~G-~~~~~~~i~w~~~p~~v~~~~PYli~l~~~~ieV~sl~~~~~~vQti~---l~~~~~l~~~ 95 (816)
..++.+.++.|+|||..| +.++...|.|+..|.++++.+|||+++.++.|||+++. +..++|+|+ ....+++...
T Consensus 214 ~e~Llc~~~~~v~Vn~~G~~~~r~~~l~w~~~p~~~~~~~pyll~~~~~~ievr~l~-~~~l~q~i~~~~~~~~r~L~~~ 292 (302)
T smart00036 214 DEFLLCYDEFGVFVNLYGKRRSRNPILHWEFMPESFAYHSPYLLAFHDNGIEIRSIK-TGELLQELADRETRKIRLLGSS 292 (302)
T ss_pred CeEEEEECcEEEEEeCCCCccccceEEEcCCcccEEEEECCEEEEEcCCcEEEEECC-CCceEEEEecCCCcceEEEecC
Confidence 446889999999999999 77666789999999999999999999999999999995 889999998 5667888877
Q ss_pred CCcEEEecC
Q 003482 96 SNAVVVALE 104 (816)
Q Consensus 96 ~~~v~v~s~ 104 (816)
++.||++|.
T Consensus 293 ~~~I~~~s~ 301 (302)
T smart00036 293 DRKILLSSS 301 (302)
T ss_pred CCeEEEEec
Confidence 778888764
No 11
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.44 E-value=0.00011 Score=85.99 Aligned_cols=390 Identities=16% Similarity=0.192 Sum_probs=241.1
Q ss_pred EEEeccCCHHHHHHHHHhcCCHHHHHHHhhhCCCcchHH-----------HHh------hHHHHHHHHHHHHhcCCCHHH
Q 003482 107 IFGLFPVPLGAQIVQLTASGDFEEALALCKLLPPEDASL-----------RAA------KEGSIHIRFAHYLFDTGSYEE 169 (816)
Q Consensus 107 I~~l~~~~~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~-----------~~~------~~~~i~~~~a~~Lf~~~~f~~ 169 (816)
|-+|.--+..+-.+-.+..+.||||+.+++...-..+.. |.. ....+..+.|-..+..+...+
T Consensus 1043 I~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~d 1122 (1666)
T KOG0985|consen 1043 INRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKD 1122 (1666)
T ss_pred HHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHH
Confidence 445555555555556688889999999998863211110 000 012455666777788888889
Q ss_pred HHHHHHHcCCCHH---HHHHhCCCCCCCCCCCCCCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCcchhhhhhhhh
Q 003482 170 AMEHFLASQVDIT---YALSLYPSIVLPKTTVVPEPERLLDISSDAPSLSRGSSGMSDDMESSPPAQLSELDENATLKSK 246 (816)
Q Consensus 170 A~~~f~~~~~dP~---~vi~LFp~l~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~le~~ 246 (816)
|++-|++++ ||. +||..-.
T Consensus 1123 AieSyikad-Dps~y~eVi~~a~--------------------------------------------------------- 1144 (1666)
T KOG0985|consen 1123 AIESYIKAD-DPSNYLEVIDVAS--------------------------------------------------------- 1144 (1666)
T ss_pred HHHHHHhcC-CcHHHHHHHHHHH---------------------------------------------------------
Confidence 999888875 332 2222100
Q ss_pred hhhHHHHHHHHHHHHHHhHHHHHhhhccCchhHhhhcccCCCCCCCcccccccCCCCCCCCCcccHHHHHHHHHHHHHHH
Q 003482 247 KMSHNTLMALIKFLQKKRSSIIEKATAEGTEEVVLDAVGDNFTSHDSTRFKKSSKGRGTIPMYSGAREMAAILDTALLQA 326 (816)
Q Consensus 247 ~~~~~a~~~L~~yL~~~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vDT~Llk~ 326 (816)
+ ....+.|++||.-.|++... .-|||.|+-+
T Consensus 1145 ~--~~~~edLv~yL~MaRkk~~E-----------------------------------------------~~id~eLi~A 1175 (1666)
T KOG0985|consen 1145 R--TGKYEDLVKYLLMARKKVRE-----------------------------------------------PYIDSELIFA 1175 (1666)
T ss_pred h--cCcHHHHHHHHHHHHHhhcC-----------------------------------------------ccchHHHHHH
Confidence 0 03578899999999976411 0389999999
Q ss_pred HHhcCCchhHHhhhcCCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCcccccccCChHHH
Q 003482 327 LLLTGQSSAALELLKGLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEESKSNQSQDEHTQKFNPESI 406 (816)
Q Consensus 327 yl~~~~~~~l~~ll~~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~~~~~~~~~~ 406 (816)
|.++++-.++..|+.++|.-++..+=+-+-+.++|++.-.+|..-.++.+--..|..|.+-.. +
T Consensus 1176 yAkt~rl~elE~fi~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~----------------A 1239 (1666)
T KOG0985|consen 1176 YAKTNRLTELEEFIAGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQG----------------A 1239 (1666)
T ss_pred HHHhchHHHHHHHhcCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHH----------------H
Confidence 999999889999999999999999999999999999999999999999887777777654221 1
Q ss_pred HHHhcccCCCChHHHHHh-HHhhhh-----hCccccccccccCCCChHHHHHHHhhc-ChhhHHHHHHHHHhhhcCCCCc
Q 003482 407 IEYLKPLCGTDPMLVLEF-SMLVLE-----SCPTQTIELFLSGNIPADLVNSYLKQY-SPSMQGRYLELMLAMNENSISG 479 (816)
Q Consensus 407 i~yL~~L~~~~~~li~~y-~~wll~-----~~p~~~i~if~~~~l~~~~Vl~~L~~~-~~~~~~~YLE~li~~~~~~~~~ 479 (816)
++--++- +... .|+- +.--++ ...--|+.|.+. .=.-++++.+-+.. .-+..+.-||.-.... ...-
T Consensus 1240 VD~aRKA--ns~k-tWK~VcfaCvd~~EFrlAQiCGL~iivh-adeLeeli~~Yq~rGyFeElIsl~Ea~LGLE--RAHM 1313 (1666)
T KOG0985|consen 1240 VDAARKA--NSTK-TWKEVCFACVDKEEFRLAQICGLNIIVH-ADELEELIEYYQDRGYFEELISLLEAGLGLE--RAHM 1313 (1666)
T ss_pred HHHhhhc--cchh-HHHHHHHHHhchhhhhHHHhcCceEEEe-hHhHHHHHHHHHhcCcHHHHHHHHHhhhchh--HHHH
Confidence 1111110 1111 1111 111111 011224555432 00112344444331 1123444444433211 1123
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhhhhccCcccchHHHHHHHHHHhh-hCCCChHHHhccCCCCchhHHHHHHHhhcccHHH
Q 003482 480 NLQNEMVQIYLSEVLDWYSDLSAQQKWDEKAYSPTRKKLLSALES-ISGYNPEVLLKRLPADALYEERAILLGKMNQHEL 558 (816)
Q Consensus 480 ~~h~~Li~lYl~~l~~~~~~~~~~~~~~~~~~~~~r~kL~~fL~~-s~~Yd~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~ 558 (816)
.+.++|+.+|-.. ..+|++..|+- ++..++.++++.|..-.++.|.++||-+-..++-
T Consensus 1314 gmfTELaiLYsky---------------------kp~km~EHl~LFwsRvNipKviRA~eqahlW~ElvfLY~~y~eyDN 1372 (1666)
T KOG0985|consen 1314 GMFTELAILYSKY---------------------KPEKMMEHLKLFWSRVNIPKVIRAAEQAHLWSELVFLYDKYEEYDN 1372 (1666)
T ss_pred HHHHHHHHHHHhc---------------------CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhhhhhhH
Confidence 4668899999653 35788888885 7788999999999887899999999999999988
Q ss_pred HHHHHHHh-cCCHHHHHHHHHHhhhhccCCCCCCCCccHHHHHHHHhcCCCCCchhhhhhhhhcccCCCCCCCCCCCccc
Q 003482 559 ALSLYVHK-LCVPELALAYCDRVYESIAHQPSGKSSGNIYLTLLQIYLNPRRTTKNFEKQITNLVSSQNTTIPKAGSVTA 637 (816)
Q Consensus 559 AL~ilv~~-L~D~~~Ae~YC~~~~~~~~~~~~~~~~~~l~~~Ll~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 637 (816)
|.-.++.. -.+++ +.+-.++--.. ..-++|-..+..|++--
T Consensus 1373 Aa~tmm~h~teaw~--~~~FKdii~kV-------aNvElyYkAi~FYl~~~----------------------------- 1414 (1666)
T KOG0985|consen 1373 AALTMMEHPTEAWD--HGQFKDIITKV-------ANVELYYKAIQFYLDFH----------------------------- 1414 (1666)
T ss_pred HHHHHHhCChhhhh--hhhHHHHHHHH-------hhHHHHHHHHHHHHHhC-----------------------------
Confidence 87666532 11111 11111111000 12367777777777421
Q ss_pred eeccCCccccchhhhcccccccCCCCCCCCCCCCCCcccccccCCchhcHHHHHHHHhhccCCCCHHHHhhcCCCccchh
Q 003482 638 VKVKGGRTTKKIASIEGAEDMRMSPSSTDSGRSDGDAEEFSEEGDSTIMIDQVLDLLSQRWDRINGAQALKLLPRETKLQ 717 (816)
Q Consensus 638 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~lL~~~~~~ld~~~vL~~LP~~~~l~ 717 (816)
+.-.-++|.--.+++|-..++..+.+.-.+.
T Consensus 1415 -------------------------------------------------P~llnDlL~vL~pRlDh~r~v~~f~K~~~lp 1445 (1666)
T KOG0985|consen 1415 -------------------------------------------------PLLLNDLLTVLSPRLDHTRTVSIFSKAGQLP 1445 (1666)
T ss_pred -------------------------------------------------hHHHHHHHHhcccccCchHHHHHHHhcCCCc
Confidence 1122334444457788888888888877788
Q ss_pred hhHHHHHHHHHhHHHH
Q 003482 718 NLLPFLEPLLRKSSEA 733 (816)
Q Consensus 718 ~l~~fL~~~lr~~~~~ 733 (816)
.+++|+......+...
T Consensus 1446 Likpyl~~vq~~Nn~a 1461 (1666)
T KOG0985|consen 1446 LIKPYLRAVQSLNNKA 1461 (1666)
T ss_pred ccHHHHHHHHhcchHH
Confidence 8999998877665543
No 12
>PF05131 Pep3_Vps18: Pep3/Vps18/deep orange family; InterPro: IPR007810 This region is found in a number of proteins identified as being involved in Golgi function and vacuolar sorting. The molecular function of this region is unknown. Proteins containing this domain also contain a C-terminal ring finger domain.
Probab=97.94 E-value=0.0001 Score=70.32 Aligned_cols=106 Identities=25% Similarity=0.350 Sum_probs=84.6
Q ss_pred CCceEEeeCcEEEEecCCceEEEEccCCCcceeEeeeC--Cceee--e--ecCCcEEEecCCcEEEeccCCHHHHHHHH-
Q 003482 50 APIAVIIQKPYAIALLPRRVEVRSLRVPYALIQTIVLQ--NVRHL--I--PSSNAVVVALENSIFGLFPVPLGAQIVQL- 122 (816)
Q Consensus 50 ~p~~v~~~~PYli~l~~~~ieV~sl~~~~~~vQti~l~--~~~~l--~--~~~~~v~v~s~~~I~~l~~~~~~~qi~~L- 122 (816)
.|.+++...-+++.++++.|.|.|.. ++..|..-.+. .++++ + +..+.+|+.|++.||.+....-+..++.+
T Consensus 35 ~p~si~lT~~H~llL~~~~l~~vn~L-~~~vV~e~~~~~~~~~~~gl~~D~~~~t~W~ys~~~I~ei~i~~E~r~vWk~y 113 (147)
T PF05131_consen 35 PPLSIALTEFHLLLLYSDRLIAVNRL-NNKVVFEESLLETGGKILGLCRDPSSNTFWLYSSNSIFEIVINNEDRDVWKIY 113 (147)
T ss_pred CcceEEeeceeeeEEeCCEEEEEEec-CCcEEEEEEeccCCcceeeEEEcCCCCeEEEEeCCeeEEEEcCcchHHHHHHH
Confidence 38999999989998999999999987 67777555542 22322 2 35678999999999999999988887765
Q ss_pred HhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcC
Q 003482 123 TASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDT 164 (816)
Q Consensus 123 l~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~ 164 (816)
+++|+|++|+++|+..+ .+...|..+.|.+||.+
T Consensus 114 l~~~~fd~Al~~~~~~~--------~~~d~V~~~qa~~lf~k 147 (147)
T PF05131_consen 114 LDKGDFDEALQYCKTNP--------AQRDQVLIKQADHLFQK 147 (147)
T ss_pred HhcCcHHHHHHHccCCH--------HHHHHHHHHHHHHHhhC
Confidence 79999999999998641 25667999999999864
No 13
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.81 E-value=0.00017 Score=83.47 Aligned_cols=113 Identities=19% Similarity=0.279 Sum_probs=85.2
Q ss_pred CChHHH-HHHHhhcChhhHHHHHHHHHhhhcCCCCchhHHH-HHHHHHHHHHHHhhhhhhhhccCcccchHHHHHHHHHH
Q 003482 445 IPADLV-NSYLKQYSPSMQGRYLELMLAMNENSISGNLQNE-MVQIYLSEVLDWYSDLSAQQKWDEKAYSPTRKKLLSAL 522 (816)
Q Consensus 445 l~~~~V-l~~L~~~~~~~~~~YLE~li~~~~~~~~~~~h~~-Li~lYl~~l~~~~~~~~~~~~~~~~~~~~~r~kL~~fL 522 (816)
++|..| ..||....-.-+..|||.|+..+ ....-|++ |+..|+.. . .-.||..|.
T Consensus 398 le~s~Vi~kfLdaq~IknLt~YLe~L~~~g---la~~dhttlLLncYiKl-k-------------------d~~kL~efI 454 (933)
T KOG2114|consen 398 LEPSEVIKKFLDAQRIKNLTSYLEALHKKG---LANSDHTTLLLNCYIKL-K-------------------DVEKLTEFI 454 (933)
T ss_pred CChHHHHHHhcCHHHHHHHHHHHHHHHHcc---cccchhHHHHHHHHHHh-c-------------------chHHHHHHH
Confidence 455544 34444333345789999999753 34455665 44556542 1 247999999
Q ss_pred hhhC----CCChHHHhccCCCCchhHHHHHHHhhcccHHHHHHHHHHhcCCHHHHHHHHHHh
Q 003482 523 ESIS----GYNPEVLLKRLPADALYEERAILLGKMNQHELALSLYVHKLCVPELALAYCDRV 580 (816)
Q Consensus 523 ~~s~----~Yd~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv~~L~D~~~Ae~YC~~~ 580 (816)
+.-. .+|.+.+++.|...++..|.-+|--|-++|+-+|.++++.++||++|..|-...
T Consensus 455 ~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~he~vl~ille~~~ny~eAl~yi~sl 516 (933)
T KOG2114|consen 455 SKCDKGEWFFDVETALEILRKSNYLDEAELLATKFKKHEWVLDILLEDLHNYEEALRYISSL 516 (933)
T ss_pred hcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhccCHHHHHHHHHHhcCHHHHHHHHhcC
Confidence 8766 889999999999989988888888899999999999999999999999998543
No 14
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.58 E-value=0.0055 Score=72.27 Aligned_cols=237 Identities=15% Similarity=0.137 Sum_probs=161.7
Q ss_pred HHHHHHHHHHhcCCchhHH--hhhcCCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCccc
Q 003482 319 LDTALLQALLLTGQSSAAL--ELLKGLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEESKSNQSQDE 396 (816)
Q Consensus 319 vDT~Llk~yl~~~~~~~l~--~ll~~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~ 396 (816)
.-|-|--+|.+.++..+.. .++- ...++..+.....+.+.|.+|+.||.+-..|+.|--.+.+... +
T Consensus 1315 mfTELaiLYskykp~km~EHl~LFw--sRvNipKviRA~eqahlW~ElvfLY~~y~eyDNAa~tmm~h~t---------e 1383 (1666)
T KOG0985|consen 1315 MFTELAILYSKYKPEKMMEHLKLFW--SRVNIPKVIRAAEQAHLWSELVFLYDKYEEYDNAALTMMEHPT---------E 1383 (1666)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHH--HhcchHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHhCCh---------h
Confidence 4566777899988754333 2221 2467888899999999999999999999999998877765322 1
Q ss_pred ccccCChHHHHHHhcccCCCChHHHHHhHHhhhhhCcccccccccc--CCCChHHHHHHHhhc-ChhhHHHHHHHHHhhh
Q 003482 397 HTQKFNPESIIEYLKPLCGTDPMLVLEFSMLVLESCPTQTIELFLS--GNIPADLVNSYLKQY-SPSMQGRYLELMLAMN 473 (816)
Q Consensus 397 ~~~~~~~~~~i~yL~~L~~~~~~li~~y~~wll~~~p~~~i~if~~--~~l~~~~Vl~~L~~~-~~~~~~~YLE~li~~~ 473 (816)
.|+......++ .+. .+.++.++-..+-++.-|..-..+++. ..++..+++.++... .-.+...||-.+-..|
T Consensus 1384 aw~~~~FKdii---~kV--aNvElyYkAi~FYl~~~P~llnDlL~vL~pRlDh~r~v~~f~K~~~lpLikpyl~~vq~~N 1458 (1666)
T KOG0985|consen 1384 AWDHGQFKDII---TKV--ANVELYYKAIQFYLDFHPLLLNDLLTVLSPRLDHTRTVSIFSKAGQLPLIKPYLRAVQSLN 1458 (1666)
T ss_pred hhhhhhHHHHH---HHH--hhHHHHHHHHHHHHHhChHHHHHHHHhcccccCchHHHHHHHhcCCCcccHHHHHHHHhcc
Confidence 12111112222 221 445666666666677667665555554 468888899998764 2346778888877543
Q ss_pred cCCCCchhHHHHHHHHHHHHHHHhhhhhhhhccCcccchHHHHHHHHHHhhhCCCChHHHhccCCCCchhH---HHHHHH
Q 003482 474 ENSISGNLQNEMVQIYLSEVLDWYSDLSAQQKWDEKAYSPTRKKLLSALESISGYNPEVLLKRLPADALYE---ERAILL 550 (816)
Q Consensus 474 ~~~~~~~~h~~Li~lYl~~l~~~~~~~~~~~~~~~~~~~~~r~kL~~fL~~s~~Yd~~~~L~~~~~~~l~~---e~a~Ll 550 (816)
. ..+...|-.+|++. ..++.|..-++.-.+||-=.+-.+++.+.|.+ --|+||
T Consensus 1459 n----~avNealn~l~iee--------------------EDy~~Lr~sid~~D~FD~i~LAq~lEkH~L~efrriaAyly 1514 (1666)
T KOG0985|consen 1459 N----KAVNEALNDLLIEE--------------------EDYQGLRDSIDAYDNFDNIGLAQRLEKHELVEFRRIAAYLY 1514 (1666)
T ss_pred h----HHHHHHHHHHhhhH--------------------HHHHHHHHhhhhhcchhHHHHHHHhhhhhhHHHHHHHHHHH
Confidence 2 33333444455543 13566666666667788777777888887665 668899
Q ss_pred hhcccHHHHHHHHHHhcCCHHHHHHHHHHhhhhccCCCCCCCCccHHHHHHHHhcCC
Q 003482 551 GKMNQHELALSLYVHKLCVPELALAYCDRVYESIAHQPSGKSSGNIYLTLLQIYLNP 607 (816)
Q Consensus 551 ~rlg~h~~AL~ilv~~L~D~~~Ae~YC~~~~~~~~~~~~~~~~~~l~~~Ll~~yl~~ 607 (816)
.+-++..+.+.+.- +=+-|+-|++|+.... +.++-..||+++++.
T Consensus 1515 k~n~rW~qSiel~K-kd~lyKDame~Aa~S~-----------~~~lae~Ll~~F~e~ 1559 (1666)
T KOG0985|consen 1515 KGNNRWKQSIELCK-KDKLYKDAMETAAESR-----------DTELAEELLQYFLEE 1559 (1666)
T ss_pred hccchHHHHHHHhh-hhhHHHHHHHHHHhcC-----------ChHHHHHHHHHHHHh
Confidence 99999999998876 4567899999998753 578888999888753
No 15
>KOG2079 consensus Vacuolar assembly/sorting protein VPS8 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.51 E-value=0.0037 Score=74.45 Aligned_cols=91 Identities=13% Similarity=0.201 Sum_probs=71.4
Q ss_pred ccchhhhHHHHHHHHHhHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc-ceEEECCCCcCCcCCCcc--CCceEEEcc-C
Q 003482 713 ETKLQNLLPFLEPLLRKSSEAHRNLSVIKSLRQSENLQVKDELYNQRK-TVVKITSDSMCSLCSKKI--GTSVFAVYP-N 788 (816)
Q Consensus 713 ~~~l~~l~~fL~~~lr~~~~~~r~~~i~~~l~~~~~~~~~~el~~~~s-~~v~I~~~~~C~vC~k~l--~~~~f~v~p-~ 788 (816)
.++++++++-|...+....+.....+....+.....+.+..+..+..+ |.--| ....|..|++++ +.++.. |- |
T Consensus 1078 ~~tf~D~kqlLl~~~~s~~~e~el~~~s~kii~~~~l~l~~~~r~~~shr~~~i-ht~~c~~c~q~~~~h~~~~~-Fl~w 1155 (1206)
T KOG2079|consen 1078 LMTFQDLKQLLLNVFNSYKLERELSELSQKIIEDSSLDLVQQYRKFLSHRGWSI-HTDDCEICGQKIWAHLDPLL-FLAW 1155 (1206)
T ss_pred eeehhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHhhccCcee-cCcchHhhhhhhhccCcchh-eeec
Confidence 588999999999999999998887777777777777777666665555 44444 578999999998 555555 64 9
Q ss_pred CCeEEEeccCCCccchhc
Q 003482 789 GKTIVHFVCFRDSQSMKA 806 (816)
Q Consensus 789 g~~v~H~~C~~~~~~~~~ 806 (816)
| |+-|+.|..+....|+
T Consensus 1156 g-h~qh~qc~~~~d~~c~ 1172 (1206)
T KOG2079|consen 1156 G-HVQHHQCMISVDLKCP 1172 (1206)
T ss_pred c-chhhHHHHHHHhhcCC
Confidence 8 9999999888766655
No 16
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.34 E-value=0.005 Score=71.25 Aligned_cols=89 Identities=24% Similarity=0.256 Sum_probs=70.8
Q ss_pred HHHHHHhcCCchhHHhhhcCCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCcccccccCC
Q 003482 323 LLQALLLTGQSSAALELLKGLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEESKSNQSQDEHTQKFN 402 (816)
Q Consensus 323 Llk~yl~~~~~~~l~~ll~~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~~~~~~ 402 (816)
++.+|++.+. ..|.+|+|..++|+++.+.+++.+.|+|++++.|..+-|++.+||.+...- ...
T Consensus 613 ~I~LYAEyDr-k~LLPFLr~s~~Y~lekA~eiC~q~~~~~E~VYlLgrmGn~k~AL~lII~e---------------l~d 676 (846)
T KOG2066|consen 613 QIELYAEYDR-KKLLPFLRKSQNYNLEKALEICSQKNFYEELVYLLGRMGNAKEALKLIINE---------------LRD 676 (846)
T ss_pred HHHHHHHHhH-hhhhHHHHhcCCCCHHHHHHHHHhhCcHHHHHHHHHhhcchHHHHHHHHHH---------------hhC
Confidence 5668999876 468899999999999999999999999999999999999999999998752 224
Q ss_pred hHHHHHHhcccCCCChHHHHHhHHhhh
Q 003482 403 PESIIEYLKPLCGTDPMLVLEFSMLVL 429 (816)
Q Consensus 403 ~~~~i~yL~~L~~~~~~li~~y~~wll 429 (816)
++.+|+|.+. ..|.+|...-....+
T Consensus 677 ie~AIefvKe--q~D~eLWe~LI~~~l 701 (846)
T KOG2066|consen 677 IEKAIEFVKE--QDDSELWEDLINYSL 701 (846)
T ss_pred HHHHHHHHHh--cCCHHHHHHHHHHhh
Confidence 6789999873 355554433333334
No 17
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized 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. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=97.21 E-value=0.00012 Score=69.86 Aligned_cols=98 Identities=33% Similarity=0.417 Sum_probs=74.9
Q ss_pred HHHHHHHHHHHhcCCchhHHhhhcCCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCcccc
Q 003482 318 ILDTALLQALLLTGQSSAALELLKGLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEESKSNQSQDEH 397 (816)
Q Consensus 318 ~vDT~Llk~yl~~~~~~~l~~ll~~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~ 397 (816)
.+.|.|+.+|++.++...+..|++..+..|++.+.+.+.+++.|.+.+.+|.+.|+|++|++++..+.+
T Consensus 43 ~~~~~L~~ly~~~~~~~~l~~~L~~~~~yd~~~~~~~c~~~~l~~~a~~Ly~~~~~~~~al~i~~~~~~----------- 111 (143)
T PF00637_consen 43 DLHTLLLELYIKYDPYEKLLEFLKTSNNYDLDKALRLCEKHGLYEEAVYLYSKLGNHDEALEILHKLKD----------- 111 (143)
T ss_dssp HHHHHHHHHHHCTTTCCHHHHTTTSSSSS-CTHHHHHHHTTTSHHHHHHHHHCCTTHTTCSSTSSSTHC-----------
T ss_pred HHHHHHHHHHHhcCCchHHHHHcccccccCHHHHHHHHHhcchHHHHHHHHHHcccHHHHHHHHHHHcc-----------
Confidence 588999999999987568889999877899999999999999999999999999999999997433221
Q ss_pred cccCChHHHHHHhcccCCCChHHHHHhHHhhhhhCc
Q 003482 398 TQKFNPESIIEYLKPLCGTDPMLVLEFSMLVLESCP 433 (816)
Q Consensus 398 ~~~~~~~~~i~yL~~L~~~~~~li~~y~~wll~~~p 433 (816)
++.+++|.++. .+.+++..-..+.++..|
T Consensus 112 -----~~~a~e~~~~~--~~~~l~~~l~~~~l~~~~ 140 (143)
T PF00637_consen 112 -----YEEAIEYAKKV--DDPELWEQLLKYCLDSKP 140 (143)
T ss_dssp -----SCCCTTTGGGC--SSSHHHHHHHHHHCTSTC
T ss_pred -----HHHHHHHHHhc--CcHHHHHHHHHHHHhcCc
Confidence 12345666654 334555555666665544
No 18
>KOG4305 consensus RhoGEF GTPase [Signal transduction mechanisms]
Probab=97.16 E-value=0.00083 Score=80.77 Aligned_cols=73 Identities=29% Similarity=0.404 Sum_probs=64.1
Q ss_pred cccccccceEEEEcCCCcccc-CCCccccCCCceEEeeCcEEEEecCCceEEEEccCCCcceeEeeeCCceeeee
Q 003482 21 VFSDMMENIGVFVDQNGKLLQ-ADRICWSEAPIAVIIQKPYAIALLPRRVEVRSLRVPYALIQTIVLQNVRHLIP 94 (816)
Q Consensus 21 ~~~~~~d~~gvfv~~~G~~~~-~~~i~w~~~p~~v~~~~PYli~l~~~~ieV~sl~~~~~~vQti~l~~~~~l~~ 94 (816)
.|+.|=+..|+|||.+|..++ +.-+.|-..|...+.++||||++-++.|||+++. +..++|.|.-.+.+.+..
T Consensus 924 ~Fllcy~~~~f~vn~~G~~~~~~~~~~w~g~p~~~a~~~~yiia~~~~fIeI~~~~-t~eli~~i~~~~Ir~~~~ 997 (1029)
T KOG4305|consen 924 EFLLCYDEFAFFVNDQGWRSRTSWIFLWEGEPQEFALSYPYIIAFGDNFIEIRDLE-TGELIQIILGQNIRLLTS 997 (1029)
T ss_pred eEEEEecceEEEEcCCcceecccEEEEEcCccceeeeecceEEEecCceEEEEecc-cceeeEEeeccceeEeec
Confidence 678899999999999998775 3468999999999999999999999999999996 999999887776666554
No 19
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=97.14 E-value=0.0042 Score=59.05 Aligned_cols=94 Identities=27% Similarity=0.337 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHhcCCchhHHhhhc-CCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCccc
Q 003482 318 ILDTALLQALLLTGQSSAALELLK-GLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEESKSNQSQDE 396 (816)
Q Consensus 318 ~vDT~Llk~yl~~~~~~~l~~ll~-~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~ 396 (816)
.+-|.|+.+|++.++ ..+.+|++ ..+..|++.+...+.+++.|.+.+.+|.+.|+|++|+++..+..
