Query 015607
Match_columns 403
No_of_seqs 415 out of 1471
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 07:53:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015607.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015607hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1843 Uncharacterized conser 100.0 8.8E-45 1.9E-49 361.6 5.3 301 88-402 41-342 (473)
2 COG2930 Uncharacterized conser 99.8 2.6E-19 5.6E-24 165.0 4.7 93 310-402 10-104 (227)
3 PF01363 FYVE: FYVE zinc finge 99.8 2E-19 4.3E-24 140.8 1.5 67 212-279 1-68 (69)
4 smart00064 FYVE Protein presen 99.7 4.8E-17 1E-21 126.9 3.9 66 212-279 2-67 (68)
5 KOG1729 FYVE finger containing 99.6 1.2E-15 2.6E-20 150.1 2.8 71 207-280 155-226 (288)
6 PTZ00303 phosphatidylinositol 99.5 4.8E-15 1.1E-19 157.8 4.3 73 209-281 448-532 (1374)
7 KOG1819 FYVE finger-containing 99.5 5.3E-15 1.1E-19 152.0 1.7 66 210-277 891-961 (990)
8 KOG1818 Membrane trafficking a 99.5 7.4E-15 1.6E-19 155.9 2.7 69 207-280 155-223 (634)
9 KOG1409 Uncharacterized conser 99.5 7.2E-16 1.6E-20 152.9 -5.5 124 141-283 216-354 (404)
10 KOG1842 FYVE finger-containing 99.4 2.9E-14 6.4E-19 144.9 -1.9 73 206-279 166-259 (505)
11 cd00065 FYVE FYVE domain; Zinc 99.4 2.7E-13 5.9E-18 102.0 2.4 55 220-276 2-56 (57)
12 KOG1841 Smad anchor for recept 99.1 3.8E-11 8.2E-16 132.7 1.5 65 207-274 544-608 (1287)
13 KOG1843 Uncharacterized conser 98.9 4.2E-10 9E-15 114.1 1.4 92 311-402 4-96 (473)
14 KOG4424 Predicted Rho/Rac guan 98.7 2E-09 4.3E-14 113.2 0.6 133 211-347 408-555 (623)
15 KOG1811 Predicted Zn2+-binding 97.2 2.6E-05 5.6E-10 83.3 -3.8 65 212-278 314-383 (1141)
16 KOG0230 Phosphatidylinositol-4 97.1 0.00025 5.4E-09 82.0 2.9 48 219-279 4-51 (1598)
17 PF02318 FYVE_2: FYVE-type zin 97.0 0.00049 1.1E-08 59.7 2.5 51 220-278 54-104 (118)
18 KOG0230 Phosphatidylinositol-4 96.2 0.0018 3.8E-08 75.3 1.2 34 215-251 92-125 (1598)
19 KOG1841 Smad anchor for recept 93.8 0.06 1.3E-06 61.6 4.2 57 209-280 646-702 (1287)
20 KOG1729 FYVE finger containing 92.1 0.028 6.1E-07 56.2 -1.3 66 211-277 11-81 (288)
21 PF09538 FYDLN_acid: Protein o 86.4 0.51 1.1E-05 40.7 2.3 33 212-247 4-36 (108)
22 TIGR00622 ssl1 transcription f 86.3 0.61 1.3E-05 40.6 2.7 41 214-254 49-98 (112)
23 PRK00464 nrdR transcriptional 84.7 0.47 1E-05 43.4 1.4 25 222-247 2-38 (154)
24 TIGR02300 FYDLN_acid conserved 83.7 0.76 1.7E-05 40.8 2.2 27 221-247 10-36 (129)
25 KOG0993 Rab5 GTPase effector R 80.5 0.056 1.2E-06 56.1 -7.0 66 212-281 460-527 (542)
26 PF07975 C1_4: TFIIH C1-like d 80.3 0.32 6.9E-06 36.6 -1.2 31 222-252 1-36 (51)
27 KOG0320 Predicted E3 ubiquitin 77.4 0.35 7.6E-06 45.2 -2.2 49 220-280 131-179 (187)
28 KOG4275 Predicted E3 ubiquitin 76.4 0.38 8.2E-06 48.2 -2.3 51 217-278 41-91 (350)
29 KOG1314 DHHC-type Zn-finger pr 75.2 0.86 1.9E-05 46.8 -0.2 36 208-246 74-114 (414)
30 KOG0978 E3 ubiquitin ligase in 70.2 0.59 1.3E-05 51.8 -2.9 44 219-277 642-687 (698)
31 PRK00420 hypothetical protein; 69.7 3.4 7.3E-05 36.0 2.2 25 221-245 24-48 (112)
32 KOG3576 Ovo and related transc 68.0 1.1 2.3E-05 43.1 -1.3 33 217-249 114-157 (267)
33 PF13717 zinc_ribbon_4: zinc-r 67.8 3.5 7.5E-05 28.6 1.5 26 222-247 4-35 (36)
34 smart00154 ZnF_AN1 AN1-like Zi 67.7 3.5 7.6E-05 29.1 1.6 26 223-251 1-26 (39)
35 PF01485 IBR: IBR domain; Int 65.9 6.1 0.00013 29.3 2.7 34 221-254 19-57 (64)
36 PF13719 zinc_ribbon_5: zinc-r 65.5 4.1 8.8E-05 28.3 1.5 27 221-247 3-35 (37)
37 PRK00432 30S ribosomal protein 63.6 5.4 0.00012 29.7 2.0 27 221-247 21-47 (50)
38 PF14634 zf-RING_5: zinc-RING 61.0 2.1 4.5E-05 30.5 -0.6 32 222-255 1-32 (44)
39 PF12773 DZR: Double zinc ribb 60.9 6.3 0.00014 28.5 1.9 27 219-245 11-37 (50)
40 PHA02768 hypothetical protein; 59.2 5.3 0.00011 30.6 1.3 27 221-247 6-41 (55)
41 PF07282 OrfB_Zn_ribbon: Putat 56.4 10 0.00022 29.3 2.5 29 219-247 27-56 (69)
42 COG5151 SSL1 RNA polymerase II 56.3 5 0.00011 40.8 0.9 40 214-253 356-404 (421)
43 PRK00398 rpoP DNA-directed RNA 55.3 8 0.00017 27.8 1.6 25 221-246 4-30 (46)
44 KOG2164 Predicted E3 ubiquitin 55.0 4.2 9E-05 43.7 0.1 51 221-280 187-237 (513)
45 PF01529 zf-DHHC: DHHC palmito 54.8 7.4 0.00016 34.8 1.7 28 217-247 45-72 (174)
46 PRK04023 DNA polymerase II lar 53.4 14 0.00031 42.9 3.9 97 219-333 625-734 (1121)
47 smart00647 IBR In Between Ring 53.0 13 0.00028 27.6 2.5 34 221-254 19-57 (64)
48 COG3874 Uncharacterized conser 50.7 29 0.00062 31.1 4.6 49 319-374 7-55 (138)
49 TIGR01031 rpmF_bact ribosomal 50.6 10 0.00022 28.8 1.6 25 215-244 21-46 (55)
50 PRK03564 formate dehydrogenase 49.8 11 0.00024 38.2 2.2 60 221-281 188-265 (309)
51 KOG0317 Predicted E3 ubiquitin 49.5 4.6 0.0001 40.5 -0.6 47 220-280 239-285 (293)
52 PF06577 DUF1134: Protein of u 49.3 13 0.00029 34.2 2.4 30 360-389 45-77 (160)
53 KOG1315 Predicted DHHC-type Zn 47.9 8.3 0.00018 39.1 1.0 28 215-245 104-131 (307)
54 TIGR00570 cdk7 CDK-activating 47.6 5.6 0.00012 40.3 -0.3 49 221-279 4-54 (309)
55 PF03604 DNA_RNApol_7kD: DNA d 47.2 13 0.00029 25.3 1.6 24 222-245 2-25 (32)
56 PF15616 TerY-C: TerY-C metal 46.4 12 0.00026 33.5 1.6 23 221-249 78-100 (131)
57 PRK04136 rpl40e 50S ribosomal 45.1 12 0.00027 27.8 1.3 22 221-245 15-36 (48)
58 COG1773 Rubredoxin [Energy pro 44.3 21 0.00045 27.4 2.4 41 236-276 2-44 (55)
59 PF09889 DUF2116: Uncharacteri 44.1 11 0.00023 29.3 0.8 30 237-283 3-33 (59)
60 smart00659 RPOLCX RNA polymera 43.8 14 0.00031 26.8 1.4 23 222-244 4-26 (44)
61 PF13901 DUF4206: Domain of un 43.2 12 0.00026 35.4 1.2 43 238-280 1-47 (202)
62 PRK14559 putative protein seri 42.6 14 0.00031 41.0 1.9 31 219-254 14-50 (645)
63 PF13639 zf-RING_2: Ring finge 40.8 6.1 0.00013 27.8 -0.9 34 221-256 1-34 (44)
64 PF15135 UPF0515: Uncharacteri 40.7 18 0.0004 35.7 2.1 33 215-247 127-165 (278)
65 PF14445 Prok-RING_2: Prokaryo 39.7 4.7 0.0001 30.5 -1.6 45 221-279 8-52 (57)
66 PRK12286 rpmF 50S ribosomal pr 39.6 17 0.00037 27.8 1.4 21 219-244 26-47 (57)
67 TIGR03826 YvyF flagellar opero 39.2 11 0.00024 33.9 0.3 35 238-288 4-42 (137)
68 PF10571 UPF0547: Uncharacteri 38.3 20 0.00044 23.2 1.3 23 222-247 2-24 (26)
69 KOG1311 DHHC-type Zn-finger pr 38.2 16 0.00034 36.2 1.2 24 220-246 113-136 (299)
70 KOG3799 Rab3 effector RIM1 and 38.1 21 0.00045 32.3 1.8 69 221-296 66-138 (169)
71 COG0675 Transposase and inacti 38.0 22 0.00047 34.5 2.2 26 218-247 307-332 (364)
72 PF14353 CpXC: CpXC protein 37.3 18 0.00039 31.3 1.3 10 222-231 3-12 (128)
73 PLN03208 E3 ubiquitin-protein 36.9 11 0.00024 35.8 -0.1 59 217-280 15-80 (193)
74 KOG3795 Uncharacterized conser 36.7 16 0.00034 34.5 0.8 22 230-252 9-33 (230)
75 PF10367 Vps39_2: Vacuolar sor 36.7 29 0.00063 28.3 2.4 31 220-253 78-108 (109)
76 TIGR01562 FdhE formate dehydro 36.4 24 0.00051 35.9 2.1 60 221-281 185-265 (305)
77 KOG3173 Predicted Zn-finger pr 36.2 19 0.00041 33.4 1.3 29 219-251 104-132 (167)
78 PF06750 DiS_P_DiS: Bacterial 35.8 18 0.00039 30.2 1.0 25 221-245 34-66 (92)
79 PF07191 zinc-ribbons_6: zinc- 35.5 15 0.00032 29.5 0.4 54 222-279 3-61 (70)
80 KOG1814 Predicted E3 ubiquitin 34.9 20 0.00043 37.8 1.4 43 211-254 360-403 (445)
81 KOG0823 Predicted E3 ubiquitin 34.8 9.7 0.00021 37.1 -0.8 34 241-280 63-96 (230)
82 COG1327 Predicted transcriptio 34.3 20 0.00043 32.9 1.1 13 235-247 26-38 (156)
83 COG1996 RPC10 DNA-directed RNA 33.6 20 0.00044 26.8 0.9 23 222-244 8-31 (49)
84 PF13923 zf-C3HC4_2: Zinc fing 33.5 12 0.00025 25.8 -0.4 29 223-255 1-29 (39)
85 KOG3576 Ovo and related transc 33.5 11 0.00024 36.3 -0.6 60 221-280 146-224 (267)
86 KOG1829 Uncharacterized conser 33.1 20 0.00044 39.3 1.2 60 221-280 341-405 (580)
87 KOG1313 DHHC-type Zn-finger pr 32.7 13 0.00029 37.2 -0.3 24 220-246 102-125 (309)
88 PRK14890 putative Zn-ribbon RN 31.9 33 0.00071 26.7 1.8 33 220-252 7-43 (59)
89 TIGR02098 MJ0042_CXXC MJ0042 f 31.6 30 0.00065 23.6 1.4 10 222-231 4-13 (38)
90 PRK00564 hypA hydrogenase nick 31.5 26 0.00056 30.4 1.3 24 221-245 72-96 (117)
91 COG5574 PEX10 RING-finger-cont 31.4 11 0.00025 37.3 -1.0 46 221-278 216-261 (271)
92 KOG2593 Transcription initiati 31.2 22 0.00047 37.7 1.0 35 220-254 128-170 (436)
93 COG5273 Uncharacterized protei 29.7 26 0.00056 35.5 1.2 27 217-246 106-132 (309)
94 COG1645 Uncharacterized Zn-fin 29.7 28 0.00061 31.2 1.3 24 221-253 29-52 (131)
95 TIGR00100 hypA hydrogenase nic 29.7 28 0.00061 30.1 1.3 24 221-245 71-94 (115)
96 cd02341 ZZ_ZZZ3 Zinc finger, Z 29.6 24 0.00052 26.1 0.7 27 222-251 2-32 (48)
97 KOG1356 Putative transcription 29.1 22 0.00048 40.5 0.6 43 211-256 218-262 (889)
98 cd00162 RING RING-finger (Real 29.1 16 0.00034 24.4 -0.3 30 222-255 1-30 (45)
99 KOG2807 RNA polymerase II tran 28.6 34 0.00075 35.1 1.8 46 219-275 329-374 (378)
100 PF09297 zf-NADH-PPase: NADH p 28.6 27 0.00058 23.2 0.7 25 247-276 5-29 (32)
101 KOG2462 C2H2-type Zn-finger pr 28.5 30 0.00065 34.7 1.3 11 221-231 188-198 (279)
102 TIGR02874 spore_ytfJ sporulati 27.6 1.1E+02 0.0023 27.3 4.5 50 319-374 5-54 (125)
103 PF01286 XPA_N: XPA protein N- 27.6 45 0.00097 23.1 1.7 9 267-275 23-31 (34)
104 TIGR02605 CxxC_CxxC_SSSS putat 27.4 29 0.00063 25.2 0.8 11 222-232 7-17 (52)
105 smart00834 CxxC_CXXC_SSSS Puta 27.3 33 0.00072 23.4 1.1 11 222-232 7-17 (41)
106 PHA02942 putative transposase; 27.0 51 0.0011 34.3 2.8 28 220-247 325-352 (383)
107 PF01155 HypA: Hydrogenase exp 26.8 20 0.00043 30.9 -0.2 24 221-245 71-94 (113)
108 KOG2932 E3 ubiquitin ligase in 26.2 23 0.00049 36.2 0.1 50 219-283 89-138 (389)
109 KOG4739 Uncharacterized protei 26.1 26 0.00056 34.3 0.5 44 222-279 5-48 (233)
110 PF10497 zf-4CXXC_R1: Zinc-fin 26.0 22 0.00048 30.4 -0.1 57 219-278 6-71 (105)
111 KOG2272 Focal adhesion protein 26.0 28 0.00062 34.6 0.7 63 212-278 215-312 (332)
112 COG0333 RpmF Ribosomal protein 26.0 38 0.00082 26.1 1.2 20 220-244 27-47 (57)
113 PF14835 zf-RING_6: zf-RING of 25.9 46 0.00099 26.4 1.7 28 222-254 9-37 (65)
114 TIGR00244 transcriptional regu 25.3 41 0.00089 30.7 1.5 13 235-247 26-38 (147)
115 PF07754 DUF1610: Domain of un 25.0 53 0.0012 21.1 1.6 23 223-245 1-24 (24)
116 PF03107 C1_2: C1 domain; Int 24.9 67 0.0015 21.0 2.2 29 222-252 2-30 (30)
117 PF09579 Spore_YtfJ: Sporulati 24.8 67 0.0014 26.4 2.6 21 354-374 5-25 (83)
118 PF11781 RRN7: RNA polymerase 24.8 36 0.00078 23.7 0.8 25 222-246 10-34 (36)
119 COG5400 Uncharacterized protei 24.4 54 0.0012 30.8 2.1 37 361-401 91-130 (205)
120 PRK14559 putative protein seri 24.4 56 0.0012 36.5 2.7 49 221-281 2-54 (645)
121 COG1198 PriA Primosomal protei 24.3 46 0.001 37.7 2.0 11 221-231 445-455 (730)
122 COG4530 Uncharacterized protei 24.2 42 0.00091 29.4 1.3 27 221-247 10-36 (129)
123 PF13445 zf-RING_UBOX: RING-ty 24.0 23 0.0005 25.5 -0.3 30 223-254 1-30 (43)
124 PF09332 Mcm10: Mcm10 replicat 23.9 32 0.00069 35.5 0.6 11 267-277 302-312 (344)
125 KOG1813 Predicted E3 ubiquitin 23.8 48 0.001 33.6 1.8 29 221-254 242-270 (313)
126 cd02340 ZZ_NBR1_like Zinc fing 23.6 41 0.00089 24.1 1.0 30 222-254 2-32 (43)
127 PF07503 zf-HYPF: HypF finger; 23.2 16 0.00034 25.4 -1.2 17 223-239 2-18 (35)
128 PF09947 DUF2180: Uncharacteri 23.1 33 0.00071 27.4 0.4 40 238-278 17-66 (68)
129 PF01428 zf-AN1: AN1-like Zinc 23.0 55 0.0012 23.2 1.6 23 226-252 6-28 (43)
130 KOG3183 Predicted Zn-finger pr 23.0 40 0.00086 33.2 1.0 55 221-279 9-66 (250)
131 PF06221 zf-C2HC5: Putative zi 22.9 45 0.00098 25.7 1.1 13 237-249 18-30 (57)
132 PF14279 HNH_5: HNH endonuclea 22.9 55 0.0012 26.1 1.7 24 257-280 18-42 (71)
133 PF05458 Siva: Cd27 binding pr 22.8 32 0.00068 32.2 0.3 30 240-275 142-171 (175)
134 smart00531 TFIIE Transcription 22.8 52 0.0011 29.5 1.7 29 219-247 98-133 (147)
135 TIGR00599 rad18 DNA repair pro 22.7 47 0.001 34.9 1.6 47 218-278 24-70 (397)
136 smart00291 ZnF_ZZ Zinc-binding 22.7 51 0.0011 23.5 1.3 28 221-251 5-33 (44)
137 KOG4690 Uncharacterized conser 22.4 73 0.0016 29.0 2.5 34 101-156 70-103 (165)
138 cd02342 ZZ_UBA_plant Zinc fing 22.2 41 0.00089 24.6 0.7 21 222-244 2-22 (43)
139 PF01927 Mut7-C: Mut7-C RNAse 22.0 54 0.0012 29.3 1.7 14 219-232 90-103 (147)
140 PRK12380 hydrogenase nickel in 22.0 47 0.001 28.6 1.2 24 221-245 71-94 (113)
141 PRK03681 hypA hydrogenase nick 21.8 48 0.001 28.6 1.2 25 221-245 71-95 (114)
142 PF04216 FdhE: Protein involve 21.7 30 0.00065 34.3 -0.0 62 221-282 173-252 (290)
143 PF09862 DUF2089: Protein of u 21.6 46 0.001 29.1 1.1 26 223-251 1-26 (113)
144 PF12760 Zn_Tnp_IS1595: Transp 21.4 68 0.0015 23.0 1.8 30 213-245 14-45 (46)
145 PF13005 zf-IS66: zinc-finger 21.4 58 0.0013 23.1 1.4 13 221-233 3-15 (47)
146 PF13912 zf-C2H2_6: C2H2-type 21.3 20 0.00044 22.3 -0.9 10 222-231 3-12 (27)
147 PRK04351 hypothetical protein; 21.3 57 0.0012 29.6 1.7 11 221-231 113-123 (149)
148 PF10170 C6_DPF: Cysteine-rich 21.1 45 0.00097 28.4 0.9 29 238-277 50-80 (97)
149 PRK14873 primosome assembly pr 21.0 56 0.0012 36.6 1.9 35 221-255 393-432 (665)
150 PF08271 TF_Zn_Ribbon: TFIIB z 21.0 44 0.00096 23.6 0.7 8 223-230 3-10 (43)
151 PRK11595 DNA utilization prote 20.7 24 0.00053 33.7 -0.9 31 221-254 21-57 (227)
152 smart00661 RPOL9 RNA polymeras 20.7 82 0.0018 22.6 2.1 8 268-275 20-27 (52)
153 KOG1818 Membrane trafficking a 20.6 22 0.00047 39.4 -1.4 36 221-257 55-91 (634)
154 PF02945 Endonuclease_7: Recom 20.6 31 0.00067 28.3 -0.2 26 221-246 23-50 (81)
155 smart00731 SprT SprT homologue 20.6 65 0.0014 28.6 1.9 26 220-247 112-143 (146)
156 PF12172 DUF35_N: Rubredoxin-l 20.4 41 0.00089 22.9 0.4 20 222-244 13-32 (37)
157 PHA02565 49 recombination endo 20.4 62 0.0013 29.9 1.7 33 221-253 21-63 (157)
158 PF13465 zf-H2C2_2: Zinc-finge 20.3 52 0.0011 20.8 0.8 13 235-247 12-24 (26)
159 TIGR00373 conserved hypothetic 20.1 49 0.0011 30.1 1.0 26 221-246 110-137 (158)
No 1
>KOG1843 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=8.8e-45 Score=361.65 Aligned_cols=301 Identities=38% Similarity=0.452 Sum_probs=275.1
Q ss_pred ccccCCCCCCCCCceeecCCCCCCCCCchhhhcccccCCCCccCCCCCcccccccCceeehhhHHHHHHHhhcCCcceee
Q 015607 88 YFFYDSPHYEDTGVWIPVSVPPMLDSKDDEWARGFHSDGGYFPEVDMGWSQYLKEDKELTMWDVVVEMLLAARGKVHALA 167 (403)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~s~p~~~~~~~~~~~~g~~~~~~~~~~~~~~w~~~~~~~~~i~mwdv~~~~l~~~~~Kv~sl~ 167 (403)
|++|+.+. ++++|+|.+.++.+|..|.+.+.||+++|+++|.+++.++++.+||+|+..+......+-+..+
T Consensus 41 yvl~da~g--------l~~i~~lkegflfsgr~Gsgviv~~l~dGtwsapsa~~~~g~g~g~~Vgveltd~V~ilNs~~a 112 (473)
T KOG1843|consen 41 YVLKDAPG--------LVSIPVLKEGFLFSGRAGSGVIVGYLKDGTWSAPSAIAEAGEGAGGMVGVELTDFVIILNSALA 112 (473)
T ss_pred ceeccCCc--------ceEeeeecccccccccccCceeeeecCCCCcCcchhhhhccccchhhhHHHHHHHHHhhcchHh
Confidence 77777775 6899999999999999999999999999999999999999999999999987755544444556
Q ss_pred ecCCCCCcccchhhHHHHHHHHHHHHHHhhhccCCccccccCCCCCcccCCCCCCCCCCCcccCcccccccccccCCceE
Q 015607 168 KGDIHGCNFSWMSSHLLEQAWQEMAQTLTEANFGNVSELLDAEPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (403)
Q Consensus 168 ~gd~~~~~~Sw~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vf 247 (403)
+..+.+..+..+... |..++..|.+.++...++.++.++|.|.+++....|+.|..+|+.|+.||||||.|+.+|
T Consensus 113 v~~f~~~G~itLGgn-----~svsAgPLgr~aea~a~asl~~~ap~f~yskskglfagvSvegsaI~erR~anR~~yg~~ 187 (473)
T KOG1843|consen 113 VQSFARFGTITLGGN-----LSVSAGPLGRNAEAAASASLGGEAPVFLYSKSKGLFAGVSVEGSAIIERREANRKFYGIF 187 (473)
T ss_pred hhhhhhcCeeeecCc-----ceeccCcccccchhhhhhhhcCcCccccccccccceeeeecccceeeecchhhhhhcCcc
Confidence 666666666665332 456788888888888889999999999999999999999999999999999999999999
Q ss_pred cCCCCCCcccccccCCCCCccccCcchHhHhcccchhhhhhcccccCCCccCCCccccccceeccCCCCchHHHHHHHHH
Q 015607 248 CGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSVQPYLMNQVSHAAQLPTRDLTDLSTLRSWVNFPWGQSMEYEIYKAAN 327 (403)
Q Consensus 248 C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~~~~l~~~~S~a~q~p~~d~sd~~~lr~~lN~P~s~sle~eI~kAa~ 327 (403)
|..|+.-+..+|..+....++|||+.|+..|...|.++.+..+.++|.+.++.+|..+.|+|.|+|++.+|+.+|+++++
T Consensus 188 cra~~ilsg~vp~p~a~d~l~RVldS~~~nl~~~q~~~~d~~~da~qy~d~d~~Di~~s~sstn~~~~~~~e~s~~rra~ 267 (473)
T KOG1843|consen 188 CRAKSILSGLVPVPFAADPLQRVLDSCAFNLESVQGSLDDQYSDAAQYADHDYTDIPTSRSSTNFPSGRSMERSIYRRAN 267 (473)
T ss_pred chhhhhhccCCCCCcccCCHHHHHhhHhhccCCCccccccccCcccccCcccccccccccccccCcccCcchHHHHHhhh
Confidence 99999999888888888899999999999999999999999999999999999999999999999999999999999999
Q ss_pred Hhhhh-hccCCCCCCCCchhHHhhhcceeEEEEEEeeceeEEEEeeeEEEEEEcCCCCcCCCceEEEeceeEEEee
Q 015607 328 TIRGY-SKVGFLKPEKSIPDIILRQAKGLAILSVAKVGVMVTYNIGTGLVIARRNDGSWSPPSAISSFGMGWGAQV 402 (403)
Q Consensus 328 tL~~f-~ki~~~~pe~sIP~~lL~~AkGlai~~v~K~g~~~gg~~G~G~~~~r~~~G~WS~P~~~~~~g~~~G~Q~ 402 (403)
+|+.+ +++....+|..| ...|.+|||++++++.++|.+...+.|+|++++|+++|+||+|++|+..|++||.|+
T Consensus 268 slrg~r~~~~dddded~~-~a~~srakgLa~~t~~~~g~l~~yk~~s~~~~srR~~Gs~s~~s~~s~~glgWgaq~ 342 (473)
T KOG1843|consen 268 SLRGYRSRVDDDDDEDSI-DAGLSRAKGLAPITVARSGVLDTYKLGSSLVVSRRNDGSWSPRSAISRFGLGWGAQA 342 (473)
T ss_pred hcccceeecccCchhhhh-hhhhhhcccCCcccccccccccccccccccceecccCCCCCCcchhcccccccchhc
Confidence 99888 557777888889 999999999999999999999999999999999999999999999999999999997
No 2
>COG2930 Uncharacterized conserved protein [Function unknown]
Probab=99.76 E-value=2.6e-19 Score=165.05 Aligned_cols=93 Identities=33% Similarity=0.522 Sum_probs=82.7
Q ss_pred eccCCCCchHHHHHHHHHHhhhhhc-cCCCCCCCCchhHHhhhcceeEEEE-EEeeceeEEEEeeeEEEEEEcCCCCcCC
Q 015607 310 VNFPWGQSMEYEIYKAANTIRGYSK-VGFLKPEKSIPDIILRQAKGLAILS-VAKVGVMVTYNIGTGLVIARRNDGSWSP 387 (403)
Q Consensus 310 lN~P~s~sle~eI~kAa~tL~~f~k-i~~~~pe~sIP~~lL~~AkGlai~~-v~K~g~~~gg~~G~G~~~~r~~~G~WS~ 387 (403)
+++|.+.++..+..+++.+...+.. .-...|+..||+++|.+||||+||| |+|+||++||++|+||+++|+++|+||+
T Consensus 10 i~~a~~~s~~s~~~k~~~~~s~~v~~~~~~~~~~~ip~~lL~rAkGi~Iip~vLkaGFvigGr~GqGvl~~r~~~nTWs~ 89 (227)
T COG2930 10 IPNAQGSSFASETNKAAKTNSSFVLTEQRLGPDQVIPPSLLERAKGIVIIPSVLKAGFVIGGRYGQGVLVARLPDNTWSA 89 (227)
T ss_pred CCCccchhhcchhhhhhhhhhhhcchhhhhCCcccCCHHHHhhcCeeEEehhhccccEEEeccccceEEEecCCCCCccc
Confidence 3556777788888888877776654 3345789999999999999999999 9999999999999999999999999999
Q ss_pred CceEEEeceeEEEee
Q 015607 388 PSAISSFGMGWGAQV 402 (403)
Q Consensus 388 P~~~~~~g~~~G~Q~ 402 (403)
|+||.++|+|+|+|+
T Consensus 90 p~~v~~~g~siG~q~ 104 (227)
T COG2930 90 PSFVKMAGASIGGQA 104 (227)
T ss_pred chhhhhhcccccccc
Confidence 999999999999997
No 3
>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=99.75 E-value=2e-19 Score=140.77 Aligned_cols=67 Identities=48% Similarity=1.040 Sum_probs=47.7
Q ss_pred CCcccCCCCCCCCCCCcccCcccccccccccCCceEcCCCCCCccccc-ccCCCCCccccCcchHhHhc
Q 015607 212 PRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLP-VKFRVSDPQRVCDVCCVRLQ 279 (403)
Q Consensus 212 p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP-~~~~~~~pvRVC~~C~~~L~ 279 (403)
|.|++|+++..|+.|+++|+++ +||||||.||++||++|+.++..+| .......++|||+.|+..|+
T Consensus 1 ~~W~~d~~~~~C~~C~~~F~~~-~rrhhCr~CG~~vC~~Cs~~~~~~~~~~~~~~~~~RvC~~C~~~~~ 68 (69)
T PF01363_consen 1 PHWVPDSEASNCMICGKKFSLF-RRRHHCRNCGRVVCSSCSSQRIPLPTPSSGSGEPVRVCDSCYSKLQ 68 (69)
T ss_dssp --SSSGGG-SB-TTT--B-BSS-S-EEE-TTT--EEECCCS-EEEEET--GGTESEEEEE-HHHHHHHH
T ss_pred CCcCCCCCCCcCcCcCCcCCCc-eeeEccCCCCCEECCchhCCEEcccccccCCCCcCEECHHHHHHhc
Confidence 6899999999999999999975 8999999999999999999998887 23456789999999999875
No 4
>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 KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=99.55 E-value=1.2e-15 Score=150.11 Aligned_cols=71 Identities=45% Similarity=0.967 Sum_probs=63.2
Q ss_pred ccCCCCCcccCCCCCCCCCCCc-ccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhcc
Q 015607 207 LDAEPPRWLADSSASACMLCGV-RFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 207 ~~~~~p~Wvpd~~~~~C~~C~~-~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (403)
.....+.|+||+++..|+.|++ .|+++ .||||||+||.|||..|+.++..||. ...+++|||+.||..|..
T Consensus 155 ~~~~~~~W~PD~ea~~C~~C~~~~Ftl~-~RRHHCR~CG~ivC~~Cs~n~~~l~~--~~~k~~rvC~~CF~el~~ 226 (288)
T KOG1729|consen 155 SNNSAAVWLPDSEATECMVCGCTEFTLS-ERRHHCRNCGDIVCAPCSRNRFLLPN--LSTKPIRVCDICFEELEK 226 (288)
T ss_pred CCCcCCcccCcccceecccCCCccccHH-HHHHHHHhcchHhhhhhhcCcccccc--cCCCCceecHHHHHHHhc
Confidence 3456789999999999999999 99964 89999999999999999999988874 467899999999999864
No 6
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=99.52 E-value=4.8e-15 Score=157.83 Aligned_cols=73 Identities=29% Similarity=0.630 Sum_probs=57.9
Q ss_pred CCCCCcccCCC-CCCCCCCCcccCcc----cccccccccCCceEcCCCCCCccccc-------ccCCCCCccccCcchHh
Q 015607 209 AEPPRWLADSS-ASACMLCGVRFHPI----MCSRHHCRFCGGIFCGECSKGRSLLP-------VKFRVSDPQRVCDVCCV 276 (403)
Q Consensus 209 ~~~p~Wvpd~~-~~~C~~C~~~F~~~----~~RrHHCR~CG~vfC~~CS~~~~~lP-------~~~~~~~pvRVC~~C~~ 276 (403)
...|.|++|++ ++.|+.|++.|+.+ +.||||||+||++||+.||+++..+| .......+.|||+.||+
T Consensus 448 LhAPvWqpDDEaSdtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs~yp~aKLpKPgsseE~ppRRVCD~CYd 527 (1374)
T PTZ00303 448 LHNPSWQKDDESSDSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRAHYSFAKLAKPGSSDEAEERLVCDTCYK 527 (1374)
T ss_pred ccCCCCCCCcccCCcccCcCCcccccccccccccccccCCccccCccccCCcccCcccccCCCCCcccccccchhHHHHH
Confidence 46899999998 48899999999753 35999999999999999999886532 11122346799999998
Q ss_pred Hhccc
Q 015607 277 RLQSV 281 (403)
Q Consensus 277 ~L~~~ 281 (403)
.++..
T Consensus 528 q~EnL 532 (1374)
T PTZ00303 528 EYETV 532 (1374)
T ss_pred HHHhH
Confidence 87654
No 7
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=99.49 E-value=5.3e-15 Score=151.97 Aligned_cols=66 Identities=44% Similarity=1.070 Sum_probs=60.8
Q ss_pred CCCCcccCCCCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCc-----chHhH
Q 015607 210 EPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCD-----VCCVR 277 (403)
Q Consensus 210 ~~p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~-----~C~~~ 277 (403)
.||.|+||..+..|+.|+.+|+.| +||||||+||.|||++||...+++| .++..+.+|||. .||.+
T Consensus 891 sppawipd~~a~~cmacq~pf~af-rrrhhcrncggifcg~cs~asapip-~~gl~ka~rvcrpqsnldc~~r 961 (990)
T KOG1819|consen 891 SPPAWIPDEDAEQCMACQMPFNAF-RRRHHCRNCGGIFCGKCSCASAPIP-EHGLDKAPRVCRPQSNLDCLTR 961 (990)
T ss_pred CCcccCCCCcchhhhhccCcHHHH-HHhhhhcccCceeecccccCCCCCc-ccccccCceecCCcccccceee
Confidence 478999999999999999999975 8999999999999999999999999 468889999999 78865
No 8
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.49 E-value=7.4e-15 Score=155.90 Aligned_cols=69 Identities=39% Similarity=0.935 Sum_probs=62.2
Q ss_pred ccCCCCCcccCCCCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhcc
Q 015607 207 LDAEPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 207 ~~~~~p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (403)
.-..+|.|+.. ..|..|...|+++ .|+||||+||+|||..|+++.+.|| .++..++||||+.||+.+..