T Consensus 42 ~~~~~li~ly~~~~~-~~ll~~l~~~~~~yd~~~~~~~c~~~~l~~~~~~l~~k~~~~~~Al~~~l~~~----------- 109 (140)
T smart00299 42 ALQTKLIELYAKYDP-QKEIERLDNKSNHYDIEKVGKLCEKAKLYEEAVELYKKDGNFKDAIVTLIEHL----------- 109 (140)
T ss_pred hHHHHHHHHHHHHCH-HHHHHHHHhccccCCHHHHHHHHHHcCcHHHHHHHHHhhcCHHHHHHHHHHcc-----------
Confidence 477889999999876 45668888 77889999999999999999999999999999999999987631
Q ss_pred ccccCChHHHHHHhcccCCCChHHHHHhHHhhh
Q 003482 397 HTQKFNPESIIEYLKPLCGTDPMLVLEFSMLVL 429 (816)
Q Consensus 397 ~~~~~~~~~~i~yL~~L~~~~~~li~~y~~wll 429 (816)
..++.+++|.++. .+.+++..-+...+
T Consensus 110 ----~d~~~a~~~~~~~--~~~~lw~~~~~~~l 136 (140)
T smart00299 110 ----GNYEKAIEYFVKQ--NNPELWAEVLKALL 136 (140)
T ss_pred ----cCHHHHHHHHHhC--CCHHHHHHHHHHHH
Confidence 1356788888753 44454444444444
No 20
>COG5422 ROM1 RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]
Probab=96.96 E-value=0.0017 Score=75.31 Aligned_cols=73 Identities=25% Similarity=0.408 Sum_probs=63.6
Q ss_pred cccccccceEEEEcCCCcccc-CCCccccCCCceEEeeCcEEEEecCCceEEEEccCCCcceeEeeeCCceeeee
Q 003482 21 VFSDMMENIGVFVDQNGKLLQ-ADRICWSEAPIAVIIQKPYAIALLPRRVEVRSLRVPYALIQTIVLQNVRHLIP 94 (816)
Q Consensus 21 ~~~~~~d~~gvfv~~~G~~~~-~~~i~w~~~p~~v~~~~PYli~l~~~~ieV~sl~~~~~~vQti~l~~~~~l~~ 94 (816)
.++.|=+..|.|||.+|.-.+ ..-+.|...|...+.++|||+++-++.|||+++. ++.+|+++--.+.++++.
T Consensus 1070 eFLLCys~faFfVN~~Gwrkrts~i~~Weg~Pq~FalsypYIlaf~~~fIeIr~ie-TgeLI~~ilg~~IRlLt~ 1143 (1175)
T COG5422 1070 EFLLCYSEFAFFVNDQGWRKRTSWIFHWEGEPQEFALSYPYILAFEPNFIEIRHIE-TGELIRCILGHNIRLLTD 1143 (1175)
T ss_pred cEEEEecceeEEEcCcCceecccEEEEEcCccceeeeecceEEEecCceEEEEecc-cceeeeeeccCceEEeec
Confidence 567899999999999997553 3358999999999999999999999999999995 999999987667777665
No 21
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=95.60 E-value=6.1 Score=48.17 Aligned_cols=60 Identities=20% Similarity=0.246 Sum_probs=42.4
Q ss_pred HHHHHHHHHHhcCCchhHHhhhcCCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhh
Q 003482 319 LDTALLQALLLTGQSSAALELLKGLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEES 388 (816)
Q Consensus 319 vDT~Llk~yl~~~~~~~l~~ll~~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~ 388 (816)
+.++|+..|.+.++.+....++..-..-| .--|..|+..|.+.|++++|++++.+.....
T Consensus 261 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~~----------~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g 320 (697)
T PLN03081 261 VSCALIDMYSKCGDIEDARCVFDGMPEKT----------TVAWNSMLAGYALHGYSEEALCLYYEMRDSG 320 (697)
T ss_pred eHHHHHHHHHHCCCHHHHHHHHHhCCCCC----------hhHHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence 56789999999887655555553210001 1248899999999999999999998875543
No 22
>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.
Probab=94.74 E-value=0.057 Score=48.81 Aligned_cols=65 Identities=23% Similarity=0.189 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhccCcccchHHHHHHHHHHhhhCCCChHHHhccCCCCchhHHHHHHHhhcccHHHHHHH
Q 003482 483 NEMVQIYLSEVLDWYSDLSAQQKWDEKAYSPTRKKLLSALESISGYNPEVLLKRLPADALYEERAILLGKMNQHELALSL 562 (816)
Q Consensus 483 ~~Li~lYl~~l~~~~~~~~~~~~~~~~~~~~~r~kL~~fL~~s~~Yd~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~i 562 (816)
|.|...|+.. ....+..||+..+.-+++.+-..+..++++.|.+.+|..-|+|++||++
T Consensus 3 TaLlk~Yl~~---------------------~~~~l~~llr~~N~C~~~~~e~~L~~~~~~~eL~~lY~~kg~h~~AL~l 61 (108)
T PF10366_consen 3 TALLKCYLET---------------------NPSLLGPLLRLPNYCDLEEVEEVLKEHGKYQELVDLYQGKGLHRKALEL 61 (108)
T ss_pred HHHHHHHHHh---------------------CHHHHHHHHccCCcCCHHHHHHHHHHcCCHHHHHHHHHccCccHHHHHH
Confidence 6788888865 1368889999888889999988888889999999999999999999999
Q ss_pred HHHhcCC
Q 003482 563 YVHKLCV 569 (816)
Q Consensus 563 lv~~L~D 569 (816)
+. ++.+
T Consensus 62 l~-~l~~ 67 (108)
T PF10366_consen 62 LK-KLAD 67 (108)
T ss_pred HH-HHhc
Confidence 98 4544
No 23
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=93.59 E-value=0.1 Score=42.03 Aligned_cols=55 Identities=22% Similarity=0.379 Sum_probs=43.0
Q ss_pred HHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 118 QIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 118 qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
+...+++.|+|++|+..++.....+ + .-..++...|..++.+|+|++|..+|.++
T Consensus 3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P----~~~~a~~~lg~~~~~~g~~~~A~~~~~~a 57 (65)
T PF13432_consen 3 LARALYQQGDYDEAIAAFEQALKQD-P----DNPEAWYLLGRILYQQGRYDEALAYYERA 57 (65)
T ss_dssp HHHHHHHCTHHHHHHHHHHHHHCCS-T----THHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHC-C----CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 4567899999999999998854322 1 23357888899999999999999999874
No 24
>PLN03218 maturation of RBCL 1; Provisional
Probab=93.51 E-value=29 Score=44.23 Aligned_cols=60 Identities=12% Similarity=0.079 Sum_probs=38.9
Q ss_pred HHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 115 LGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 115 ~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
+..-+..|++.|++++|+.+++.+...+-. . .-..++..+--.+-+.|.+++|+..|...
T Consensus 373 ~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv-~--~~~v~~~~li~~~~~~g~~~eAl~lf~~M 432 (1060)
T PLN03218 373 YIDAYNRLLRDGRIKDCIDLLEDMEKRGLL-D--MDKIYHAKFFKACKKQRAVKEAFRFAKLI 432 (1060)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHHHhCCCC-C--chHHHHHHHHHHHHHCCCHHHHHHHHHHc
Confidence 556688899999999999999886432211 0 11122222223445778999999988653
No 25
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=93.22 E-value=22 Score=46.12 Aligned_cols=50 Identities=14% Similarity=0.110 Sum_probs=25.9
Q ss_pred HHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 122 LTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 122 Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
++..|++++|+..+++....+ + .-..++...|..++.+|+|++|..+|.+
T Consensus 279 ~~~~g~~~~A~~~l~~aL~~~-P----~~~~a~~~Lg~~~~~~g~~~eA~~~l~~ 328 (1157)
T PRK11447 279 AVDSGQGGKAIPELQQAVRAN-P----KDSEALGALGQAYSQQGDRARAVAQFEK 328 (1157)
T ss_pred HHHCCCHHHHHHHHHHHHHhC-C----CCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 445566666666655431100 0 1113445556666666666666666655
No 26
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=92.96 E-value=0.024 Score=49.40 Aligned_cols=33 Identities=36% Similarity=0.754 Sum_probs=25.8
Q ss_pred CcCCcCCCccCC-ceEEEccCCCeEEEeccCCCccc
Q 003482 769 SMCSLCSKKIGT-SVFAVYPNGKTIVHFVCFRDSQS 803 (816)
Q Consensus 769 ~~C~vC~k~l~~-~~f~v~p~g~~v~H~~C~~~~~~ 803 (816)
-+|.+|+++|-. ..|.++++| +||+.|+.....
T Consensus 3 WkC~iCg~~I~~gqlFTF~~kG--~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKKG--PVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecCC--cEeHHHHHHHHh
Confidence 379999999876 478855665 899999986633
No 27
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=91.72 E-value=0.045 Score=46.46 Aligned_cols=32 Identities=28% Similarity=0.619 Sum_probs=26.4
Q ss_pred CCcCCcCCCccCC-ceEEEccCCCeEEEeccCCCc
Q 003482 768 DSMCSLCSKKIGT-SVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 768 ~~~C~vC~k~l~~-~~f~v~p~g~~v~H~~C~~~~ 801 (816)
+-+|.||+.++-. ..|..+|-| .|||.|+...
T Consensus 6 ewkC~VCg~~iieGqkFTF~~kG--sVH~eCl~~s 38 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTKKG--SVHYECLAES 38 (103)
T ss_pred eeeEeeeCCEeeeccEEEEeeCC--cchHHHHHHH
Confidence 4589999999765 589988977 7999998754
No 28
>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=91.22 E-value=0.17 Score=41.01 Aligned_cols=51 Identities=24% Similarity=0.386 Sum_probs=38.7
Q ss_pred HHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 122 LTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 122 Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
|++.|+|++|+.+++.....+ + .-..+....|..++..|+|++|...+.+.
T Consensus 1 ll~~~~~~~A~~~~~~~l~~~-p----~~~~~~~~la~~~~~~g~~~~A~~~l~~~ 51 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQRN-P----DNPEARLLLAQCYLKQGQYDEAEELLERL 51 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHHHT-T----TSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred ChhccCHHHHHHHHHHHHHHC-C----CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 678999999999998742111 0 12357778899999999999999999874
No 29
>PLN03218 maturation of RBCL 1; Provisional
Probab=90.83 E-value=58 Score=41.62 Aligned_cols=60 Identities=15% Similarity=0.202 Sum_probs=39.5
Q ss_pred CCHHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 113 VPLGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 113 ~~~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
..|..-|..+...|++++|+.+++.+...+- ..+. ......-..+.+.|++++|.+.|.+
T Consensus 438 ~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl--~pD~--~tynsLI~~y~k~G~vd~A~~vf~e 497 (1060)
T PLN03218 438 STFNMLMSVCASSQDIDGALRVLRLVQEAGL--KADC--KLYTTLISTCAKSGKVDAMFEVFHE 497 (1060)
T ss_pred HHHHHHHHHHHhCcCHHHHHHHHHHHHHcCC--CCCH--HHHHHHHHHHHhCcCHHHHHHHHHH
Confidence 3467778899999999999999987632111 0001 1222333445578999999998876
No 30
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=90.63 E-value=0.13 Score=38.17 Aligned_cols=31 Identities=19% Similarity=0.563 Sum_probs=25.9
Q ss_pred cCCcCCCccC-CceEEEccCCCeEEEeccCCCc
Q 003482 770 MCSLCSKKIG-TSVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 770 ~C~vC~k~l~-~~~f~v~p~g~~v~H~~C~~~~ 801 (816)
.|++|-..+. ...+++.||| |++|..|+..-
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~-H~fh~~Ci~~~ 33 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCG-HVFHRSCIKEW 33 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTS-EEEEHHHHHHH
T ss_pred CCcCCChhhcCCCeEEEccCC-CeeCHHHHHHH
Confidence 5999999995 4567779999 99999998654
No 31
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=90.33 E-value=6.8 Score=47.10 Aligned_cols=143 Identities=17% Similarity=0.206 Sum_probs=80.0
Q ss_pred cHHHHHHHHHhc--------CCHHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCccccccc-------CC-hHHHHH-H
Q 003482 347 DVKICEEILQKK--------NHYTALLELYKSNARHREALKLLHELVEESKSNQSQDEHTQK-------FN-PESIIE-Y 409 (816)
Q Consensus 347 ~~~~~~~~L~~~--------~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~~~~-------~~-~~~~i~-y 409 (816)
+.++++++|++- .-|..|+..|+..|++++||..|.-.+.-...| .+.|.. .+ .+.+.- |
T Consensus 154 ~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d---~e~W~~ladls~~~~~i~qA~~cy 230 (895)
T KOG2076|consen 154 DLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKD---YELWKRLADLSEQLGNINQARYCY 230 (895)
T ss_pred CHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCC---hHHHHHHHHHHHhcccHHHHHHHH
Confidence 566666666542 338999999999999999999998655332221 233321 01 111111 1
Q ss_pred hc--ccCCCChHHHHHhHHhhhhhC-cccccc----ccccCC-CChHHHHH--------HHhhcChhhHHHHHHHHHhhh
Q 003482 410 LK--PLCGTDPMLVLEFSMLVLESC-PTQTIE----LFLSGN-IPADLVNS--------YLKQYSPSMQGRYLELMLAMN 473 (816)
Q Consensus 410 L~--~L~~~~~~li~~y~~wll~~~-p~~~i~----if~~~~-l~~~~Vl~--------~L~~~~~~~~~~YLE~li~~~ 473 (816)
-+ ++.+.++.++++.+...-+.. -..++. +|...+ .+.+++.+ |+.....+.+..+||.-+...
T Consensus 231 ~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~ 310 (895)
T KOG2076|consen 231 SRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKE 310 (895)
T ss_pred HHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhc
Confidence 11 124577888998887776543 222333 332211 22222222 222223466788888877633
Q ss_pred cCCCCchhHHHHHHHHHHH
Q 003482 474 ENSISGNLQNEMVQIYLSE 492 (816)
Q Consensus 474 ~~~~~~~~h~~Li~lYl~~ 492 (816)
....+-.-+|.++++||..
T Consensus 311 ~~~~~~ed~ni~ael~l~~ 329 (895)
T KOG2076|consen 311 KDEASLEDLNILAELFLKN 329 (895)
T ss_pred cccccccHHHHHHHHHHHh
Confidence 2334556788999999874
No 32
>PLN03077 Protein ECB2; Provisional
Probab=89.94 E-value=62 Score=40.53 Aligned_cols=61 Identities=18% Similarity=0.257 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHhcCCchhHHhhhcCCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhh
Q 003482 318 ILDTALLQALLLTGQSSAALELLKGLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEES 388 (816)
Q Consensus 318 ~vDT~Llk~yl~~~~~~~l~~ll~~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~ 388 (816)
.+.++|+..|.+.++.+....++..-.. ...--|..++.-|.+.|++++|++++.+.....
T Consensus 324 ~~~n~Li~~y~k~g~~~~A~~vf~~m~~----------~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g 384 (857)
T PLN03077 324 SVCNSLIQMYLSLGSWGEAEKVFSRMET----------KDAVSWTAMISGYEKNGLPDKALETYALMEQDN 384 (857)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHhhCCC----------CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhC
Confidence 4678899999998876555555532000 011348999999999999999999999875543
No 33
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=89.59 E-value=78 Score=41.19 Aligned_cols=54 Identities=9% Similarity=0.075 Sum_probs=39.6
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 119 IVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
-+.++..|++++|+..+++....+. .-...+...|..++.+|+|++|..+|.++
T Consensus 358 g~~~~~~g~~~eA~~~~~~Al~~~P-----~~~~a~~~Lg~~~~~~g~~~eA~~~y~~a 411 (1157)
T PRK11447 358 GDAALKANNLAQAERLYQQARQVDN-----TDSYAVLGLGDVAMARKDYAAAERYYQQA 411 (1157)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHhCC-----CCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 4556789999999999887431110 11235566799999999999999999764
No 34
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=88.29 E-value=0.23 Score=38.30 Aligned_cols=38 Identities=24% Similarity=0.448 Sum_probs=27.4
Q ss_pred CCCcCCcCCCccC-CceEEEcc-CCCeEEEeccCCCccchhc
Q 003482 767 SDSMCSLCSKKIG-TSVFAVYP-NGKTIVHFVCFRDSQSMKA 806 (816)
Q Consensus 767 ~~~~C~vC~k~l~-~~~f~v~p-~g~~v~H~~C~~~~~~~~~ 806 (816)
...+|++|+++|. ...++|-| || ..+|..|.... +.|.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~Cg-apyHR~C~~~~-g~C~ 43 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECG-APYHRDCWEKA-GGCI 43 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCC-CcccHHHHhhC-CceE
Confidence 5789999999994 23455566 77 89999998643 3443
No 35
>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=87.16 E-value=0.57 Score=38.01 Aligned_cols=62 Identities=23% Similarity=0.259 Sum_probs=45.6
Q ss_pred HHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCC-CHHHHHHHHHHc-CCCH
Q 003482 115 LGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTG-SYEEAMEHFLAS-QVDI 181 (816)
Q Consensus 115 ~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~-~f~~A~~~f~~~-~~dP 181 (816)
|...-..++..|+|++|+..+++...-+ ..-..++...|..++..| +|++|+..|.++ .+||
T Consensus 6 ~~~~g~~~~~~~~~~~A~~~~~~ai~~~-----p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P 69 (69)
T PF13414_consen 6 WYNLGQIYFQQGDYEEAIEYFEKAIELD-----PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP 69 (69)
T ss_dssp HHHHHHHHHHTTHHHHHHHHHHHHHHHS-----TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHcC-----CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence 4455567789999999999987742111 123357888899999999 799999999874 4544
No 36
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=87.14 E-value=1.4 Score=37.44 Aligned_cols=52 Identities=29% Similarity=0.395 Sum_probs=30.5
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 119 IVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
..-+++.|+|++|+.+++... -. ..-..++...|..++..|+|++|+.+|.+
T Consensus 32 a~~~~~~~~y~~A~~~~~~~~--~~----~~~~~~~~l~a~~~~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 32 AQCYFQQGKYEEAIELLQKLK--LD----PSNPDIHYLLARCLLKLGKYEEAIKALEK 83 (84)
T ss_dssp HHHHHHTTHHHHHHHHHHCHT--HH----HCHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHCCCHHHHHHHHHHhC--CC----CCCHHHHHHHHHHHHHhCCHHHHHHHHhc
Confidence 344567777777777776511 11 12224445557777777777777777754
No 37
>PLN03077 Protein ECB2; Provisional
Probab=86.58 E-value=97 Score=38.79 Aligned_cols=59 Identities=19% Similarity=0.261 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHhcCCchhHHhhhcCCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHh
Q 003482 318 ILDTALLQALLLTGQSSAALELLKGLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVE 386 (816)
Q Consensus 318 ~vDT~Llk~yl~~~~~~~l~~ll~~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~ 386 (816)
.+-++|+..|.+.++.+....++..-.. ...--|..++.-|...|+.++|++++.+...
T Consensus 425 ~~~n~Li~~y~k~g~~~~A~~vf~~m~~----------~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~ 483 (857)
T PLN03077 425 VVANALIEMYSKCKCIDKALEVFHNIPE----------KDVISWTSIIAGLRLNNRCFEALIFFRQMLL 483 (857)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhCCC----------CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 4677899999998875555555432000 0012488999999999999999999998864
No 38
>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]
Probab=86.12 E-value=14 Score=45.83 Aligned_cols=194 Identities=13% Similarity=0.136 Sum_probs=99.1
Q ss_pred HHHHHHHHhc---CCHHHHHHHHHHhc--cHHHHHHHHHHHHhhhcCCCCcccccccCChHHHHHHhcccCCCChHHHHH
Q 003482 349 KICEEILQKK---NHYTALLELYKSNA--RHREALKLLHELVEESKSNQSQDEHTQKFNPESIIEYLKPLCGTDPMLVLE 423 (816)
Q Consensus 349 ~~~~~~L~~~---~~~~~L~~Ly~~~g--~~~~AL~ll~~l~~~~~~d~~~~~~~~~~~~~~~i~yL~~L~~~~~~li~~ 423 (816)
+.+...|..+ .+...++..|.+.+ ..+.||+...++..... ....+.+++||-.| -|.+.+++
T Consensus 778 ~~vr~~l~~~~~~~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~~~~----------~~~ad~al~hll~L--vdvn~lfn 845 (1265)
T KOG1920|consen 778 DAVRNALERRAPDKFNLFILTSYVKSNPPEIEEALQKIKELQLAQV----------AVSADEALKHLLFL--VDVNELFN 845 (1265)
T ss_pred HHHHHHHhhcCcchhhHHHHHHHHhcCcHHHHHHHHHHHHHHhccc----------chhHHHHHHHHHhh--ccHHHHHH
Confidence 3444445443 33467777888887 78888888887653110 01124456655443 44455555
Q ss_pred hHHhhhhhCccccccccccCCCChHHHHHHHhhcChhhHHHHHHHHHhhhcCCCCchhHHHHHHHHHHHHHHHhhhhhhh
Q 003482 424 FSMLVLESCPTQTIELFLSGNIPADLVNSYLKQYSPSMQGRYLELMLAMNENSISGNLQNEMVQIYLSEVLDWYSDLSAQ 503 (816)
Q Consensus 424 y~~wll~~~p~~~i~if~~~~l~~~~Vl~~L~~~~~~~~~~YLE~li~~~~~~~~~~~h~~Li~lYl~~l~~~~~~~~~~ 503 (816)
.+.=+.+. ..++.+-..-.-+|.+.++||+.. ..+...|-.+-|. .-...|.+.+..+..-
T Consensus 846 ~ALgtYDl--~Lal~VAq~SqkDPkEyLP~L~el-~~m~~~~rkF~ID------------~~L~ry~~AL~hLs~~---- 906 (1265)
T KOG1920|consen 846 SALGTYDL--DLALLVAQKSQKDPKEYLPFLNEL-KKMETLLRKFKID------------DYLKRYEDALSHLSEC---- 906 (1265)
T ss_pred hhhcccch--HHHHHHHHHhccChHHHHHHHHHH-hhchhhhhheeHH------------HHHHHHHHHHHHHHHc----
Confidence 54333221 122222111246777777777654 2222222222221 1112333322221110
Q ss_pred hccCcccchHHHHHHHHHHhhhCCCC---------hHHHh-------ccCCCCchhHHHHHHHhhcccHHHHHHHHHHhc
Q 003482 504 QKWDEKAYSPTRKKLLSALESISGYN---------PEVLL-------KRLPADALYEERAILLGKMNQHELALSLYVHKL 567 (816)
Q Consensus 504 ~~~~~~~~~~~r~kL~~fL~~s~~Yd---------~~~~L-------~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv~~L 567 (816)
+ + .+-...+.+.+....|+ .++-. +.|....++++-++.|.+.|++++||.-+. .-
T Consensus 907 ~---~----~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~GklekAl~a~~-~~ 978 (1265)
T KOG1920|consen 907 G---E----TYFPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGKLEKALKAYK-EC 978 (1265)
T ss_pred C---c----cccHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccHHHHHHHHH-Hh
Confidence 0 0 01122333333333332 22211 222334678899999999999999999888 57
Q ss_pred CCHHHHHHHHHHhh
Q 003482 568 CVPELALAYCDRVY 581 (816)
Q Consensus 568 ~D~~~Ae~YC~~~~ 581 (816)
+|+..|..-..+..
T Consensus 979 ~dWr~~l~~a~ql~ 992 (1265)
T KOG1920|consen 979 GDWREALSLAAQLS 992 (1265)
T ss_pred ccHHHHHHHHHhhc
Confidence 89998888777553
No 39
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=85.44 E-value=1e+02 Score=37.94 Aligned_cols=55 Identities=16% Similarity=0.186 Sum_probs=31.6
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
.....++..|++++|+..++.....+. .........+..+...|++++|...+.+
T Consensus 402 ~l~~~~~~~~~~~~A~~~~~~a~~~~~-----~~~~~~~~l~~~~~~~~~~~~A~~~~~~ 456 (899)
T TIGR02917 402 QLGISKLSQGDPSEAIADLETAAQLDP-----ELGRADLLLILSYLRSGQFDKALAAAKK 456 (899)
T ss_pred HHHHHHHhCCChHHHHHHHHHHHhhCC-----cchhhHHHHHHHHHhcCCHHHHHHHHHH
Confidence 334455677888888877765321110 1112333445666677777777777765
No 40
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=85.05 E-value=30 Score=38.41 Aligned_cols=57 Identities=11% Similarity=-0.000 Sum_probs=39.9
Q ss_pred HHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 116 GAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 116 ~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
..-...+...|++++|+.+++.....+. .........|..+...|+|++|++.|.+.
T Consensus 111 ~~La~~~~~~g~~~~A~~~~~~~l~~~~-----~~~~~~~~la~~~~~~g~~~~A~~~~~~~ 167 (389)
T PRK11788 111 QELGQDYLKAGLLDRAEELFLQLVDEGD-----FAEGALQQLLEIYQQEKDWQKAIDVAERL 167 (389)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHcCCc-----chHHHHHHHHHHHHHhchHHHHHHHHHHH
Confidence 3446677888999999988887542111 22235556677888899999999988763
No 41
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.90 E-value=0.22 Score=50.77 Aligned_cols=34 Identities=32% Similarity=0.625 Sum_probs=27.4
Q ss_pred CCCCcCCcCCCccCCce--------EEEccCCCeEEEeccCCC
Q 003482 766 TSDSMCSLCSKKIGTSV--------FAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 766 ~~~~~C~vC~k~l~~~~--------f~v~p~g~~v~H~~C~~~ 800 (816)
-++..|+||+++|..++ .+---|+ ||+|..|.+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCn-HvFHEfCIrG 263 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCN-HVFHEFCIRG 263 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecc-cchHHHhhhh
Confidence 35789999999997653 5556798 9999999873
No 42
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=84.08 E-value=23 Score=43.20 Aligned_cols=60 Identities=18% Similarity=0.312 Sum_probs=43.5
Q ss_pred HHHHHHHHHHhcCCchhHHhhhcCCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhh
Q 003482 319 LDTALLQALLLTGQSSAALELLKGLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEES 388 (816)
Q Consensus 319 vDT~Llk~yl~~~~~~~l~~ll~~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~ 388 (816)
+.++|+..|.+.++.+....++..-.. ...--|..|+.-|.++|+.++|++++.+.....
T Consensus 362 ~~~~Li~~y~k~G~~~~A~~vf~~m~~----------~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g 421 (697)
T PLN03081 362 ANTALVDLYSKWGRMEDARNVFDRMPR----------KNLISWNALIAGYGNHGRGTKAVEMFERMIAEG 421 (697)
T ss_pred ehHHHHHHHHHCCCHHHHHHHHHhCCC----------CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence 567899999998875555555432000 012358999999999999999999999876543
No 43
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=83.48 E-value=0.63 Score=33.45 Aligned_cols=29 Identities=21% Similarity=0.494 Sum_probs=23.3
Q ss_pred CCcCCCccCCceEEEccCCCeEEEeccCCCc
Q 003482 771 CSLCSKKIGTSVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 771 C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~ 801 (816)
|++|...+.+ ++++.|+| |++++.|+.+.
T Consensus 1 C~iC~~~~~~-~~~~~~CG-H~fC~~C~~~~ 29 (39)
T PF13923_consen 1 CPICLDELRD-PVVVTPCG-HSFCKECIEKY 29 (39)
T ss_dssp ETTTTSB-SS-EEEECTTS-EEEEHHHHHHH
T ss_pred CCCCCCcccC-cCEECCCC-CchhHHHHHHH
Confidence 8999888887 55559999 99999998764
No 44
>PF14762 HPS3_Mid: Hermansky-Pudlak syndrome 3, middle region
Probab=83.46 E-value=13 Score=40.86 Aligned_cols=164 Identities=12% Similarity=0.105 Sum_probs=103.7
Q ss_pred ccccceEEEEcCCCccccCCCccccCCCceEEeeCcEEEEecCCceEEEEccCCC-------cceeEe--eeCC------
Q 003482 24 DMMENIGVFVDQNGKLLQADRICWSEAPIAVIIQKPYAIALLPRRVEVRSLRVPY-------ALIQTI--VLQN------ 88 (816)
Q Consensus 24 ~~~d~~gvfv~~~G~~~~~~~i~w~~~p~~v~~~~PYli~l~~~~ieV~sl~~~~-------~~vQti--~l~~------ 88 (816)
.+....|.+++..+....-++..+++...+++...-|+-+++...+|=|.++-.. .-+.+. .+|+
T Consensus 97 fS~~~~GyLY~i~~~~~lls~Y~yt~~~~~~~l~~~fLhaiT~~gLet~TlR~s~~~~~~~~~~id~t~~~cP~~s~~vc 176 (374)
T PF14762_consen 97 FSTPHQGYLYNISKPVELLSTYQYTAPVQQVVLTDQFLHAITSEGLETYTLRCSAAAARNEDPYIDTTLKACPPVSMPVC 176 (374)
T ss_pred EecCcceEEEEeeccceEEEEEecCccceEEEeecceeeeeeccccceEEEecchHHhhccCCccccccccCCCCCcchH
Confidence 4666788888888764334678888988999999999999999877777664111 111111 2342
Q ss_pred ---------ceeeeecCCcEEEec---------------CCcEEEeccCCHHHHHHHHHhcCC-------------HHHH
Q 003482 89 ---------VRHLIPSSNAVVVAL---------------ENSIFGLFPVPLGAQIVQLTASGD-------------FEEA 131 (816)
Q Consensus 89 ---------~~~l~~~~~~v~v~s---------------~~~I~~l~~~~~~~qi~~Ll~~~~-------------~eeA 131 (816)
.+.++..++.|++.| .-.+|.+..+|+.+-.+++++-.+ ..||
T Consensus 177 ~lgl~~FigL~~v~~~~~hlILLtka~~~~~~~~s~~~~~W~LYiL~~~~~~~Ly~dm~e~A~~yk~~~~~~y~hLL~Ea 256 (374)
T PF14762_consen 177 LLGLQPFIGLQAVCHFKNHLILLTKADSEDTEERSSSESSWNLYILNTPSPEQLYKDMVEYANSYKTASPQSYHHLLSEA 256 (374)
T ss_pred HhhhhhhcceeeEeecCCEEEEEEcCCCcccCCcccccCcceEEEEcCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHH
Confidence 133345555555432 125788888888877777654332 5566
Q ss_pred HHHhhhCC----CcchHHHHhhHHHHHH----HHHHHHhc--CCCHHHHHHHHHHcCCCHHHHHHhC
Q 003482 132 LALCKLLP----PEDASLRAAKEGSIHI----RFAHYLFD--TGSYEEAMEHFLASQVDITYALSLY 188 (816)
Q Consensus 132 l~L~~~~~----~~d~~~~~~~~~~i~~----~~a~~Lf~--~~~f~~A~~~f~~~~~dP~~vi~LF 188 (816)
--|++... ..+.. ++..+....+ ..|.++-+ +.+|..|.-+|..++++|.+||...
T Consensus 257 HlLLRsaL~~~~~~~~~-~~~eL~~l~reSca~LGD~~~r~~~~d~~lA~pYYkMS~l~i~~Vl~ri 322 (374)
T PF14762_consen 257 HLLLRSALLDPSQEESE-EKNELRELFRESCALLGDCYSRSDEKDYHLAAPYYKMSGLSISEVLNRI 322 (374)
T ss_pred HHHHHHHhhhhhhcccc-hHHHHHHHHHHHHHHHHhHhhccchHHHHHHHHHHHhcCCCHHHHHHHh
Confidence 55554421 11111 1222322222 23666665 8999999999999999999999984
No 45
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=81.78 E-value=20 Score=40.42 Aligned_cols=174 Identities=14% Similarity=0.145 Sum_probs=100.0
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCccc-c------------cccCChHHHHHHhcccC---CCChHHHHHh
Q 003482 361 YTALLELYKSNARHREALKLLHELVEESKSNQSQDE-H------------TQKFNPESIIEYLKPLC---GTDPMLVLEF 424 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~-~------------~~~~~~~~~i~yL~~L~---~~~~~li~~y 424 (816)
+..++.+|...|++++|++++..+......++.... + ....+.+...++.+.++ ..+.++...|
T Consensus 190 l~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~ 269 (398)
T PRK10747 190 LRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAM 269 (398)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHH
Confidence 467888899999999999888887654322110000 0 00001123334444443 2456777788
Q ss_pred HHhhhhh-Ccccccccccc---CCCChH--HHHHHHhhcChhhHHHHHHHHHhhhcCCCCchhHHHHHHHHHHHHHHHhh
Q 003482 425 SMLVLES-CPTQTIELFLS---GNIPAD--LVNSYLKQYSPSMQGRYLELMLAMNENSISGNLQNEMVQIYLSEVLDWYS 498 (816)
Q Consensus 425 ~~wll~~-~p~~~i~if~~---~~l~~~--~Vl~~L~~~~~~~~~~YLE~li~~~~~~~~~~~h~~Li~lYl~~l~~~~~ 498 (816)
+..++.. +++.|.+++.+ .+.++. .+...+...++.-....+|...... + .++.++-.+..+++..
T Consensus 270 A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~-P-~~~~l~l~lgrl~~~~------ 341 (398)
T PRK10747 270 AEHLIECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQH-G-DTPLLWSTLGQLLMKH------ 341 (398)
T ss_pred HHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhhC-C-CCHHHHHHHHHHHHHC------
Confidence 8777764 45666666654 123333 2344444445667788888887643 3 4677888888777753
Q ss_pred hhhhhhccCcccchHHHHHHHHHHhhhCCCChHHHhccCCCCchhHHHHHHHhhcccHHHHHHHHH
Q 003482 499 DLSAQQKWDEKAYSPTRKKLLSALESISGYNPEVLLKRLPADALYEERAILLGKMNQHELALSLYV 564 (816)
Q Consensus 499 ~~~~~~~~~~~~~~~~r~kL~~fL~~s~~Yd~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv 564 (816)
+. ..+-...++.+ +..=|...-+-+.+-++.++|++++|.++|=
T Consensus 342 ----------~~----~~~A~~~le~a--------l~~~P~~~~~~~La~~~~~~g~~~~A~~~~~ 385 (398)
T PRK10747 342 ----------GE----WQEASLAFRAA--------LKQRPDAYDYAWLADALDRLHKPEEAAAMRR 385 (398)
T ss_pred ----------CC----HHHHHHHHHHH--------HhcCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 11 22333333322 2222333233578888999999999987764
No 46
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=81.32 E-value=1 Score=37.51 Aligned_cols=32 Identities=28% Similarity=0.682 Sum_probs=24.5
Q ss_pred CCcCCcCCCccCC-----------ceEEEccCCCeEEEeccCCC
Q 003482 768 DSMCSLCSKKIGT-----------SVFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 768 ~~~C~vC~k~l~~-----------~~f~v~p~g~~v~H~~C~~~ 800 (816)
+..|++|..+|.. -.++.-+|| |.||.+|+..
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~-H~FH~~Ci~~ 61 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCG-HIFHFHCISQ 61 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTS-EEEEHHHHHH
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccC-CCEEHHHHHH
Confidence 4459999999932 256667899 9999999863
No 47
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=81.30 E-value=3.9 Score=41.44 Aligned_cols=66 Identities=24% Similarity=0.407 Sum_probs=45.8
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCC
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPSI 191 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l 191 (816)
.+...++++|+|++|+.+++.+.. ...............|..+|..++|++|...|.+ +|..||.-
T Consensus 10 ~~a~~~~~~g~y~~Ai~~f~~l~~--~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~-------fi~~yP~~ 75 (203)
T PF13525_consen 10 QKALEALQQGDYEEAIKLFEKLID--RYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYER-------FIKLYPNS 75 (203)
T ss_dssp HHHHHHHHCT-HHHHHHHHHHHHH--H-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHH-------HHHH-TT-
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH--HCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHH-------HHHHCCCC
Confidence 456678999999999999987521 0011124456777889999999999999999966 56788865
No 48
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=81.22 E-value=1.1 Score=31.59 Aligned_cols=30 Identities=27% Similarity=0.518 Sum_probs=22.6
Q ss_pred cCCcCCCccCCceEEEccCCCeEEEeccCCC
Q 003482 770 MCSLCSKKIGTSVFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 770 ~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~ 800 (816)
+|..|+++|......+...+ ..+|..|+.=
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~-~~~H~~Cf~C 30 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALG-KVWHPECFKC 30 (39)
T ss_pred CccccCCcccCCcEEEEeCC-ccccccCCCC
Confidence 59999999988644444555 6999999864
No 49
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=80.63 E-value=2.5 Score=39.98 Aligned_cols=68 Identities=21% Similarity=0.292 Sum_probs=49.6
Q ss_pred HHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCC
Q 003482 115 LGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPSI 191 (816)
Q Consensus 115 ~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l 191 (816)
+-++.+..+++|+|++|+..++.+... - .....-...+...|+.+|.+++|++|+..+.+ +|.|.|.-
T Consensus 13 ly~~a~~~l~~~~Y~~A~~~le~L~~r-y-P~g~ya~qAqL~l~yayy~~~~y~~A~a~~~r-------FirLhP~h 80 (142)
T PF13512_consen 13 LYQEAQEALQKGNYEEAIKQLEALDTR-Y-PFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDR-------FIRLHPTH 80 (142)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhc-C-CCCcccHHHHHHHHHHHHHccCHHHHHHHHHH-------HHHhCCCC
Confidence 446678899999999999988875210 0 00113346777889999999999999998865 56677654
No 50
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=80.48 E-value=2.7 Score=34.28 Aligned_cols=52 Identities=29% Similarity=0.419 Sum_probs=40.0
Q ss_pred HHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 121 QLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 121 ~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
.++.+++|++|+..++....-+. .--..+...|..++..|+|++|+..|.++
T Consensus 4 ~~~~~~~~~~A~~~~~~~l~~~p-----~~~~~~~~~a~~~~~~g~~~~A~~~l~~~ 55 (73)
T PF13371_consen 4 IYLQQEDYEEALEVLERALELDP-----DDPELWLQRARCLFQLGRYEEALEDLERA 55 (73)
T ss_pred HHHhCCCHHHHHHHHHHHHHhCc-----ccchhhHHHHHHHHHhccHHHHHHHHHHH
Confidence 46789999999999987431110 12247777899999999999999999874
No 51
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.97 E-value=5.2 Score=48.06 Aligned_cols=187 Identities=16% Similarity=0.242 Sum_probs=101.8
Q ss_pred HHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCcccccccCChHHHHHHhcccCCCChHHHHHhHHhhhhh-Ccccccccc
Q 003482 362 TALLELYKSNARHREALKLLHELVEESKSNQSQDEHTQKFNPESIIEYLKPLCGTDPMLVLEFSMLVLES-CPTQTIELF 440 (816)
Q Consensus 362 ~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~~~~~~~~~~i~yL~~L~~~~~~li~~y~~wll~~-~p~~~i~if 440 (816)
...-..|..+|+|++||++-..- |+ .++ ..+.+++.++++. .-..|-+++
T Consensus 362 R~vWk~yLd~g~y~kAL~~ar~~------------------p~-~le----------~Vl~~qAdf~f~~k~y~~AA~~y 412 (911)
T KOG2034|consen 362 RDVWKTYLDKGEFDKALEIARTR------------------PD-ALE----------TVLLKQADFLFQDKEYLRAAEIY 412 (911)
T ss_pred HHHHHHHHhcchHHHHHHhccCC------------------HH-HHH----------HHHHHHHHHHHhhhHHHHHHHHH
Confidence 34556799999999999986431 11 111 1122344444432 112233333
Q ss_pred ccCCCChH-HHHHHHhhcChhhHHHHHHHHHhhh---cCCCCchhHHHHHHHHHHHHHHHh-hhhhhhhccCcccchHHH
Q 003482 441 LSGNIPAD-LVNSYLKQYSPSMQGRYLELMLAMN---ENSISGNLQNEMVQIYLSEVLDWY-SDLSAQQKWDEKAYSPTR 515 (816)
Q Consensus 441 ~~~~l~~~-~Vl~~L~~~~~~~~~~YLE~li~~~---~~~~~~~~h~~Li~lYl~~l~~~~-~~~~~~~~~~~~~~~~~r 515 (816)
..-.-+-+ -+++||.-.++.....||.+=...- ++..-..+-+=|+.+||+++.++. .+...-..++ ......+
T Consensus 413 A~t~~~FEEVaLKFl~~~~~~~L~~~L~KKL~~lt~~dk~q~~~Lv~WLlel~L~~Ln~l~~~de~~~en~~-~~~~~~~ 491 (911)
T KOG2034|consen 413 AETLSSFEEVALKFLEINQERALRTFLDKKLDRLTPEDKTQRDALVTWLLELYLEQLNDLDSTDEEALENWR-LEYDEVQ 491 (911)
T ss_pred HHhhhhHHHHHHHHHhcCCHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHHHHHHhcccccChhHHHHHH-HHHHHHH
Confidence 22122333 3688988777777787877644311 111112244457789999988765 1111000000 1122344
Q ss_pred HHHHHHHhh-hCCCChHHHhccCCCCchh-------------HHHHHHHhhcccHHHHHHHHHHhcCCHHHHHHHHHH
Q 003482 516 KKLLSALES-ISGYNPEVLLKRLPADALY-------------EERAILLGKMNQHELALSLYVHKLCVPELALAYCDR 579 (816)
Q Consensus 516 ~kL~~fL~~-s~~Yd~~~~L~~~~~~~l~-------------~e~a~Ll~rlg~h~~AL~ilv~~L~D~~~Ae~YC~~ 579 (816)
+++..|+.. +..-|-+++...+..++=. +..+.-+-.-|.+++||.+++.. .+.+.--.||--
T Consensus 492 re~~~~~~~~~~~~nretv~~l~~~~~~~e~ll~fA~l~~d~~~vv~~~~q~e~yeeaLevL~~~-~~~el~yk~ap~ 568 (911)
T KOG2034|consen 492 REFSKFLVLHKDELNRETVYQLLASHGRQEELLQFANLIKDYEFVVSYWIQQENYEEALEVLLNQ-RNPELFYKYAPE 568 (911)
T ss_pred HHHHHHHHhhHHhhhHHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-cchhhHHHhhhH
Confidence 556666643 3444566666666543222 23333556778999999999976 888888888843
No 52
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=79.95 E-value=1.6 Score=37.07 Aligned_cols=57 Identities=25% Similarity=0.394 Sum_probs=38.9
Q ss_pred hcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHH
Q 003482 124 ASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITY 183 (816)
Q Consensus 124 ~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~ 183 (816)
++|+|+.|+.+++.....+ +. ..-..+....|..+|..|+|++|+..+.+...+|..
T Consensus 1 ~~~~y~~Ai~~~~k~~~~~-~~--~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~ 57 (84)
T PF12895_consen 1 DQGNYENAIKYYEKLLELD-PT--NPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSN 57 (84)
T ss_dssp HTT-HHHHHHHHHHHHHHH-CG--THHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCH
T ss_pred CCccHHHHHHHHHHHHHHC-CC--ChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCC
Confidence 4689999999998864211 10 012234444699999999999999999776666544
No 53
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=79.95 E-value=1.4e+02 Score=35.55 Aligned_cols=215 Identities=13% Similarity=-0.005 Sum_probs=110.5
Q ss_pred HHHHHHhcCCchhHHhhhcC--CCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCccccccc
Q 003482 323 LLQALLLTGQSSAALELLKG--LNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVEESKSNQSQDEHTQK 400 (816)
Q Consensus 323 Llk~yl~~~~~~~l~~ll~~--~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~~~~ 400 (816)
++.||...++-..|..+.+. +++=-++...+.+...|+-+..+.-|.+.++...|+....+|.+ |
T Consensus 828 ~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pkaAv~tCv~LnQ-----------W-- 894 (1189)
T KOG2041|consen 828 QIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLPKAAVHTCVELNQ-----------W-- 894 (1189)
T ss_pred HHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhccCcHHHHHHHHHHHH-----------H--
Confidence 44555555554555555442 34445666667777777777777777777777777777776643 2
Q ss_pred CChHHHHHHhcccCCCC-hHHHHHhHHhhhhh-Ccccccccccc--CCCChHHHHHHHhhcChhhHHHHHHHHHhhhcCC
Q 003482 401 FNPESIIEYLKPLCGTD-PMLVLEFSMLVLES-CPTQTIELFLS--GNIPADLVNSYLKQYSPSMQGRYLELMLAMNENS 476 (816)
Q Consensus 401 ~~~~~~i~yL~~L~~~~-~~li~~y~~wll~~-~p~~~i~if~~--~~l~~~~Vl~~L~~~~~~~~~~YLE~li~~~~~~ 476 (816)
..+++.-++..-.+ -.||-+|+.-++.. +.-++|+.--. ..++..+++..+.....+-...||+-=- -
T Consensus 895 ---~~avelaq~~~l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~Kk----l- 966 (1189)
T KOG2041|consen 895 ---GEAVELAQRFQLPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKK----L- 966 (1189)
T ss_pred ---HHHHHHHHhccchhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHH----H-
Confidence 24455555443333 35888888777764 33444544322 1377777777765432222223332100 0
Q ss_pred CCchhHHHHHHHHHHHHHHHhhhhhhhhccCcccchHHHHHHHHHHhhhCCCChHHHhcc-CCCCchhH--HHHHHHhhc
Q 003482 477 ISGNLQNEMVQIYLSEVLDWYSDLSAQQKWDEKAYSPTRKKLLSALESISGYNPEVLLKR-LPADALYE--ERAILLGKM 553 (816)
Q Consensus 477 ~~~~~h~~Li~lYl~~l~~~~~~~~~~~~~~~~~~~~~r~kL~~fL~~s~~Yd~~~~L~~-~~~~~l~~--e~a~Ll~rl 553 (816)
=.+--.|++.|.+.+....+..+.+-. ..-..+|++.-.=+...+++- -....-+. -.|-=--+-
T Consensus 967 --YVL~AlLvE~h~~~ik~~~~~~~~g~~----------~dat~lles~~l~~~~ri~~n~WrgAEAyHFmilAQrql~e 1034 (1189)
T KOG2041|consen 967 --YVLGALLVENHRQTIKELRKIDKHGFL----------EDATDLLESGLLAEQSRILENTWRGAEAYHFMILAQRQLFE 1034 (1189)
T ss_pred --HHHHHHHHHHHHHHHHHhhhhhhcCcc----------hhhhhhhhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHh
Confidence 012235677777776654433221100 111224444333333444431 11111011 111111235
Q ss_pred ccHHHHHHHHHHhcCCHH
Q 003482 554 NQHELALSLYVHKLCVPE 571 (816)
Q Consensus 554 g~h~~AL~ilv~~L~D~~ 571 (816)
|.-+.||...+ .|.||+
T Consensus 1035 g~v~~Al~Tal-~L~DYE 1051 (1189)
T KOG2041|consen 1035 GRVKDALQTAL-ILSDYE 1051 (1189)
T ss_pred chHHHHHHHHh-hhccHh
Confidence 77889998888 588986
No 54
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=79.76 E-value=4.6 Score=38.31 Aligned_cols=55 Identities=22% Similarity=0.317 Sum_probs=25.2
Q ss_pred HHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 120 VQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 120 ~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
..++..|++++|...++...... .........+.+.|..++.+|+|++|+..+..
T Consensus 56 ~~~~~~g~~~~A~~~l~~~~~~~--~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~ 110 (145)
T PF09976_consen 56 KAAYEQGDYDEAKAALEKALANA--PDPELKPLARLRLARILLQQGQYDEALATLQQ 110 (145)
T ss_pred HHHHHCCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 44555555666555555432110 00011123344445555555555555555544
No 55
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.24 E-value=1.2 Score=46.02 Aligned_cols=38 Identities=24% Similarity=0.430 Sum_probs=29.7
Q ss_pred EECCCCcCCcCCCccCCceEEEccCCCeEEEeccCCCccc
Q 003482 764 KITSDSMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRDSQS 803 (816)
Q Consensus 764 ~I~~~~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~~~ 803 (816)
+-|.++.|++|+++=..+ ++.=||| |++.|.|+.....
T Consensus 235 ~~t~~~~C~~Cg~~PtiP-~~~~~C~-HiyCY~Ci~ts~~ 272 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIP-HVIGKCG-HIYCYYCIATSRL 272 (298)
T ss_pred cccCCceeeccCCCCCCC-eeecccc-ceeehhhhhhhhc
Confidence 346689999999874443 5557999 9999999987754
No 56
>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.17 E-value=7.6 Score=47.50 Aligned_cols=53 Identities=23% Similarity=0.125 Sum_probs=40.5
Q ss_pred HHHHHHHhhhC-CCChHHHhccCCCCchhHHHHHHHhhcccHHHHHHHHHHhcCC
Q 003482 516 KKLLSALESIS-GYNPEVLLKRLPADALYEERAILLGKMNQHELALSLYVHKLCV 569 (816)
Q Consensus 516 ~kL~~fL~~s~-~Yd~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv~~L~D 569 (816)
.-...+|+..+ .=+.+.+-..+..+..+.+.++||..-|+|++||+++. ++.|
T Consensus 479 ~~v~~llrlen~~c~vee~e~~L~k~~~y~~Li~LY~~kg~h~~AL~ll~-~l~d 532 (877)
T KOG2063|consen 479 GLVGPLLRLENNHCDVEEIETVLKKSKKYRELIELYATKGMHEKALQLLR-DLVD 532 (877)
T ss_pred hhhhhhhhccCCCcchHHHHHHHHhcccHHHHHHHHHhccchHHHHHHHH-HHhc
Confidence 34466677655 45666666666667889999999999999999999998 5555
No 57
>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=78.97 E-value=3 Score=28.27 Aligned_cols=25 Identities=28% Similarity=0.478 Sum_probs=21.2
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 153 IHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 153 i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
+....|..++..|+|++|..+|.++
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~a 27 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEKA 27 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 5567799999999999999999874
No 58
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=78.77 E-value=4.7 Score=42.68 Aligned_cols=34 Identities=24% Similarity=0.326 Sum_probs=27.8
Q ss_pred hHHHHHHHHHHHHhcCCCHHHHHHHHHHc-CCCHH
Q 003482 149 KEGSIHIRFAHYLFDTGSYEEAMEHFLAS-QVDIT 182 (816)
Q Consensus 149 ~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~-~~dP~ 182 (816)
...+.+.+.|..++..|+|++|++.|.++ ++||.
T Consensus 147 ~yskay~RLG~A~~~~gk~~~A~~aykKaLeldP~ 181 (304)
T KOG0553|consen 147 HYSKAYGRLGLAYLALGKYEEAIEAYKKALELDPD 181 (304)
T ss_pred HHHHHHHHHHHHHHccCcHHHHHHHHHhhhccCCC
Confidence 34567788899999999999999999885 66653
No 59
>PF14763 HPS3_C: Hermansky-Pudlak syndrome 3, C-terminal
Probab=78.55 E-value=16 Score=38.89 Aligned_cols=77 Identities=17% Similarity=0.213 Sum_probs=50.8
Q ss_pred HHHHHHHhhhCCCChHHHhccCC---CC--chhHHHHHHHhhcccHHHHHHHHHHhcCCHHHHHHHHHHhhhhccCCCCC
Q 003482 516 KKLLSALESISGYNPEVLLKRLP---AD--ALYEERAILLGKMNQHELALSLYVHKLCVPELALAYCDRVYESIAHQPSG 590 (816)
Q Consensus 516 ~kL~~fL~~s~~Yd~~~~L~~~~---~~--~l~~e~a~Ll~rlg~h~~AL~ilv~~L~D~~~Ae~YC~~~~~~~~~~~~~ 590 (816)
-||..+|- +.+.+.+.++-.++ .+ .-..-+++-.-|+|+|++|+++++. +-.++++.|+...+..
T Consensus 209 lKLQSLLC-gpsl~v~silpvLE~Lsed~~~gLSlhlLC~trL~~~E~sId~LLd--rCPqAVV~YA~helk~------- 278 (353)
T PF14763_consen 209 LKLQSLLC-GPSLDVESILPVLEPLSEDTDGGLSLHLLCITRLGEYEKSIDKLLD--RCPQAVVPYANHELKE------- 278 (353)
T ss_pred HHHHHHHc-CCCccHHHHHHHHhhcccccccCeehhhhhhhhhccHHHHHHHHHH--hCcHHHHHHhhhhccc-------
Confidence 35444443 45666666554443 21 2234567777899999999999995 5799999999988743
Q ss_pred CCCccHHHHHHH
Q 003482 591 KSSGNIYLTLLQ 602 (816)
Q Consensus 591 ~~~~~l~~~Ll~ 602 (816)
+...-.|..||-
T Consensus 279 e~~~lWWkkLLp 290 (353)
T PF14763_consen 279 EHQELWWKKLLP 290 (353)
T ss_pred chHHHHHHHHHH
Confidence 112336777765
No 60
>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=77.41 E-value=2.9 Score=34.74 Aligned_cols=58 Identities=19% Similarity=0.297 Sum_probs=38.8
Q ss_pred HHHHhcCCHHHHHHHhhhCCCcchHH--HHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 120 VQLTASGDFEEALALCKLLPPEDASL--RAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 120 ~~Ll~~~~~eeAl~L~~~~~~~d~~~--~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
.-+...|+|++|+..+++...--... .....-......|..+...|+|++|+++|.++
T Consensus 13 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a 72 (78)
T PF13424_consen 13 RVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA 72 (78)
T ss_dssp HHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred HHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 34568899999988887642100000 11123456677899999999999999999875
No 61
>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]
Probab=77.27 E-value=1.5 Score=51.16 Aligned_cols=53 Identities=19% Similarity=0.362 Sum_probs=47.3
Q ss_pred cccccceEEEEcCCCccccCCCccccCCCceEEeeCcEEEEecCCceEEEEcc
Q 003482 23 SDMMENIGVFVDQNGKLLQADRICWSEAPIAVIIQKPYAIALLPRRVEVRSLR 75 (816)
Q Consensus 23 ~~~~d~~gvfv~~~G~~~~~~~i~w~~~p~~v~~~~PYli~l~~~~ieV~sl~ 75 (816)
+.+-+|-|+||+..|.-++--+|.|+..|...+|..|++..+.++.++||-+.
T Consensus 1141 llaYQnkGifVnl~Geqsrn~siewekmp~ef~YtspilyiVhddsiei~~is 1193 (1265)
T KOG0976|consen 1141 LLAYQNKGIFVNLSGEQSRNTSIEWEKMPGEFTYTSPILYIVHDDSIEIHPIS 1193 (1265)
T ss_pred HHHhhccCeEEecccccCCccccccccCCCCccccCceEEEeccCCccccccC
Confidence 34777899999999987766689999999999999999999999999999874
No 62
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=77.07 E-value=0.67 Score=33.69 Aligned_cols=30 Identities=17% Similarity=0.491 Sum_probs=23.7
Q ss_pred cCCcCCCccCCceEEEccCCCeEEEeccCCCc
Q 003482 770 MCSLCSKKIGTSVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 770 ~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~ 801 (816)
.|++|...+. ..+.+.||| |.+|..|+...
T Consensus 1 ~C~iC~~~~~-~~~~~~~C~-H~~c~~C~~~~ 30 (45)
T cd00162 1 ECPICLEEFR-EPVVLLPCG-HVFCRSCIDKW 30 (45)
T ss_pred CCCcCchhhh-CceEecCCC-ChhcHHHHHHH
Confidence 4999999983 445546799 99999999754
No 63
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=76.95 E-value=2.7 Score=45.05 Aligned_cols=89 Identities=18% Similarity=0.284 Sum_probs=50.1
Q ss_pred hcCCCccchhhhHHHHHHHH---HhHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccceEEECCCCcCCcCCCccCCc---
Q 003482 708 KLLPRETKLQNLLPFLEPLL---RKSSEAHRNLSVIKSLRQSENLQVKDELYNQRKTVVKITSDSMCSLCSKKIGTS--- 781 (816)
Q Consensus 708 ~~LP~~~~l~~l~~fL~~~l---r~~~~~~r~~~i~~~l~~~~~~~~~~el~~~~s~~v~I~~~~~C~vC~k~l~~~--- 781 (816)
..+|=.+|+..+++-+.-.. ++-....|-.+..|.|-+.--..+.+++ -..++.|.+|--.+-.+
T Consensus 233 ~~~~~r~Pi~l~r~~~t~~~AL~~~i~~~~~~~r~~kdl~~~~~t~t~eql---------~n~D~~C~ICmde~~h~~~~ 303 (491)
T COG5243 233 QFPYVRVPIYLIRQMYTCFYALFRRIREHARFRRATKDLNAMYPTATEEQL---------TNSDRTCTICMDEMFHPDHE 303 (491)
T ss_pred hccchhchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhcchhhhhhh---------cCCCCeEEEecccccCCCCc
Confidence 44555778877776544332 2222223333334444332222223322 24689999998764321
Q ss_pred --------eEEEccCCCeEEEeccCCCc---cchhc
Q 003482 782 --------VFAVYPNGKTIVHFVCFRDS---QSMKA 806 (816)
Q Consensus 782 --------~f~v~p~g~~v~H~~C~~~~---~~~~~ 806 (816)
.=.+.||| |+.|.+|+++- |+-|+
T Consensus 304 ~~~~~~~~~pKrLpCG-HilHl~CLknW~ERqQTCP 338 (491)
T COG5243 304 PLPRGLDMTPKRLPCG-HILHLHCLKNWLERQQTCP 338 (491)
T ss_pred cCcccccCCccccccc-ceeeHHHHHHHHHhccCCC
Confidence 34568999 99999999863 44444
No 64
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=76.31 E-value=18 Score=43.21 Aligned_cols=69 Identities=22% Similarity=0.200 Sum_probs=45.7
Q ss_pred HhcCCHHHHHHHhhhCCCcchH--H-----------------HHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHH
Q 003482 123 TASGDFEEALALCKLLPPEDAS--L-----------------RAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITY 183 (816)
Q Consensus 123 l~~~~~eeAl~L~~~~~~~d~~--~-----------------~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~ 183 (816)
++-|.+|||+.|.+++..-|-. + ++-.++.-+-+||-+|=.+++.+.|+++|.++++.--+
T Consensus 811 ieLgMlEeA~~lYr~ckR~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafe 890 (1416)
T KOG3617|consen 811 IELGMLEEALILYRQCKRYDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFE 890 (1416)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHH
Confidence 5677777777777665311100 0 00123445556788999999999999999999887667
Q ss_pred HHHhCCCC
Q 003482 184 ALSLYPSI 191 (816)
Q Consensus 184 vi~LFp~l 191 (816)
|.++..+.