T Consensus 155 ~~~~~pdW~D~---~~C~rCr~~F~~~-~rkHHCr~CG~vFC~qcss~s~~lP-~~Gi~~~VRVCd~C~E~l~~ 223 (634)
T KOG1818|consen 155 DAETAPDWIDS---EECLRCRVKFGLT-NRKHHCRNCGQVFCGQCSSKSLTLP-KLGIEKPVRVCDSCYELLTR 223 (634)
T ss_pred cccCCcccccc---cccceeeeeeeec-cccccccccchhhccCccccccCcc-cccccccceehhhhHHHhhh
Confidence 34568999986 6899999999975 7999999999999999999999999 67889999999999999865
No 9
>KOG1409 consensus Uncharacterized conserved protein, contains WD40 repeats and FYVE domains [Function unknown]
Probab=99.48 E-value=7.2e-16 Score=152.85 Aligned_cols=124 Identities=30% Similarity=0.587 Sum_probs=102.7
Q ss_pred ccCceeehhhHHH-----HHHHhhcCCcceeeecCCCCCcccchhhHHHHHHHHHHHHHHhhhccCCccccccCCCCCcc
Q 015607 141 KEDKELTMWDVVV-----EMLLAARGKVHALAKGDIHGCNFSWMSSHLLEQAWQEMAQTLTEANFGNVSELLDAEPPRWL 215 (403)
Q Consensus 141 ~~~~~i~mwdv~~-----~~l~~~~~Kv~sl~~gd~~~~~~Sw~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~p~Wv 215 (403)
..+.+++||||++ .+++.|.+||.++......++++|...++.+ ..|+ | ...+.+.|.|+
T Consensus 216 ~~d~~vi~wdigg~~g~~~el~gh~~kV~~l~~~~~t~~l~S~~edg~i-~~w~-m-------------n~~r~etpewl 280 (404)
T KOG1409|consen 216 ASDHSVIMWDIGGRKGTAYELQGHNDKVQALSYAQHTRQLISCGEDGGI-VVWN-M-------------NVKRVETPEWL 280 (404)
T ss_pred cccCceEEEeccCCcceeeeeccchhhhhhhhhhhhheeeeeccCCCeE-EEEe-c-------------cceeecCcccc
Confidence 4788999999998 5789999999999998888888887766554 2232 2 23456789999
Q ss_pred cCCCCCCCCCCCcccC----------cccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhcccch
Q 015607 216 ADSSASACMLCGVRFH----------PIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSVQP 283 (403)
Q Consensus 216 pd~~~~~C~~C~~~F~----------~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~~~ 283 (403)
.+ ..|+.|+.+|. .+..|.||||.||+.||..|++++...|. .+....+|+|+.||..+....+
T Consensus 281 ~s---~~cQ~c~qpffwn~~~m~~~k~~glr~h~crkcg~avc~~c~s~~~~~p~-mg~e~~vR~~~~c~~~i~~~~~ 354 (404)
T KOG1409|consen 281 DS---DSCQKCNQPFFWNFRQMWDRKQLGLRQHHCRKCGKAVCGKCSSNRSSYPT-MGFEFSVRVCDSCYPTIKDEER 354 (404)
T ss_pred cc---chhhhhCchHHHHHHHHHhhhhhhhhhhhhhhhhhhcCcccccCcccccc-ccceeEEEEecccchhhhcCCC
Confidence 88 79999999997 24578999999999999999999999885 4778899999999999876544
No 10
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=99.38 E-value=2.9e-14 Score=144.91 Aligned_cols=73 Identities=36% Similarity=0.649 Sum_probs=57.3
Q ss_pred cccCCCCCcccCCCCCCCCCCCcccCcccccccccccCCceEcCCCCCCcc-------------cccccC--------CC
Q 015607 206 LLDAEPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRS-------------LLPVKF--------RV 264 (403)
Q Consensus 206 ~~~~~~p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~-------------~lP~~~--------~~ 264 (403)
.++.....|++|+++..|..|..+|++ ++||||||.||.|+|.+|+.+-. ..+..+ ..
T Consensus 166 ~~EqsvVpW~DDs~V~~CP~Ca~~F~l-~rRrHHCRLCG~VmC~~C~k~iSle~a~~ltsss~~dt~~e~~qq~~~lH~~ 244 (505)
T KOG1842|consen 166 RLEQSVVPWLDDSSVQFCPECANSFGL-TRRRHHCRLCGRVMCRDCSKFISLEIAIGLTSSSASDTHFEPNQQKDDLHQH 244 (505)
T ss_pred HHHhccccccCCCcccccccccchhhh-HHHhhhhhhcchHHHHHHHHhcChHHHHHHhhccCCCCCcCcccCcccccCC
Confidence 456677899999999999999999995 79999999999999999996532 000000 12
Q ss_pred CCccccCcchHhHhc
Q 015607 265 SDPQRVCDVCCVRLQ 279 (403)
Q Consensus 265 ~~pvRVC~~C~~~L~ 279 (403)
..+.|+|..|...|.
T Consensus 245 ~~~iRlC~hCl~~L~ 259 (505)
T KOG1842|consen 245 PQPIRLCMHCLDNLF 259 (505)
T ss_pred hhHhHHHHHHHHHHH
Confidence 346899999998874
No 11
>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=99.36 E-value=2.7e-13 Score=102.00 Aligned_cols=55 Identities=51% Similarity=0.994 Sum_probs=49.2
Q ss_pred CCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHh
Q 015607 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCV 276 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~ 276 (403)
+..|+.|++.|+++ .|+||||.||++||.+|+.++..+|.. ...+|+|||+.||.
T Consensus 2 ~~~C~~C~~~F~~~-~rk~~Cr~Cg~~~C~~C~~~~~~~~~~-~~~~~~rvC~~C~~ 56 (57)
T cd00065 2 ASSCMGCGKPFTLT-RRRHHCRNCGRIFCSKCSSNRIPLPSM-GGGKPVRVCDSCYE 56 (57)
T ss_pred cCcCcccCccccCC-ccccccCcCcCCcChHHcCCeeecCcc-cCCCccEeChHHhC
Confidence 46899999999975 799999999999999999999888753 46789999999995
No 12
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=99.06 E-value=3.8e-11 Score=132.71 Aligned_cols=65 Identities=42% Similarity=0.886 Sum_probs=53.9
Q ss_pred ccCCCCCcccCCCCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcch
Q 015607 207 LDAEPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVC 274 (403)
Q Consensus 207 ~~~~~p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C 274 (403)
++...|.|+||+++..||.|...|+++ +||||||+||+|+|..|+..+..+- |-...--|||..|
T Consensus 544 lgkkqP~wvpdse~pncm~clqkft~i-krrhhcRacgkVlcgvccnek~~le--yl~e~~~rv~nV~ 608 (1287)
T KOG1841|consen 544 LGKKQPSWVPDSEAPNCMDCLQKFTPI-KRRHHCRACGKVLCGVCCNEKSALE--YLSESEGRVSNVD 608 (1287)
T ss_pred cCCCCCccCccccCchHHHHHhhcccc-cccccchhccceeehhhcchhhhhh--hcCcccccccccc
Confidence 455689999999999999999999975 8999999999999999999988762 3334445666655
No 13
>KOG1843 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.89 E-value=4.2e-10 Score=114.08 Aligned_cols=92 Identities=32% Similarity=0.547 Sum_probs=80.5
Q ss_pred ccCCCCchHHHHHHHHHHhhhhhc-cCCCCCCCCchhHHhhhcceeEEEEEEeeceeEEEEeeeEEEEEEcCCCCcCCCc
Q 015607 311 NFPWGQSMEYEIYKAANTIRGYSK-VGFLKPEKSIPDIILRQAKGLAILSVAKVGVMVTYNIGTGLVIARRNDGSWSPPS 389 (403)
Q Consensus 311 N~P~s~sle~eI~kAa~tL~~f~k-i~~~~pe~sIP~~lL~~AkGlai~~v~K~g~~~gg~~G~G~~~~r~~~G~WS~P~ 389 (403)
++|...++..|-.+|...+..|.+ ....+.+..||+.+|.+|+|++|||++|+||.+.++.|.||+++|+++|+||+|+
T Consensus 4 ~npipaSlkse~~~~~k~~~~fv~p~q~~Gs~e~ipPyvl~da~gl~~i~~lkegflfsgr~Gsgviv~~l~dGtwsaps 83 (473)
T KOG1843|consen 4 NNPIPASLKSETNKAVKSLSSFVDPNQDFGSDEGIPPYVLKDAPGLVSIPVLKEGFLFSGRAGSGVIVGYLKDGTWSAPS 83 (473)
T ss_pred CCcCccCccchhcccceeeccccChhhccCCccccCcceeccCCcceEeeeecccccccccccCceeeeecCCCCcCcch
Confidence 456677777888888888888876 2234566789999999999999999999999999999999999999999999999
Q ss_pred eEEEeceeEEEee
Q 015607 390 AISSFGMGWGAQV 402 (403)
Q Consensus 390 ~~~~~g~~~G~Q~ 402 (403)
+|...|.+.|.++
T Consensus 84 a~~~~g~g~g~~V 96 (473)
T KOG1843|consen 84 AIAEAGEGAGGMV 96 (473)
T ss_pred hhhhccccchhhh
Confidence 9999999888775
No 14
>KOG4424 consensus Predicted Rho/Rac guanine nucleotide exchange factor/faciogenital dysplasia protein 3 [Signal transduction mechanisms]
Probab=98.74 E-value=2e-09 Score=113.18 Aligned_cols=133 Identities=20% Similarity=0.384 Sum_probs=100.6
Q ss_pred CCCcccCCCCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhcccchhh-----
Q 015607 211 PPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSVQPYL----- 285 (403)
Q Consensus 211 ~p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~~~~l----- 285 (403)
.|.| +++...|+.|+.+|+.++.|||||+.||.++|+.|+.++..+- +......|||..||.....+..-.
T Consensus 408 ~~r~--~~k~~~c~~c~e~~~s~t~~R~~~k~~~~vlc~~cs~~~~~l~--~~~s~ssrv~~~~~~~~~~a~~s~~~rr~ 483 (623)
T KOG4424|consen 408 APRR--DNKVTSCDSCEETFNSITFRRHRCKAKGAVLCDKCSDFMAKLS--YDNSRSSRVCMDRYLTPSGAPGSPPKRRQ 483 (623)
T ss_pred Cccc--ccccccchhhcCchhhHHHhhhhhhhccceeeccccchhhhhc--ccccchhhhhhhhccCCCCCCCCchhccc
Confidence 4567 7888999999999999999999999999999999999988773 345778999999998876543221
Q ss_pred ---hhhcccccCCC-------ccCCCccccccceeccCCCCchHHHHHHHHHHhhhhhccCCCCCCCCchhH
Q 015607 286 ---MNQVSHAAQLP-------TRDLTDLSTLRSWVNFPWGQSMEYEIYKAANTIRGYSKVGFLKPEKSIPDI 347 (403)
Q Consensus 286 ---~~~~S~a~q~p-------~~d~sd~~~lr~~lN~P~s~sle~eI~kAa~tL~~f~ki~~~~pe~sIP~~ 347 (403)
....+.+.... ........+...|.+.|...++....+.+.+.+.+-..++..+.+..+|+.
T Consensus 484 ~~l~~~~a~~s~~~~~~s~l~~~~~~~~~g~~a~~~vP~~d~~~~~~Yg~~qDv~a~~~iPl~~~~v~~pe~ 555 (623)
T KOG4424|consen 484 SILEIELATVSKENVICSHLKYMEAAGKTGILAWSVVPKSDPLVDYSYGSPQDVRAQATIPLPGVEVTIPEF 555 (623)
T ss_pred ccccccccccCCCceehhhHHHHhhcCccceeeeeeccCCCCccccccCCccccccccccccCccccCCCcc
Confidence 11111111110 122244567888999999999999999999998888888777777776654
No 15
>KOG1811 consensus Predicted Zn2+-binding protein, contains FYVE domain [General function prediction only]
Probab=97.20 E-value=2.6e-05 Score=83.34 Aligned_cols=65 Identities=28% Similarity=0.664 Sum_probs=50.6
Q ss_pred CCcccCC----CCCCCCCCCc-ccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHh
Q 015607 212 PRWLADS----SASACMLCGV-RFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRL 278 (403)
Q Consensus 212 p~Wvpd~----~~~~C~~C~~-~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L 278 (403)
..|+||. .-.-|+.|.+ .|.-+ .||||||.||...|..|+..+...- .-+...|.++|+.|+..-
T Consensus 314 ~nfq~darrafs~a~~~a~~R~~~kd~-~Rk~~~~g~Ga~e~aa~ea~kgiqE-d~gse~~Adg~Dq~psvs 383 (1141)
T KOG1811|consen 314 HNFQPDARRAFSEAICMACCREHFKDF-NRKHHCRGCGALECAACEAKKGIQE-DCGSENPADGCDQCPSVS 383 (1141)
T ss_pred hhcChhhhhhhhhhHHHHHHHHHHHHH-HHhhhccccchHHHhHHHHhhhhhh-cccccCcccccccccchh
Confidence 3688887 4456886655 56654 7999999999999999998876553 335578999999999653
No 16
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=97.13 E-value=0.00025 Score=82.01 Aligned_cols=48 Identities=35% Similarity=0.949 Sum_probs=38.4
Q ss_pred CCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhc
Q 015607 219 SASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQ 279 (403)
Q Consensus 219 ~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~ 279 (403)
....|..|+ +.+ .|+||||.||++||.+|... . .+..|||..|+....
T Consensus 4 s~~~~~~~~---t~~-~~~~~~~~~g~~~~~~~~~~------~---~~~i~~~~~~~~~~~ 51 (1598)
T KOG0230|consen 4 SSNVCYDCD---TSV-NRRHHCRVCGRVFCSKCQDS------P---ETSIRVCNECRGQWE 51 (1598)
T ss_pred cccchhccc---ccc-ccCCCCcccCceeccccCCC------C---ccceeehhhhhhhcc
Confidence 457788888 443 69999999999999999832 2 237999999998865
No 17
>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=96.96 E-value=0.00049 Score=59.67 Aligned_cols=51 Identities=24% Similarity=0.545 Sum_probs=41.9
Q ss_pred CCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHh
Q 015607 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRL 278 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L 278 (403)
...|..|+++|+++..+.+-|..|+.-||.+|+.+ ....+.-+|..|+...
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--------~~~~~~WlC~vC~k~r 104 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--------SKKEPIWLCKVCQKQR 104 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--------TSSSCCEEEHHHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc--------CCCCCCEEChhhHHHH
Confidence 36899999999998889999999999999999865 1256789999999864
No 18
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=96.20 E-value=0.0018 Score=75.27 Aligned_cols=34 Identities=44% Similarity=1.142 Sum_probs=32.7
Q ss_pred ccCCCCCCCCCCCcccCcccccccccccCCceEcCCC
Q 015607 215 LADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGEC 251 (403)
Q Consensus 215 vpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~C 251 (403)
++|+....|..|...|..+ +|+||| ||+|||.+|
T Consensus 92 m~d~s~~ec~~~~~~~~t~-Rr~~~~--~gqi~~ss~ 125 (1598)
T KOG0230|consen 92 MPDSSSKECYDCEQKFETF-RRKHHC--CGQIFCSSC 125 (1598)
T ss_pred CCccccchhhhhccchhhh-hccccc--CccccCCcc
Confidence 8899999999999999986 899999 999999999
No 19
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=93.79 E-value=0.06 Score=61.58 Aligned_cols=57 Identities=28% Similarity=0.462 Sum_probs=46.9
Q ss_pred CCCCCcccCCCCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhcc
Q 015607 209 AEPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 209 ~~~p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (403)
...+.|++|..+..|+.|.++|.+ +.+||||| |+++ . .+...+..|+|..|+..+.+
T Consensus 646 e~ksVw~aDg~aPng~la~t~~~~-~~e~~hsr--~~ls---------~---~~~s~~~~~~~n~t~s~~rn 702 (1287)
T KOG1841|consen 646 EVKSVWFADGIAPNGELAETRFTF-TGERHHSR--GKLS---------L---LYSSRKEARPCNITHSVLRN 702 (1287)
T ss_pred eecceeccCCcCCCceecccceee-eccccccc--cccc---------c---cccccccCCCCcccCccchh
Confidence 457899999999999999999996 58999999 8877 1 23345678999999987755
No 20
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=92.08 E-value=0.028 Score=56.16 Aligned_cols=66 Identities=26% Similarity=0.434 Sum_probs=50.9
Q ss_pred CCCcccCCCCCCCCCCCcccCcccccccccccCCceEcCCCCC-Ccccccc----cCCCCCccccCcchHhH
Q 015607 211 PPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSK-GRSLLPV----KFRVSDPQRVCDVCCVR 277 (403)
Q Consensus 211 ~p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~-~~~~lP~----~~~~~~pvRVC~~C~~~ 277 (403)
.+.|+-+.++..|..|...|.+ +.|+|||+.||+++|..|+. .....+. .+-.....+.|..|+..