T Consensus 891 v~rmL~e~ 898 (1416)
T KOG3617|consen 891 VFRMLKEY 898 (1416)
T ss_pred HHHHHHhC
Confidence 76665444
No 65
>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=76.20 E-value=2.3 Score=29.04 Aligned_cols=29 Identities=28% Similarity=0.495 Sum_probs=22.9
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHc-CCCH
Q 003482 153 IHIRFAHYLFDTGSYEEAMEHFLAS-QVDI 181 (816)
Q Consensus 153 i~~~~a~~Lf~~~~f~~A~~~f~~~-~~dP 181 (816)
+....|..++..++|++|++.|.++ .+||
T Consensus 3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p 32 (34)
T PF00515_consen 3 AYYNLGNAYFQLGDYEEALEYYQRALELDP 32 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHCc
Confidence 4556799999999999999999885 4555
No 66
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=76.12 E-value=6.8 Score=40.94 Aligned_cols=66 Identities=12% Similarity=0.169 Sum_probs=48.8
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCC
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPSI 191 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l 191 (816)
.+...++++|+|++|+.+++.+... .+. ...........|..+|..++|++|...|.+ +|.+||+-
T Consensus 37 ~~A~~~~~~g~y~~Ai~~f~~l~~~-yP~-s~~a~~a~l~la~ayy~~~~y~~A~~~~e~-------fi~~~P~~ 102 (243)
T PRK10866 37 ATAQQKLQDGNWKQAITQLEALDNR-YPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDR-------FIRLNPTH 102 (243)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHh-CCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHH-------HHHhCcCC
Confidence 5577889999999999999875321 110 113344566779999999999999999976 46677766
No 67
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=75.69 E-value=2e+02 Score=35.23 Aligned_cols=56 Identities=27% Similarity=0.384 Sum_probs=42.1
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
..+..++..|++++|+.+++...... + .-..+....|..++..|+|++|..+|.++
T Consensus 436 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~a 491 (899)
T TIGR02917 436 LLILSYLRSGQFDKALAAAKKLEKKQ-P----DNASLHNLLGAIYLGKGDLAKAREAFEKA 491 (899)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHhC-C----CCcHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 34667789999999999998753211 0 11235667799999999999999999874
No 68
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=73.22 E-value=11 Score=40.16 Aligned_cols=25 Identities=20% Similarity=0.177 Sum_probs=18.5
Q ss_pred CchhHHHHHHHhhcccHHHHHHHHH
Q 003482 540 DALYEERAILLGKMNQHELALSLYV 564 (816)
Q Consensus 540 ~~l~~e~a~Ll~rlg~h~~AL~ilv 564 (816)
..++...+..|.++|++++||..+-
T Consensus 214 ~~~~~~la~~~~~lg~~~~Al~~~~ 238 (280)
T PF13429_consen 214 PDLWDALAAAYLQLGRYEEALEYLE 238 (280)
T ss_dssp CCHCHHHHHHHHHHT-HHHHHHHHH
T ss_pred HHHHHHHHHHhcccccccccccccc
Confidence 3577788888888888888887775
No 69
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=73.08 E-value=2.8 Score=42.70 Aligned_cols=31 Identities=29% Similarity=0.474 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHcCCCH
Q 003482 151 GSIHIRFAHYLFDTGSYEEAMEHFLASQVDI 181 (816)
Q Consensus 151 ~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP 181 (816)
..|..-||+.|-.+|+|++|+.+|.++--||
T Consensus 103 GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P 133 (250)
T COG3063 103 GDVLNNYGAFLCAQGRPEEAMQQFERALADP 133 (250)
T ss_pred cchhhhhhHHHHhCCChHHHHHHHHHHHhCC
Confidence 4688899999999999999999999986554
No 70
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=72.69 E-value=5.1 Score=30.80 Aligned_cols=41 Identities=20% Similarity=0.412 Sum_probs=29.5
Q ss_pred EECCCCcCCcCCCcc---CCceEEEccCCCeEEEeccCCCccchh
Q 003482 764 KITSDSMCSLCSKKI---GTSVFAVYPNGKTIVHFVCFRDSQSMK 805 (816)
Q Consensus 764 ~I~~~~~C~vC~k~l---~~~~f~v~p~g~~v~H~~C~~~~~~~~ 805 (816)
.+...+.|.+|++.| +...+.---|+ .++|..|.......+
T Consensus 7 ~~~~~~~C~~C~~~i~g~~~~g~~C~~C~-~~~H~~C~~~~~~~C 50 (53)
T PF00130_consen 7 TFSKPTYCDVCGKFIWGLGKQGYRCSWCG-LVCHKKCLSKVPPSC 50 (53)
T ss_dssp ESSSTEB-TTSSSBECSSSSCEEEETTTT--EEETTGGCTSSSBS
T ss_pred cCCCCCCCcccCcccCCCCCCeEEECCCC-ChHhhhhhhhcCCCC
Confidence 345678999999999 34566666788 899999998765443
No 71
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=71.85 E-value=2 Score=34.22 Aligned_cols=30 Identities=13% Similarity=0.315 Sum_probs=25.2
Q ss_pred CcCCcCCCccCCceEEEccCCCeEEEeccCCCc
Q 003482 769 SMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 769 ~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~ 801 (816)
-.|++|++.+.+++ +.|+| |+|...|+...
T Consensus 2 ~~Cpi~~~~~~~Pv--~~~~G-~v~~~~~i~~~ 31 (63)
T smart00504 2 FLCPISLEVMKDPV--ILPSG-QTYERRAIEKW 31 (63)
T ss_pred cCCcCCCCcCCCCE--ECCCC-CEEeHHHHHHH
Confidence 36999999999873 46999 99999998754
No 72
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=71.30 E-value=2.5 Score=32.19 Aligned_cols=32 Identities=19% Similarity=0.439 Sum_probs=24.4
Q ss_pred CCCcCCcCCCccCCceEEEccCCCeE-EEeccCCCc
Q 003482 767 SDSMCSLCSKKIGTSVFAVYPNGKTI-VHFVCFRDS 801 (816)
Q Consensus 767 ~~~~C~vC~k~l~~~~f~v~p~g~~v-~H~~C~~~~ 801 (816)
++..|.+|.....+ ++++||| |. +...|+.+.
T Consensus 1 ~~~~C~iC~~~~~~--~~~~pCg-H~~~C~~C~~~~ 33 (50)
T PF13920_consen 1 EDEECPICFENPRD--VVLLPCG-HLCFCEECAERL 33 (50)
T ss_dssp -HSB-TTTSSSBSS--EEEETTC-EEEEEHHHHHHH
T ss_pred CcCCCccCCccCCc--eEEeCCC-ChHHHHHHhHHh
Confidence 35789999988554 5668999 99 999998765
No 73
>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=71.06 E-value=8.5 Score=34.25 Aligned_cols=60 Identities=17% Similarity=0.324 Sum_probs=43.8
Q ss_pred HHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 116 GAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 116 ~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
-.....++..|++++|+..++....... ........+...|..++..++|++|+.+|.+.
T Consensus 6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~ 65 (119)
T TIGR02795 6 YDAALLVLKAGDYADAIQAFQAFLKKYP--KSTYAPNAHYWLGEAYYAQGKYADAAKAFLAV 65 (119)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHCC--CccccHHHHHHHHHHHHhhccHHHHHHHHHHH
Confidence 4556778899999999999987531110 00112356677899999999999999999874
No 74
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=70.70 E-value=4.1 Score=31.80 Aligned_cols=28 Identities=29% Similarity=0.598 Sum_probs=17.6
Q ss_pred CCcCCCccCCceEEEccCCCeEEEeccCC
Q 003482 771 CSLCSKKIGTSVFAVYPNGKTIVHFVCFR 799 (816)
Q Consensus 771 C~vC~k~l~~~~f~v~p~g~~v~H~~C~~ 799 (816)
|+.|+++|......+-..| ..+|..|+.
T Consensus 1 C~~C~~~I~~~~~~~~~~~-~~~H~~Cf~ 28 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMG-KFWHPECFK 28 (58)
T ss_dssp BTTTSSBESSSSEEEEETT-EEEETTTSB
T ss_pred CCCCCCCccCcEEEEEeCC-cEEEccccc
Confidence 6777777775554433455 577777765
No 75
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=69.86 E-value=2.7 Score=30.30 Aligned_cols=29 Identities=24% Similarity=0.553 Sum_probs=24.7
Q ss_pred CCcCCCccCCceEEEccCCCeEEEeccCCCc
Q 003482 771 CSLCSKKIGTSVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 771 C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~ 801 (816)
|++|...+.... .+.||| |.++..|+...
T Consensus 1 C~iC~~~~~~~~-~~~~C~-H~fC~~C~~~~ 29 (41)
T PF00097_consen 1 CPICLEPFEDPV-ILLPCG-HSFCRDCLRKW 29 (41)
T ss_dssp ETTTSSBCSSEE-EETTTS-EEEEHHHHHHH
T ss_pred CCcCCccccCCC-EEecCC-CcchHHHHHHH
Confidence 889999888777 459999 99999998765
No 76
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=69.18 E-value=5.4 Score=26.89 Aligned_cols=28 Identities=21% Similarity=0.485 Sum_probs=22.3
Q ss_pred cCCcCCCccCCc-eEEEccCCCeEEEeccC
Q 003482 770 MCSLCSKKIGTS-VFAVYPNGKTIVHFVCF 798 (816)
Q Consensus 770 ~C~vC~k~l~~~-~f~v~p~g~~v~H~~C~ 798 (816)
.|.+|+|.+... ...--+++ ..+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~-f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECC-FTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCC-CeEcCccC
Confidence 599999999877 55555777 89999985
No 77
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=68.98 E-value=0.98 Score=31.47 Aligned_cols=28 Identities=25% Similarity=0.508 Sum_probs=21.9
Q ss_pred CCcCCCccCCceEEEccCCCeEEEeccCCCc
Q 003482 771 CSLCSKKIGTSVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 771 C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~ 801 (816)
|++|... .....+.|+| |++|+.|+...
T Consensus 1 C~iC~~~--~~~~~~~~C~-H~~c~~C~~~~ 28 (39)
T smart00184 1 CPICLEE--LKDPVVLPCG-HTFCRSCIRKW 28 (39)
T ss_pred CCcCccC--CCCcEEecCC-ChHHHHHHHHH
Confidence 7889887 3345557999 99999998754
No 78
>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=68.38 E-value=9.2 Score=31.20 Aligned_cols=57 Identities=23% Similarity=0.268 Sum_probs=42.2
Q ss_pred HHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 116 GAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 116 ~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
-.+...+...|++++|+..++....... ....+....|..++..+++++|+++|.++
T Consensus 4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~a~~~~~~~ 60 (100)
T cd00189 4 LNLGNLYYKLGDYDEALEYYEKALELDP-----DNADAYYNLAAAYYKLGKYEEALEDYEKA 60 (100)
T ss_pred HHHHHHHHHHhcHHHHHHHHHHHHhcCC-----ccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677889999999999876431111 11256777899999999999999999874
No 79
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=68.28 E-value=8.1 Score=25.76 Aligned_cols=29 Identities=34% Similarity=0.695 Sum_probs=23.7
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCC
Q 003482 155 IRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPS 190 (816)
Q Consensus 155 ~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~ 190 (816)
-..|+.++..|++++|...|.+ ||..||+
T Consensus 4 ~~~a~~~~~~g~~~~A~~~~~~-------~~~~~P~ 32 (33)
T PF13174_consen 4 YRLARCYYKLGDYDEAIEYFQR-------LIKRYPD 32 (33)
T ss_dssp HHHHHHHHHHCHHHHHHHHHHH-------HHHHSTT
T ss_pred HHHHHHHHHccCHHHHHHHHHH-------HHHHCcC
Confidence 4568899999999999999976 5667775
No 80
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=68.19 E-value=13 Score=39.34 Aligned_cols=66 Identities=11% Similarity=0.192 Sum_probs=45.7
Q ss_pred HHHHHH-HhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCC
Q 003482 117 AQIVQL-TASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPSI 191 (816)
Q Consensus 117 ~qi~~L-l~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l 191 (816)
.....| +++|+|++|+..++.+.. ..+. .......+...|..+|..|+|++|...|.. |+..||+-
T Consensus 147 ~~A~~l~~~~~~y~~Ai~af~~fl~-~yP~-s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~-------vv~~yP~s 213 (263)
T PRK10803 147 NAAIALVQDKSRQDDAIVAFQNFVK-KYPD-STYQPNANYWLGQLNYNKGKKDDAAYYFAS-------VVKNYPKS 213 (263)
T ss_pred HHHHHHHHhcCCHHHHHHHHHHHHH-HCcC-CcchHHHHHHHHHHHHHcCCHHHHHHHHHH-------HHHHCCCC
Confidence 344455 678999999988876421 0000 012235677889999999999999999855 56778865
No 81
>KOG2079 consensus Vacuolar assembly/sorting protein VPS8 [Intracellular trafficking, secretion, and vesicular transport]
Probab=66.02 E-value=31 Score=42.60 Aligned_cols=233 Identities=18% Similarity=0.156 Sum_probs=123.3
Q ss_pred HHHHHHHHHHhcCCchhHHhhh-cCCCc-ccHHHHHHHHHhcCCHHHHHHHH-HHhccHHHHHHHHHHHHhhhcCCCCcc
Q 003482 319 LDTALLQALLLTGQSSAALELL-KGLNY-CDVKICEEILQKKNHYTALLELY-KSNARHREALKLLHELVEESKSNQSQD 395 (816)
Q Consensus 319 vDT~Llk~yl~~~~~~~l~~ll-~~~n~-c~~~~~~~~L~~~~~~~~L~~Ly-~~~g~~~~AL~ll~~l~~~~~~d~~~~ 395 (816)
+--.|+.+|++.. ...+..++ +.+.+ .|++.+-++.++++.|+.++.+. +...+|.-+|.=+..........++..
T Consensus 543 l~~sL~dy~~e~~-l~~ie~lIv~le~~sLDld~vlki~kq~~lfd~liYv~~kafNDY~tplvell~~~~~difs~sEq 621 (1206)
T KOG2079|consen 543 LAPSLADYLLEEE-LKYIENLIVTLEPSSLDLDVVLKICKQYNLFDGLIYVNNKAFNDYDTPLVELLSRISNDIFSPSEQ 621 (1206)
T ss_pred HHHHHHHHHHhcC-HHHHHhheeecCcccccHHHHHHHHHHhCCcceEEEEeeehhcccccHHHHHHHHhhccccCCccc
Confidence 3345666666654 23344443 33444 49999999999999998877654 345677777765554333322211111
Q ss_pred cc------------------cccCChHH----HHHHhc----cc---CCCChHHHHHhHHhhhhhCcccccccccc----
Q 003482 396 EH------------------TQKFNPES----IIEYLK----PL---CGTDPMLVLEFSMLVLESCPTQTIELFLS---- 442 (816)
Q Consensus 396 ~~------------------~~~~~~~~----~i~yL~----~L---~~~~~~li~~y~~wll~~~p~~~i~if~~---- 442 (816)
.. ......+. ..+.++ .+ +..+-+.-+-|.+.+++.||.+.+.++..
T Consensus 622 ~~gn~~f~yvs~cLTG~~YP~~~~~ie~~~~V~~el~r~cfS~v~~k~~~e~e~~fPYlrllLk~d~~~flnvls~afd~ 701 (1206)
T KOG2079|consen 622 RLGNTIFVYVSYCLTGRFYPFGLHPIEEQGSVSHELLRNCFSSVTTKGNPEEEPAFPYLRLLLKSDPSRFLNVLSEAFDA 701 (1206)
T ss_pred cCCceEEEeeehhhcccccccccCchHhhchhhHHHHHHHhhcCCcCCCCccCcccHHHHHHHhhCHHHHHHHHHHHhhh
Confidence 10 00011111 112222 11 12334566789999999999988766532
Q ss_pred -----CC--CChHHHHHHHhhc-Ch--hhHHHHHHHHHhhhcCCCCchhHHHHHHHHHH----HHHHHhhhhhhhhccCc
Q 003482 443 -----GN--IPADLVNSYLKQY-SP--SMQGRYLELMLAMNENSISGNLQNEMVQIYLS----EVLDWYSDLSAQQKWDE 508 (816)
Q Consensus 443 -----~~--l~~~~Vl~~L~~~-~~--~~~~~YLE~li~~~~~~~~~~~h~~Li~lYl~----~l~~~~~~~~~~~~~~~ 508 (816)
|+ ..+..|++.|-.. .+ ...+.||-++...- .. ...|+..-+. -+.... . ...
T Consensus 702 ~~Fsldn~lv~rq~iI~~L~~~mk~e~s~~~~~lifiaq~~-----s~-yrqli~~s~shlq~~vitlc-s-----s~~- 768 (1206)
T KOG2079|consen 702 SLFSLDNELVSRQYIIDLLLDAMKDEGSIRVLVLIFIAQSI-----SK-YRQLIKVSNSHLQCVVITLC-S-----SRV- 768 (1206)
T ss_pred hhhccchhhhhHHHHHHHHHHHhcccccchhhhHHHHHHHh-----hh-hhHHhhhhHHHHHHHHHhhc-c-----Ccc-
Confidence 21 4455666665432 11 13455555554321 01 1122221111 111111 0 000
Q ss_pred ccchHHHHHHHHHHhh-hCCC---ChHHHhccCCCCchhHHHHHHHhhcccHHHHHHHHHHhcCC
Q 003482 509 KAYSPTRKKLLSALES-ISGY---NPEVLLKRLPADALYEERAILLGKMNQHELALSLYVHKLCV 569 (816)
Q Consensus 509 ~~~~~~r~kL~~fL~~-s~~Y---d~~~~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv~~L~D 569 (816)
...|+--..-|++ ...| +.+.-+..++..+++...-+||.|.|+|+.||+.|+ +.+|
T Consensus 769 ---hs~rEn~~~alesll~lyh~~~de~~il~a~~~~~y~Vl~hi~~k~~kyed~l~~iL-e~n~ 829 (1206)
T KOG2079|consen 769 ---HSIRENSQIALESLLPLYHSRTDENFILEAKEKNFYKVLFHIYKKENKYEDALSLIL-ETND 829 (1206)
T ss_pred ---cchhHHHHHHHHhhccceeccChHHHHHHhhhcccceeHHHHHhhhhhHHHHHHHHH-Hhhh
Confidence 0123322222333 2233 456667778888999999999999999999999999 4443
No 82
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=65.76 E-value=6.4 Score=37.41 Aligned_cols=58 Identities=17% Similarity=0.102 Sum_probs=43.2
Q ss_pred HHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 115 LGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 115 ~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
+......+.+.|++++|+..++....-+ + .-...+...|..+...|+|++|...|.++
T Consensus 27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P----~~~~a~~~lg~~~~~~g~~~~A~~~y~~A 84 (144)
T PRK15359 27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-P----WSWRAHIALAGTWMMLKEYTTAINFYGHA 84 (144)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHcC-C----CcHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 4445667889999999999987742111 1 22346677799999999999999999874
No 83
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=63.99 E-value=15 Score=34.68 Aligned_cols=57 Identities=23% Similarity=0.297 Sum_probs=27.9
Q ss_pred HHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 118 QIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 118 qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
++...+..+....+-..++.+..+... ...-.......|..+|.+|+|++|...|..
T Consensus 17 ~~~~~~~~~~~~~~~~~~~~l~~~~~~--s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~ 73 (145)
T PF09976_consen 17 QALQALQAGDPAKAEAAAEQLAKDYPS--SPYAALAALQLAKAAYEQGDYDEAKAALEK 73 (145)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHCCC--ChHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 344444566666655544433211000 001123444456667777777777777654
No 84
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=63.93 E-value=1.6 Score=32.28 Aligned_cols=32 Identities=19% Similarity=0.385 Sum_probs=26.9
Q ss_pred cCCcCCCcc-CCceEEEccCCCeEEEeccCCCcc
Q 003482 770 MCSLCSKKI-GTSVFAVYPNGKTIVHFVCFRDSQ 802 (816)
Q Consensus 770 ~C~vC~k~l-~~~~f~v~p~g~~v~H~~C~~~~~ 802 (816)
.|++|.+++ ....+.+.+|| |++...|+....
T Consensus 1 ~C~~C~~~~~~~~~~~l~~Cg-H~~C~~C~~~~~ 33 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCG-HIFCEKCLKKLK 33 (44)
T ss_pred CCcCcCccccCCCCeEEcccC-CHHHHHHHHhhc
Confidence 499999999 34578889999 999999987664
No 85
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=63.03 E-value=2.7 Score=28.33 Aligned_cols=28 Identities=21% Similarity=0.346 Sum_probs=11.5
Q ss_pred cCCcCCCccCC-ceEEEccCCCeEEEeccC
Q 003482 770 MCSLCSKKIGT-SVFAVYPNGKTIVHFVCF 798 (816)
Q Consensus 770 ~C~vC~k~l~~-~~f~v~p~g~~v~H~~C~ 798 (816)
.|.+|++++.. ..+.--.|. ..+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cd-f~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECD-FDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT------HHHH
T ss_pred cCCcCCCcCCCCceEECccCC-CccChhcC
Confidence 69999999988 455555777 89998884
No 86
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=63.02 E-value=3e+02 Score=32.20 Aligned_cols=62 Identities=24% Similarity=0.251 Sum_probs=43.7
Q ss_pred HHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCC
Q 003482 118 QIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPSI 191 (816)
Q Consensus 118 qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l 191 (816)
++.-+.+.|.+++||..++.... ... ....+...-|-+|+.-|++++|...|.. +|..-|+-
T Consensus 10 ~~~il~e~g~~~~AL~~L~~~~~--~I~---Dk~~~~E~rA~ll~kLg~~~eA~~~y~~-------Li~rNPdn 71 (517)
T PF12569_consen 10 KNSILEEAGDYEEALEHLEKNEK--QIL---DKLAVLEKRAELLLKLGRKEEAEKIYRE-------LIDRNPDN 71 (517)
T ss_pred HHHHHHHCCCHHHHHHHHHhhhh--hCC---CHHHHHHHHHHHHHHcCCHHHHHHHHHH-------HHHHCCCc
Confidence 45677899999999999977522 111 1223555558999999999999999865 45555544
No 87
>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=62.69 E-value=12 Score=25.22 Aligned_cols=25 Identities=28% Similarity=0.378 Sum_probs=22.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 153 IHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 153 i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
+....|..+...|+|++|+.+|.++
T Consensus 3 ~~~~lg~~y~~~~~~~~A~~~~~~a 27 (34)
T PF13181_consen 3 AYYNLGKIYEQLGDYEEALEYFEKA 27 (34)
T ss_dssp HHHHHHHHHHHTTSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 5667799999999999999999874
No 88
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=62.46 E-value=4.9 Score=30.98 Aligned_cols=34 Identities=24% Similarity=0.538 Sum_probs=25.2
Q ss_pred CcCCcCCCccCCceEEEccCCCeEEEe-ccCCCccch
Q 003482 769 SMCSLCSKKIGTSVFAVYPNGKTIVHF-VCFRDSQSM 804 (816)
Q Consensus 769 ~~C~vC~k~l~~~~f~v~p~g~~v~H~-~C~~~~~~~ 804 (816)
.+|.||..||.....+.-+.| .||. .|++=.+++
T Consensus 2 ~~CvVCKqpi~~a~~v~T~~G--~VH~g~C~~y~~e~ 36 (54)
T PF10886_consen 2 EICVVCKQPIDDALVVETESG--PVHPGVCAQYLEEL 36 (54)
T ss_pred CeeeeeCCccCcceEEEcCCC--ccCcHHHHHHHHhc
Confidence 589999999998877778888 4555 576544433
No 89
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=61.88 E-value=3.6e+02 Score=32.66 Aligned_cols=59 Identities=7% Similarity=-0.030 Sum_probs=41.7
Q ss_pred CHHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 114 PLGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 114 ~~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
.+..-|.+++.+|++++|+.+++..... .+ ... ......|..++..|+|++|...|.+.
T Consensus 44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~-~p---~~~-~~l~~l~~~~l~~g~~~~A~~~l~~~ 102 (656)
T PRK15174 44 NIILFAIACLRKDETDVGLTLLSDRVLT-AK---NGR-DLLRRWVISPLASSQPDAVLQVVNKL 102 (656)
T ss_pred CHHHHHHHHHhcCCcchhHHHhHHHHHh-CC---Cch-hHHHHHhhhHhhcCCHHHHHHHHHHH
Confidence 4555678899999999999998874211 00 111 23444467777899999999999874
No 90
>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=61.76 E-value=5.1 Score=32.24 Aligned_cols=36 Identities=28% Similarity=0.444 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHc-CCCHHHHHHh
Q 003482 152 SIHIRFAHYLFDTGSYEEAMEHFLAS-QVDITYALSL 187 (816)
Q Consensus 152 ~i~~~~a~~Lf~~~~f~~A~~~f~~~-~~dP~~vi~L 187 (816)
.+....|..++..++|++|+.+|.++ .+||.....+
T Consensus 4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~ 40 (69)
T PF13414_consen 4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAY 40 (69)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHH
Confidence 35667799999999999999999884 5666655544
No 91
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=61.25 E-value=12 Score=26.06 Aligned_cols=24 Identities=13% Similarity=0.297 Sum_probs=20.5
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHH
Q 003482 361 YTALLELYKSNARHREALKLLHEL 384 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l 384 (816)
|..|+.+|...|+|++|++++.+.
T Consensus 2 l~~Lg~~~~~~g~~~~Ai~~y~~a 25 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAIEYYEQA 25 (36)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHH
Confidence 567899999999999999999873
No 92
>PF11768 DUF3312: Protein of unknown function (DUF3312); InterPro: IPR024511 This is a eukaryotic family of uncharacterised proteins that contain WD40 repeats.
Probab=60.30 E-value=3.2e+02 Score=31.86 Aligned_cols=161 Identities=12% Similarity=0.055 Sum_probs=91.5
Q ss_pred ccccccccccccceEEEEcCCCccccCCCccccCCCceEEee--CcEEEEecC-CceEEEEccCCCcceeE---------
Q 003482 16 GKRESVFSDMMENIGVFVDQNGKLLQADRICWSEAPIAVIIQ--KPYAIALLP-RRVEVRSLRVPYALIQT--------- 83 (816)
Q Consensus 16 p~~~~~~~~~~d~~gvfv~~~G~~~~~~~i~w~~~p~~v~~~--~PYli~l~~-~~ieV~sl~~~~~~vQt--------- 83 (816)
|.-+.+.++|.|+.-+.+|..-..+. ..+-.-.|..+.|. .-++++..+ |.++++++.-.--..|.
T Consensus 269 p~E~kLvlGC~DgSiiLyD~~~~~t~--~~ka~~~P~~iaWHp~gai~~V~s~qGelQ~FD~ALspi~~qLlsEd~~P~~ 346 (545)
T PF11768_consen 269 PSEDKLVLGCEDGSIILYDTTRGVTL--LAKAEFIPTLIAWHPDGAIFVVGSEQGELQCFDMALSPIKMQLLSEDATPKS 346 (545)
T ss_pred cccceEEEEecCCeEEEEEcCCCeee--eeeecccceEEEEcCCCcEEEEEcCCceEEEEEeecCccceeeccccCCCcc
Confidence 54555567899999999987655442 23445567777774 447776665 78999886411000111
Q ss_pred -eeeCC-------ceeeeec---------------CCcEE-EecCCcEEEec---------cCCHHHHHHHHHhcCCHHH
Q 003482 84 -IVLQN-------VRHLIPS---------------SNAVV-VALENSIFGLF---------PVPLGAQIVQLTASGDFEE 130 (816)
Q Consensus 84 -i~l~~-------~~~l~~~---------------~~~v~-v~s~~~I~~l~---------~~~~~~qi~~Ll~~~~~ee 130 (816)
+++.. ...+.-+ ...++ +...+-+-+|. .+....-+.+.+..+++++
T Consensus 347 ~L~Ls~yf~~~~~L~~iqW~~~~~~~~~~~~~~~~~~~L~l~f~~GPl~vl~~~~G~~~~G~l~~~eL~~~yl~~~qi~e 426 (545)
T PF11768_consen 347 TLQLSKYFRVSSSLVHIQWAPAPQLSSQGEFYADTYDLLLLVFERGPLAVLRFKLGVFTRGDLGLVELISQYLRCDQIEE 426 (545)
T ss_pred EEeeehhccCcchhheeEeccCCCccccCCCcCCccceEEEEEcCCCeEEEEEeeccccCCcccHHHHHHHHHhcCCHHH
Confidence 12210 0011100 01112 22333332222 2344566789999999999
Q ss_pred HHHHhhhCCCcchH---------------------H--------------------------HHhhHHHHHHHHHHHHhc
Q 003482 131 ALALCKLLPPEDAS---------------------L--------------------------RAAKEGSIHIRFAHYLFD 163 (816)
Q Consensus 131 Al~L~~~~~~~d~~---------------------~--------------------------~~~~~~~i~~~~a~~Lf~ 163 (816)
|+.++..+..+... . ..+....+..++-.+|++
T Consensus 427 Ai~lL~smnW~~~g~~C~~~L~~I~n~Ll~~pl~~ere~~le~algsF~ap~rpl~~~~~~ey~d~V~~~aRRfFhhLLR 506 (545)
T PF11768_consen 427 AINLLLSMNWNTMGEQCFHCLSAIVNHLLRQPLTPEREAQLEAALGSFYAPTRPLSDATVLEYRDPVSDLARRFFHHLLR 506 (545)
T ss_pred HHHHHHhCCccccHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999875321000 0 011234456667778999
Q ss_pred CCCHHHHHHHHHHcC
Q 003482 164 TGSYEEAMEHFLASQ 178 (816)
Q Consensus 164 ~~~f~~A~~~f~~~~ 178 (816)
.++|++||.+-.+.+
T Consensus 507 ~~rfekAFlLAvdi~ 521 (545)
T PF11768_consen 507 YQRFEKAFLLAVDIG 521 (545)
T ss_pred hhHHHHHHHHHHhcc
Confidence 999999999887753
No 93
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=60.01 E-value=13 Score=24.31 Aligned_cols=26 Identities=31% Similarity=0.521 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHh
Q 003482 361 YTALLELYKSNARHREALKLLHELVE 386 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~ 386 (816)
|..++..|.+.|+.++|++++.+..+
T Consensus 3 y~~li~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 3 YNSLISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHHHHHccchHHHHHHHHHHHhH
Confidence 77899999999999999999998754
No 94
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=59.87 E-value=53 Score=41.91 Aligned_cols=59 Identities=22% Similarity=0.341 Sum_probs=34.9
Q ss_pred HHHHHHHHHHhcCCchhHHhhh-cCCCcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHHHh
Q 003482 319 LDTALLQALLLTGQSSAALELL-KGLNYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHELVE 386 (816)
Q Consensus 319 vDT~Llk~yl~~~~~~~l~~ll-~~~n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l~~ 386 (816)
|=+++|++-...++.+.+...+ |--.+||.-. -|..|..+|...+.+++|-+++.....
T Consensus 1499 iWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~---------V~~~L~~iy~k~ek~~~A~ell~~m~K 1558 (1710)
T KOG1070|consen 1499 IWIAYLNLENAYGTEESLKKVFERACQYCDAYT---------VHLKLLGIYEKSEKNDEADELLRLMLK 1558 (1710)
T ss_pred HHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHH---------HHHHHHHHHHHhhcchhHHHHHHHHHH
Confidence 4456666666666444444333 2223444332 366778888888888888888766544
No 95
>PF12854 PPR_1: PPR repeat
Probab=59.65 E-value=12 Score=25.81 Aligned_cols=27 Identities=22% Similarity=0.276 Sum_probs=22.9
Q ss_pred cCCHHHHHHHHHhcCCHHHHHHHhhhC
Q 003482 112 PVPLGAQIVQLTASGDFEEALALCKLL 138 (816)
Q Consensus 112 ~~~~~~qi~~Ll~~~~~eeAl~L~~~~ 138 (816)
.+.|..-|..+.+.|++++|+.+++..
T Consensus 7 ~~ty~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 7 VVTYNTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence 345778899999999999999998764
No 96
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=59.21 E-value=3.2 Score=35.40 Aligned_cols=31 Identities=13% Similarity=0.173 Sum_probs=21.5
Q ss_pred CcCCcCCCccCCceEEEccCCCeEEEeccCCC
Q 003482 769 SMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 769 ~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~ 800 (816)
..|+.|..|-.+-.++..-|+ |.||.+|+..
T Consensus 33 g~Cp~Ck~Pgd~Cplv~g~C~-H~FH~hCI~k 63 (85)
T PF12861_consen 33 GCCPDCKFPGDDCPLVWGKCS-HNFHMHCILK 63 (85)
T ss_pred cCCCCccCCCCCCceeeccCc-cHHHHHHHHH
Confidence 344445444333477888899 9999999865
No 97
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=58.68 E-value=14 Score=41.09 Aligned_cols=21 Identities=19% Similarity=0.200 Sum_probs=12.1
Q ss_pred HHHHHHHhcCCHHHHHHHhhh
Q 003482 117 AQIVQLTASGDFEEALALCKL 137 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~ 137 (816)
.+...++..|+|++|+.++++
T Consensus 7 ~~a~~a~~~~~~~~Ai~~~~~ 27 (356)
T PLN03088 7 DKAKEAFVDDDFALAVDLYTQ 27 (356)
T ss_pred HHHHHHHHcCCHHHHHHHHHH
Confidence 445555666666666655554
No 98
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=58.31 E-value=4e+02 Score=32.07 Aligned_cols=41 Identities=24% Similarity=0.490 Sum_probs=37.0
Q ss_pred CcccHHHHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHH
Q 003482 344 NYCDVKICEEILQKKNHYTALLELYKSNARHREALKLLHEL 384 (816)
Q Consensus 344 n~c~~~~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l 384 (816)
|.-|++.+++...+.+++...+.+|.+.|+++.|.++-.+.
T Consensus 777 n~~dfe~ae~lf~e~~~~~dai~my~k~~kw~da~kla~e~ 817 (1636)
T KOG3616|consen 777 NKGDFEIAEELFTEADLFKDAIDMYGKAGKWEDAFKLAEEC 817 (1636)
T ss_pred cchhHHHHHHHHHhcchhHHHHHHHhccccHHHHHHHHHHh
Confidence 55678999999999999999999999999999999987664
No 99
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=58.23 E-value=25 Score=36.60 Aligned_cols=69 Identities=19% Similarity=0.309 Sum_probs=51.8
Q ss_pred CHHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCC
Q 003482 114 PLGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPSI 191 (816)
Q Consensus 114 ~~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l 191 (816)
-|-.+....++.|++++|..-++.+.. ..+.. ...++.....|+.+++.++|++|...+-+ .|.+||.-
T Consensus 36 ~LY~~g~~~L~~gn~~~A~~~fe~l~~-~~p~s-~~~~qa~l~l~yA~Yk~~~y~~A~~~~dr-------Fi~lyP~~ 104 (254)
T COG4105 36 ELYNEGLTELQKGNYEEAIKYFEALDS-RHPFS-PYSEQAQLDLAYAYYKNGEYDLALAYIDR-------FIRLYPTH 104 (254)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCC-cccHHHHHHHHHHHHhcccHHHHHHHHHH-------HHHhCCCC
Confidence 366788899999999999998887531 11111 13456788889999999999999988755 56788865
No 100
>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=55.39 E-value=16 Score=33.60 Aligned_cols=55 Identities=25% Similarity=0.349 Sum_probs=41.1
Q ss_pred HHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 118 QIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 118 qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
....++..|++++|+..++.....+ ..-.......|..++..++|++|...|.++
T Consensus 23 ~a~~~~~~~~~~~A~~~~~~~~~~~-----p~~~~~~~~la~~~~~~~~~~~A~~~~~~~ 77 (135)
T TIGR02552 23 LAYNLYQQGRYDEALKLFQLLAAYD-----PYNSRYWLGLAACCQMLKEYEEAIDAYALA 77 (135)
T ss_pred HHHHHHHcccHHHHHHHHHHHHHhC-----CCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456688999999999987642111 122356677799999999999999999875
No 101
>PF12854 PPR_1: PPR repeat
Probab=55.11 E-value=18 Score=24.97 Aligned_cols=24 Identities=33% Similarity=0.564 Sum_probs=21.9
Q ss_pred CHHHHHHHHHHhccHHHHHHHHHH
Q 003482 360 HYTALLELYKSNARHREALKLLHE 383 (816)
Q Consensus 360 ~~~~L~~Ly~~~g~~~~AL~ll~~ 383 (816)
-|..|+.-|.+.|+.++|++++.+
T Consensus 9 ty~~lI~~~Ck~G~~~~A~~l~~~ 32 (34)
T PF12854_consen 9 TYNTLIDGYCKAGRVDEAFELFDE 32 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHh
Confidence 488999999999999999999865
No 102
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=54.69 E-value=22 Score=42.65 Aligned_cols=74 Identities=20% Similarity=0.319 Sum_probs=53.1
Q ss_pred CHHHHHHHHHhcCCHHHHHHHhhhC-------------CCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCC
Q 003482 114 PLGAQIVQLTASGDFEEALALCKLL-------------PPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVD 180 (816)
Q Consensus 114 ~~~~qi~~Ll~~~~~eeAl~L~~~~-------------~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~d 180 (816)
-++.-++-|+...+|+.|++||..- +.+|+....+...+|..+.|..+..+|.|..|-..|.+++--
T Consensus 1095 qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdK 1174 (1416)
T KOG3617|consen 1095 QYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQAGDK 1174 (1416)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhhH
Confidence 3667788888999999999999752 122222223345678888999999999999999999998643
Q ss_pred HHHHHHh
Q 003482 181 ITYALSL 187 (816)
Q Consensus 181 P~~vi~L 187 (816)
.+..=+|
T Consensus 1175 l~AMraL 1181 (1416)
T KOG3617|consen 1175 LSAMRAL 1181 (1416)
T ss_pred HHHHHHH
Confidence 3333333
No 103
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=53.55 E-value=25 Score=33.23 Aligned_cols=60 Identities=22% Similarity=0.137 Sum_probs=45.0
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
.+|.+.+..|++++|+..++...+.--.....-.-.++.+.-..+++.++..+|+++..+
T Consensus 6 ~~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~ 65 (145)
T PF10607_consen 6 KKIRQAILNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARK 65 (145)
T ss_pred HHHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 468888999999999999998642110001123457888888889999999999999877
No 104
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=52.93 E-value=18 Score=40.05 Aligned_cols=54 Identities=17% Similarity=0.095 Sum_probs=31.7
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 119 IVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
...++..|++++|+..++....-+ ......+.+.|..++..|+|++|..+|.++
T Consensus 43 a~~~~~~g~~~eAl~~~~~Al~l~-----P~~~~a~~~lg~~~~~lg~~~eA~~~~~~a 96 (356)
T PLN03088 43 AQANIKLGNFTEAVADANKAIELD-----PSLAKAYLRKGTACMKLEEYQTAKAALEKG 96 (356)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHhC-----cCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 345566777777777766532100 011234556677777777777777777653
No 105
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=51.77 E-value=25 Score=23.31 Aligned_cols=27 Identities=33% Similarity=0.551 Sum_probs=24.0
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHhh
Q 003482 361 YTALLELYKSNARHREALKLLHELVEE 387 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~~ 387 (816)
|..++.-|.+.|++++|++++.+....
T Consensus 3 ~n~li~~~~~~~~~~~a~~~~~~M~~~ 29 (35)
T TIGR00756 3 YNTLIDGLCKAGRVEEALELFKEMLER 29 (35)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence 778999999999999999999987653
No 106
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=51.47 E-value=5.4 Score=31.01 Aligned_cols=12 Identities=25% Similarity=0.894 Sum_probs=6.6
Q ss_pred CcCCcCCCccCC
Q 003482 769 SMCSLCSKKIGT 780 (816)
Q Consensus 769 ~~C~vC~k~l~~ 780 (816)
..||+|+++|+.
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 389999999975
No 107
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=51.24 E-value=1e+02 Score=30.16 Aligned_cols=34 Identities=15% Similarity=0.099 Sum_probs=29.2
Q ss_pred HHHHhhcc-cHHHHHHHHHHhcCCHHHHHHHHHHhh
Q 003482 547 AILLGKMN-QHELALSLYVHKLCVPELALAYCDRVY 581 (816)
Q Consensus 547 a~Ll~rlg-~h~~AL~ilv~~L~D~~~Ae~YC~~~~ 581 (816)
.=.+.|+| .|++.+++++ .-|++-.|..|+....
T Consensus 82 lDMLkRL~~~~~~iievLL-~~g~vl~ALr~ar~~~ 116 (167)
T PF07035_consen 82 LDMLKRLGTAYEEIIEVLL-SKGQVLEALRYARQYH 116 (167)
T ss_pred HHHHHHhhhhHHHHHHHHH-hCCCHHHHHHHHHHcC
Confidence 34789999 9999999999 5799999999998854
No 108
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=50.94 E-value=22 Score=24.74 Aligned_cols=22 Identities=23% Similarity=0.391 Sum_probs=18.4
Q ss_pred HHHHHHHhcCCCHHHHHHHHHH
Q 003482 155 IRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 155 ~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
...|..++..|+|++|+++|.+
T Consensus 3 ~~Lg~~~~~~g~~~~Ai~~y~~ 24 (36)
T PF13176_consen 3 NNLGRIYRQQGDYEKAIEYYEQ 24 (36)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHH
Confidence 3468899999999999999987
No 109
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=49.87 E-value=9.3 Score=28.66 Aligned_cols=37 Identities=16% Similarity=0.214 Sum_probs=27.6
Q ss_pred CCCCcCCcCCCccCC---ceEEEccCCCeEEEeccCCCccc
Q 003482 766 TSDSMCSLCSKKIGT---SVFAVYPNGKTIVHFVCFRDSQS 803 (816)
Q Consensus 766 ~~~~~C~vC~k~l~~---~~f~v~p~g~~v~H~~C~~~~~~ 803 (816)
...+.|.+|++.|.. ..+-.=.|+ .++|..|......
T Consensus 9 ~~~~~C~~C~~~i~~~~~~~~~C~~C~-~~~H~~C~~~v~~ 48 (50)
T cd00029 9 FKPTFCDVCRKSIWGLFKQGLRCSWCK-VKCHKKCADKVPP 48 (50)
T ss_pred CCCCChhhcchhhhccccceeEcCCCC-CchhhhhhccCCC
Confidence 346789999999875 344444677 8999999887643
No 110
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=49.68 E-value=4.4 Score=43.80 Aligned_cols=32 Identities=28% Similarity=0.755 Sum_probs=27.0
Q ss_pred CCcCCcCCCccCCc--eEEEccCCCeEEEeccCCC
Q 003482 768 DSMCSLCSKKIGTS--VFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 768 ~~~C~vC~k~l~~~--~f~v~p~g~~v~H~~C~~~ 800 (816)
+--|-.||..+|.. ..-..||. |++|.+|+..
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCs-HIfH~rCl~e 398 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCS-HIFHLRCLQE 398 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchh-HHHHHHHHHH
Confidence 45799999999974 56669999 9999999873
No 111
>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=47.74 E-value=36 Score=22.79 Aligned_cols=26 Identities=27% Similarity=0.422 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHh
Q 003482 361 YTALLELYKSNARHREALKLLHELVE 386 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~ 386 (816)
|..++.+|...|++++|++.+.+..+
T Consensus 4 ~~~lg~~y~~~~~~~~A~~~~~~a~~ 29 (34)
T PF13181_consen 4 YYNLGKIYEQLGDYEEALEYFEKALE 29 (34)
T ss_dssp HHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 56789999999999999999987543
No 112
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=47.56 E-value=6.5 Score=41.77 Aligned_cols=42 Identities=21% Similarity=0.420 Sum_probs=31.2
Q ss_pred CCcCCcCCCccCCceEEEccCCCeEEEeccCCCc---cchhccccCCC
Q 003482 768 DSMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRDS---QSMKAVAKGSP 812 (816)
Q Consensus 768 ~~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~---~~~~~~~~~~~ 812 (816)
...|++|-|+..++.+. +--| -|++|.|+... -+.|+++ |-|
T Consensus 300 ~~~CpvClk~r~Nptvl-~vSG-yVfCY~Ci~~Yv~~~~~CPVT-~~p 344 (357)
T KOG0826|consen 300 REVCPVCLKKRQNPTVL-EVSG-YVFCYPCIFSYVVNYGHCPVT-GYP 344 (357)
T ss_pred cccChhHHhccCCCceE-Eecc-eEEeHHHHHHHHHhcCCCCcc-CCc
Confidence 57999999999987544 4456 89999998753 5677776 444
No 113
>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=47.17 E-value=28 Score=31.92 Aligned_cols=56 Identities=18% Similarity=0.166 Sum_probs=40.0
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
.....+...|++++|+..+++....+ + .-...+...|..++..|+|++|+..|.++
T Consensus 56 ~la~~~~~~~~~~~A~~~~~~~~~~~-p----~~~~~~~~la~~~~~~g~~~~A~~~~~~a 111 (135)
T TIGR02552 56 GLAACCQMLKEYEEAIDAYALAAALD-P----DDPRPYFHAAECLLALGEPESALKALDLA 111 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC-C----CChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 34455678899999998877642111 0 12245666799999999999999999764
No 114
>PF13041 PPR_2: PPR repeat family
Probab=47.13 E-value=30 Score=25.92 Aligned_cols=29 Identities=31% Similarity=0.509 Sum_probs=25.6
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHhhhc
Q 003482 361 YTALLELYKSNARHREALKLLHELVEESK 389 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~ 389 (816)
|..++.-|.+.|++++|++++.+..+...
T Consensus 6 yn~li~~~~~~~~~~~a~~l~~~M~~~g~ 34 (50)
T PF13041_consen 6 YNTLISGYCKAGKFEEALKLFKEMKKRGI 34 (50)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHHHHcCC
Confidence 78999999999999999999999876443
No 115
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=46.72 E-value=32 Score=24.05 Aligned_cols=26 Identities=38% Similarity=0.588 Sum_probs=21.5
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHh
Q 003482 361 YTALLELYKSNARHREALKLLHELVE 386 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~ 386 (816)
+..|+.+|...|++++|+.++.+...
T Consensus 5 ~~~la~~~~~~g~~~~A~~~~~~al~ 30 (42)
T PF13374_consen 5 LNNLANAYRAQGRYEEALELLEEALE 30 (42)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhhcchhhHHHHHHHH
Confidence 56789999999999999999987643
No 116
>PHA02929 N1R/p28-like protein; Provisional
Probab=46.32 E-value=7.6 Score=40.20 Aligned_cols=34 Identities=18% Similarity=0.463 Sum_probs=25.8
Q ss_pred CCCCcCCcCCCccCCce-----EEE-ccCCCeEEEeccCCC
Q 003482 766 TSDSMCSLCSKKIGTSV-----FAV-YPNGKTIVHFVCFRD 800 (816)
Q Consensus 766 ~~~~~C~vC~k~l~~~~-----f~v-~p~g~~v~H~~C~~~ 800 (816)
..+..|++|...+..+. |++ -||| |+||..|+..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~-H~FC~~CI~~ 211 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCN-HVFCIECIDI 211 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCC-CcccHHHHHH
Confidence 45679999999876532 344 4798 9999999964
No 117
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=45.82 E-value=43 Score=29.08 Aligned_cols=62 Identities=24% Similarity=0.305 Sum_probs=41.3
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHhhhcCCCCcccccccCChHHHHHHhcccCCCChHHHHHhHHhhh
Q 003482 361 YTALLELYKSNARHREALKLLHELVEESKSNQSQDEHTQKFNPESIIEYLKPLCGTDPMLVLEFSMLVL 429 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~d~~~~~~~~~~~~~~~i~yL~~L~~~~~~li~~y~~wll 429 (816)
-..|+..|...|++++|++.|.++........ +......+++++.-|+..+. ++.+|=++|.
T Consensus 25 r~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~------~~~ar~~ll~~f~~lg~~~p-lv~~~RRkL~ 86 (90)
T PF14561_consen 25 RYALADALLAAGDYEEALDQLLELVRRDRDYE------DDAARKRLLDIFELLGPGDP-LVSEYRRKLA 86 (90)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCC------CCHHHHHHHHHHHHH-TT-H-HHHHHHHHHH
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhCcccc------ccHHHHHHHHHHHHcCCCCh-HHHHHHHHHH
Confidence 45789999999999999999999986543210 01123567888888877764 7777766654
No 118
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=45.52 E-value=7.3 Score=38.74 Aligned_cols=36 Identities=19% Similarity=0.482 Sum_probs=28.2
Q ss_pred eEEECCCCcCCcCCCccCCceEEEccCCCeEEEeccCCC
Q 003482 762 VVKITSDSMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 762 ~v~I~~~~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~ 800 (816)
-+...++-.|++|...+..+++ -+|| |+++..|+..
T Consensus 12 ~~~~~~~~~CpICld~~~dPVv--T~CG-H~FC~~CI~~ 47 (193)
T PLN03208 12 LVDSGGDFDCNICLDQVRDPVV--TLCG-HLFCWPCIHK 47 (193)
T ss_pred eccCCCccCCccCCCcCCCcEE--cCCC-chhHHHHHHH
Confidence 4445567899999998766533 6999 9999999964
No 119
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=45.49 E-value=35 Score=22.51 Aligned_cols=25 Identities=20% Similarity=0.289 Sum_probs=21.5
Q ss_pred HHHHHHHHHhccHHHHHHHHHHHHh
Q 003482 362 TALLELYKSNARHREALKLLHELVE 386 (816)
Q Consensus 362 ~~L~~Ly~~~g~~~~AL~ll~~l~~ 386 (816)
..++.+|...|++++|++++.++.+
T Consensus 4 ~~~a~~~~~~g~~~~A~~~~~~~~~ 28 (33)
T PF13174_consen 4 YRLARCYYKLGDYDEAIEYFQRLIK 28 (33)
T ss_dssp HHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHccCHHHHHHHHHHHHH
Confidence 3578889999999999999998865
No 120
>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=45.10 E-value=42 Score=29.63 Aligned_cols=57 Identities=14% Similarity=0.107 Sum_probs=41.4
Q ss_pred HHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 118 QIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 118 qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
....+...|++++|+..++....... . ......+....|..++..+++++|..+|.+
T Consensus 45 l~~~~~~~~~~~~A~~~~~~~~~~~p-~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~ 101 (119)
T TIGR02795 45 LGEAYYAQGKYADAAKAFLAVVKKYP-K-SPKAPDALLKLGMSLQELGDKEKAKATLQQ 101 (119)
T ss_pred HHHHHHhhccHHHHHHHHHHHHHHCC-C-CCcccHHHHHHHHHHHHhCChHHHHHHHHH
Confidence 45667899999999999987531110 0 012235677789999999999999999965
No 121
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=44.86 E-value=32 Score=24.09 Aligned_cols=24 Identities=29% Similarity=0.336 Sum_probs=19.5
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 154 HIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 154 ~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
....|..++..|+|++|..++.++
T Consensus 5 ~~~la~~~~~~g~~~~A~~~~~~a 28 (42)
T PF13374_consen 5 LNNLANAYRAQGRYEEALELLEEA 28 (42)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred HHHHHHHHHhhhhcchhhHHHHHH
Confidence 345689999999999999999875
No 122
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=44.57 E-value=26 Score=25.54 Aligned_cols=25 Identities=16% Similarity=0.106 Sum_probs=21.7
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 153 IHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 153 i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
....+|..+...|++++|...|.++
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~ 27 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRA 27 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 4567799999999999999999874
No 123
>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=44.36 E-value=42 Score=22.33 Aligned_cols=26 Identities=19% Similarity=0.255 Sum_probs=21.6
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHh
Q 003482 361 YTALLELYKSNARHREALKLLHELVE 386 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~ 386 (816)
+..++.+|...|++++|++.+.+...
T Consensus 4 ~~~lg~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF07719_consen 4 WYYLGQAYYQLGNYEEAIEYFEKALE 29 (34)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 56789999999999999999987643
No 124
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.29 E-value=2.3e+02 Score=32.49 Aligned_cols=24 Identities=21% Similarity=0.372 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHH
Q 003482 361 YTALLELYKSNARHREALKLLHEL 384 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l 384 (816)
|..|+.+-..+|+.++|++++.+-
T Consensus 540 ~~tlaq~~lQ~~~i~eAielFEks 563 (606)
T KOG0547|consen 540 YETLAQFELQRGKIDEAIELFEKS 563 (606)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHH
Confidence 778888899999999999998764
No 125
>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=43.91 E-value=26 Score=21.81 Aligned_cols=25 Identities=20% Similarity=0.406 Sum_probs=21.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 153 IHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 153 i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
.+...|..++..++|++|...|.++
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~ 27 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKA 27 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 4456789999999999999999764
No 126
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=43.51 E-value=42 Score=30.88 Aligned_cols=56 Identities=27% Similarity=0.355 Sum_probs=34.5
Q ss_pred HHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 120 VQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 120 ~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
..+-..|++++|+.+++....+ . ..+..-..++.-+|..|+..|+.++|+..+...
T Consensus 46 stlr~LG~~deA~~~L~~~~~~-~-p~~~~~~~l~~f~Al~L~~~gr~~eAl~~~l~~ 101 (120)
T PF12688_consen 46 STLRNLGRYDEALALLEEALEE-F-PDDELNAALRVFLALALYNLGRPKEALEWLLEA 101 (120)
T ss_pred HHHHHcCCHHHHHHHHHHHHHH-C-CCccccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 3455777888888887764211 0 000122346666777888888888888887663
No 127
>KOG2168 consensus Cullins [Cell cycle control, cell division, chromosome partitioning]
Probab=43.51 E-value=3.1e+02 Score=33.61 Aligned_cols=304 Identities=13% Similarity=0.132 Sum_probs=0.0
Q ss_pred HHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCCCCCCCCCCCCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCcch
Q 003482 159 HYLFDTGSYEEAMEHFLASQVDITYALSLYPSIVLPKTTVVPEPERLLDISSDAPSLSRGSSGMSDDMESSPPAQLSELD 238 (816)
Q Consensus 159 ~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~ 238 (816)
+++++.|+-+.|.+...+.+-.|..+=.+||.+.....+
T Consensus 333 yy~lR~G~lk~A~~~l~e~~~~~~~l~~~f~~y~~A~~~----------------------------------------- 371 (835)
T KOG2168|consen 333 YYLLRCGDLKAASQFLNENKDFFEKLAELFPTYFNAYAK----------------------------------------- 371 (835)
T ss_pred HHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHhhhc-----------------------------------------
Q ss_pred hhhhhhhhhhhHHHHHHHHHHHHHHhHHHHHhhhccCchhHhhhcccCCCCCCCcccccccCCCCCCCCCcccHHHHHHH
Q 003482 239 ENATLKSKKMSHNTLMALIKFLQKKRSSIIEKATAEGTEEVVLDAVGDNFTSHDSTRFKKSSKGRGTIPMYSGAREMAAI 318 (816)
Q Consensus 239 ~~~~le~~~~~~~a~~~L~~yL~~~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 318 (816)
+....|-.=|.-.=+..++.+..+.-.-++|...|.. |...+..++...
T Consensus 372 ------------~~~~~le~qlrl~~~~~l~~~~~DpyK~AvY~iig~c-------------------d~~~~~~ev~~t 420 (835)
T KOG2168|consen 372 ------------NLSSKLEKQLRLRLRSELGRNSTDPYKLAVYKIIGGC-------------------DLRRDLPEVADT 420 (835)
T ss_pred ------------CCCccccHHHHHHHHHHhccccCChHHHHHHHHHhcC-------------------ccccccHHHHhH
Q ss_pred HHHHH-HHHHHhcCCchhHHh------hhcCCCcccHHHHHHHHHhc-CCHHHHHHHHHHhccHHHHHHHHHHHHhhhcC
Q 003482 319 LDTAL-LQALLLTGQSSAALE------LLKGLNYCDVKICEEILQKK-NHYTALLELYKSNARHREALKLLHELVEESKS 390 (816)
Q Consensus 319 vDT~L-lk~yl~~~~~~~l~~------ll~~~n~c~~~~~~~~L~~~-~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~ 390 (816)
++.-| |++++...+.....+ ++......-++--+.....+ +...-.-....-.|+++.|+.++.+......