T Consensus 11 ~~~~~~~~e~~s~~~~~~e~~~-~~r~~~~~~~grv~~~q~~~~k~~rk~~q~r~~~l~~D~~~~~~~~~~~ 81 (288)
T KOG1729|consen 11 MVDWQANSEANSCRNCKVEFCF-GRRGHPCRECGRVLCRQGTLVKRCRKKLQSRSFFLFNDILVYGNIVSDN 81 (288)
T ss_pred hHHHHHhccchhhhhhcccchh-hhccCcccccchhhhhhhhhHHHHhcccccccccccccchhhcccccCH
Confidence 4578899999999999999996 57999999999999999987 2222111 11234677889999876
No 21
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=86.41 E-value=0.51 Score=40.71 Aligned_cols=33 Identities=27% Similarity=0.588 Sum_probs=25.4
Q ss_pred CCcccCCCCCCCCCCCcccCcccccccccccCCceE
Q 015607 212 PRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (403)
Q Consensus 212 p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~vf 247 (403)
|.|--. ..|+.|+++|-=|.++--+|..||..|
T Consensus 4 pelGtK---R~Cp~CG~kFYDLnk~PivCP~CG~~~ 36 (108)
T PF09538_consen 4 PELGTK---RTCPSCGAKFYDLNKDPIVCPKCGTEF 36 (108)
T ss_pred cccCCc---ccCCCCcchhccCCCCCccCCCCCCcc
Confidence 445433 789999999998776667788888876
No 22
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=86.26 E-value=0.61 Score=40.56 Aligned_cols=41 Identities=22% Similarity=0.461 Sum_probs=30.2
Q ss_pred cccCCCCCCCCCCCcccCcc---------cccccccccCCceEcCCCCCC
Q 015607 214 WLADSSASACMLCGVRFHPI---------MCSRHHCRFCGGIFCGECSKG 254 (403)
Q Consensus 214 Wvpd~~~~~C~~C~~~F~~~---------~~RrHHCR~CG~vfC~~CS~~ 254 (403)
|........|..|+++|... ...|+.|..|.++||-+|=.+
T Consensus 49 ~~~~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~f 98 (112)
T TIGR00622 49 LEEYNGSRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVF 98 (112)
T ss_pred ccccCCCCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchh
Confidence 43333446799999999731 235788999999999999643
No 23
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=84.69 E-value=0.47 Score=43.40 Aligned_cols=25 Identities=36% Similarity=0.761 Sum_probs=19.6
Q ss_pred CCCCCCcccC------------cccccccccccCCceE
Q 015607 222 ACMLCGVRFH------------PIMCSRHHCRFCGGIF 247 (403)
Q Consensus 222 ~C~~C~~~F~------------~~~~RrHHCR~CG~vf 247 (403)
.|+.|+.+++ .+ +|+++|++||.-|
T Consensus 2 ~cp~c~~~~~~~~~s~~~~~~~~~-~~~~~c~~c~~~f 38 (154)
T PRK00464 2 RCPFCGHPDTRVIDSRPAEDGNAI-RRRRECLACGKRF 38 (154)
T ss_pred cCCCCCCCCCEeEeccccCCCCce-eeeeeccccCCcc
Confidence 5999998883 23 5679999999876
No 24
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=83.73 E-value=0.76 Score=40.78 Aligned_cols=27 Identities=19% Similarity=0.325 Sum_probs=23.5
Q ss_pred CCCCCCCcccCcccccccccccCCceE
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGIF 247 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~vf 247 (403)
..|+.|+++|--|.++.-+|..||..+
T Consensus 10 r~Cp~cg~kFYDLnk~p~vcP~cg~~~ 36 (129)
T TIGR02300 10 RICPNTGSKFYDLNRRPAVSPYTGEQF 36 (129)
T ss_pred ccCCCcCccccccCCCCccCCCcCCcc
Confidence 789999999998877888899998875
No 25
>KOG0993 consensus Rab5 GTPase effector Rabaptin-5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=80.45 E-value=0.056 Score=56.06 Aligned_cols=66 Identities=26% Similarity=0.541 Sum_probs=53.4
Q ss_pred CCcccCCCCCCCCCCCcccCccccccccccc--CCceEcCCCCCCcccccccCCCCCccccCcchHhHhccc
Q 015607 212 PRWLADSSASACMLCGVRFHPIMCSRHHCRF--CGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSV 281 (403)
Q Consensus 212 p~Wvpd~~~~~C~~C~~~F~~~~~RrHHCR~--CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~ 281 (403)
-.|.=+.++..|..|-.+|..+ +-.-||-+ |+++||-.|++- .+|. .-...|..||.-|+..+.+-
T Consensus 460 le~ql~~~ve~c~~~~aS~~sl-k~e~erl~qq~eqi~~~~~~Ka--tvp~-l~~e~~akv~rlq~eL~~se 527 (542)
T KOG0993|consen 460 LEWQLDDDVEQCSNCDASFASL-KVEPERLHQQCEQIFCMNCLKA--TVPS-LPNERPAKVCRLQHELLNSE 527 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-hccHHHHHHHHHHHHHHhHHHh--hccc-ccccchHHHHHHHHHHhhhc
Confidence 4677778889999999999976 66778877 999999999875 4553 34578999999999987653
No 26
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=80.26 E-value=0.32 Score=36.60 Aligned_cols=31 Identities=32% Similarity=0.674 Sum_probs=19.2
Q ss_pred CCCCCCcccCccc-----ccccccccCCceEcCCCC
Q 015607 222 ACMLCGVRFHPIM-----CSRHHCRFCGGIFCGECS 252 (403)
Q Consensus 222 ~C~~C~~~F~~~~-----~RrHHCR~CG~vfC~~CS 252 (403)
.|..|.++|.... ..++.|..|+++||-+|=
T Consensus 1 ~CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD 36 (51)
T PF07975_consen 1 YCFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCD 36 (51)
T ss_dssp EETTTTEE-TTS-------EEE--TTTT--B-HHHH
T ss_pred CCccCCCCCCCcccccccCCeEECCCCCCccccCcC
Confidence 4889999998531 258999999999999994
No 27
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.35 E-value=0.35 Score=45.23 Aligned_cols=49 Identities=20% Similarity=0.530 Sum_probs=34.9
Q ss_pred CCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhcc
Q 015607 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (403)
.-.|.+|=.+|+- +-----.||+|||..|...- .+..++|-.|..+|+.
T Consensus 131 ~~~CPiCl~~~se---k~~vsTkCGHvFC~~Cik~a---------lk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 131 TYKCPICLDSVSE---KVPVSTKCGHVFCSQCIKDA---------LKNTNKCPTCRKKITH 179 (187)
T ss_pred ccCCCceecchhh---ccccccccchhHHHHHHHHH---------HHhCCCCCCcccccch
Confidence 3678888777662 22234689999999997542 2357899999987764
No 28
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.35 E-value=0.38 Score=48.16 Aligned_cols=51 Identities=31% Similarity=0.640 Sum_probs=41.4
Q ss_pred CCCCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHh
Q 015607 217 DSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRL 278 (403)
Q Consensus 217 d~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L 278 (403)
.....+|..|+..|.- +.+||-|--|-+-||..||. +. ...|.|..|...-
T Consensus 41 ~~~~p~ckacg~~f~~-~~~k~~c~dckk~fc~tcs~--v~--------~~lr~c~~c~r~~ 91 (350)
T KOG4275|consen 41 SSQAPHCKACGEEFED-AQSKSDCEDCKKEFCATCSR--VS--------ISLRTCTSCRRVN 91 (350)
T ss_pred ccccchhhhhchhHhh-hhhhhhhhhhhHHHHHHHHH--hc--------ccchhhhHHHHHH
Confidence 4556799999999997 48999999999999999992 22 2468899998653
No 29
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=75.16 E-value=0.86 Score=46.80 Aligned_cols=36 Identities=25% Similarity=0.619 Sum_probs=26.9
Q ss_pred cCCCCCcccCCCCC-----CCCCCCcccCcccccccccccCCce
Q 015607 208 DAEPPRWLADSSAS-----ACMLCGVRFHPIMCSRHHCRFCGGI 246 (403)
Q Consensus 208 ~~~~p~Wvpd~~~~-----~C~~C~~~F~~~~~RrHHCR~CG~v 246 (403)
...|+.|.|....+ .|..|+. |-. -|-||||.|.+.
T Consensus 74 G~vp~~wkPe~~~D~~~lqfCk~Cqg-YKa--pRSHHCrkCnrC 114 (414)
T KOG1314|consen 74 GFVPLGWKPENPKDEMFLQFCKKCQG-YKA--PRSHHCRKCNRC 114 (414)
T ss_pred CCCCCCCCCCCChhHHHHHHHhhccC-cCC--CccccchHHHHH
Confidence 34678899866554 6889987 553 699999998764
No 30
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=70.23 E-value=0.59 Score=51.84 Aligned_cols=44 Identities=34% Similarity=0.803 Sum_probs=32.9
Q ss_pred CCCCCCCCCcccC--cccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhH
Q 015607 219 SASACMLCGVRFH--PIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVR 277 (403)
Q Consensus 219 ~~~~C~~C~~~F~--~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~ 277 (403)
..-.|..|+..+- .| -.||++||..|...+. ...+|-|..|-.-
T Consensus 642 ~~LkCs~Cn~R~Kd~vI-------~kC~H~FC~~Cvq~r~--------etRqRKCP~Cn~a 687 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVI-------TKCGHVFCEECVQTRY--------ETRQRKCPKCNAA 687 (698)
T ss_pred hceeCCCccCchhhHHH-------HhcchHHHHHHHHHHH--------HHhcCCCCCCCCC
Confidence 3467999997654 22 3799999999987653 3468999999753
No 31
>PRK00420 hypothetical protein; Validated
Probab=69.65 E-value=3.4 Score=36.01 Aligned_cols=25 Identities=20% Similarity=0.541 Sum_probs=15.5
Q ss_pred CCCCCCCcccCcccccccccccCCc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGG 245 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~ 245 (403)
.+|+.|+.+|.-+...+.-|..||.
T Consensus 24 ~~CP~Cg~pLf~lk~g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFELKDGEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceecCCCceECCCCCC
Confidence 6899999988743333334444444
No 32
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=67.99 E-value=1.1 Score=43.13 Aligned_cols=33 Identities=36% Similarity=0.839 Sum_probs=21.7
Q ss_pred CCCCCCCCCCCcccCc---c--------cccccccccCCceEcC
Q 015607 217 DSSASACMLCGVRFHP---I--------MCSRHHCRFCGGIFCG 249 (403)
Q Consensus 217 d~~~~~C~~C~~~F~~---~--------~~RrHHCR~CG~vfC~ 249 (403)
|...-.|..|++.|++ + -.+||-|+.||+-|=+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfnd 157 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFND 157 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccc
Confidence 3455778888888873 0 1246778888877644
No 33
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=67.78 E-value=3.5 Score=28.59 Aligned_cols=26 Identities=23% Similarity=0.662 Sum_probs=18.0
Q ss_pred CCCCCCcccCcc------cccccccccCCceE
Q 015607 222 ACMLCGVRFHPI------MCSRHHCRFCGGIF 247 (403)
Q Consensus 222 ~C~~C~~~F~~~------~~RrHHCR~CG~vf 247 (403)
.|..|++.|..= ..++-.|.+||++|
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 588899988731 13456788888775
No 34
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=67.70 E-value=3.5 Score=29.11 Aligned_cols=26 Identities=38% Similarity=1.100 Sum_probs=19.6
Q ss_pred CCCCCcccCcccccccccccCCceEcCCC
Q 015607 223 CMLCGVRFHPIMCSRHHCRFCGGIFCGEC 251 (403)
Q Consensus 223 C~~C~~~F~~~~~RrHHCR~CG~vfC~~C 251 (403)
|..|++.-.+ -...|+.|+++||.+.
T Consensus 1 C~~C~~~~~l---~~f~C~~C~~~FC~~H 26 (39)
T smart00154 1 CHFCRKKVGL---TGFKCRHCGNLFCGEH 26 (39)
T ss_pred CcccCCcccc---cCeECCccCCcccccc
Confidence 6678886553 1578999999998754
No 35
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=65.93 E-value=6.1 Score=29.34 Aligned_cols=34 Identities=24% Similarity=0.468 Sum_probs=20.3
Q ss_pred CCCCC--CCcccCcccccc---cccccCCceEcCCCCCC
Q 015607 221 SACML--CGVRFHPIMCSR---HHCRFCGGIFCGECSKG 254 (403)
Q Consensus 221 ~~C~~--C~~~F~~~~~Rr---HHCR~CG~vfC~~CS~~ 254 (403)
..|.. |+..|..-.... -.|..||..||..|...
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~ 57 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEP 57 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSE
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcc
Confidence 57866 998776422122 57999999999999753
No 36
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=65.48 E-value=4.1 Score=28.31 Aligned_cols=27 Identities=30% Similarity=0.654 Sum_probs=18.5
Q ss_pred CCCCCCCcccCcc------cccccccccCCceE
Q 015607 221 SACMLCGVRFHPI------MCSRHHCRFCGGIF 247 (403)
Q Consensus 221 ~~C~~C~~~F~~~------~~RrHHCR~CG~vf 247 (403)
..|..|+..|.+- ..++..|-.||.+|
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 3688999988731 13466777777776
No 37
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=63.57 E-value=5.4 Score=29.74 Aligned_cols=27 Identities=33% Similarity=0.599 Sum_probs=19.1
Q ss_pred CCCCCCCcccCcccccccccccCCceE
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGIF 247 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~vf 247 (403)
..|+.|+..|-.....+++|..||...
T Consensus 21 ~fCP~Cg~~~m~~~~~r~~C~~Cgyt~ 47 (50)
T PRK00432 21 KFCPRCGSGFMAEHLDRWHCGKCGYTE 47 (50)
T ss_pred CcCcCCCcchheccCCcEECCCcCCEE
Confidence 579999886443345678888888764
No 38
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=60.99 E-value=2.1 Score=30.46 Aligned_cols=32 Identities=31% Similarity=0.710 Sum_probs=23.9
Q ss_pred CCCCCCcccCcccccccccccCCceEcCCCCCCc
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGR 255 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~ 255 (403)
.|..|...|+. .++-.=-.||++||..|....
T Consensus 1 ~C~~C~~~~~~--~~~~~l~~CgH~~C~~C~~~~ 32 (44)
T PF14634_consen 1 HCNICFEKYSE--ERRPRLTSCGHIFCEKCLKKL 32 (44)
T ss_pred CCcCcCccccC--CCCeEEcccCCHHHHHHHHhh
Confidence 48888888842 344555689999999998654
No 39
>PF12773 DZR: Double zinc ribbon
Probab=60.91 E-value=6.3 Score=28.50 Aligned_cols=27 Identities=33% Similarity=0.679 Sum_probs=16.8
Q ss_pred CCCCCCCCCcccCcccccccccccCCc
Q 015607 219 SASACMLCGVRFHPIMCSRHHCRFCGG 245 (403)
Q Consensus 219 ~~~~C~~C~~~F~~~~~RrHHCR~CG~ 245 (403)
++..|..|+.++.........|..||.
T Consensus 11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~ 37 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPPDQSKKICPNCGA 37 (50)
T ss_pred cccCChhhcCChhhccCCCCCCcCCcC
Confidence 457788888877621234556777765
No 40
>PHA02768 hypothetical protein; Provisional
Probab=59.19 E-value=5.3 Score=30.57 Aligned_cols=27 Identities=19% Similarity=0.336 Sum_probs=18.0
Q ss_pred CCCCCCCcccCccc-----c----cccccccCCceE
Q 015607 221 SACMLCGVRFHPIM-----C----SRHHCRFCGGIF 247 (403)
Q Consensus 221 ~~C~~C~~~F~~~~-----~----RrHHCR~CG~vf 247 (403)
-.|..|++.|+... . +.+.|-.||++|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f 41 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRIS 41 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcCCcccCCccccee
Confidence 36999999998310 1 244577777766
No 41
>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=56.39 E-value=10 Score=29.26 Aligned_cols=29 Identities=24% Similarity=0.448 Sum_probs=22.0
Q ss_pred CCCCCCCCCcccCc-ccccccccccCCceE
Q 015607 219 SASACMLCGVRFHP-IMCSRHHCRFCGGIF 247 (403)
Q Consensus 219 ~~~~C~~C~~~F~~-~~~RrHHCR~CG~vf 247 (403)
.+..|..|+..-.. ...|.++|..||..+
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEM 56 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEE
Confidence 34789999986553 346889999999874
No 42
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=56.28 E-value=5 Score=40.76 Aligned_cols=40 Identities=23% Similarity=0.684 Sum_probs=31.1
Q ss_pred cccCCCCCCCCCCCcccC---------cccccccccccCCceEcCCCCC
Q 015607 214 WLADSSASACMLCGVRFH---------PIMCSRHHCRFCGGIFCGECSK 253 (403)
Q Consensus 214 Wvpd~~~~~C~~C~~~F~---------~~~~RrHHCR~CG~vfC~~CS~ 253 (403)
|-..-....|..|+.+|- .....|+.|..|-.-||.+|-.