T Consensus 421 iED~LW~kL~~ir~~~~~sds~~~~~~~~~~~~~il~~YG~sYFt~ng~~p~~Yf~~LlLsgqfe~AI~fL~~~~~~~~- 499 (835)
T KOG2168|consen 421 IEDFLWFKLSLIRVDDQGSDSPTDELFLLEDQKDILEAYGESYFTNNGSQPLLYFQVLLLSGQFERAIEFLHREEPNRI- 499 (835)
T ss_pred HHHHHHHHHHheeecCCCCcchHHhhhhHHHHHHHHHHhHHHhhccCCCChHHHHHHHHHHHhHHHHHHHHHhhcCCcc-
Q ss_pred CCCcccccccCChHHHHHHhcccCCCChHHHHHhHHhhhhhCccccccccccCCCChHH---------HHHHHhhcChhh
Q 003482 391 NQSQDEHTQKFNPESIIEYLKPLCGTDPMLVLEFSMLVLESCPTQTIELFLSGNIPADL---------VNSYLKQYSPSM 461 (816)
Q Consensus 391 d~~~~~~~~~~~~~~~i~yL~~L~~~~~~li~~y~~wll~~~p~~~i~if~~~~l~~~~---------Vl~~L~~~~~~~ 461 (816)
+.--..-+..++. +++..+..+-+++..+.-++.. ++.+++.+....
T Consensus 500 --------dAVH~AI~l~~lg----------------lL~~~~s~~~~ll~~d~~d~~k~~~lnf~rLi~~Ytk~fe~~d 555 (835)
T KOG2168|consen 500 --------DAVHVAIALAELG----------------LLRTSSSTSQELLSIDPNDPPKSRRLNFARLIIAYTKSFEYTD 555 (835)
T ss_pred --------hhHHHHHHHHHhh----------------hhccCCCCCCcccccCCCCCcccccccHHHHHHHHHHHHHhcc
Q ss_pred HHHHHHHHHh-hhcCCCCch--hHHHHHHHHHHH---HHHHhhhhhhhhccCcccchHHHH---HHHHHHhhhCCCChHH
Q 003482 462 QGRYLELMLA-MNENSISGN--LQNEMVQIYLSE---VLDWYSDLSAQQKWDEKAYSPTRK---KLLSALESISGYNPEV 532 (816)
Q Consensus 462 ~~~YLE~li~-~~~~~~~~~--~h~~Li~lYl~~---l~~~~~~~~~~~~~~~~~~~~~r~---kL~~fL~~s~~Yd~~~ 532 (816)
...+|++... ....+.... +|+.+..+-++. .-..+.+...+|...++.+..... .+..+ ...
T Consensus 556 ~~~al~y~~~lr~~~d~q~~~l~l~~v~~lVl~t~~~f~~iLG~i~~dG~r~~G~l~~f~~~~~~~~~i--------~~~ 627 (835)
T KOG2168|consen 556 TRVALQYYYLLRLNKDPQGSNLFLKCVCELVLETEEEFDLILGKIKPDGSREPGLLDEFLPLIEDLQKI--------ILE 627 (835)
T ss_pred chhhhheeeeecccCChhHHHHHHHHHHHHHHhccccHHHHhcccCCCCCCCcchHhhhccchhhHHHH--------HHH
Q ss_pred HhccCCCCchhHHHHHHHhhcccHHHHHHHHHHhc
Q 003482 533 LLKRLPADALYEERAILLGKMNQHELALSLYVHKL 567 (816)
Q Consensus 533 ~L~~~~~~~l~~e~a~Ll~rlg~h~~AL~ilv~~L 567 (816)
+-+.+...++++.-|.||...|++..|+.++-..|
T Consensus 628 vA~~a~~~G~~~~sI~LY~lag~yd~al~link~L 662 (835)
T KOG2168|consen 628 VASEADEDGLFEDAILLYHLAGDYDKALELINKLL 662 (835)
T ss_pred HHHHHHhcCCHHHHHHHHHHhhhhhHHHHHHHHHH
No 128
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=43.38 E-value=6 Score=40.97 Aligned_cols=31 Identities=23% Similarity=0.516 Sum_probs=26.2
Q ss_pred CCcCCcCCCccCCceEEEccCCCeEEEeccCC
Q 003482 768 DSMCSLCSKKIGTSVFAVYPNGKTIVHFVCFR 799 (816)
Q Consensus 768 ~~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~ 799 (816)
.++|+.|..-|....+++-.-. +|+|.+|+-
T Consensus 92 GTKCsaC~~GIpPtqVVRkAqd-~VYHl~CF~ 122 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKAQD-FVYHLHCFA 122 (383)
T ss_pred CCcchhhcCCCChHHHHHHhhc-ceeehhhhh
Confidence 6899999999988877766665 899999985
No 129
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=43.12 E-value=50 Score=33.71 Aligned_cols=61 Identities=20% Similarity=0.245 Sum_probs=43.5
Q ss_pred HHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 115 LGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 115 ~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
+-.+...++..|++++|+..++...... + ........+...|..++..++|++|+..|.+.
T Consensus 36 ~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p-~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~ 96 (235)
T TIGR03302 36 LYEEAKEALDSGDYTEAIKYFEALESRY-P-FSPYAEQAQLDLAYAYYKSGDYAEAIAAADRF 96 (235)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhC-C-CchhHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 4455677789999999999987642110 0 00123346667799999999999999999874
No 130
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=42.46 E-value=44 Score=22.20 Aligned_cols=27 Identities=33% Similarity=0.469 Sum_probs=24.1
Q ss_pred CHHHHHHHHHHhccHHHHHHHHHHHHh
Q 003482 360 HYTALLELYKSNARHREALKLLHELVE 386 (816)
Q Consensus 360 ~~~~L~~Ly~~~g~~~~AL~ll~~l~~ 386 (816)
.|+.++..|.+.|+++.|++++....+
T Consensus 3 ty~~ll~a~~~~g~~~~a~~~~~~M~~ 29 (34)
T PF13812_consen 3 TYNALLRACAKAGDPDAALQLFDEMKE 29 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 488999999999999999999988754
No 131
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=42.08 E-value=5.8e+02 Score=32.06 Aligned_cols=32 Identities=6% Similarity=0.023 Sum_probs=24.4
Q ss_pred CCHHHHHHHHHHhccHHHHHHHHHHHHhhhcC
Q 003482 359 NHYTALLELYKSNARHREALKLLHELVEESKS 390 (816)
Q Consensus 359 ~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~~~ 390 (816)
.++.-.+..|..++++.+++++|.+++.....
T Consensus 170 ~m~~KAV~~~i~~kq~~~~~e~W~k~~~~~~~ 201 (906)
T PRK14720 170 TYLKKAIYRFIKKKQYVGIEEIWSKLVHYNSD 201 (906)
T ss_pred HHHHHHHHHHHhhhcchHHHHHHHHHHhcCcc
Confidence 34555566677777999999999999876644
No 132
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=42.08 E-value=40 Score=31.90 Aligned_cols=54 Identities=15% Similarity=-0.004 Sum_probs=40.0
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 119 IVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
-.-+...|++++|+..++....-+. .-...+...|..++..|++++|...|.++
T Consensus 65 g~~~~~~g~~~~A~~~y~~Al~l~p-----~~~~a~~~lg~~l~~~g~~~eAi~~~~~A 118 (144)
T PRK15359 65 AGTWMMLKEYTTAINFYGHALMLDA-----SHPEPVYQTGVCLKMMGEPGLAREAFQTA 118 (144)
T ss_pred HHHHHHHhhHHHHHHHHHHHHhcCC-----CCcHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 4456789999999999877421000 11246677799999999999999999774
No 133
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=41.98 E-value=58 Score=37.85 Aligned_cols=51 Identities=27% Similarity=0.403 Sum_probs=39.8
Q ss_pred HhcCCHHHHHHHhhhC-------CCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 123 TASGDFEEALALCKLL-------PPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 123 l~~~~~eeAl~L~~~~-------~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
..++++|+|+.+.... +.++. ..+..++..+|+.++..|+|++|.++|.++
T Consensus 336 ~~~~~~Eea~~l~q~al~i~~~~~g~~~----~~~a~~~~nl~~l~~~~gk~~ea~~~~k~a 393 (508)
T KOG1840|consen 336 QSMNEYEEAKKLLQKALKIYLDAPGEDN----VNLAKIYANLAELYLKMGKYKEAEELYKKA 393 (508)
T ss_pred HHhcchhHHHHHHHHHHHHHHhhccccc----hHHHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence 5778899998887652 11111 146679999999999999999999999886
No 134
>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=41.80 E-value=38 Score=27.84 Aligned_cols=27 Identities=19% Similarity=0.337 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 151 GSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 151 ~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
..+....|..++..|+|++|+++|.++
T Consensus 5 a~~~~~la~~~~~~~~~~~A~~~~~~a 31 (78)
T PF13424_consen 5 ANAYNNLARVYRELGRYDEALDYYEKA 31 (78)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 346677899999999999999999986
No 135
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.10 E-value=8.2 Score=40.52 Aligned_cols=31 Identities=19% Similarity=0.485 Sum_probs=25.2
Q ss_pred CcCCcCCCcc-CCceEEEccCCCeEEEeccCCC
Q 003482 769 SMCSLCSKKI-GTSVFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 769 ~~C~vC~k~l-~~~~f~v~p~g~~v~H~~C~~~ 800 (816)
--|++|=..+ .+..+.|.||. |++|..|..+
T Consensus 324 veCaICms~fiK~d~~~vlPC~-H~FH~~Cv~k 355 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLPCD-HRFHVGCVDK 355 (374)
T ss_pred ceEEEEhhhhcccceEEEeccC-ceechhHHHH
Confidence 5699997764 45568889998 9999999875
No 136
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=41.05 E-value=47 Score=25.57 Aligned_cols=51 Identities=24% Similarity=0.220 Sum_probs=31.5
Q ss_pred HHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCC
Q 003482 116 GAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGS 166 (816)
Q Consensus 116 ~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~ 166 (816)
..+|...+..|+++.|+..++............-.-.++.+.-..++..++
T Consensus 5 ~~~i~~~i~~g~~~~a~~~~~~~~~~l~~~~~~l~f~L~~q~~lell~~~~ 55 (58)
T smart00668 5 RKRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGK 55 (58)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHcCHHHhccCCCchhHHHHHHHHHHHHcCC
Confidence 356889999999999999998864321111111234555555555555443
No 137
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=40.76 E-value=64 Score=31.35 Aligned_cols=57 Identities=16% Similarity=0.190 Sum_probs=39.9
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 119 IVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
...+...|++++|+..++...... + .......++...|..++..|+|++|..+|.++
T Consensus 42 g~~~~~~g~~~~A~~~~~~al~~~-~-~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a 98 (172)
T PRK02603 42 GMSAQADGEYAEALENYEEALKLE-E-DPNDRSYILYNMGIIYASNGEHDKALEYYHQA 98 (172)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHh-h-ccchHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 334568899999999887642100 0 00012346777899999999999999999774
No 138
>PHA02610 uvsY.-2 hypothetical protein; Provisional
Probab=40.54 E-value=15 Score=28.00 Aligned_cols=32 Identities=16% Similarity=0.450 Sum_probs=22.4
Q ss_pred CcCCcCCCccCCceEEEccCCCeEEEeccCCCc
Q 003482 769 SMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 769 ~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~ 801 (816)
.+|.+|.+|+.....+.-|.| .+.--.|..-.
T Consensus 2 ~iCvvCK~Pi~~al~v~T~~G-pvh~g~C~~y~ 33 (53)
T PHA02610 2 KICVVCKQPIEKALVVETEKG-PVHPGPCYNYV 33 (53)
T ss_pred ceeeeeCCchhhceEEecCCC-CCCChhHHHHH
Confidence 589999999966555567888 44444676543
No 139
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=39.74 E-value=60 Score=33.28 Aligned_cols=60 Identities=27% Similarity=0.215 Sum_probs=45.5
Q ss_pred HHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHh--hHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 115 LGAQIVQLTASGDFEEALALCKLLPPEDASLRAA--KEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 115 ~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~--~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
-.-||..+++.|++++|+.++.+..++ .+..+ -.-.++++-..-+.++|.-++|++.+..
T Consensus 67 eR~~Ir~~I~~G~Ie~Aie~in~l~Pe--iLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~ 128 (228)
T KOG2659|consen 67 ERLQIRRAIEEGQIEEAIEKVNQLNPE--ILDTNRELFFHLQQLHLIELIREGKTEEALEFAQT 128 (228)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHhChH--HHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 346899999999999999999987532 12222 2346677777888899999999988865
No 140
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=39.19 E-value=49 Score=24.04 Aligned_cols=27 Identities=26% Similarity=0.345 Sum_probs=23.7
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHhh
Q 003482 361 YTALLELYKSNARHREALKLLHELVEE 387 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~~ 387 (816)
+..|+..|...|++++|.+++.+....
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~~ 30 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALAL 30 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 567899999999999999999987653
No 141
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=39.11 E-value=3.4e+02 Score=28.93 Aligned_cols=74 Identities=22% Similarity=0.333 Sum_probs=46.7
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCc----chHHHHhhHHHHHHHHHHHHhcCCCHH----------HHHHHHHHcCCC--
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPE----DASLRAAKEGSIHIRFAHYLFDTGSYE----------EAMEHFLASQVD-- 180 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~----d~~~~~~~~~~i~~~~a~~Lf~~~~f~----------~A~~~f~~~~~d-- 180 (816)
+-...+++.+.+++|+.+....-.. |....+++...+ ...+..+.+.|+|. +||..|.+..+-
T Consensus 8 e~a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tv-lel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~Ki 86 (421)
T COG5159 8 ELANNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATV-LELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKI 86 (421)
T ss_pred HHHHHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHH-HHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHH
Confidence 4467889999999999998775433 222222222222 23356677888765 677777665433
Q ss_pred HHHHHHhCCCC
Q 003482 181 ITYALSLYPSI 191 (816)
Q Consensus 181 P~~vi~LFp~l 191 (816)
.|.+|..||.-
T Consensus 87 irtLiekf~~~ 97 (421)
T COG5159 87 IRTLIEKFPYS 97 (421)
T ss_pred HHHHHHhcCCC
Confidence 57778888755
No 142
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=39.05 E-value=47 Score=21.23 Aligned_cols=22 Identities=23% Similarity=0.309 Sum_probs=16.8
Q ss_pred HHHHHHHHhcCCCHHHHHHHHH
Q 003482 154 HIRFAHYLFDTGSYEEAMEHFL 175 (816)
Q Consensus 154 ~~~~a~~Lf~~~~f~~A~~~f~ 175 (816)
+...|..++..|++++|..++.
T Consensus 4 ~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 4 RLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHcCCHHHHHHHHh
Confidence 4456888888888888887764
No 143
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=38.90 E-value=3.2e+02 Score=30.76 Aligned_cols=27 Identities=7% Similarity=0.133 Sum_probs=22.3
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHhh
Q 003482 361 YTALLELYKSNARHREALKLLHELVEE 387 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~~ 387 (816)
+..++.+|...|++++|++++..+.+.
T Consensus 190 l~ll~~~~~~~~d~~~a~~~l~~l~k~ 216 (409)
T TIGR00540 190 LKLAEEAYIRSGAWQALDDIIDNMAKA 216 (409)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHc
Confidence 467888899999999999988887754
No 144
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 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 WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=38.36 E-value=6.6e+02 Score=28.81 Aligned_cols=26 Identities=15% Similarity=0.310 Sum_probs=18.4
Q ss_pred cHHHHHHHHHhcCCHHHHHHHHHHhc
Q 003482 347 DVKICEEILQKKNHYTALLELYKSNA 372 (816)
Q Consensus 347 ~~~~~~~~L~~~~~~~~L~~Ly~~~g 372 (816)
|+++|.++|.+.|++.+.+.+....|
T Consensus 417 d~~~cv~lL~~~~~~~~A~~~A~ty~ 442 (443)
T PF04053_consen 417 DVEECVDLLIETGRLPEAALFARTYG 442 (443)
T ss_dssp -HHHHHHHHHHTT-HHHHHHHHHHTT
T ss_pred CHHHHHHHHHHcCCchHHHHHHHhcC
Confidence 46778888888998888777766544
No 145
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.16 E-value=47 Score=36.33 Aligned_cols=31 Identities=16% Similarity=0.472 Sum_probs=24.6
Q ss_pred cCCcCCCccCC-ceEEEccCCCeEEEeccCCCc
Q 003482 770 MCSLCSKKIGT-SVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 770 ~C~vC~k~l~~-~~f~v~p~g~~v~H~~C~~~~ 801 (816)
.|++|=..... ..+.+-||+ |.||-.|...=
T Consensus 231 ~CaIClEdY~~GdklRiLPC~-H~FH~~CIDpW 262 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCS-HKFHVNCIDPW 262 (348)
T ss_pred eEEEeecccccCCeeeEecCC-Cchhhccchhh
Confidence 89999876543 456669999 99999999753
No 146
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=38.11 E-value=3.2e+02 Score=31.98 Aligned_cols=30 Identities=27% Similarity=0.303 Sum_probs=25.7
Q ss_pred CCHHHHHHHHHHhccHHHHHHHHHHHHhhh
Q 003482 359 NHYTALLELYKSNARHREALKLLHELVEES 388 (816)
Q Consensus 359 ~~~~~L~~Ly~~~g~~~~AL~ll~~l~~~~ 388 (816)
...+..+.+|.+.|++++|..+|..|.+..
T Consensus 39 ~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN 68 (517)
T PF12569_consen 39 AVLEKRAELLLKLGRKEEAEKIYRELIDRN 68 (517)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 345778999999999999999999998754
No 147
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.35 E-value=12 Score=27.95 Aligned_cols=15 Identities=20% Similarity=0.707 Sum_probs=12.6
Q ss_pred CCCCcCCcCCCccCC
Q 003482 766 TSDSMCSLCSKKIGT 780 (816)
Q Consensus 766 ~~~~~C~vC~k~l~~ 780 (816)
.++.+|++|++||.-
T Consensus 10 lp~KICpvCqRPFsW 24 (54)
T COG4338 10 LPDKICPVCQRPFSW 24 (54)
T ss_pred cchhhhhhhcCchHH
Confidence 468899999999863
No 148
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=37.31 E-value=7.9 Score=28.80 Aligned_cols=36 Identities=19% Similarity=0.231 Sum_probs=26.4
Q ss_pred CCCCcCCcCCCccCCc--eEEEccCCCeEEEeccCCCcc
Q 003482 766 TSDSMCSLCSKKIGTS--VFAVYPNGKTIVHFVCFRDSQ 802 (816)
Q Consensus 766 ~~~~~C~vC~k~l~~~--~f~v~p~g~~v~H~~C~~~~~ 802 (816)
...+.|.+|++.|... .+-.-.|+ .++|..|.....
T Consensus 9 ~~~~~C~~C~~~i~~~~~~~~C~~C~-~~~H~~C~~~v~ 46 (49)
T smart00109 9 KKPTKCCVCRKSIWGSFQGLRCSWCK-VKCHKKCAEKVP 46 (49)
T ss_pred CCCCCccccccccCcCCCCcCCCCCC-chHHHHHHhhcC
Confidence 4567899999999753 33334577 899999987653
No 149
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=37.12 E-value=10 Score=42.24 Aligned_cols=33 Identities=15% Similarity=0.420 Sum_probs=27.4
Q ss_pred ECCCCcCCcCCCccCCceEEEccCCCeEEEeccCCC
Q 003482 765 ITSDSMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 765 I~~~~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~ 800 (816)
+...-.|++|...+..++ +-||| |.|+..|+..
T Consensus 23 Le~~l~C~IC~d~~~~Pv--itpCg-H~FCs~CI~~ 55 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVPV--LTSCS-HTFCSLCIRR 55 (397)
T ss_pred cccccCCCcCchhhhCcc--CCCCC-CchhHHHHHH
Confidence 556789999999887665 47999 9999999974
No 150
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=36.73 E-value=18 Score=26.79 Aligned_cols=28 Identities=21% Similarity=0.630 Sum_probs=15.6
Q ss_pred CCcCCCccCC---ceEEEccCCCeEEEeccCCCc
Q 003482 771 CSLCSKKIGT---SVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 771 C~vC~k~l~~---~~f~v~p~g~~v~H~~C~~~~ 801 (816)
|+||.. +.+ .+.+ -||| |++-..|+...
T Consensus 1 CpIc~e-~~~~~n~P~~-L~CG-H~~c~~cl~~l 31 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMV-LPCG-HVFCKDCLQKL 31 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS--EEEHHHHHHH
T ss_pred CCcccc-ccCCCCCCEE-EeCc-cHHHHHHHHHH
Confidence 899998 643 2344 7899 99999998654
No 151
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=36.24 E-value=67 Score=31.73 Aligned_cols=55 Identities=20% Similarity=0.192 Sum_probs=40.6
Q ss_pred HHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 118 QIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 118 qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
....++..|++++|+..++.....+ + .....+...|..++..|+|++|..+|.++
T Consensus 37 la~~~~~~~~~~~A~~~~~~~l~~~-p----~~~~~~~~la~~~~~~~~~~~A~~~~~~a 91 (234)
T TIGR02521 37 LALGYLEQGDLEVAKENLDKALEHD-P----DDYLAYLALALYYQQLGELEKAEDSFRRA 91 (234)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHhC-c----ccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 3456678999999999987642111 1 11245666799999999999999999875
No 152
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=36.21 E-value=27 Score=40.66 Aligned_cols=49 Identities=22% Similarity=0.417 Sum_probs=40.7
Q ss_pred HhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCC
Q 003482 123 TASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQV 179 (816)
Q Consensus 123 l~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~ 179 (816)
++.+++.||+.|++..+. -...++..||..|-.+-+|++|-+-|.+++-
T Consensus 784 ve~~~W~eAFalAe~hPe--------~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr 832 (1081)
T KOG1538|consen 784 VETQRWDEAFALAEKHPE--------FKDDVYMPYAQWLAENDRFEEAQKAFHKAGR 832 (1081)
T ss_pred eecccchHhHhhhhhCcc--------ccccccchHHHHhhhhhhHHHHHHHHHHhcc
Confidence 677889999999998752 3345888999999999999999999998753
No 153
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=35.23 E-value=69 Score=37.22 Aligned_cols=69 Identities=22% Similarity=0.237 Sum_probs=45.8
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCc--c-hHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc---------CCCHHHHHH
Q 003482 119 IVQLTASGDFEEALALCKLLPPE--D-ASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS---------QVDITYALS 186 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~--d-~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~---------~~dP~~vi~ 186 (816)
...+..+|+|+.|..+++..... + ....-..+......+|.+|...++|.+|...|.++ ..+|+....
T Consensus 206 a~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~ 285 (508)
T KOG1840|consen 206 AEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAAT 285 (508)
T ss_pred HHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence 45668999999999999874210 0 00000123334446899999999999999999773 456665555
Q ss_pred h
Q 003482 187 L 187 (816)
Q Consensus 187 L 187 (816)
|
T Consensus 286 l 286 (508)
T KOG1840|consen 286 L 286 (508)
T ss_pred H
Confidence 4
No 154
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=35.20 E-value=20 Score=28.06 Aligned_cols=18 Identities=22% Similarity=0.580 Sum_probs=14.3
Q ss_pred EECCCCcCCcCCCccCCc
Q 003482 764 KITSDSMCSLCSKKIGTS 781 (816)
Q Consensus 764 ~I~~~~~C~vC~k~l~~~ 781 (816)
.|.+.+.|.||+++|...
T Consensus 4 ~v~PH~HC~VCg~aIp~d 21 (64)
T COG4068 4 GVVPHRHCVVCGKAIPPD 21 (64)
T ss_pred CCCCCccccccCCcCCCc
Confidence 356789999999998643
No 155
>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=35.08 E-value=55 Score=26.27 Aligned_cols=56 Identities=21% Similarity=0.272 Sum_probs=39.9
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
....-+...|++++|+..++....... .........|..++..|++++|..+|.++
T Consensus 39 ~~~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~a~~~~~~~ 94 (100)
T cd00189 39 NLAAAYYKLGKYEEALEDYEKALELDP-----DNAKAYYNLGLAYYKLGKYEEALEAYEKA 94 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCC-----cchhHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 344555677999999998876421110 11246677789999999999999999774
No 156
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=34.78 E-value=21 Score=26.11 Aligned_cols=14 Identities=14% Similarity=0.658 Sum_probs=11.7
Q ss_pred CCCcCCcCCCccCC
Q 003482 767 SDSMCSLCSKKIGT 780 (816)
Q Consensus 767 ~~~~C~vC~k~l~~ 780 (816)
+...|++|+++|.-
T Consensus 7 p~K~C~~C~rpf~W 20 (42)
T PF10013_consen 7 PSKICPVCGRPFTW 20 (42)
T ss_pred CCCcCcccCCcchH
Confidence 56789999999864
No 157
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=34.55 E-value=1.2e+02 Score=29.10 Aligned_cols=53 Identities=17% Similarity=0.184 Sum_probs=38.8
Q ss_pred HHHhcCCHHHHHHHhhhCCC--cchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 121 QLTASGDFEEALALCKLLPP--EDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 121 ~Ll~~~~~eeAl~L~~~~~~--~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
.+...|++++|+..++.... .+. .....++...|..+...|+|++|+..|.++
T Consensus 44 ~~~~~g~~~~A~~~~~~al~l~~~~----~~~~~~~~~lg~~~~~~g~~~eA~~~~~~A 98 (168)
T CHL00033 44 SAQSEGEYAEALQNYYEAMRLEIDP----YDRSYILYNIGLIHTSNGEHTKALEYYFQA 98 (168)
T ss_pred HHHHcCCHHHHHHHHHHHHhccccc----hhhHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 34578999999998876421 111 112346777899999999999999999775
No 158
>COG5110 RPN1 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=34.41 E-value=64 Score=37.07 Aligned_cols=37 Identities=14% Similarity=0.111 Sum_probs=31.8
Q ss_pred HHHHHHhhcccHHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 003482 545 ERAILLGKMNQHELALSLYVHKLCVPELALAYCDRVYE 582 (816)
Q Consensus 545 e~a~Ll~rlg~h~~AL~ilv~~L~D~~~Ae~YC~~~~~ 582 (816)
-.--+|.|+|+|.+|+...+ ++++.+.+.+||....+
T Consensus 246 ta~~IYlk~~~lt~av~~ai-Rl~~~~~i~e~~~a~~D 282 (881)
T COG5110 246 TALKIYLKMGDLTRAVVGAI-RLQKSKEIIEYVRAIED 282 (881)
T ss_pred HHHHHHHhhhHHHHHHHHHH-hcccHHHHHHHHHhccC
Confidence 33348999999999999988 89999999999987654
No 159
>KOG3380 consensus Actin-related protein Arp2/3 complex, subunit ARPC5 [Cytoskeleton]
Probab=33.89 E-value=1.1e+02 Score=29.15 Aligned_cols=70 Identities=19% Similarity=0.213 Sum_probs=44.7
Q ss_pred ccCCHHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHH-HHHHHHHhcCCCHHHHHHHHHHcCCC
Q 003482 111 FPVPLGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIH-IRFAHYLFDTGSYEEAMEHFLASQVD 180 (816)
Q Consensus 111 ~~~~~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~-~~~a~~Lf~~~~f~~A~~~f~~~~~d 180 (816)
..-|-..||+.|+.+|+..+||+.+=..++-......-|-+... ..-++.-|++.+.+++++-+..-..|
T Consensus 34 ~~gp~~~ev~sll~qg~~~~AL~~aL~~~P~~t~~q~vK~~a~~~v~~vL~~ik~adI~~~v~~Ls~e~~D 104 (152)
T KOG3380|consen 34 ALGPDEREVRSLLTQGKSLEALQTALLNPPYGTKDQEVKDRALNVVLKVLTSIKQADIEAAVKKLSTEEID 104 (152)
T ss_pred ccCCChHHHHHHHHcccHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhHHHHH
Confidence 34567789999999999999999887765321110001111111 12256778888888888887654443
No 160
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=33.32 E-value=29 Score=29.82 Aligned_cols=33 Identities=30% Similarity=0.542 Sum_probs=25.1
Q ss_pred CCcCCcCCCccCCceEEEcc-CCCeEEEeccCCCc
Q 003482 768 DSMCSLCSKKIGTSVFAVYP-NGKTIVHFVCFRDS 801 (816)
Q Consensus 768 ~~~C~vC~k~l~~~~f~v~p-~g~~v~H~~C~~~~ 801 (816)
..+|.+|+++.|...=-..+ |. ..+|+.|+...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~-~~fH~~CA~~~ 69 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCS-RSFHVPCARKA 69 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCC-cEEChHHHccC
Confidence 46899999997765433354 56 89999999875
No 161
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=33.00 E-value=61 Score=36.09 Aligned_cols=57 Identities=12% Similarity=0.099 Sum_probs=40.9
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc-CCCH
Q 003482 119 IVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS-QVDI 181 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~-~~dP 181 (816)
.+-+.-+|++++++.|++..-. +. ---.+|...|..+-+...+.+||++|..+ .+||
T Consensus 445 AEL~~~Eg~~~D~i~LLe~~L~-~~-----~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP 502 (564)
T KOG1174|consen 445 AELCQVEGPTKDIIKLLEKHLI-IF-----PDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDP 502 (564)
T ss_pred HHHHHhhCccchHHHHHHHHHh-hc-----cccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCc
Confidence 3444567888888888887421 10 01138888999999999999999999875 4544
No 162
>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=32.99 E-value=68 Score=21.44 Aligned_cols=25 Identities=24% Similarity=0.247 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHH
Q 003482 361 YTALLELYKSNARHREALKLLHELV 385 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~ 385 (816)
|..++..|...|++++|++.+.+-.