T Consensus 356 ~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdv 404 (421)
T COG5151 356 EGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDV 404 (421)
T ss_pred CCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHH
Confidence 545555678999999886 2235789999999999999953
No 43
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=55.28 E-value=8 Score=27.83 Aligned_cols=25 Identities=24% Similarity=0.498 Sum_probs=16.7
Q ss_pred CCCCCCCcccCccccc--ccccccCCce
Q 015607 221 SACMLCGVRFHPIMCS--RHHCRFCGGI 246 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~R--rHHCR~CG~v 246 (403)
-.|..|+..|..- .. ..+|..||.-
T Consensus 4 y~C~~CG~~~~~~-~~~~~~~Cp~CG~~ 30 (46)
T PRK00398 4 YKCARCGREVELD-EYGTGVRCPYCGYR 30 (46)
T ss_pred EECCCCCCEEEEC-CCCCceECCCCCCe
Confidence 3688999988742 22 4677777763
No 44
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.03 E-value=4.2 Score=43.66 Aligned_cols=51 Identities=22% Similarity=0.417 Sum_probs=38.1
Q ss_pred CCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhcc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (403)
..|.+|-.++.+ -.|- +||+|||..|.-+....+ ..+.-+-|.-|+..+..
T Consensus 187 ~~CPICL~~~~~-p~~t----~CGHiFC~~CiLqy~~~s----~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 187 MQCPICLEPPSV-PVRT----NCGHIFCGPCILQYWNYS----AIKGPCSCPICRSTITL 237 (513)
T ss_pred CcCCcccCCCCc-cccc----ccCceeeHHHHHHHHhhh----cccCCccCCchhhhccc
Confidence 689999988774 2232 499999999986665554 24566889999998865
No 45
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 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 DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=54.81 E-value=7.4 Score=34.80 Aligned_cols=28 Identities=25% Similarity=0.592 Sum_probs=20.5
Q ss_pred CCCCCCCCCCCcccCcccccccccccCCceE
Q 015607 217 DSSASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (403)
Q Consensus 217 d~~~~~C~~C~~~F~~~~~RrHHCR~CG~vf 247 (403)
......|..|...=. .|-|||+.|++.+
T Consensus 45 ~~~~~~C~~C~~~kp---~Rs~HC~~C~~CV 72 (174)
T PF01529_consen 45 NGELKYCSTCKIIKP---PRSHHCRVCNRCV 72 (174)
T ss_pred CCCCEECcccCCcCC---Ccceecccccccc
Confidence 345578999987532 4899999998753
No 46
>PRK04023 DNA polymerase II large subunit; Validated
Probab=53.39 E-value=14 Score=42.92 Aligned_cols=97 Identities=14% Similarity=0.358 Sum_probs=54.7
Q ss_pred CCCCCCCCCcccCcccccccccccCCce-----EcCCCCCCcccccccCCCCCccccCcchHhHhcccc-------hhhh
Q 015607 219 SASACMLCGVRFHPIMCSRHHCRFCGGI-----FCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSVQ-------PYLM 286 (403)
Q Consensus 219 ~~~~C~~C~~~F~~~~~RrHHCR~CG~v-----fC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~~-------~~l~ 286 (403)
....|..|+.... ...|..||.. ||..|-... ..-.|..|-..+...+ .++.
T Consensus 625 g~RfCpsCG~~t~-----~frCP~CG~~Te~i~fCP~CG~~~-----------~~y~CPKCG~El~~~s~~~i~l~~~~~ 688 (1121)
T PRK04023 625 GRRKCPSCGKETF-----YRRCPFCGTHTEPVYRCPRCGIEV-----------EEDECEKCGREPTPYSKRKIDLKELYD 688 (1121)
T ss_pred cCccCCCCCCcCC-----cccCCCCCCCCCcceeCccccCcC-----------CCCcCCCCCCCCCccceEEecHHHHHH
Confidence 4578999999743 2589999964 999994321 1134999988776432 2233
Q ss_pred hhcccccCCCccCCCccccccceecc-CCCCchHHHHHHHHHHhhhhh
Q 015607 287 NQVSHAAQLPTRDLTDLSTLRSWVNF-PWGQSMEYEIYKAANTIRGYS 333 (403)
Q Consensus 287 ~~~S~a~q~p~~d~sd~~~lr~~lN~-P~s~sle~eI~kAa~tL~~f~ 333 (403)
....+...... ....-.+....+. -..+++++=|-+|.+.+-.|.
T Consensus 689 ~A~~~lg~~~~--~~~~KGVkgl~S~~k~~EPlEKGiLRAk~~v~vFK 734 (1121)
T PRK04023 689 RALENLGERKN--FDEVKGVKGLTSKDKIPEPLEKGILRAKHDVYVFK 734 (1121)
T ss_pred HHHHHhCCcCC--ccccccceecccCCCCCcchHhhhhhhhcCeeEec
Confidence 32222211111 1223333333332 256777777777777655553
No 47
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=53.05 E-value=13 Score=27.58 Aligned_cols=34 Identities=29% Similarity=0.599 Sum_probs=24.1
Q ss_pred CCCC--CCCcccCcc---cccccccccCCceEcCCCCCC
Q 015607 221 SACM--LCGVRFHPI---MCSRHHCRFCGGIFCGECSKG 254 (403)
Q Consensus 221 ~~C~--~C~~~F~~~---~~RrHHCR~CG~vfC~~CS~~ 254 (403)
..|. .|+...... ...+-.|..||..||..|...
T Consensus 19 ~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~ 57 (64)
T smart00647 19 KWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVP 57 (64)
T ss_pred cCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCc
Confidence 4566 776654432 345678999999999999754
No 48
>COG3874 Uncharacterized conserved protein [Function unknown]
Probab=50.75 E-value=29 Score=31.12 Aligned_cols=49 Identities=22% Similarity=0.344 Sum_probs=33.2
Q ss_pred HHHHHHHHHHhhhhhccCCCCCCCCchhHHhhhcceeEEEEEEeeceeEEEEeeeE
Q 015607 319 EYEIYKAANTIRGYSKVGFLKPEKSIPDIILRQAKGLAILSVAKVGVMVTYNIGTG 374 (403)
Q Consensus 319 e~eI~kAa~tL~~f~ki~~~~pe~sIP~~lL~~AkGlai~~v~K~g~~~gg~~G~G 374 (403)
+.-+.-+..-|+.|..+.+.--+ | +. +-|-.|+||.|+||.||+.+|.|
T Consensus 7 ee~mkt~~e~Lk~m~dv~TiVGd---P---Ie-~dgs~iiPvsKv~fGFgaGGgEg 55 (138)
T COG3874 7 EELMKTTMENLKKMLDVNTIVGD---P---IE-PDGSTIIPVSKVGFGFGAGGGEG 55 (138)
T ss_pred hHHHHHHHHHHHHHhhhcccccC---c---cc-CCCcEEEEEEEEeeeeccCCccc
Confidence 44455566667776653321111 1 23 67889999999999999999998
No 49
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=50.60 E-value=10 Score=28.79 Aligned_cols=25 Identities=32% Similarity=0.721 Sum_probs=16.7
Q ss_pred ccCCCCCCCCCCCcccCcccccccc-cccCC
Q 015607 215 LADSSASACMLCGVRFHPIMCSRHH-CRFCG 244 (403)
Q Consensus 215 vpd~~~~~C~~C~~~F~~~~~RrHH-CR~CG 244 (403)
+.......|..|+. + .+.|| |..||
T Consensus 21 l~~p~l~~C~~cG~----~-~~~H~vc~~cG 46 (55)
T TIGR01031 21 LTAPTLVVCPNCGE----F-KLPHRVCPSCG 46 (55)
T ss_pred ccCCcceECCCCCC----c-ccCeeECCccC
Confidence 44445577999998 2 35566 77877
No 50
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=49.75 E-value=11 Score=38.24 Aligned_cols=60 Identities=20% Similarity=0.487 Sum_probs=37.7
Q ss_pred CCCCCCCcc--cCcc------cccccccccCC------ceEcCCCCCCcccccc-cCCC---CCccccCcchHhHhccc
Q 015607 221 SACMLCGVR--FHPI------MCSRHHCRFCG------GIFCGECSKGRSLLPV-KFRV---SDPQRVCDVCCVRLQSV 281 (403)
Q Consensus 221 ~~C~~C~~~--F~~~------~~RrHHCR~CG------~vfC~~CS~~~~~lP~-~~~~---~~pvRVC~~C~~~L~~~ 281 (403)
..|..|+.. .+.+ +.|.-||-.|+ ++-|..|-+.+ .+-. .... ...+-+|+.|..-++.+
T Consensus 188 ~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~~-~l~y~~~~~~~~~~r~e~C~~C~~YlK~~ 265 (309)
T PRK03564 188 QFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQSG-KLHYWSLDSEQAAVKAESCGDCGTYLKIL 265 (309)
T ss_pred CCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCCCC-ceeeeeecCCCcceEeeecccccccceec
Confidence 689999975 2211 35778999998 46788887643 1210 0111 12345899999877654
No 51
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=49.47 E-value=4.6 Score=40.49 Aligned_cols=47 Identities=28% Similarity=0.580 Sum_probs=30.4
Q ss_pred CCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhcc
Q 015607 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (403)
...|..|=. .++---|-.||++||+.|-..+.. .++. |.-|-...+.
T Consensus 239 ~~kC~LCLe-----~~~~pSaTpCGHiFCWsCI~~w~~-------ek~e--CPlCR~~~~p 285 (293)
T KOG0317|consen 239 TRKCSLCLE-----NRSNPSATPCGHIFCWSCILEWCS-------EKAE--CPLCREKFQP 285 (293)
T ss_pred CCceEEEec-----CCCCCCcCcCcchHHHHHHHHHHc-------cccC--CCcccccCCC
Confidence 367888854 223344999999999999754432 1222 8888776554
No 52
>PF06577 DUF1134: Protein of unknown function (DUF1134); InterPro: IPR008325 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=49.28 E-value=13 Score=34.20 Aligned_cols=30 Identities=23% Similarity=0.417 Sum_probs=23.6
Q ss_pred EEeeceeEEEEeeeEEEEEEcCCC---CcCCCc
Q 015607 360 VAKVGVMVTYNIGTGLVIARRNDG---SWSPPS 389 (403)
Q Consensus 360 v~K~g~~~gg~~G~G~~~~r~~~G---~WS~P~ 389 (403)
=.-++|++|.+||+|.|..|+..- -|.+||
T Consensus 45 E~sGA~~~GlrYGeG~L~~k~~g~~~vyWqGPS 77 (160)
T PF06577_consen 45 EASGAFVVGLRYGEGTLYTKNAGQHKVYWQGPS 77 (160)
T ss_pred eccccEEEEEEecccEEEEcCCCeeEEEEeCCc
Confidence 345678999999999999997642 377776
No 53
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=47.91 E-value=8.3 Score=39.12 Aligned_cols=28 Identities=25% Similarity=0.555 Sum_probs=18.8
Q ss_pred ccCCCCCCCCCCCcccCcccccccccccCCc
Q 015607 215 LADSSASACMLCGVRFHPIMCSRHHCRFCGG 245 (403)
Q Consensus 215 vpd~~~~~C~~C~~~F~~~~~RrHHCR~CG~ 245 (403)
.++.....|..|+.- - -.|-|||+.|++
T Consensus 104 ~~~g~~R~C~kC~~i-K--PdRaHHCsvC~r 131 (307)
T KOG1315|consen 104 TSDGAVRYCDKCKCI-K--PDRAHHCSVCNR 131 (307)
T ss_pred cCCCCceeecccccc-c--CCccccchhhhh
Confidence 345566778888872 2 258899988843
No 54
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=47.64 E-value=5.6 Score=40.35 Aligned_cols=49 Identities=20% Similarity=0.448 Sum_probs=30.2
Q ss_pred CCCCCCCcc--cCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhc
Q 015607 221 SACMLCGVR--FHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQ 279 (403)
Q Consensus 221 ~~C~~C~~~--F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~ 279 (403)
..|+.|... ++.-.+=-.+ .||+.||..|....... +...|..|...+.
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~--~CGH~~C~sCv~~l~~~--------~~~~CP~C~~~lr 54 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVN--VCGHTLCESCVDLLFVR--------GSGSCPECDTPLR 54 (309)
T ss_pred CCCCcCCCCCccCcccccccC--CCCCcccHHHHHHHhcC--------CCCCCCCCCCccc
Confidence 579999984 4421101233 79999999998764221 1236888866553
No 55
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=47.21 E-value=13 Score=25.25 Aligned_cols=24 Identities=25% Similarity=0.502 Sum_probs=14.8
Q ss_pred CCCCCCcccCcccccccccccCCc
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCGG 245 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG~ 245 (403)
.|..|+..|.+-..-.-.|+.||.
T Consensus 2 ~C~~Cg~~~~~~~~~~irC~~CG~ 25 (32)
T PF03604_consen 2 ICGECGAEVELKPGDPIRCPECGH 25 (32)
T ss_dssp BESSSSSSE-BSTSSTSSBSSSS-
T ss_pred CCCcCCCeeEcCCCCcEECCcCCC
Confidence 377888888843333457888875
No 56
>PF15616 TerY-C: TerY-C metal binding domain
Probab=46.39 E-value=12 Score=33.48 Aligned_cols=23 Identities=35% Similarity=0.917 Sum_probs=19.4
Q ss_pred CCCCCCCcccCcccccccccccCCceEcC
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGIFCG 249 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~vfC~ 249 (403)
..|+.|+..|.+. -| .||+++|-
T Consensus 78 PgCP~CGn~~~fa-----~C-~CGkl~Ci 100 (131)
T PF15616_consen 78 PGCPHCGNQYAFA-----VC-GCGKLFCI 100 (131)
T ss_pred CCCCCCcChhcEE-----Ee-cCCCEEEe
Confidence 6899999998864 37 79999996
No 57
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=45.11 E-value=12 Score=27.83 Aligned_cols=22 Identities=36% Similarity=0.771 Sum_probs=18.1
Q ss_pred CCCCCCCcccCcccccccccccCCc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGG 245 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~ 245 (403)
..|+.|...-. .|-..||.||.
T Consensus 15 ~ICrkC~ARnp---~~A~~CRKCg~ 36 (48)
T PRK04136 15 KICMRCNARNP---WRATKCRKCGY 36 (48)
T ss_pred cchhcccCCCC---ccccccccCCC
Confidence 57999999766 38899999885
No 58
>COG1773 Rubredoxin [Energy production and conversion]
Probab=44.27 E-value=21 Score=27.42 Aligned_cols=41 Identities=27% Similarity=0.490 Sum_probs=22.7
Q ss_pred cccccccCCceEcCCCCCCcccccc--cCCCCCccccCcchHh
Q 015607 236 SRHHCRFCGGIFCGECSKGRSLLPV--KFRVSDPQRVCDVCCV 276 (403)
Q Consensus 236 RrHHCR~CG~vfC~~CS~~~~~lP~--~~~~~~pvRVC~~C~~ 276 (403)
+++.|+.||.|+=..=-.....++. .|.....-.+|..|-.
T Consensus 2 ~~~~C~~CG~vYd~e~Gdp~~gi~pgT~fedlPd~w~CP~Cg~ 44 (55)
T COG1773 2 KRWRCSVCGYVYDPEKGDPRCGIAPGTPFEDLPDDWVCPECGV 44 (55)
T ss_pred CceEecCCceEeccccCCccCCCCCCCchhhCCCccCCCCCCC
Confidence 5789999999974432222222222 1122234577887763
No 59
>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=44.08 E-value=11 Score=29.31 Aligned_cols=30 Identities=27% Similarity=0.671 Sum_probs=20.8
Q ss_pred ccccccCCceEcCCCCCCcccccccCCCCCccccC-cchHhHhcccch
Q 015607 237 RHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVC-DVCCVRLQSVQP 283 (403)
Q Consensus 237 rHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC-~~C~~~L~~~~~ 283 (403)
..||..||.. +|. ..+.| +.|-+.+...++
T Consensus 3 HkHC~~CG~~-----------Ip~------~~~fCS~~C~~~~~k~qk 33 (59)
T PF09889_consen 3 HKHCPVCGKP-----------IPP------DESFCSPKCREEYRKRQK 33 (59)
T ss_pred CCcCCcCCCc-----------CCc------chhhhCHHHHHHHHHHHH
Confidence 4689999873 442 37889 589888765443
No 60
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=43.78 E-value=14 Score=26.75 Aligned_cols=23 Identities=30% Similarity=0.534 Sum_probs=13.9
Q ss_pred CCCCCCcccCcccccccccccCC
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCG 244 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG 244 (403)
.|..|+..|..-..-.-.|+.||
T Consensus 4 ~C~~Cg~~~~~~~~~~irC~~CG 26 (44)
T smart00659 4 ICGECGRENEIKSKDVVRCRECG 26 (44)
T ss_pred ECCCCCCEeecCCCCceECCCCC
Confidence 48889999885322234455554
No 61
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=43.16 E-value=12 Score=35.43 Aligned_cols=43 Identities=21% Similarity=0.460 Sum_probs=33.7
Q ss_pred cccccCCceEcCCCCCC-ccccccc---CCCCCccccCcchHhHhcc
Q 015607 238 HHCRFCGGIFCGECSKG-RSLLPVK---FRVSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 238 HHCR~CG~vfC~~CS~~-~~~lP~~---~~~~~pvRVC~~C~~~L~~ 280 (403)
+.|...|+.||..|-.+ ...||.+ ...-++..||+..+..|..
T Consensus 1 R~C~Y~G~yyC~~CH~~~~~vIParil~~WDf~~~pVs~~a~~~L~~ 47 (202)
T PF13901_consen 1 RFCDYTGKYYCSSCHWNDTSVIPARILHNWDFRPYPVSRFAKQFLDQ 47 (202)
T ss_pred CccCCCCCcCCCCCCCCCceeccHHHHHhcCCCccHHHHHHHHHHHH
Confidence 35999999999999877 4667752 2345788999999999865
No 62
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=42.57 E-value=14 Score=41.05 Aligned_cols=31 Identities=26% Similarity=0.733 Sum_probs=21.1
Q ss_pred CCCCCCCCCcccCcccccccccccCCce------EcCCCCCC
Q 015607 219 SASACMLCGVRFHPIMCSRHHCRFCGGI------FCGECSKG 254 (403)
Q Consensus 219 ~~~~C~~C~~~F~~~~~RrHHCR~CG~v------fC~~CS~~ 254 (403)
.+..|..|+.++.. ..|..||.. ||..|-..