T Consensus 4 ~~~~g~~~~~~~~~~~A~~~~~~al 28 (34)
T PF00515_consen 4 YYNLGNAYFQLGDYEEALEYYQRAL 28 (34)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCchHHHHHHHHHH
Confidence 5678899999999999999998743
No 163
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=32.22 E-value=3.1e+02 Score=25.01 Aligned_cols=33 Identities=18% Similarity=0.196 Sum_probs=23.0
Q ss_pred CCCcCCcCCCccC---CceEEEccCCCeEEEeccCCC
Q 003482 767 SDSMCSLCSKKIG---TSVFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 767 ~~~~C~vC~k~l~---~~~f~v~p~g~~v~H~~C~~~ 800 (816)
.++.|..|++++| ++.....-|+ +-|...|...
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~-~~VC~~C~~~ 88 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCK-HRVCKKCGVY 88 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTT-EEEETTSEEE
T ss_pred CCcchhhhCCcccccCCCCCcCCcCC-ccccCccCCc
Confidence 5789999999865 3455557777 8888888754
No 164
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=31.68 E-value=1e+02 Score=29.75 Aligned_cols=72 Identities=17% Similarity=0.055 Sum_probs=43.8
Q ss_pred HHHHhcCCHHHHHHHhhhCCCc--chHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCC
Q 003482 120 VQLTASGDFEEALALCKLLPPE--DASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPSI 191 (816)
Q Consensus 120 ~~Ll~~~~~eeAl~L~~~~~~~--d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l 191 (816)
.-+...|++++|+..+++.... .....-..+..+....|..+...|+|++|...|.++.---+..+.+.|+-
T Consensus 80 ~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~ 153 (168)
T CHL00033 80 LIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGN 153 (168)
T ss_pred HHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCccc
Confidence 4557889999999998774211 11111112344555556666689999988877776543344555555543
No 165
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=31.36 E-value=88 Score=35.21 Aligned_cols=55 Identities=18% Similarity=0.193 Sum_probs=28.3
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
.|.+-|+++++++.|+.++++... -++ ... .-....|..|...|+|++|+..+-.
T Consensus 239 ~Qa~fLl~k~~~~lAL~iAk~av~-lsP---~~f-~~W~~La~~Yi~~~d~e~ALlaLNs 293 (395)
T PF09295_consen 239 LQAEFLLSKKKYELALEIAKKAVE-LSP---SEF-ETWYQLAECYIQLGDFENALLALNS 293 (395)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHH-hCc---hhH-HHHHHHHHHHHhcCCHHHHHHHHhc
Confidence 456666666666666666665321 010 011 1223345666666677776654443
No 166
>PF04641 Rtf2: Rtf2 RING-finger
Probab=31.30 E-value=28 Score=36.73 Aligned_cols=34 Identities=12% Similarity=0.319 Sum_probs=27.0
Q ss_pred CCcCCcCCCccCCc--eEEEccCCCeEEEeccCCCcc
Q 003482 768 DSMCSLCSKKIGTS--VFAVYPNGKTIVHFVCFRDSQ 802 (816)
Q Consensus 768 ~~~C~vC~k~l~~~--~f~v~p~g~~v~H~~C~~~~~ 802 (816)
.-.||++++.++.. .++..||| ||+-+.|++...
T Consensus 113 ~~~CPvt~~~~~~~~~fv~l~~cG-~V~s~~alke~k 148 (260)
T PF04641_consen 113 RFICPVTGKEFNGKHKFVYLRPCG-CVFSEKALKELK 148 (260)
T ss_pred eeECCCCCcccCCceeEEEEcCCC-CEeeHHHHHhhc
Confidence 45899999999653 34445999 999999998763
No 167
>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]
Probab=30.85 E-value=25 Score=41.68 Aligned_cols=46 Identities=13% Similarity=0.275 Sum_probs=40.6
Q ss_pred ceEEEEcCCCccccCCCccccCCCceEEeeCcEEEEecCCceEEEEc
Q 003482 28 NIGVFVDQNGKLLQADRICWSEAPIAVIIQKPYAIALLPRRVEVRSL 74 (816)
Q Consensus 28 ~~gvfv~~~G~~~~~~~i~w~~~p~~v~~~~PYli~l~~~~ieV~sl 74 (816)
-.|+|++.-|.-++-.-+.|| .|++..+..||.|++..+++++.-+
T Consensus 1062 h~rkyn~trd~fs~~akl~vp-ePlsFies~P~gfifa~dtfyyv~l 1107 (1265)
T KOG0976|consen 1062 HFRKYNDTRDRFSRTAKLKVP-EPLSFIESEPYGFIFAFDTFYYVEL 1107 (1265)
T ss_pred HHhhhcccchhhhhcccccCC-CchhhhhcCcceEEEecceEEEEee
Confidence 467889999988877889999 9999999999999998888888766
No 168
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=30.80 E-value=29 Score=26.86 Aligned_cols=29 Identities=24% Similarity=0.460 Sum_probs=22.5
Q ss_pred CcCCcCCCccCCceEEEccCCCeEEEeccCC
Q 003482 769 SMCSLCSKKIGTSVFAVYPNGKTIVHFVCFR 799 (816)
Q Consensus 769 ~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~ 799 (816)
=+|..|+++|..+.|. ..+| .++...|..
T Consensus 27 f~C~~C~~~l~~~~~~-~~~~-~~~C~~c~~ 55 (58)
T PF00412_consen 27 FKCSKCGKPLNDGDFY-EKDG-KPYCKDCYQ 55 (58)
T ss_dssp SBETTTTCBTTTSSEE-EETT-EEEEHHHHH
T ss_pred cccCCCCCccCCCeeE-eECC-EEECHHHHh
Confidence 3899999999988855 5666 688877753
No 169
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=30.58 E-value=27 Score=27.10 Aligned_cols=34 Identities=21% Similarity=0.247 Sum_probs=26.3
Q ss_pred CCcCCcCCCccCC--ceEEEccCCCeEEEeccCCCcc
Q 003482 768 DSMCSLCSKKIGT--SVFAVYPNGKTIVHFVCFRDSQ 802 (816)
Q Consensus 768 ~~~C~vC~k~l~~--~~f~v~p~g~~v~H~~C~~~~~ 802 (816)
.+.|+.|+++++. .......|| .++-..|.....
T Consensus 2 ~~~C~~C~~~F~~~~rk~~Cr~Cg-~~~C~~C~~~~~ 37 (57)
T cd00065 2 ASSCMGCGKPFTLTRRRHHCRNCG-RIFCSKCSSNRI 37 (57)
T ss_pred cCcCcccCccccCCccccccCcCc-CCcChHHcCCee
Confidence 4679999999886 356667888 788889987663
No 170
>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=30.26 E-value=99 Score=28.92 Aligned_cols=56 Identities=23% Similarity=0.204 Sum_probs=38.5
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
..++.++..|++++|+.++......+. .-..++...-..|...|++.+|+.+|.+.
T Consensus 67 ~l~~~~~~~~~~~~a~~~~~~~l~~dP-----~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~ 122 (146)
T PF03704_consen 67 RLAEALLEAGDYEEALRLLQRALALDP-----YDEEAYRLLMRALAAQGRRAEALRVYERY 122 (146)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHHHST-----T-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHhccCHHHHHHHHHHHHhcCC-----CCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence 445566789999999999987531111 12346777777888999999999999764
No 171
>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]
Probab=30.24 E-value=6.1e+02 Score=32.44 Aligned_cols=35 Identities=17% Similarity=0.188 Sum_probs=29.4
Q ss_pred HHHHHHHhcCCHHHHHHHHHHhccHHHHHHHHHHH
Q 003482 350 ICEEILQKKNHYTALLELYKSNARHREALKLLHEL 384 (816)
Q Consensus 350 ~~~~~L~~~~~~~~L~~Ly~~~g~~~~AL~ll~~l 384 (816)
.-.+.|++.++|+..+.+|.+.|++++||+-|+.-
T Consensus 944 ~ya~hL~~~~~~~~Aal~Ye~~GklekAl~a~~~~ 978 (1265)
T KOG1920|consen 944 AYADHLREELMSDEAALMYERCGKLEKALKAYKEC 978 (1265)
T ss_pred HHHHHHHHhccccHHHHHHHHhccHHHHHHHHHHh
Confidence 34566777889999999999999999999999864
No 172
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=30.17 E-value=96 Score=30.55 Aligned_cols=55 Identities=20% Similarity=0.372 Sum_probs=40.3
Q ss_pred HHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 118 QIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 118 qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
...-+...|++++|+..++.....+. ....+....|..++..|+|++|...|.++
T Consensus 71 la~~~~~~~~~~~A~~~~~~al~~~~-----~~~~~~~~~~~~~~~~g~~~~A~~~~~~~ 125 (234)
T TIGR02521 71 LALYYQQLGELEKAEDSFRRALTLNP-----NNGDVLNNYGTFLCQQGKYEQAMQQFEQA 125 (234)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHhhCC-----CCHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence 34556789999999998876421110 11245666799999999999999999885
No 173
>COG1885 Uncharacterized protein conserved in archaea [Function unknown]
Probab=29.79 E-value=72 Score=28.14 Aligned_cols=31 Identities=23% Similarity=0.438 Sum_probs=22.1
Q ss_pred HHHHhcccceEEECC-CCcCCcCCCccCCceEE
Q 003482 753 DELYNQRKTVVKITS-DSMCSLCSKKIGTSVFA 784 (816)
Q Consensus 753 ~el~~~~s~~v~I~~-~~~C~vC~k~l~~~~f~ 784 (816)
..|.+-.--+|.|+- .+.||.||.++. ++|+
T Consensus 33 k~Ln~~~LdyV~ie~G~t~CP~Cg~~~e-~~fv 64 (115)
T COG1885 33 KRLNKPDLDYVEIEVGSTSCPKCGEPFE-SAFV 64 (115)
T ss_pred HHhccCCCCeEEEecccccCCCCCCccc-eeEE
Confidence 334445557899984 789999999986 4444
No 174
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=28.72 E-value=1.1e+02 Score=32.25 Aligned_cols=62 Identities=13% Similarity=0.145 Sum_probs=46.1
Q ss_pred HHHHHhcCCHHHHHHHhhhCCC--cchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCC
Q 003482 119 IVQLTASGDFEEALALCKLLPP--EDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPSI 191 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~--~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l 191 (816)
-+.++..|++++|+..++.... .++ .+......+.|..++..|++++|...|.+ ||..||+-
T Consensus 187 G~~y~~~g~~~~A~~~f~~vv~~yP~s----~~~~dAl~klg~~~~~~g~~~~A~~~~~~-------vi~~yP~s 250 (263)
T PRK10803 187 GQLNYNKGKKDDAAYYFASVVKNYPKS----PKAADAMFKVGVIMQDKGDTAKAKAVYQQ-------VIKKYPGT 250 (263)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHCCCC----cchhHHHHHHHHHHHHcCCHHHHHHHHHH-------HHHHCcCC
Confidence 4566899999999988877531 122 14455666678999999999999999975 56778765
No 175
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=28.29 E-value=2.8e+02 Score=27.21 Aligned_cols=65 Identities=25% Similarity=0.309 Sum_probs=37.6
Q ss_pred HHHHHHHHHHhcCCchhHHhhhcCC----------------C--cccHHHHHHHHHhcC-CHHHHHHHHHHhccHHHHHH
Q 003482 319 LDTALLQALLLTGQSSAALELLKGL----------------N--YCDVKICEEILQKKN-HYTALLELYKSNARHREALK 379 (816)
Q Consensus 319 vDT~Llk~yl~~~~~~~l~~ll~~~----------------n--~c~~~~~~~~L~~~~-~~~~L~~Ly~~~g~~~~AL~ 379 (816)
+-..|+.+.+..+....|..|++.- + ..-..-+.++|+.-+ .+++.+.++..+|++-+||.
T Consensus 31 L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~~~~~~iievLL~~g~vl~ALr 110 (167)
T PF07035_consen 31 LYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLGTAYEEIIEVLLSKGQVLEALR 110 (167)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhhhhHHHHHHHHHhCCCHHHHHH
Confidence 3445555556655555555555421 1 112344455555555 67777777777777777777
Q ss_pred HHHH
Q 003482 380 LLHE 383 (816)
Q Consensus 380 ll~~ 383 (816)
+.++
T Consensus 111 ~ar~ 114 (167)
T PF07035_consen 111 YARQ 114 (167)
T ss_pred HHHH
Confidence 7765
No 176
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.07 E-value=29 Score=35.49 Aligned_cols=47 Identities=21% Similarity=0.444 Sum_probs=31.9
Q ss_pred CCCcCCcCCCccCCc-eEEE-ccCCCeEEEeccCCCc--cchhccccCCCCC
Q 003482 767 SDSMCSLCSKKIGTS-VFAV-YPNGKTIVHFVCFRDS--QSMKAVAKGSPLR 814 (816)
Q Consensus 767 ~~~~C~vC~k~l~~~-~f~v-~p~g~~v~H~~C~~~~--~~~~~~~~~~~~~ 814 (816)
....|++|+-.|.+. .++| -|+| |||.+.|.... ..+-.+-.|.|+.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg-~Vv~~ecvEklir~D~v~pv~d~plk 270 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSG-HVVTKECVEKLIRKDMVDPVTDKPLK 270 (303)
T ss_pred cceecccchhhhcCccceEEeccCC-cEeeHHHHHHhccccccccCCCCcCc
Confidence 345799999999985 3443 4999 99999998753 2222344466653
No 177
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=27.91 E-value=50 Score=33.93 Aligned_cols=54 Identities=19% Similarity=0.196 Sum_probs=37.8
Q ss_pred HHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 121 QLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 121 ~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
-|+.+|++++|.+-++.-.. + +... .......-.|+.-++.|+|+.|.++|.++
T Consensus 112 FLC~qg~~~eA~q~F~~Al~-~-P~Y~-~~s~t~eN~G~Cal~~gq~~~A~~~l~ra 165 (250)
T COG3063 112 FLCAQGRPEEAMQQFERALA-D-PAYG-EPSDTLENLGLCALKAGQFDQAEEYLKRA 165 (250)
T ss_pred HHHhCCChHHHHHHHHHHHh-C-CCCC-CcchhhhhhHHHHhhcCCchhHHHHHHHH
Confidence 57799999999988876321 0 0000 11223444599999999999999999985
No 178
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=27.88 E-value=1.1e+02 Score=24.96 Aligned_cols=25 Identities=28% Similarity=0.372 Sum_probs=19.1
Q ss_pred HHHHHHHHHhcCCHHHHHHHhhhCC
Q 003482 115 LGAQIVQLTASGDFEEALALCKLLP 139 (816)
Q Consensus 115 ~~~qi~~Ll~~~~~eeAl~L~~~~~ 139 (816)
+.+|-++|+..|+|++|-.++...+
T Consensus 9 ~~~~F~~l~~~g~y~eAA~~AA~sP 33 (66)
T PF13838_consen 9 YVQQFNELFSQGQYEEAAKVAANSP 33 (66)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHSG
T ss_pred HHHHHHHHHHcCCHHHHHHHHHhCc
Confidence 4567788888888888888887765
No 179
>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=27.42 E-value=80 Score=37.83 Aligned_cols=25 Identities=24% Similarity=0.307 Sum_probs=15.5
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 153 IHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 153 i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
++...|..++..|+|++|...|.++
T Consensus 401 ~~~~lg~~~~~~g~~~~A~~~~~ka 425 (615)
T TIGR00990 401 IYYHRAQLHFIKGEFAQAGKDYQKS 425 (615)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 4444566666667777777766553
No 180
>PRK03922 hypothetical protein; Provisional
Probab=27.33 E-value=71 Score=28.54 Aligned_cols=31 Identities=16% Similarity=0.426 Sum_probs=22.3
Q ss_pred HHHHhcccceEEECC-CCcCCcCCCccCCceEE
Q 003482 753 DELYNQRKTVVKITS-DSMCSLCSKKIGTSVFA 784 (816)
Q Consensus 753 ~el~~~~s~~v~I~~-~~~C~vC~k~l~~~~f~ 784 (816)
..|....-.+|.|+- .+.||.|+.++.. +|.
T Consensus 33 krLn~~~l~yVeievG~~~cP~cge~~~~-afv 64 (113)
T PRK03922 33 KRLNPEDLDYVEVEVGLTICPKCGEPFDS-AFV 64 (113)
T ss_pred hhcCcccCCeEEEecCcccCCCCCCcCCc-EEE
Confidence 334444567899874 7899999999974 443
No 181
>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators. It is thought to function as a metal-sensing regulatory module [].
Probab=27.27 E-value=84 Score=22.49 Aligned_cols=26 Identities=23% Similarity=0.554 Sum_probs=17.2
Q ss_pred CCcCCCccCCceEEEccCCCeEEEecc
Q 003482 771 CSLCSKKIGTSVFAVYPNGKTIVHFVC 797 (816)
Q Consensus 771 C~vC~k~l~~~~f~v~p~g~~v~H~~C 797 (816)
|.-||++|.....++--.+ .++|.=|
T Consensus 1 Cd~CG~~I~~eP~~~k~~~-~~y~fCC 26 (37)
T PF08394_consen 1 CDYCGGEITGEPIVVKIGN-KVYYFCC 26 (37)
T ss_pred CCccCCcccCCEEEEEECC-eEEEEEC
Confidence 8899999987765544454 4555433
No 182
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=27.18 E-value=81 Score=31.70 Aligned_cols=24 Identities=21% Similarity=0.286 Sum_probs=15.4
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 153 IHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 153 i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
.+...|..+|..|+|++|+.+|.+
T Consensus 146 al~~LA~~~~~~g~~~~Ai~~~~~ 169 (198)
T PRK10370 146 ALMLLASDAFMQADYAQAIELWQK 169 (198)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHH
Confidence 445556666666666666666655
No 183
>PRK00085 recO DNA repair protein RecO; Reviewed
Probab=27.12 E-value=62 Score=33.65 Aligned_cols=81 Identities=22% Similarity=0.224 Sum_probs=50.7
Q ss_pred HHhhcCCCccchhhhHHHHHHHHHhHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccceEEECCCCcCCcCCCccCCceEE
Q 003482 705 QALKLLPRETKLQNLLPFLEPLLRKSSEAHRNLSVIKSLRQSENLQVKDELYNQRKTVVKITSDSMCSLCSKKIGTSVFA 784 (816)
Q Consensus 705 ~vL~~LP~~~~l~~l~~fL~~~lr~~~~~~r~~~i~~~l~~~~~~~~~~el~~~~s~~v~I~~~~~C~vC~k~l~~~~f~ 784 (816)
-+...+|++-|-..+.+.+...|......... . ..-..-++.-++.-++.. +-..|.+|++++....|.
T Consensus 97 l~~~~~~~~~~~~~lf~ll~~~L~~L~~~~~~-~---------~~~~~f~~~lL~~~G~~p-~l~~C~~Cg~~~~~~~f~ 165 (247)
T PRK00085 97 LLDRLLPEEDPHPELFELLLQTLRALAEGGDP-E---------PLLRRFELRLLAELGYGL-DLDHCAVCGAPGDHRYFS 165 (247)
T ss_pred HHHHhcCCCCCCHHHHHHHHHHHHHHhcCCCh-H---------HHHHHHHHHHHHHcCCcc-chhhHhcCCCCCCceEEe
Confidence 34466888899999999999999776532111 1 111222222233444443 346899999998844444
Q ss_pred EccCCCeEEEeccC
Q 003482 785 VYPNGKTIVHFVCF 798 (816)
Q Consensus 785 v~p~g~~v~H~~C~ 798 (816)
.+.| .++...|.
T Consensus 166 -~~~g-g~~c~~c~ 177 (247)
T PRK00085 166 -PKEG-GAVCSECG 177 (247)
T ss_pred -cccC-Cccccccc
Confidence 5666 58888886
No 184
>COG2075 RPL24A Ribosomal protein L24E [Translation, ribosomal structure and biogenesis]
Probab=26.72 E-value=69 Score=25.93 Aligned_cols=32 Identities=28% Similarity=0.656 Sum_probs=22.9
Q ss_pred CCcCCcCCCccCC--ceEEEccCCCeEEEeccCCCc
Q 003482 768 DSMCSLCSKKIGT--SVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 768 ~~~C~vC~k~l~~--~~f~v~p~g~~v~H~~C~~~~ 801 (816)
.++|+-||+.|-. ....|--|| .+++ .|...-
T Consensus 3 ~~~CsFcG~~I~PGtG~m~Vr~Dg-~v~~-FcssKc 36 (66)
T COG2075 3 VRVCSFCGKKIEPGTGIMYVRNDG-KVLR-FCSSKC 36 (66)
T ss_pred eeEecCcCCccCCCceEEEEecCC-eEEE-EechhH
Confidence 3689999999954 567778898 5665 465443
No 185
>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones [].; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.
Probab=26.54 E-value=72 Score=22.53 Aligned_cols=19 Identities=32% Similarity=0.707 Sum_probs=15.5
Q ss_pred HHHHHhcCCCHHHHHHHHH
Q 003482 157 FAHYLFDTGSYEEAMEHFL 175 (816)
Q Consensus 157 ~a~~Lf~~~~f~~A~~~f~ 175 (816)
.|..++.+|+|++|.+.|.
T Consensus 7 ~a~~~y~~~ky~~A~~~~~ 25 (36)
T PF07720_consen 7 LAYNFYQKGKYDEAIHFFQ 25 (36)
T ss_dssp HHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHHhhHHHHHHHHH
Confidence 4888999999999999944
No 186
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.20 E-value=1.4e+02 Score=32.73 Aligned_cols=54 Identities=26% Similarity=0.466 Sum_probs=42.8
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 119 IVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
++.++.+..|.-|++|++--.+-+ ++....+..=.|+..|+-|+|++|...+.-
T Consensus 29 Ledfls~rDytGAislLefk~~~~----~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~ 82 (557)
T KOG3785|consen 29 LEDFLSNRDYTGAISLLEFKLNLD----REEEDSLQLWIAHCYFHLGDYEEALNVYTF 82 (557)
T ss_pred HHHHHhcccchhHHHHHHHhhccc----hhhhHHHHHHHHHHHHhhccHHHHHHHHHH
Confidence 789999999999999997543222 123356777789999999999999999865
No 187
>PRK00420 hypothetical protein; Validated
Probab=26.19 E-value=45 Score=30.22 Aligned_cols=27 Identities=19% Similarity=0.299 Sum_probs=18.4
Q ss_pred CCcCCcCCCccCCceEEEccCCCeEEEeccCCC
Q 003482 768 DSMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRD 800 (816)
Q Consensus 768 ~~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~ 800 (816)
+..||+|+-||. .+.+| .++...|...
T Consensus 23 ~~~CP~Cg~pLf-----~lk~g-~~~Cp~Cg~~ 49 (112)
T PRK00420 23 SKHCPVCGLPLF-----ELKDG-EVVCPVHGKV 49 (112)
T ss_pred cCCCCCCCCcce-----ecCCC-ceECCCCCCe
Confidence 478999997764 34566 5666666553
No 188
>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=26.06 E-value=72 Score=25.16 Aligned_cols=28 Identities=25% Similarity=0.324 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhccHHHHHHHHHHHHhhh
Q 003482 361 YTALLELYKSNARHREALKLLHELVEES 388 (816)
Q Consensus 361 ~~~L~~Ly~~~g~~~~AL~ll~~l~~~~ 388 (816)
+..|+.+|...|++++|.++|.++....
T Consensus 28 ~~~la~~~~~~g~~~~A~~~l~~~~~~~ 55 (68)
T PF14559_consen 28 RLLLAQCYLKQGQYDEAEELLERLLKQD 55 (68)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 4579999999999999999998876533
No 189
>PF13041 PPR_2: PPR repeat family
Probab=25.77 E-value=72 Score=23.75 Aligned_cols=27 Identities=37% Similarity=0.472 Sum_probs=21.7
Q ss_pred CCHHHHHHHHHhcCCHHHHHHHhhhCC
Q 003482 113 VPLGAQIVQLTASGDFEEALALCKLLP 139 (816)
Q Consensus 113 ~~~~~qi~~Ll~~~~~eeAl~L~~~~~ 139 (816)
+.|..-|..+.+.|++++|+.+++...
T Consensus 4 ~~yn~li~~~~~~~~~~~a~~l~~~M~ 30 (50)
T PF13041_consen 4 VTYNTLISGYCKAGKFEEALKLFKEMK 30 (50)
T ss_pred HHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence 456677888899999999999988753
No 190
>PRK12370 invasion protein regulator; Provisional
Probab=25.76 E-value=70 Score=37.80 Aligned_cols=24 Identities=8% Similarity=-0.218 Sum_probs=12.5
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 153 IHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 153 i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
.+...|..+...|+|++|..+|.+
T Consensus 340 a~~~lg~~~~~~g~~~~A~~~~~~ 363 (553)
T PRK12370 340 ALGLLGLINTIHSEYIVGSLLFKQ 363 (553)
T ss_pred HHHHHHHHHHHccCHHHHHHHHHH
Confidence 334445555555555555555544
No 191
>PRK11189 lipoprotein NlpI; Provisional
Probab=25.41 E-value=78 Score=33.99 Aligned_cols=28 Identities=25% Similarity=0.236 Sum_probs=24.0
Q ss_pred CHHHHHHHHHHhccHHHHHHHHHHHHhh
Q 003482 360 HYTALLELYKSNARHREALKLLHELVEE 387 (816)
Q Consensus 360 ~~~~L~~Ly~~~g~~~~AL~ll~~l~~~ 387 (816)
-|.-|+..|...|++++|+..+.+-...
T Consensus 238 a~~~Lg~~~~~~g~~~~A~~~~~~Al~~ 265 (296)
T PRK11189 238 TYFYLAKYYLSLGDLDEAAALFKLALAN 265 (296)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 3778999999999999999999886543
No 192
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=25.40 E-value=43 Score=39.96 Aligned_cols=35 Identities=17% Similarity=0.333 Sum_probs=25.8
Q ss_pred CcCCcCCCccCCceEEEccCCCeEEEeccCCCc----cchhc
Q 003482 769 SMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRDS----QSMKA 806 (816)
Q Consensus 769 ~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~----~~~~~ 806 (816)
-+|++|+.+--+ .++--|| |+|++.|++.. |..|+
T Consensus 644 LkCs~Cn~R~Kd--~vI~kC~-H~FC~~Cvq~r~etRqRKCP 682 (698)
T KOG0978|consen 644 LKCSVCNTRWKD--AVITKCG-HVFCEECVQTRYETRQRKCP 682 (698)
T ss_pred eeCCCccCchhh--HHHHhcc-hHHHHHHHHHHHHHhcCCCC
Confidence 489999965544 3445788 99999999864 55565
No 193
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=25.35 E-value=1.5e+02 Score=32.72 Aligned_cols=56 Identities=16% Similarity=0.209 Sum_probs=28.8
Q ss_pred HHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 121 QLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 121 ~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
-+...|++++|+.+++....... .............|..++..|+|++|...|.+.