T Consensus 14 ~akFC~~CG~~l~~-----~~Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 14 NNRFCQKCGTSLTH-----KPCPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CCccccccCCCCCC-----CcCCCCCCCCCcccccccccCCc
Confidence 45678888887652 258888876 77777643
No 63
>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=40.85 E-value=6.1 Score=27.79 Aligned_cols=34 Identities=24% Similarity=0.436 Sum_probs=23.6
Q ss_pred CCCCCCCcccCcccccccccccCCceEcCCCCCCcc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRS 256 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~ 256 (403)
+.|.+|...|.. . ..-.--.||++||.+|....+
T Consensus 1 d~C~IC~~~~~~-~-~~~~~l~C~H~fh~~Ci~~~~ 34 (44)
T PF13639_consen 1 DECPICLEEFED-G-EKVVKLPCGHVFHRSCIKEWL 34 (44)
T ss_dssp -CETTTTCBHHT-T-SCEEEETTSEEEEHHHHHHHH
T ss_pred CCCcCCChhhcC-C-CeEEEccCCCeeCHHHHHHHH
Confidence 369999999964 2 333333499999999976543
No 64
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=40.71 E-value=18 Score=35.71 Aligned_cols=33 Identities=27% Similarity=0.617 Sum_probs=26.1
Q ss_pred ccCCCCCCCCCCCcccCccc------ccccccccCCceE
Q 015607 215 LADSSASACMLCGVRFHPIM------CSRHHCRFCGGIF 247 (403)
Q Consensus 215 vpd~~~~~C~~C~~~F~~~~------~RrHHCR~CG~vf 247 (403)
-.-++++.|..|.++|..+- .-.+||..|++.|
T Consensus 127 p~rKeVSRCr~C~~rYDPVP~dkmwG~aef~C~~C~h~F 165 (278)
T PF15135_consen 127 PQRKEVSRCRKCRKRYDPVPCDKMWGIAEFHCPKCRHNF 165 (278)
T ss_pred CcccccccccccccccCCCccccccceeeeecccccccc
Confidence 44567899999999998642 3368999999987
No 65
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=39.68 E-value=4.7 Score=30.47 Aligned_cols=45 Identities=22% Similarity=0.589 Sum_probs=33.9
Q ss_pred CCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQ 279 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~ 279 (403)
-.|-.|+..|.. .--..|-.||+--|++|-+. .--.|+.|...+.
T Consensus 8 y~CDLCn~~~p~--~~LRQCvlCGRWaC~sCW~d------------eYY~CksC~Gii~ 52 (57)
T PF14445_consen 8 YSCDLCNSSHPI--SELRQCVLCGRWACNSCWQD------------EYYTCKSCNGIIN 52 (57)
T ss_pred HhHHhhcccCcH--HHHHHHhhhchhhhhhhhhh------------hHhHHHhhhchhh
Confidence 468899999984 46678999999999999643 2356777776553
No 66
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=39.65 E-value=17 Score=27.84 Aligned_cols=21 Identities=33% Similarity=0.708 Sum_probs=14.1
Q ss_pred CCCCCCCCCcccCcccccccc-cccCC
Q 015607 219 SASACMLCGVRFHPIMCSRHH-CRFCG 244 (403)
Q Consensus 219 ~~~~C~~C~~~F~~~~~RrHH-CR~CG 244 (403)
....|..|+. + .+.|| |..||
T Consensus 26 ~l~~C~~CG~----~-~~~H~vC~~CG 47 (57)
T PRK12286 26 GLVECPNCGE----P-KLPHRVCPSCG 47 (57)
T ss_pred cceECCCCCC----c-cCCeEECCCCC
Confidence 3467888988 2 45666 77776
No 67
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=39.23 E-value=11 Score=33.85 Aligned_cols=35 Identities=26% Similarity=0.622 Sum_probs=22.0
Q ss_pred cccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhc----ccchhhhhh
Q 015607 238 HHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQ----SVQPYLMNQ 288 (403)
Q Consensus 238 HHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~----~~~~~l~~~ 288 (403)
.+|+.||++|=. ....+|..|+.... .+..||.++
T Consensus 4 ~nC~~CgklF~~----------------~~~~iCp~C~~~~e~~f~kV~~yLr~~ 42 (137)
T TIGR03826 4 ANCPKCGRLFVK----------------TGRDVCPSCYEEEEREFEKVYKFLRKH 42 (137)
T ss_pred ccccccchhhhh----------------cCCccCHHHhHHHHHHHHHHHHHHHHC
Confidence 478888887611 12368999997654 355566543
No 68
>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=38.27 E-value=20 Score=23.20 Aligned_cols=23 Identities=35% Similarity=0.781 Sum_probs=13.6
Q ss_pred CCCCCCcccCcccccccccccCCceE
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCGGIF 247 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG~vf 247 (403)
.|..|++.-.. --.-|.+||..|
T Consensus 2 ~CP~C~~~V~~---~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE---SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh---hcCcCCCCCCCC
Confidence 46677765542 334577777655
No 69
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=38.21 E-value=16 Score=36.25 Aligned_cols=24 Identities=21% Similarity=0.488 Sum_probs=18.7
Q ss_pred CCCCCCCCcccCcccccccccccCCce
Q 015607 220 ASACMLCGVRFHPIMCSRHHCRFCGGI 246 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~~RrHHCR~CG~v 246 (403)
...|..|+.. . -.|-|||+.|+.-
T Consensus 113 ~~~C~~C~~~-r--PpRs~HCsvC~~C 136 (299)
T KOG1311|consen 113 WKYCDTCQLY-R--PPRSSHCSVCNNC 136 (299)
T ss_pred eEEcCcCccc-C--CCCcccchhhccc
Confidence 5789999984 3 3689999998764
No 70
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.10 E-value=21 Score=32.33 Aligned_cols=69 Identities=26% Similarity=0.646 Sum_probs=46.9
Q ss_pred CCCCCCCc-ccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhc---ccchhhhhhcccccCCC
Q 015607 221 SACMLCGV-RFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQ---SVQPYLMNQVSHAAQLP 296 (403)
Q Consensus 221 ~~C~~C~~-~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~---~~~~~l~~~~S~a~q~p 296 (403)
..|.+|.+ +|.- -=-|.|..|.--||..|--. +.+ ..++-.-||..|-...+ ....++...-|+..+.|
T Consensus 66 atC~IC~KTKFAD--G~GH~C~YCq~r~CARCGGr-v~l----rsNKv~wvcnlc~k~q~il~ksg~wf~~sgs~~~~~p 138 (169)
T KOG3799|consen 66 ATCGICHKTKFAD--GCGHNCSYCQTRFCARCGGR-VSL----RSNKVMWVCNLCRKQQEILTKSGAWFYNSGSNTPQQP 138 (169)
T ss_pred cchhhhhhccccc--ccCcccchhhhhHHHhcCCe-eee----ccCceEEeccCCcHHHHHHHhcchHHHhcCCCCCCCc
Confidence 68999987 4542 24589999999999999754 333 34667789999986533 33334445556666655
No 71
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=38.05 E-value=22 Score=34.46 Aligned_cols=26 Identities=23% Similarity=0.579 Sum_probs=20.0
Q ss_pred CCCCCCCCCCcccCcccccccccccCCceE
Q 015607 218 SSASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (403)
Q Consensus 218 ~~~~~C~~C~~~F~~~~~RrHHCR~CG~vf 247 (403)
..+..|..|+. + ..|.+.|..||..+
T Consensus 307 ~tS~~C~~cg~-~---~~r~~~C~~cg~~~ 332 (364)
T COG0675 307 YTSKTCPCCGH-L---SGRLFKCPRCGFVH 332 (364)
T ss_pred CCcccccccCC-c---cceeEECCCCCCee
Confidence 34578999999 2 25888899998875
No 72
>PF14353 CpXC: CpXC protein
Probab=37.33 E-value=18 Score=31.31 Aligned_cols=10 Identities=40% Similarity=1.055 Sum_probs=8.5
Q ss_pred CCCCCCcccC
Q 015607 222 ACMLCGVRFH 231 (403)
Q Consensus 222 ~C~~C~~~F~ 231 (403)
.|..|+..|.
T Consensus 3 tCP~C~~~~~ 12 (128)
T PF14353_consen 3 TCPHCGHEFE 12 (128)
T ss_pred CCCCCCCeeE
Confidence 6899999886
No 73
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=36.90 E-value=11 Score=35.80 Aligned_cols=59 Identities=17% Similarity=0.446 Sum_probs=37.4
Q ss_pred CCCCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccc-------cCCCCCccccCcchHhHhcc
Q 015607 217 DSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPV-------KFRVSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 217 d~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~-------~~~~~~pvRVC~~C~~~L~~ 280 (403)
..+.-.|.+|...+.- . .--.||++||..|-..+..... .+...+....|-.|...+..
T Consensus 15 ~~~~~~CpICld~~~d----P-VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 15 SGGDFDCNICLDQVRD----P-VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCCccCCccCCCcCCC----c-EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 3345789999987652 1 2257999999999865432110 01112345689999988753
No 74
>KOG3795 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.68 E-value=16 Score=34.52 Aligned_cols=22 Identities=41% Similarity=1.004 Sum_probs=17.5
Q ss_pred cCcccccccccccCCc---eEcCCCC
Q 015607 230 FHPIMCSRHHCRFCGG---IFCGECS 252 (403)
Q Consensus 230 F~~~~~RrHHCR~CG~---vfC~~CS 252 (403)
|..+ ..||.|+.||. .||-+|.
T Consensus 9 ~d~i-eGRs~C~~C~~SRkFfCY~C~ 33 (230)
T KOG3795|consen 9 FDPI-EGRSTCPGCKSSRKFFCYDCR 33 (230)
T ss_pred cCcc-cccccCCCCCCcceEEEEeec
Confidence 4555 68999999986 5999997
No 75
>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=36.66 E-value=29 Score=28.31 Aligned_cols=31 Identities=26% Similarity=0.518 Sum_probs=24.0
Q ss_pred CCCCCCCCcccCcccccccccccCCceEcCCCCC
Q 015607 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSK 253 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~ 253 (403)
...|..|+++|.. ....--.||.+|-..|..
T Consensus 78 ~~~C~vC~k~l~~---~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGN---SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCC---ceEEEeCCCeEEeccccc
Confidence 3679999999872 455556788999998874
No 76
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=36.37 E-value=24 Score=35.86 Aligned_cols=60 Identities=20% Similarity=0.481 Sum_probs=37.2
Q ss_pred CCCCCCCccc--Cc-------ccccccccccCC------ceEcCCCCCCcccccc-cCC---CCCccc--cCcchHhHhc
Q 015607 221 SACMLCGVRF--HP-------IMCSRHHCRFCG------GIFCGECSKGRSLLPV-KFR---VSDPQR--VCDVCCVRLQ 279 (403)
Q Consensus 221 ~~C~~C~~~F--~~-------~~~RrHHCR~CG------~vfC~~CS~~~~~lP~-~~~---~~~pvR--VC~~C~~~L~ 279 (403)
..|..|+..= +. -+.|..||-.|+ ++-|..|-+.+ .+-. ... ....+| +|+.|..-++
T Consensus 185 ~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~~-~l~y~~~e~~~~~~~~r~e~C~~C~~YlK 263 (305)
T TIGR01562 185 TLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEESK-HLAYLSLEHDAEKAVLKAETCDSCQGYLK 263 (305)
T ss_pred CcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCCC-ceeeEeecCCCCCcceEEeeccccccchh
Confidence 5899998742 11 134778899998 46788887643 1210 111 123456 9999998776
Q ss_pred cc
Q 015607 280 SV 281 (403)
Q Consensus 280 ~~ 281 (403)
.+
T Consensus 264 ~~ 265 (305)
T TIGR01562 264 IL 265 (305)
T ss_pred hh
Confidence 54
No 77
>KOG3173 consensus Predicted Zn-finger protein [General function prediction only]
Probab=36.17 E-value=19 Score=33.42 Aligned_cols=29 Identities=31% Similarity=0.875 Sum_probs=22.5
Q ss_pred CCCCCCCCCcccCcccccccccccCCceEcCCC
Q 015607 219 SASACMLCGVRFHPIMCSRHHCRFCGGIFCGEC 251 (403)
Q Consensus 219 ~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~C 251 (403)
....|..|++.-.+ + . .||| ||.+||...
T Consensus 104 ~~~rC~~C~kk~gl-t-g-f~Cr-CG~~fC~~H 132 (167)
T KOG3173|consen 104 KKKRCFKCRKKVGL-T-G-FKCR-CGNTFCGTH 132 (167)
T ss_pred cchhhhhhhhhhcc-c-c-cccc-cCCcccccc
Confidence 34569999988885 3 4 9997 899999854
No 78
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=35.82 E-value=18 Score=30.18 Aligned_cols=25 Identities=36% Similarity=0.824 Sum_probs=16.6
Q ss_pred CCCCCCCcccCcc--------cccccccccCCc
Q 015607 221 SACMLCGVRFHPI--------MCSRHHCRFCGG 245 (403)
Q Consensus 221 ~~C~~C~~~F~~~--------~~RrHHCR~CG~ 245 (403)
+.|..|+++.... ..-|.+||.|++
T Consensus 34 S~C~~C~~~L~~~~lIPi~S~l~lrGrCr~C~~ 66 (92)
T PF06750_consen 34 SHCPHCGHPLSWWDLIPILSYLLLRGRCRYCGA 66 (92)
T ss_pred CcCcCCCCcCcccccchHHHHHHhCCCCcccCC
Confidence 6788888876521 124778888865
No 79
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=35.49 E-value=15 Score=29.51 Aligned_cols=54 Identities=20% Similarity=0.500 Sum_probs=24.9
Q ss_pred CCCCCCcccCcccccccccccCCce-----EcCCCCCCcccccccCCCCCccccCcchHhHhc
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCGGI-----FCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQ 279 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG~v-----fC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~ 279 (403)
.|+.|+.+... ...+.||-.|++- +|..|-..-..|-. - ..---.|..|+..++
T Consensus 3 ~CP~C~~~L~~-~~~~~~C~~C~~~~~~~a~CPdC~~~Le~LkA--C-GAvdYFC~~c~gLiS 61 (70)
T PF07191_consen 3 TCPKCQQELEW-QGGHYHCEACQKDYKKEAFCPDCGQPLEVLKA--C-GAVDYFCNHCHGLIS 61 (70)
T ss_dssp B-SSS-SBEEE-ETTEEEETTT--EEEEEEE-TTT-SB-EEEEE--T-TEEEEE-TTTT-EE-
T ss_pred cCCCCCCccEE-eCCEEECccccccceecccCCCcccHHHHHHH--h-cccceeeccCCceee
Confidence 68999998775 3467888888764 56666543322211 0 112345666665544
No 80
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.86 E-value=20 Score=37.80 Aligned_cols=43 Identities=30% Similarity=0.791 Sum_probs=33.4
Q ss_pred CCCcccCCCCCCCCCCCcccCcc-cccccccccCCceEcCCCCCC
Q 015607 211 PPRWLADSSASACMLCGVRFHPI-MCSRHHCRFCGGIFCGECSKG 254 (403)
Q Consensus 211 ~p~Wvpd~~~~~C~~C~~~F~~~-~~RrHHCR~CG~vfC~~CS~~ 254 (403)
...|+.. ....|+.|.....-. +.-|+||-.||.-||.-|+.-
T Consensus 360 sekwl~~-N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~ 403 (445)
T KOG1814|consen 360 SEKWLES-NSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAEL 403 (445)
T ss_pred HHHHHHh-cCCCCCcccceeecCCCccceeeccccccceeehhhh
Confidence 4578864 567999999976532 245899999999999999854
No 81
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.80 E-value=9.7 Score=37.09 Aligned_cols=34 Identities=24% Similarity=0.560 Sum_probs=24.8
Q ss_pred ccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhcc
Q 015607 241 RFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 241 R~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (403)
-.||+.||+-|.-++..+- .....|-.|...++.
T Consensus 63 TlCGHLFCWpClyqWl~~~------~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 63 TLCGHLFCWPCLYQWLQTR------PNSKECPVCKAEVSI 96 (230)
T ss_pred eecccceehHHHHHHHhhc------CCCeeCCcccccccc
Confidence 4899999999997775542 235667888877653
No 82
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=34.33 E-value=20 Score=32.92 Aligned_cols=13 Identities=38% Similarity=0.784 Sum_probs=6.2
Q ss_pred ccccccccCCceE
Q 015607 235 CSRHHCRFCGGIF 247 (403)
Q Consensus 235 ~RrHHCR~CG~vf 247 (403)
+||.+|-.||+-|
T Consensus 26 RRRReC~~C~~RF 38 (156)
T COG1327 26 RRRRECLECGERF 38 (156)
T ss_pred hhhhccccccccc
Confidence 4445555554433
No 83
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=33.56 E-value=20 Score=26.82 Aligned_cols=23 Identities=26% Similarity=0.704 Sum_probs=13.7
Q ss_pred CCCCCCcccCccc-ccccccccCC
Q 015607 222 ACMLCGVRFHPIM-CSRHHCRFCG 244 (403)
Q Consensus 222 ~C~~C~~~F~~~~-~RrHHCR~CG 244 (403)
.|..|++.|.++. .+--.|..||
T Consensus 8 ~C~~Cg~~~~~~~~~~~irCp~Cg 31 (49)
T COG1996 8 KCARCGREVELDQETRGIRCPYCG 31 (49)
T ss_pred EhhhcCCeeehhhccCceeCCCCC
Confidence 5889999997431 2333444444
No 84
>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=33.49 E-value=12 Score=25.77 Aligned_cols=29 Identities=28% Similarity=0.628 Sum_probs=19.7
Q ss_pred CCCCCcccCcccccccccccCCceEcCCCCCCc
Q 015607 223 CMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGR 255 (403)
Q Consensus 223 C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~ 255 (403)
|.+|...+. .....-.||++||..|....