T Consensus 78 ~~~~~g~~~~A~~~~~~~l~~~~-~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~ 133 (389)
T PRK11788 78 LFRRRGEVDRAIRIHQNLLSRPD-LTREQRLLALQELGQDYLKAGLLDRAEELFLQL 133 (389)
T ss_pred HHHHcCcHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 34566667777666655321110 000111234445566666777777777766653
No 194
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=24.83 E-value=21 Score=29.86 Aligned_cols=31 Identities=13% Similarity=0.083 Sum_probs=20.6
Q ss_pred eEEEccCCCeEEEeccCCCccchhccccCCCCCCC
Q 003482 782 VFAVYPNGKTIVHFVCFRDSQSMKAVAKGSPLRKR 816 (816)
Q Consensus 782 ~f~v~p~g~~v~H~~C~~~~~~~~~~~~~~~~~~~ 816 (816)
+++.=-|. |.||.+|+.+= + +.++--|++++
T Consensus 48 ~v~wG~Cn-HaFH~HCI~rW--L-~Tk~~CPld~q 78 (88)
T COG5194 48 PVVWGVCN-HAFHDHCIYRW--L-DTKGVCPLDRQ 78 (88)
T ss_pred eEEEEecc-hHHHHHHHHHH--H-hhCCCCCCCCc
Confidence 66766788 99999998754 2 22333666653
No 195
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=24.76 E-value=98 Score=29.94 Aligned_cols=68 Identities=19% Similarity=0.145 Sum_probs=40.7
Q ss_pred CcEEEeccCCHHHHHHH-------HHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 105 NSIFGLFPVPLGAQIVQ-------LTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 105 ~~I~~l~~~~~~~qi~~-------Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
+++-.|.-+++.+.++. |.+.|++++|..+++....-|. ....-..-.|-.+=..|+|++|++.|..+
T Consensus 21 gsl~~l~~~~~~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp-----~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A 95 (157)
T PRK15363 21 GSLRMLLDDDVTQPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDA-----WSFDYWFRLGECCQAQKHWGEAIYAYGRA 95 (157)
T ss_pred CcHHHHHCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-----ccHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 34444445554444443 4688999999988876432111 11122223355666778999999999875
No 196
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=24.35 E-value=38 Score=27.50 Aligned_cols=34 Identities=24% Similarity=0.379 Sum_probs=19.3
Q ss_pred CCcCCcCCCccCC--ceEEEccCCCeEEEeccCCCcc
Q 003482 768 DSMCSLCSKKIGT--SVFAVYPNGKTIVHFVCFRDSQ 802 (816)
Q Consensus 768 ~~~C~vC~k~l~~--~~f~v~p~g~~v~H~~C~~~~~ 802 (816)
...|.+|+++|+. ..-+---|| .+|-..|.....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG-~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCG-RVVCSSCSSQRI 44 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT---EEECCCS-EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCC-CEECCchhCCEE
Confidence 5789999999865 456667899 899999987553
No 197
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=24.18 E-value=46 Score=26.49 Aligned_cols=15 Identities=27% Similarity=0.685 Sum_probs=12.1
Q ss_pred CCCcCCcCCCccCCc
Q 003482 767 SDSMCSLCSKKIGTS 781 (816)
Q Consensus 767 ~~~~C~vC~k~l~~~ 781 (816)
+-+.|++||++|..+
T Consensus 2 ~HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPD 16 (59)
T ss_pred CCCcCCcCCCcCCcc
Confidence 457899999999853
No 198
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=24.17 E-value=1.4e+02 Score=24.16 Aligned_cols=37 Identities=19% Similarity=0.337 Sum_probs=23.1
Q ss_pred hcccceEEECC---CCcCCcCCCccCC----ceEEEccCCCeEEE
Q 003482 757 NQRKTVVKITS---DSMCSLCSKKIGT----SVFAVYPNGKTIVH 794 (816)
Q Consensus 757 ~~~s~~v~I~~---~~~C~vC~k~l~~----~~f~v~p~g~~v~H 794 (816)
..-...+.|++ .+.|+.||..... ..|....|| ...|
T Consensus 14 ~~G~~v~~v~~~~TSq~C~~CG~~~~~~~~~r~~~C~~Cg-~~~~ 57 (69)
T PF07282_consen 14 EYGIQVVEVDEAYTSQTCPRCGHRNKKRRSGRVFTCPNCG-FEMD 57 (69)
T ss_pred HhCCEEEEECCCCCccCccCcccccccccccceEEcCCCC-CEEC
Confidence 34445566766 6799999988765 245533366 5544
No 199
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=24.17 E-value=2.4e+02 Score=32.11 Aligned_cols=59 Identities=12% Similarity=-0.027 Sum_probs=40.2
Q ss_pred HHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 117 AQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 117 ~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
..-..|...|+|++|+..+++... -.+. .......+...|..|-..|++++|++.|.++
T Consensus 80 NLG~AL~~lGryeEAIa~f~rALe-L~Pd-~aeA~~A~yNLAcaya~LGr~dEAla~LrrA 138 (453)
T PLN03098 80 NLGLSLFSKGRVKDALAQFETALE-LNPN-PDEAQAAYYNKACCHAYREEGKKAADCLRTA 138 (453)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHh-hCCC-chHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 345577899999999999977321 0000 0011234555677888899999999999885
No 200
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=24.04 E-value=55 Score=25.91 Aligned_cols=32 Identities=19% Similarity=0.583 Sum_probs=22.1
Q ss_pred CCcCCcCCCccC-CceEEEcc---CCCeEEEeccCCC
Q 003482 768 DSMCSLCSKKIG-TSVFAVYP---NGKTIVHFVCFRD 800 (816)
Q Consensus 768 ~~~C~vC~k~l~-~~~f~v~p---~g~~v~H~~C~~~ 800 (816)
-..|..|+..|. ....++|| || .++=++|.+-
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPnCG-e~~I~Rc~~C 44 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPNCG-EVEIYRCAKC 44 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCCCC-ceeeehhhhH
Confidence 468999999993 34444464 35 6888888653
No 202
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.04 E-value=1.1e+02 Score=32.59 Aligned_cols=61 Identities=11% Similarity=0.099 Sum_probs=44.1
Q ss_pred cCCHHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 112 PVPLGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 112 ~~~~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
+-.+..-|..|+...+|++|++++.... |.++ +-+.-....|+.++.-.+|.+|.+.+.+.
T Consensus 10 EGeftaviy~lI~d~ry~DaI~~l~s~~-Er~p----~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL 70 (459)
T KOG4340|consen 10 EGEFTAVVYRLIRDARYADAIQLLGSEL-ERSP----RSRAGLSLLGYCYYRLQEFALAAECYEQL 70 (459)
T ss_pred CCchHHHHHHHHHHhhHHHHHHHHHHHH-hcCc----cchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3346777899999999999999986532 2221 22223334588888889999999999874
No 203
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=24.01 E-value=25 Score=37.11 Aligned_cols=31 Identities=19% Similarity=0.399 Sum_probs=23.2
Q ss_pred CcCCcCCCccCCceEEEccCCCeEEEeccCCCc
Q 003482 769 SMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRDS 801 (816)
Q Consensus 769 ~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~~ 801 (816)
-.|..|+++|.---= +.||. |||.+.|++..
T Consensus 91 HfCd~Cd~PI~IYGR-mIPCk-HvFCl~CAr~~ 121 (389)
T KOG2932|consen 91 HFCDRCDFPIAIYGR-MIPCK-HVFCLECARSD 121 (389)
T ss_pred EeecccCCcceeeec-ccccc-hhhhhhhhhcC
Confidence 469999999862111 14998 99999999865
No 204
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.85 E-value=9.6e+02 Score=28.51 Aligned_cols=135 Identities=17% Similarity=0.171 Sum_probs=0.0
Q ss_pred CCHHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHcCCCHHHHHHhCCCCC
Q 003482 113 VPLGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLASQVDITYALSLYPSIV 192 (816)
Q Consensus 113 ~~~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~~~dP~~vi~LFp~l~ 192 (816)
.+.+..-+-.++-|+++.|.+|+.....+ .-..+.|.+-...++|..|.+.|.+ ..|-.-++.|+...
T Consensus 638 ~D~d~rFelal~lgrl~iA~~la~e~~s~----------~Kw~~Lg~~al~~~~l~lA~EC~~~-a~d~~~LlLl~t~~- 705 (794)
T KOG0276|consen 638 TDPDQRFELALKLGRLDIAFDLAVEANSE----------VKWRQLGDAALSAGELPLASECFLR-ARDLGSLLLLYTSS- 705 (794)
T ss_pred CChhhhhhhhhhcCcHHHHHHHHHhhcch----------HHHHHHHHHHhhcccchhHHHHHHh-hcchhhhhhhhhhc-
Q ss_pred CCCCCCCCCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCcchhhhhhhhhhhhHHHHHHHHHHHHHHhHHHHHhhh
Q 003482 193 LPKTTVVPEPERLLDISSDAPSLSRGSSGMSDDMESSPPAQLSELDENATLKSKKMSHNTLMALIKFLQKKRSSIIEKAT 272 (816)
Q Consensus 193 ~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~le~~~~~~~a~~~L~~yL~~~R~~~~~~~~ 272 (816)
.-...|...-...++....+.
T Consensus 706 ----------------------------------------------------------g~~~~l~~la~~~~~~g~~N~- 726 (794)
T KOG0276|consen 706 ----------------------------------------------------------GNAEGLAVLASLAKKQGKNNL- 726 (794)
T ss_pred ----------------------------------------------------------CChhHHHHHHHHHHhhcccch-
Q ss_pred ccCchhHhhhcccCCCCCCCcccccccCCCCCCCCCcccHHHHHHHHHHHHHHHHHhcCCchhHHhhhcCCCcccHHHHH
Q 003482 273 AEGTEEVVLDAVGDNFTSHDSTRFKKSSKGRGTIPMYSGAREMAAILDTALLQALLLTGQSSAALELLKGLNYCDVKICE 352 (816)
Q Consensus 273 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vDT~Llk~yl~~~~~~~l~~ll~~~n~c~~~~~~ 352 (816)
-|.||...++ +++|.
T Consensus 727 --------------------------------------------------AF~~~~l~g~---------------~~~C~ 741 (794)
T KOG0276|consen 727 --------------------------------------------------AFLAYFLSGD---------------YEECL 741 (794)
T ss_pred --------------------------------------------------HHHHHHHcCC---------------HHHHH
Q ss_pred HHHHhcCCHHHHHHHHHHhccH--HHHHHHHHH
Q 003482 353 EILQKKNHYTALLELYKSNARH--REALKLLHE 383 (816)
Q Consensus 353 ~~L~~~~~~~~L~~Ly~~~g~~--~~AL~ll~~ 383 (816)
++|.+.+++.+.+.|......- ...+++|++
T Consensus 742 ~lLi~t~r~peAal~ArtYlps~vs~iv~~wk~ 774 (794)
T KOG0276|consen 742 ELLISTQRLPEAALFARTYLPSQVSRIVELWKE 774 (794)
T ss_pred HHHHhcCcCcHHHHHHhhhChHHHHHHHHHHHH
No 205
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.54 E-value=1.8e+02 Score=31.18 Aligned_cols=59 Identities=27% Similarity=0.365 Sum_probs=38.3
Q ss_pred HHHHHHhcCCHHHHHHHhhhCCCcchHHHHhh--H---------------H-----------HHHHHHHHHHhcCCCHHH
Q 003482 118 QIVQLTASGDFEEALALCKLLPPEDASLRAAK--E---------------G-----------SIHIRFAHYLFDTGSYEE 169 (816)
Q Consensus 118 qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~--~---------------~-----------~i~~~~a~~Lf~~~~f~~ 169 (816)
+.+.|.+.+.+-+|+.++..+.+.+. ++.+- + . .....-|-.+|+.|+|++
T Consensus 84 ~AQSLY~A~i~ADALrV~~~~~D~~~-L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEa 162 (459)
T KOG4340|consen 84 QAQSLYKACIYADALRVAFLLLDNPA-LHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEA 162 (459)
T ss_pred HHHHHHHhcccHHHHHHHHHhcCCHH-HHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHH
Confidence 46688899999999999988753222 22111 0 0 111222557888889999
Q ss_pred HHHHHHHc
Q 003482 170 AMEHFLAS 177 (816)
Q Consensus 170 A~~~f~~~ 177 (816)
|++-|..+
T Consensus 163 AvqkFqaA 170 (459)
T KOG4340|consen 163 AVQKFQAA 170 (459)
T ss_pred HHHHHHHH
Confidence 99988764
No 206
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=23.42 E-value=88 Score=23.48 Aligned_cols=36 Identities=11% Similarity=0.310 Sum_probs=25.0
Q ss_pred cCCcCCCccCCc-eEEEccCCCeEEEeccCCCccchhc
Q 003482 770 MCSLCSKKIGTS-VFAVYPNGKTIVHFVCFRDSQSMKA 806 (816)
Q Consensus 770 ~C~vC~k~l~~~-~f~v~p~g~~v~H~~C~~~~~~~~~ 806 (816)
.|.+|++.-... .+.-=-|+ ..+|..|+........
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~-~~~H~~C~~~~~~~~~ 37 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCN-RWYHQECVGPPEKAEE 37 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTS-CEEETTTSTSSHSHHS
T ss_pred eCcCCCCcCCCCCeEEcCCCC-hhhCcccCCCChhhcc
Confidence 489999954443 34434677 7999999988755433
No 207
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=22.89 E-value=74 Score=24.93 Aligned_cols=21 Identities=33% Similarity=0.686 Sum_probs=18.8
Q ss_pred HHHHHhcCCCHHHHHHHHHHc
Q 003482 157 FAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 157 ~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
.|..++..|+|++|...|.+.
T Consensus 3 ~a~~~~~~g~~~~A~~~~~~~ 23 (65)
T PF13432_consen 3 LARALYQQGDYDEAIAAFEQA 23 (65)
T ss_dssp HHHHHHHCTHHHHHHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHHH
Confidence 588999999999999999873
No 208
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.70 E-value=1.1e+02 Score=32.37 Aligned_cols=61 Identities=21% Similarity=0.255 Sum_probs=42.4
Q ss_pred HHHHHHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 115 LGAQIVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 115 ~~~qi~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
.-++.-.+++.|+|.+|.+-+..+.. ..+ .......-+--.|-.+|.+|+|++|...|...
T Consensus 144 ~Y~~A~~~~ksgdy~~A~~~F~~fi~-~YP-~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~ 204 (262)
T COG1729 144 LYNAALDLYKSGDYAEAEQAFQAFIK-KYP-NSTYTPNAYYWLGESLYAQGDYEDAAYIFARV 204 (262)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH-cCC-CCcccchhHHHHHHHHHhcccchHHHHHHHHH
Confidence 55667788899999999887766421 000 00133334555689999999999999999874
No 209
>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=22.55 E-value=1.1e+02 Score=21.92 Aligned_cols=26 Identities=12% Similarity=0.298 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 152 SIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 152 ~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
+++.+.|..-+...+|++|++-|.++
T Consensus 2 dv~~~Lgeisle~e~f~qA~~D~~~a 27 (38)
T PF10516_consen 2 DVYDLLGEISLENENFEQAIEDYEKA 27 (38)
T ss_pred cHHHHHHHHHHHhccHHHHHHHHHHH
Confidence 36778899999999999999999875
No 210
>KOG2110 consensus Uncharacterized conserved protein, contains WD40 repeats [Function unknown]
Probab=22.25 E-value=1.7e+02 Score=32.01 Aligned_cols=67 Identities=18% Similarity=0.244 Sum_probs=49.2
Q ss_pred ccccccccccccceEEEEcCCCcc--cc-----C----CCccccCCCceEEeeCcEEEEecCCceEEEEccCCCcceeEe
Q 003482 16 GKRESVFSDMMENIGVFVDQNGKL--LQ-----A----DRICWSEAPIAVIIQKPYAIALLPRRVEVRSLRVPYALIQTI 84 (816)
Q Consensus 16 p~~~~~~~~~~d~~gvfv~~~G~~--~~-----~----~~i~w~~~p~~v~~~~PYli~l~~~~ieV~sl~~~~~~vQti 84 (816)
-||+++|... +-++|+. ++| .. | ..+.|+.+..+|.+...-+++++...|.||++. +..+..||
T Consensus 48 ~IvEmLFSSS---LvaiV~~-~qpr~Lkv~~~Kk~~~ICe~~fpt~IL~VrmNr~RLvV~Lee~IyIydI~-~MklLhTI 122 (391)
T KOG2110|consen 48 SIVEMLFSSS---LVAIVSI-KQPRKLKVVHFKKKTTICEIFFPTSILAVRMNRKRLVVCLEESIYIYDIK-DMKLLHTI 122 (391)
T ss_pred EEEEeecccc---eeEEEec-CCCceEEEEEcccCceEEEEecCCceEEEEEccceEEEEEcccEEEEecc-cceeehhh
Confidence 4555555433 5566665 443 10 1 246899999999999999999999999999995 78888888
Q ss_pred eeC
Q 003482 85 VLQ 87 (816)
Q Consensus 85 ~l~ 87 (816)
...
T Consensus 123 ~t~ 125 (391)
T KOG2110|consen 123 ETT 125 (391)
T ss_pred hcc
Confidence 653
No 211
>PF12816 Vps8: Golgi CORVET complex core vacuolar protein 8
Probab=22.19 E-value=1e+02 Score=31.06 Aligned_cols=58 Identities=17% Similarity=0.184 Sum_probs=44.5
Q ss_pred HHHHHHHHhcCCchhHHhhhc-CCC-cccHHHHHHHHHhcCCHHHHHHHH-HHhccHHHHH
Q 003482 321 TALLQALLLTGQSSAALELLK-GLN-YCDVKICEEILQKKNHYTALLELY-KSNARHREAL 378 (816)
Q Consensus 321 T~Llk~yl~~~~~~~l~~ll~-~~n-~c~~~~~~~~L~~~~~~~~L~~Ly-~~~g~~~~AL 378 (816)
..++.-|...+..+.+..++- .+- ..|++.+..++++++.|++|+.+| ...++|--=|
T Consensus 26 k~lv~~y~~~~~~~~lE~lI~~LD~~~LDidq~i~lC~~~~LydalIYv~n~~l~DYvTPL 86 (196)
T PF12816_consen 26 KALVEHYASKGRLERLEQLILHLDPSSLDIDQVIKLCKKHGLYDALIYVWNRALNDYVTPL 86 (196)
T ss_pred HHHHHHHHHCCCHHHHHHHHHhCCHHhcCHHHHHHHHHHCCCCCeeeeeeeccccCCcHHH
Confidence 457778888887777777763 443 459999999999999999999999 4447774433
No 212
>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK. This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=22.18 E-value=2.7e+02 Score=26.72 Aligned_cols=55 Identities=27% Similarity=0.255 Sum_probs=36.1
Q ss_pred HHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHH---HHHHHHHHcCCCH
Q 003482 121 QLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYE---EAMEHFLASQVDI 181 (816)
Q Consensus 121 ~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~---~A~~~f~~~~~dP 181 (816)
-.+..|+|+||+.+++.... +.. ....-+..+|+.|+..|+.+ -|-+.. +++-||
T Consensus 53 l~i~rg~w~eA~rvlr~l~~-~~~----~~p~~kAL~A~CL~al~Dp~Wr~~A~~~l-e~~~~~ 110 (153)
T TIGR02561 53 LLIARGNYDEAARILRELLS-SAG----APPYGKALLALCLNAKGDAEWHVHADEVL-ARDADA 110 (153)
T ss_pred HHHHcCCHHHHHHHHHhhhc-cCC----CchHHHHHHHHHHHhcCChHHHHHHHHHH-HhCCCH
Confidence 44789999999999988753 211 22456777889999888865 333333 444444
No 213
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=22.17 E-value=18 Score=37.68 Aligned_cols=43 Identities=21% Similarity=0.395 Sum_probs=32.4
Q ss_pred ECCCCcCCcCCCccCCceEEEccCCCeEEEeccCCC---ccchhccccC
Q 003482 765 ITSDSMCSLCSKKIGTSVFAVYPNGKTIVHFVCFRD---SQSMKAVAKG 810 (816)
Q Consensus 765 I~~~~~C~vC~k~l~~~~f~v~p~g~~v~H~~C~~~---~~~~~~~~~~ 810 (816)
++..-+|.+|+-.|.-+.. .||| |-|.+-|++. .|.+|++-+.
T Consensus 22 LDs~lrC~IC~~~i~ip~~--TtCg-HtFCslCIR~hL~~qp~CP~Cr~ 67 (391)
T COG5432 22 LDSMLRCRICDCRISIPCE--TTCG-HTFCSLCIRRHLGTQPFCPVCRE 67 (391)
T ss_pred chhHHHhhhhhheeeccee--cccc-cchhHHHHHHHhcCCCCCccccc
Confidence 4455689999999875543 5999 9999999986 4777775443
No 214
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=21.66 E-value=28 Score=22.41 Aligned_cols=15 Identities=20% Similarity=0.691 Sum_probs=11.7
Q ss_pred CcCCcCCCccCCceE
Q 003482 769 SMCSLCSKKIGTSVF 783 (816)
Q Consensus 769 ~~C~vC~k~l~~~~f 783 (816)
..|+.|++.+..+.+
T Consensus 3 ~~C~~CgR~F~~~~l 17 (25)
T PF13913_consen 3 VPCPICGRKFNPDRL 17 (25)
T ss_pred CcCCCCCCEECHHHH
Confidence 479999999976543
No 215
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.58 E-value=1.8e+02 Score=29.32 Aligned_cols=54 Identities=13% Similarity=0.131 Sum_probs=30.1
Q ss_pred HHHHHhcCCHHHHHHHhhhCC--CcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003482 119 IVQLTASGDFEEALALCKLLP--PEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLA 176 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~--~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~ 176 (816)
....++.|++++|..-++..- +.|+. -..-+..+.|-.++.+++|++|+..+..
T Consensus 96 Ak~~ve~~~~d~A~aqL~~~l~~t~De~----lk~l~~lRLArvq~q~~k~D~AL~~L~t 151 (207)
T COG2976 96 AKAEVEANNLDKAEAQLKQALAQTKDEN----LKALAALRLARVQLQQKKADAALKTLDT 151 (207)
T ss_pred HHHHHhhccHHHHHHHHHHHHccchhHH----HHHHHHHHHHHHHHHhhhHHHHHHHHhc
Confidence 445667777777766665321 12221 2224555666666777777777666643
No 216
>PRK14891 50S ribosomal protein L24e/unknown domain fusion protein; Provisional
Probab=21.25 E-value=79 Score=29.17 Aligned_cols=26 Identities=27% Similarity=0.599 Sum_probs=19.0
Q ss_pred CcCCcCCCccCC--ceEEEccCCCeEEEe
Q 003482 769 SMCSLCSKKIGT--SVFAVYPNGKTIVHF 795 (816)
Q Consensus 769 ~~C~vC~k~l~~--~~f~v~p~g~~v~H~ 795 (816)
.+|+.|+.+|-. ....|-.+| .++++
T Consensus 5 e~CsFcG~kIyPG~G~~fVR~DG-kvf~F 32 (131)
T PRK14891 5 RTCDYTGEEIEPGTGTMFVRKDG-TVLHF 32 (131)
T ss_pred eeecCcCCcccCCCCcEEEecCC-CEEEE
Confidence 479999999954 455557888 56654
No 217
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=21.12 E-value=1.4e+02 Score=37.00 Aligned_cols=63 Identities=13% Similarity=0.201 Sum_probs=39.7
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc-CCCHHH
Q 003482 119 IVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS-QVDITY 183 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~-~~dP~~ 183 (816)
...++-+|.|+.+..|+....... .......+=.-+.|-.+-++|+|++|+.+|.++ +.||..
T Consensus 277 An~fyfK~dy~~v~~la~~ai~~t--~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~ 340 (1018)
T KOG2002|consen 277 ANHFYFKKDYERVWHLAEHAIKNT--ENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDN 340 (1018)
T ss_pred HHHHhhcccHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCC
Confidence 445567777777777776532100 000011222345688889999999999999874 677776
No 218
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=20.99 E-value=55 Score=21.01 Aligned_cols=18 Identities=22% Similarity=0.635 Sum_probs=10.8
Q ss_pred CCcCCCccCCce-EEEccC
Q 003482 771 CSLCSKKIGTSV-FAVYPN 788 (816)
Q Consensus 771 C~vC~k~l~~~~-f~v~p~ 788 (816)
|..|++.|.... .+.|+|
T Consensus 1 C~sC~~~i~~r~~~v~f~C 19 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPC 19 (24)
T ss_pred CccCCCcccCcccCceEeC
Confidence 677888776542 444544
No 219
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=20.90 E-value=1.6e+02 Score=27.05 Aligned_cols=56 Identities=25% Similarity=0.287 Sum_probs=40.9
Q ss_pred HHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 120 VQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 120 ~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
..+=..|+.++|+.+.++-... .+............|..|-.-|++++|...|.+.
T Consensus 9 ~a~d~~G~~~~Ai~~Y~~Al~~--gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~ 64 (120)
T PF12688_consen 9 WAHDSLGREEEAIPLYRRALAA--GLSGADRRRALIQLASTLRNLGRYDEALALLEEA 64 (120)
T ss_pred HHHHhcCCHHHHHHHHHHHHHc--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 3445779999999998874211 1222244567778899999999999999999764
No 220
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=20.88 E-value=38 Score=22.10 Aligned_cols=15 Identities=20% Similarity=0.430 Sum_probs=9.5
Q ss_pred cCCcCCCccCCceEE
Q 003482 770 MCSLCSKKIGTSVFA 784 (816)
Q Consensus 770 ~C~vC~k~l~~~~f~ 784 (816)
.|+.|++.+..++-.
T Consensus 2 ~CP~C~~~V~~~~~~ 16 (26)
T PF10571_consen 2 TCPECGAEVPESAKF 16 (26)
T ss_pred cCCCCcCCchhhcCc
Confidence 577777777655443
No 221
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=20.87 E-value=1.4e+02 Score=36.41 Aligned_cols=54 Identities=15% Similarity=0.028 Sum_probs=33.2
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 119 IVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
+..|.+.+++++|+..+++....+. .-...+...|-.|-..|+|++|..+|.+.
T Consensus 127 a~~L~~~~~~eeA~~~~~~~l~~~p-----~~~~~~~~~a~~l~~~g~~~~A~~~y~~~ 180 (694)
T PRK15179 127 LRGVKRQQGIEAGRAEIELYFSGGS-----SSAREILLEAKSWDEIGQSEQADACFERL 180 (694)
T ss_pred HHHHHHhccHHHHHHHHHHHhhcCC-----CCHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence 4455677777777777766432111 11135555677777788888888888663
No 222
>PRK15331 chaperone protein SicA; Provisional
Probab=20.72 E-value=1.4e+02 Score=29.11 Aligned_cols=38 Identities=18% Similarity=0.270 Sum_probs=26.7
Q ss_pred hHHHHHHHHHHHHhcCCCHHHHHHHHHH-c---CCCHHHHHHh
Q 003482 149 KEGSIHIRFAHYLFDTGSYEEAMEHFLA-S---QVDITYALSL 187 (816)
Q Consensus 149 ~~~~i~~~~a~~Lf~~~~f~~A~~~f~~-~---~~dP~~vi~L 187 (816)
.+..|+. +|+.+|.+|++++|...|.- + ..+|++++.|
T Consensus 36 ~le~iY~-~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GL 77 (165)
T PRK15331 36 MMDGLYA-HAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGL 77 (165)
T ss_pred HHHHHHH-HHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHH
Confidence 3444444 38999999999999999975 3 3556665554
No 223
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=20.32 E-value=1.3e+02 Score=24.10 Aligned_cols=24 Identities=29% Similarity=0.203 Sum_probs=20.0
Q ss_pred chhHHHHHHHhhcccHHHHHHHHH
Q 003482 541 ALYEERAILLGKMNQHELALSLYV 564 (816)
Q Consensus 541 ~l~~e~a~Ll~rlg~h~~AL~ilv 564 (816)
.++..++.+|.++|++++|+..+-
T Consensus 30 ~~~~~~a~~~~~~g~~~~A~~~l~ 53 (73)
T PF13371_consen 30 ELWLQRARCLFQLGRYEEALEDLE 53 (73)
T ss_pred hhhHHHHHHHHHhccHHHHHHHHH
Confidence 467789999999999999987664
No 224
>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=20.25 E-value=1.7e+02 Score=35.10 Aligned_cols=26 Identities=23% Similarity=0.349 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHc
Q 003482 152 SIHIRFAHYLFDTGSYEEAMEHFLAS 177 (816)
Q Consensus 152 ~i~~~~a~~Lf~~~~f~~A~~~f~~~ 177 (816)
..+...|..++..|+|++|+..|.++
T Consensus 434 ~~~~~la~~~~~~g~~~eA~~~~~~a 459 (615)
T TIGR00990 434 FSHIQLGVTQYKEGSIASSMATFRRC 459 (615)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 34556789999999999999999875
No 225
>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]
Probab=20.08 E-value=1.8e+02 Score=36.16 Aligned_cols=63 Identities=24% Similarity=0.329 Sum_probs=47.3
Q ss_pred HHHHHhcCCHHHHHHHhhhCCCcchHHHHhhHHHHHHHHHHHHhcCCC-HHHHHHHHHH-cCCCHHHHHH
Q 003482 119 IVQLTASGDFEEALALCKLLPPEDASLRAAKEGSIHIRFAHYLFDTGS-YEEAMEHFLA-SQVDITYALS 186 (816)
Q Consensus 119 i~~Ll~~~~~eeAl~L~~~~~~~d~~~~~~~~~~i~~~~a~~Lf~~~~-f~~A~~~f~~-~~~dP~~vi~ 186 (816)
..+=+..+.|++|+.-+++.-.+|...++ .+.-.|.++|..++ -++|.++|.. +++||-.+++
T Consensus 9 Ak~al~nk~YeealEqskkvLk~dpdNYn-----A~vFLGvAl~sl~q~le~A~ehYv~AaKldpdnlLA 73 (1238)
T KOG1127|consen 9 AKDALRNKEYEEALEQSKKVLKEDPDNYN-----AQVFLGVALWSLGQDLEKAAEHYVLAAKLDPDNLLA 73 (1238)
T ss_pred HHHHHhhccHHHHHHHHHHHHhcCCCcch-----hhhHHHHHHHhccCCHHHHHHHHHHHHhcChhhhHH
Confidence 44556778999999999875433322222 55566999998887 9999999976 7999988876
Done!