T Consensus 1 C~iC~~~~~----~~~~~~~CGH~fC~~C~~~~ 29 (39)
T PF13923_consen 1 CPICLDELR----DPVVVTPCGHSFCKECIEKY 29 (39)
T ss_dssp ETTTTSB-S----SEEEECTTSEEEEHHHHHHH
T ss_pred CCCCCCccc----CcCEECCCCCchhHHHHHHH
Confidence 566765332 34567899999999997543
No 85
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=33.48 E-value=11 Score=36.33 Aligned_cols=60 Identities=20% Similarity=0.462 Sum_probs=39.5
Q ss_pred CCCCCCCcccCc-----------ccccccccccCCceEcCCCCCCcc-----cccccCC---CCCccccCcchHhHhcc
Q 015607 221 SACMLCGVRFHP-----------IMCSRHHCRFCGGIFCGECSKGRS-----LLPVKFR---VSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 221 ~~C~~C~~~F~~-----------~~~RrHHCR~CG~vfC~~CS~~~~-----~lP~~~~---~~~pvRVC~~C~~~L~~ 280 (403)
..|..|++-|+- ...|.+.|..|++.|-..||-..- -++..|. -....-||..|--.-..
T Consensus 146 ~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~ 224 (267)
T KOG3576|consen 146 HLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSER 224 (267)
T ss_pred HHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCC
Confidence 579999999972 135778899999999999983211 0111111 12356799999765443
No 86
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=33.05 E-value=20 Score=39.35 Aligned_cols=60 Identities=20% Similarity=0.399 Sum_probs=42.8
Q ss_pred CCCCCCCcccC-cccccccccccCCceEcCCCCCCccc-ccccC---CCCCccccCcchHhHhcc
Q 015607 221 SACMLCGVRFH-PIMCSRHHCRFCGGIFCGECSKGRSL-LPVKF---RVSDPQRVCDVCCVRLQS 280 (403)
Q Consensus 221 ~~C~~C~~~F~-~~~~RrHHCR~CG~vfC~~CS~~~~~-lP~~~---~~~~pvRVC~~C~~~L~~ 280 (403)
-.|..|++++. .+..|-.-|+.+|+-||..|-.+-.. ||.+- ..-++-.||+.=+..|..
T Consensus 341 ~~CAgC~~~i~~~~~~~~R~C~y~G~y~C~~Ch~~~~svIPARVl~~WDf~~y~Vs~~a~~~L~~ 405 (580)
T KOG1829|consen 341 FRCAGCGHTIGPDLEQRPRLCRYLGKYFCDCCHQNDKSVIPARVLHNWDFTKYPVSNFAKQFLDE 405 (580)
T ss_pred ceecccCCCcccccccchhHhhhhhhhhCchhcccCcccccccceecccCcccccchhHHHHHHH
Confidence 48999999998 44456677999999999999876543 46531 223567788776666543
No 87
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=32.71 E-value=13 Score=37.25 Aligned_cols=24 Identities=33% Similarity=0.755 Sum_probs=19.2
Q ss_pred CCCCCCCCcccCcccccccccccCCce
Q 015607 220 ASACMLCGVRFHPIMCSRHHCRFCGGI 246 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~~RrHHCR~CG~v 246 (403)
.+.|..|..+=+. |-|||+.|++.
T Consensus 102 ~SfC~KC~~pK~p---rTHHCsiC~kC 125 (309)
T KOG1313|consen 102 DSFCNKCNYPKSP---RTHHCSICNKC 125 (309)
T ss_pred ccHHhhcCCCCCC---CcchhhHHhhH
Confidence 3689999987663 88999998774
No 88
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=31.86 E-value=33 Score=26.70 Aligned_cols=33 Identities=27% Similarity=0.830 Sum_probs=23.4
Q ss_pred CCCCCCCCcccCccc-ccccccccCCce---EcCCCC
Q 015607 220 ASACMLCGVRFHPIM-CSRHHCRFCGGI---FCGECS 252 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~-~RrHHCR~CG~v---fC~~CS 252 (403)
...|..|+....... --++.|.+||++ -|.+|-
T Consensus 7 ~~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~RC~~CR 43 (59)
T PRK14890 7 PPKCTSCGIEIAPREKAVKFLCPNCGEVIIYRCEKCR 43 (59)
T ss_pred CccccCCCCcccCCCccCEeeCCCCCCeeEeechhHH
Confidence 457999999877532 236889999988 355553
No 89
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=31.63 E-value=30 Score=23.57 Aligned_cols=10 Identities=30% Similarity=0.790 Sum_probs=7.1
Q ss_pred CCCCCCcccC
Q 015607 222 ACMLCGVRFH 231 (403)
Q Consensus 222 ~C~~C~~~F~ 231 (403)
.|..|++.|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 5777777766
No 90
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=31.48 E-value=26 Score=30.43 Aligned_cols=24 Identities=25% Similarity=0.519 Sum_probs=15.5
Q ss_pred CCCCCCCcccCccccccc-ccccCCc
Q 015607 221 SACMLCGVRFHPIMCSRH-HCRFCGG 245 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrH-HCR~CG~ 245 (403)
-.|..|+..|..- ...+ +|..||.
T Consensus 72 ~~C~~Cg~~~~~~-~~~~~~CP~Cgs 96 (117)
T PRK00564 72 LECKDCSHVFKPN-ALDYGVCEKCHS 96 (117)
T ss_pred EEhhhCCCccccC-CccCCcCcCCCC
Confidence 6799999988852 2222 3666654
No 91
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.43 E-value=11 Score=37.32 Aligned_cols=46 Identities=24% Similarity=0.588 Sum_probs=30.0
Q ss_pred CCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHh
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRL 278 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L 278 (403)
-.|..|-..- -.--|+.||++||..|.-.. ...+..--|.-|-.+.
T Consensus 216 ~kC~lC~e~~-----~~ps~t~CgHlFC~~Cl~~~-------~t~~k~~~CplCRak~ 261 (271)
T COG5574 216 YKCFLCLEEP-----EVPSCTPCGHLFCLSCLLIS-------WTKKKYEFCPLCRAKV 261 (271)
T ss_pred cceeeeeccc-----CCcccccccchhhHHHHHHH-------HHhhccccCchhhhhc
Confidence 5688887633 33569999999999996431 1223344577776654
No 92
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=31.20 E-value=22 Score=37.67 Aligned_cols=35 Identities=23% Similarity=0.561 Sum_probs=27.9
Q ss_pred CCCCCCCCcccCc------cc--ccccccccCCceEcCCCCCC
Q 015607 220 ASACMLCGVRFHP------IM--CSRHHCRFCGGIFCGECSKG 254 (403)
Q Consensus 220 ~~~C~~C~~~F~~------~~--~RrHHCR~CG~vfC~~CS~~ 254 (403)
.-.|+.|+++|+. |. .-..||-+||.-+=..|+..
T Consensus 128 ~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~gelveDe~~~ 170 (436)
T KOG2593|consen 128 GYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGELVEDENKL 170 (436)
T ss_pred cccCCccccchhhhHHHHhhcccCceEEEecCCCchhcccccC
Confidence 3679999999982 21 36899999999998888753
No 93
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=29.72 E-value=26 Score=35.46 Aligned_cols=27 Identities=22% Similarity=0.578 Sum_probs=18.2
Q ss_pred CCCCCCCCCCCcccCcccccccccccCCce
Q 015607 217 DSSASACMLCGVRFHPIMCSRHHCRFCGGI 246 (403)
Q Consensus 217 d~~~~~C~~C~~~F~~~~~RrHHCR~CG~v 246 (403)
+.....|..|+.- - ..|-|||+.|++.
T Consensus 106 ~~~~~~C~~C~~~-K--P~RS~HC~~Cn~C 132 (309)
T COG5273 106 FGTENFCSTCNIY-K--PPRSHHCSICNRC 132 (309)
T ss_pred cccceeccccccc-c--CCCCccchhhcch
Confidence 3445678888762 2 2588999888764
No 94
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=29.69 E-value=28 Score=31.19 Aligned_cols=24 Identities=29% Similarity=0.728 Sum_probs=18.7
Q ss_pred CCCCCCCcccCcccccccccccCCceEcCCCCC
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGIFCGECSK 253 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~ 253 (403)
.+|..|+.+.+ | .=|.|||.-|-.
T Consensus 29 ~hCp~Cg~PLF----~-----KdG~v~CPvC~~ 52 (131)
T COG1645 29 KHCPKCGTPLF----R-----KDGEVFCPVCGY 52 (131)
T ss_pred hhCcccCCcce----e-----eCCeEECCCCCc
Confidence 68999999753 2 458999999974
No 95
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=29.67 E-value=28 Score=30.05 Aligned_cols=24 Identities=25% Similarity=0.562 Sum_probs=16.1
Q ss_pred CCCCCCCcccCcccccccccccCCc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGG 245 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~ 245 (403)
-.|..|+..|... ....+|..||.
T Consensus 71 ~~C~~Cg~~~~~~-~~~~~CP~Cgs 94 (115)
T TIGR00100 71 CECEDCSEEVSPE-IDLYRCPKCHG 94 (115)
T ss_pred EEcccCCCEEecC-CcCccCcCCcC
Confidence 6799999999852 34444665553
No 96
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=29.58 E-value=24 Score=26.10 Aligned_cols=27 Identities=33% Similarity=0.859 Sum_probs=18.9
Q ss_pred CCCCCCc-ccCcccccccccccCC---ceEcCCC
Q 015607 222 ACMLCGV-RFHPIMCSRHHCRFCG---GIFCGEC 251 (403)
Q Consensus 222 ~C~~C~~-~F~~~~~RrHHCR~CG---~vfC~~C 251 (403)
.|..|+. ++ .-.|+||-.|. --+|..|
T Consensus 2 ~Cd~C~~~pI---~G~R~~C~~C~~~d~DlC~~C 32 (48)
T cd02341 2 KCDSCGIEPI---PGTRYHCSECDDGDFDLCQDC 32 (48)
T ss_pred CCCCCCCCcc---ccceEECCCCCCCCCccCHHH
Confidence 4888988 43 35889999997 3355555
No 97
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=29.10 E-value=22 Score=40.48 Aligned_cols=43 Identities=19% Similarity=0.414 Sum_probs=29.3
Q ss_pred CCCcccCC--CCCCCCCCCcccCcccccccccccCCceEcCCCCCCcc
Q 015607 211 PPRWLADS--SASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRS 256 (403)
Q Consensus 211 ~p~Wvpd~--~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~ 256 (403)
.+.|.... ....|..|.+... +-.--|+.||..+|-.|...+-
T Consensus 218 ~~a~k~a~~g~~~mC~~C~~tlf---n~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 218 KVAWKRAVKGIREMCDRCETTLF---NIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred ccchhhcccCcchhhhhhccccc---ceeEEccccCCeeeecchhhcc
Confidence 44554332 3468999998322 1223499999999999998764
No 98
>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=29.08 E-value=16 Score=24.35 Aligned_cols=30 Identities=27% Similarity=0.644 Sum_probs=20.6
Q ss_pred CCCCCCcccCcccccccccccCCceEcCCCCCCc
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGR 255 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~ 255 (403)
.|..|...+. ....-..||+.||..|....
T Consensus 1 ~C~iC~~~~~----~~~~~~~C~H~~c~~C~~~~ 30 (45)
T cd00162 1 ECPICLEEFR----EPVVLLPCGHVFCRSCIDKW 30 (45)
T ss_pred CCCcCchhhh----CceEecCCCChhcHHHHHHH
Confidence 3778877762 23344569999999997643
No 99
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=28.60 E-value=34 Score=35.13 Aligned_cols=46 Identities=22% Similarity=0.573 Sum_probs=31.6
Q ss_pred CCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchH
Q 015607 219 SASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCC 275 (403)
Q Consensus 219 ~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~ 275 (403)
....|..|+..-. ..-++.|+.|-.+||.+|=.+- ....-.|-.|.
T Consensus 329 ~~~~Cf~C~~~~~--~~~~y~C~~Ck~~FCldCDv~i---------HesLh~CpgCe 374 (378)
T KOG2807|consen 329 GSRFCFACQGELL--SSGRYRCESCKNVFCLDCDVFI---------HESLHNCPGCE 374 (378)
T ss_pred CCcceeeeccccC--CCCcEEchhccceeeccchHHH---------HhhhhcCCCcC
Confidence 3456999955433 3578999999999999995331 23455666664
No 100
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=28.56 E-value=27 Score=23.21 Aligned_cols=25 Identities=32% Similarity=0.729 Sum_probs=12.6
Q ss_pred EcCCCCCCcccccccCCCCCccccCcchHh
Q 015607 247 FCGECSKGRSLLPVKFRVSDPQRVCDVCCV 276 (403)
Q Consensus 247 fC~~CS~~~~~lP~~~~~~~pvRVC~~C~~ 276 (403)
||..|-......+ ....|+|..|-.
T Consensus 5 fC~~CG~~t~~~~-----~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 5 FCGRCGAPTKPAP-----GGWARRCPSCGH 29 (32)
T ss_dssp B-TTT--BEEE-S-----SSS-EEESSSS-
T ss_pred ccCcCCccccCCC-----CcCEeECCCCcC
Confidence 6777766554443 346899988853
No 101
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=28.54 E-value=30 Score=34.66 Aligned_cols=11 Identities=36% Similarity=1.014 Sum_probs=6.0
Q ss_pred CCCCCCCcccC
Q 015607 221 SACMLCGVRFH 231 (403)
Q Consensus 221 ~~C~~C~~~F~ 231 (403)
-.|..|++.|+
T Consensus 188 c~C~iCGKaFS 198 (279)
T KOG2462|consen 188 CECGICGKAFS 198 (279)
T ss_pred ccccccccccc
Confidence 34555555555
No 102
>TIGR02874 spore_ytfJ sporulation protein YtfJ. Members of this protein family, exemplified by YtfJ of Bacillus subtilis, are encoded by bacterial genomes if and only if the species is capable of endospore formation. YtfJ was confirmed in spores of Bacillus subtilis; it appears to be expressed in the forespore under control of SigF (see PubMed:12480901).
Probab=27.63 E-value=1.1e+02 Score=27.28 Aligned_cols=50 Identities=14% Similarity=0.128 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhhhhhccCCCCCCCCchhHHhhhcceeEEEEEEeeceeEEEEeeeE
Q 015607 319 EYEIYKAANTIRGYSKVGFLKPEKSIPDIILRQAKGLAILSVAKVGVMVTYNIGTG 374 (403)
Q Consensus 319 e~eI~kAa~tL~~f~ki~~~~pe~sIP~~lL~~AkGlai~~v~K~g~~~gg~~G~G 374 (403)
+..+..+.+-|+.|..+.+. + =+-+.-.-|..|+||.|++|.||+.+|.+
T Consensus 5 e~lm~t~~e~ik~~i~v~tV-----v-GdPI~~~dgt~IIPvs~VsfGfgaGg~~~ 54 (125)
T TIGR02874 5 ENLMKTTMENIKEMIDVNTI-----V-GDPVETPDGSVIIPISKVSFGFAAGGSEF 54 (125)
T ss_pred HHHHHHHHHHHHHheeeceE-----E-ecCEEcCCCeEEEEEEEEEEeeeeccCcc
Confidence 34455666677777653211 0 11122235688999999999998877764
No 103
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=27.56 E-value=45 Score=23.13 Aligned_cols=9 Identities=44% Similarity=0.888 Sum_probs=3.2
Q ss_pred ccccCcchH
Q 015607 267 PQRVCDVCC 275 (403)
Q Consensus 267 pvRVC~~C~ 275 (403)
..+||+.|-
T Consensus 23 ~~~VCD~CR 31 (34)
T PF01286_consen 23 DLPVCDKCR 31 (34)
T ss_dssp S-S--TTT-
T ss_pred Ccccccccc
Confidence 456777764
No 104
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=27.35 E-value=29 Score=25.22 Aligned_cols=11 Identities=45% Similarity=1.074 Sum_probs=7.2
Q ss_pred CCCCCCcccCc
Q 015607 222 ACMLCGVRFHP 232 (403)
Q Consensus 222 ~C~~C~~~F~~ 232 (403)
.|..|+..|..
T Consensus 7 ~C~~Cg~~fe~ 17 (52)
T TIGR02605 7 RCTACGHRFEV 17 (52)
T ss_pred EeCCCCCEeEE
Confidence 46677777764
No 105
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=27.25 E-value=33 Score=23.40 Aligned_cols=11 Identities=36% Similarity=0.800 Sum_probs=7.0
Q ss_pred CCCCCCcccCc
Q 015607 222 ACMLCGVRFHP 232 (403)
Q Consensus 222 ~C~~C~~~F~~ 232 (403)
.|..|+..|..
T Consensus 7 ~C~~Cg~~fe~ 17 (41)
T smart00834 7 RCEDCGHTFEV 17 (41)
T ss_pred EcCCCCCEEEE
Confidence 46667776664
No 106
>PHA02942 putative transposase; Provisional
Probab=27.01 E-value=51 Score=34.33 Aligned_cols=28 Identities=29% Similarity=0.573 Sum_probs=19.3
Q ss_pred CCCCCCCCcccCcccccccccccCCceE
Q 015607 220 ASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~~RrHHCR~CG~vf 247 (403)
+..|..|+..=..+..|.|.|..||...
T Consensus 325 Sq~Cs~CG~~~~~l~~r~f~C~~CG~~~ 352 (383)
T PHA02942 325 SVSCPKCGHKMVEIAHRYFHCPSCGYEN 352 (383)
T ss_pred CccCCCCCCccCcCCCCEEECCCCCCEe
Confidence 4779999864222235778899998863
No 107
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=26.80 E-value=20 Score=30.85 Aligned_cols=24 Identities=33% Similarity=0.743 Sum_probs=15.1
Q ss_pred CCCCCCCcccCcccccccccccCCc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGG 245 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~ 245 (403)
-.|..|+..|..- .....|..||.
T Consensus 71 ~~C~~Cg~~~~~~-~~~~~CP~Cgs 94 (113)
T PF01155_consen 71 ARCRDCGHEFEPD-EFDFSCPRCGS 94 (113)
T ss_dssp EEETTTS-EEECH-HCCHH-SSSSS
T ss_pred EECCCCCCEEecC-CCCCCCcCCcC
Confidence 6799999999853 34455666654
No 108
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=26.18 E-value=23 Score=36.19 Aligned_cols=50 Identities=26% Similarity=0.650 Sum_probs=35.1
Q ss_pred CCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhcccch
Q 015607 219 SASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSVQP 283 (403)
Q Consensus 219 ~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~~~ 283 (403)
.+..|..|..+.- |+-|-- -|-.|||-+|..- .+.++|-.|-+.++.++.
T Consensus 89 ~VHfCd~Cd~PI~-IYGRmI---PCkHvFCl~CAr~-----------~~dK~Cp~C~d~VqrIeq 138 (389)
T KOG2932|consen 89 RVHFCDRCDFPIA-IYGRMI---PCKHVFCLECARS-----------DSDKICPLCDDRVQRIEQ 138 (389)
T ss_pred ceEeecccCCcce-eeeccc---ccchhhhhhhhhc-----------CccccCcCcccHHHHHHH
Confidence 3678999999887 344554 4567999999642 236778888877766543
No 109
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=26.12 E-value=26 Score=34.28 Aligned_cols=44 Identities=25% Similarity=0.539 Sum_probs=28.0
Q ss_pred CCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHhc
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQ 279 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~ 279 (403)
+|..|...=+ ....+=-.|++|||..|...- .| ++|..|-..+.
T Consensus 5 hCn~C~~~~~---~~~f~LTaC~HvfC~~C~k~~--~~---------~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFRFPS---QDPFFLTACRHVFCEPCLKAS--SP---------DVCPLCKKSIR 48 (233)
T ss_pred EeccccccCC---CCceeeeechhhhhhhhcccC--Cc---------cccccccceee
Confidence 5777765211 233334489999999997531 11 28999987654
No 110
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=26.01 E-value=22 Score=30.43 Aligned_cols=57 Identities=26% Similarity=0.522 Sum_probs=33.8
Q ss_pred CCCCCCCCCcccCccccccccc------ccC---CceEcCCCCCCcccccccCCCCCccccCcchHhHh
Q 015607 219 SASACMLCGVRFHPIMCSRHHC------RFC---GGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRL 278 (403)
Q Consensus 219 ~~~~C~~C~~~F~~~~~RrHHC------R~C---G~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L 278 (403)
....|..|.++-. ..+..| ..| ...||..|..++...-...-...+.-+|..|...-
T Consensus 6 ~g~~CHqCrqKt~---~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 6 NGKTCHQCRQKTL---DFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred CCCCchhhcCCCC---CCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 3467888888533 122334 666 99999999876643211001134667888887643
No 111
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=25.98 E-value=28 Score=34.59 Aligned_cols=63 Identities=25% Similarity=0.539 Sum_probs=39.8
Q ss_pred CCcccCCCCCCCCCCCcccCccccc------------------ccccccCCceEcCC---------------CCC--Ccc
Q 015607 212 PRWLADSSASACMLCGVRFHPIMCS------------------RHHCRFCGGIFCGE---------------CSK--GRS 256 (403)
Q Consensus 212 p~Wvpd~~~~~C~~C~~~F~~~~~R------------------rHHCR~CG~vfC~~---------------CS~--~~~ 256 (403)
-+|--+. -.|..|.++|- ..| -|||=.|++++++. ||. .++
T Consensus 215 KhWHveH--FvCa~CekPFl--GHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i~G~vv~al~KawCv~cf~Cs~Cdkkl 290 (332)
T KOG2272|consen 215 KHWHVEH--FVCAKCEKPFL--GHRHYEKKGLAYCETHYHQLFGNLCFICNRVIGGDVVSALNKAWCVECFSCSTCDKKL 290 (332)
T ss_pred cccchhh--eeehhcCCccc--chhhhhhcCchhHHHHHHHHhhhhheecCCccCccHHHHhhhhhcccccccccccccc
Confidence 4687665 67999999995 222 37899998886543 442 222
Q ss_pred cccccCCCCCccccCcchHhHh
Q 015607 257 LLPVKFRVSDPQRVCDVCCVRL 278 (403)
Q Consensus 257 ~lP~~~~~~~pvRVC~~C~~~L 278 (403)
..-.++-......||..||.+.
T Consensus 291 ~~K~Kf~E~DmkP~CKkCy~rf 312 (332)
T KOG2272|consen 291 TQKNKFYEFDMKPVCKKCYDRF 312 (332)
T ss_pred ccccceeeeccchHHHHHHhhc
Confidence 2222333345667999999864
No 112
>COG0333 RpmF Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=25.96 E-value=38 Score=26.14 Aligned_cols=20 Identities=40% Similarity=0.793 Sum_probs=12.5
Q ss_pred CCCCCCCCcccCcccccccc-cccCC
Q 015607 220 ASACMLCGVRFHPIMCSRHH-CRFCG 244 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~~RrHH-CR~CG 244 (403)
...|..|+. . ...|| |..||
T Consensus 27 ~~~c~~cG~----~-~l~Hrvc~~cg 47 (57)
T COG0333 27 LSVCPNCGE----Y-KLPHRVCLKCG 47 (57)
T ss_pred ceeccCCCC----c-ccCceEcCCCC
Confidence 367888887 2 34444 77776
No 113
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=25.87 E-value=46 Score=26.40 Aligned_cols=28 Identities=32% Similarity=0.783 Sum_probs=13.4
Q ss_pred CCCCCCcccCccccccccc-ccCCceEcCCCCCC
Q 015607 222 ACMLCGVRFHPIMCSRHHC-RFCGGIFCGECSKG 254 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHC-R~CG~vfC~~CS~~ 254 (403)
.|..|.. + .|.-+| -.|.++||..|-+.
T Consensus 9 rCs~C~~----~-l~~pv~l~~CeH~fCs~Ci~~ 37 (65)
T PF14835_consen 9 RCSICFD----I-LKEPVCLGGCEHIFCSSCIRD 37 (65)
T ss_dssp S-SSS-S-------SS-B---SSS--B-TTTGGG
T ss_pred CCcHHHH----H-hcCCceeccCccHHHHHHhHH
Confidence 4666655 2 366667 79999999999744
No 114
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=25.32 E-value=41 Score=30.72 Aligned_cols=13 Identities=31% Similarity=0.580 Sum_probs=7.1
Q ss_pred ccccccccCCceE
Q 015607 235 CSRHHCRFCGGIF 247 (403)
Q Consensus 235 ~RrHHCR~CG~vf 247 (403)
+||..|-.||+-|
T Consensus 26 RRRReC~~C~~RF 38 (147)
T TIGR00244 26 RRRRECLECHERF 38 (147)
T ss_pred eecccCCccCCcc
Confidence 4555555555543
No 115
>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=25.02 E-value=53 Score=21.07 Aligned_cols=23 Identities=30% Similarity=0.655 Sum_probs=13.0
Q ss_pred CCCCCcccCccc-ccccccccCCc
Q 015607 223 CMLCGVRFHPIM-CSRHHCRFCGG 245 (403)
Q Consensus 223 C~~C~~~F~~~~-~RrHHCR~CG~ 245 (403)
|..|+....... --++.|.+||.
T Consensus 1 C~sC~~~i~~r~~~v~f~CPnCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCPNCGF 24 (24)
T ss_pred CccCCCcccCcccCceEeCCCCCC
Confidence 667766554310 11467888874
No 116
>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=24.95 E-value=67 Score=21.05 Aligned_cols=29 Identities=21% Similarity=0.464 Sum_probs=22.5
Q ss_pred CCCCCCcccCcccccccccccCCceEcCCCC
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCGGIFCGECS 252 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS 252 (403)
.|..|.+..+.+ . .+||..|+-.+...|.
T Consensus 2 ~C~~C~~~~~~~-~-~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGF-Y-FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCC-E-eEEeCCCCCeEcCccC
Confidence 588899988764 3 7999999877777663
No 117
>PF09579 Spore_YtfJ: Sporulation protein YtfJ (Spore_YtfJ); InterPro: IPR014229 Proteins in this entry, exemplified by YtfJ of Bacillus subtilis, are encoded by bacterial genomes if, and only if, the species is capable of endospore formation. YtfJ was confirmed in spores of B. subtilis; it appears to be expressed in the forespore under control of SigF [].
Probab=24.81 E-value=67 Score=26.35 Aligned_cols=21 Identities=29% Similarity=0.327 Sum_probs=17.4
Q ss_pred eeEEEEEEeeceeEEEEeeeE
Q 015607 354 GLAILSVAKVGVMVTYNIGTG 374 (403)
Q Consensus 354 Glai~~v~K~g~~~gg~~G~G 374 (403)
...|+||.+++|.||+..|.+
T Consensus 5 d~tiIPv~~VsfGfG~Gg~~~ 25 (83)
T PF09579_consen 5 DTTIIPVSKVSFGFGAGGGEG 25 (83)
T ss_pred CEEEEEEEEEEEEEEEeCCCC
Confidence 356899999999998877775
No 118
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=24.76 E-value=36 Score=23.65 Aligned_cols=25 Identities=28% Similarity=0.547 Sum_probs=14.9
Q ss_pred CCCCCCcccCcccccccccccCCce
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCGGI 246 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG~v 246 (403)
.|..|+..|......++-|..||.+
T Consensus 10 ~C~~C~~~~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 10 PCPVCGSRWFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred cCCCCCCeEeEccCCEEEhhhCceE
Confidence 3777777655444455556666654
No 119
>COG5400 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.39 E-value=54 Score=30.82 Aligned_cols=37 Identities=24% Similarity=0.575 Sum_probs=28.0
Q ss_pred EeeceeEEEEeeeEEEEEEcCC---CCcCCCceEEEeceeEEEe
Q 015607 361 AKVGVMVTYNIGTGLVIARRND---GSWSPPSAISSFGMGWGAQ 401 (403)
Q Consensus 361 ~K~g~~~gg~~G~G~~~~r~~~---G~WS~P~~~~~~g~~~G~Q 401 (403)
--++||-|..||+|.|-.|+.. --|-+|+ .|+.||-|
T Consensus 91 GSGAfIaGltYGeG~LytKn~g~h~vFWQGPs----lGwD~GGq 130 (205)
T COG5400 91 GSGAFIAGLTYGEGTLYTKNAGDHKVFWQGPS----LGWDWGGQ 130 (205)
T ss_pred cccceEeeeeeccceEEecCCCCcceEeeCCc----cccccCCC
Confidence 3467899999999999988653 3488885 57777765
No 120
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=24.35 E-value=56 Score=36.49 Aligned_cols=49 Identities=20% Similarity=0.552 Sum_probs=35.4
Q ss_pred CCCCCCCcccCcccccccccccCCce----EcCCCCCCcccccccCCCCCccccCcchHhHhccc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGI----FCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSV 281 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~v----fC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~ 281 (403)
..|..|+..-. ..-.-|..||.. +|..|... +| ...+.|..|-..+..+
T Consensus 2 ~~Cp~Cg~~n~---~~akFC~~CG~~l~~~~Cp~CG~~---~~------~~~~fC~~CG~~~~~~ 54 (645)
T PRK14559 2 LICPQCQFENP---NNNRFCQKCGTSLTHKPCPQCGTE---VP------VDEAHCPNCGAETGTI 54 (645)
T ss_pred CcCCCCCCcCC---CCCccccccCCCCCCCcCCCCCCC---CC------cccccccccCCcccch
Confidence 46999998644 344579999987 58888753 33 2468999999887553
No 121
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=24.31 E-value=46 Score=37.69 Aligned_cols=11 Identities=18% Similarity=0.564 Sum_probs=6.7
Q ss_pred CCCCCCCcccC
Q 015607 221 SACMLCGVRFH 231 (403)
Q Consensus 221 ~~C~~C~~~F~ 231 (403)
..|..|...++
T Consensus 445 ~~Cp~Cd~~lt 455 (730)
T COG1198 445 AECPNCDSPLT 455 (730)
T ss_pred ccCCCCCcceE
Confidence 34666666655
No 122
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.23 E-value=42 Score=29.41 Aligned_cols=27 Identities=11% Similarity=0.103 Sum_probs=21.1
Q ss_pred CCCCCCCcccCcccccccccccCCceE
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGIF 247 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~vf 247 (403)
..|..|+++|--+.++.--|..||+.|
T Consensus 10 ridPetg~KFYDLNrdPiVsPytG~s~ 36 (129)
T COG4530 10 RIDPETGKKFYDLNRDPIVSPYTGKSY 36 (129)
T ss_pred ccCccccchhhccCCCccccCcccccc
Confidence 579999999998766666777777754
No 123
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=23.99 E-value=23 Score=25.51 Aligned_cols=30 Identities=27% Similarity=0.707 Sum_probs=13.5
Q ss_pred CCCCCcccCcccccccccccCCceEcCCCCCC
Q 015607 223 CMLCGVRFHPIMCSRHHCRFCGGIFCGECSKG 254 (403)
Q Consensus 223 C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~ 254 (403)
|.+|.. |+. ....--=-.||++||.+|..+
T Consensus 1 CpIc~e-~~~-~~n~P~~L~CGH~~c~~cl~~ 30 (43)
T PF13445_consen 1 CPICKE-FST-EENPPMVLPCGHVFCKDCLQK 30 (43)
T ss_dssp -TTT-----T-TSS-EEE-SSS-EEEHHHHHH
T ss_pred CCcccc-ccC-CCCCCEEEeCccHHHHHHHHH
Confidence 677777 753 112222235999999988754
No 124
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=23.92 E-value=32 Score=35.54 Aligned_cols=11 Identities=27% Similarity=0.845 Sum_probs=3.7
Q ss_pred ccccCcchHhH
Q 015607 267 PQRVCDVCCVR 277 (403)
Q Consensus 267 pvRVC~~C~~~ 277 (403)
|...|..|-..
T Consensus 302 P~~~C~~Cg~~ 312 (344)
T PF09332_consen 302 PKKHCSNCGSS 312 (344)
T ss_dssp --S--TTT-S-
T ss_pred CCCCCCcCCcC
Confidence 55678888753
No 125
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.78 E-value=48 Score=33.64 Aligned_cols=29 Identities=28% Similarity=0.669 Sum_probs=21.9
Q ss_pred CCCCCCCcccCcccccccccccCCceEcCCCCCC
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKG 254 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~ 254 (403)
..|.+|.+.|-- ----.||+-||..|+..
T Consensus 242 f~c~icr~~f~~-----pVvt~c~h~fc~~ca~~ 270 (313)
T KOG1813|consen 242 FKCFICRKYFYR-----PVVTKCGHYFCEVCALK 270 (313)
T ss_pred cccccccccccc-----chhhcCCceeehhhhcc
Confidence 469999998852 12247999999999865
No 126
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=23.63 E-value=41 Score=24.12 Aligned_cols=30 Identities=23% Similarity=0.541 Sum_probs=21.7
Q ss_pred CCCCCCcccCcccccccccccC-CceEcCCCCCC
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFC-GGIFCGECSKG 254 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~C-G~vfC~~CS~~ 254 (403)
.|..|+++. .-.|++|..| .--+|..|-..
T Consensus 2 ~Cd~C~~~i---~G~ry~C~~C~d~dLC~~C~~~ 32 (43)
T cd02340 2 ICDGCQGPI---VGVRYKCLVCPDYDLCESCEAK 32 (43)
T ss_pred CCCCCCCcC---cCCeEECCCCCCccchHHhhCc
Confidence 588999933 3578999999 45577777543
No 127
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=23.20 E-value=16 Score=25.39 Aligned_cols=17 Identities=24% Similarity=0.378 Sum_probs=6.7
Q ss_pred CCCCCcccCcccccccc
Q 015607 223 CMLCGVRFHPIMCSRHH 239 (403)
Q Consensus 223 C~~C~~~F~~~~~RrHH 239 (403)
|..|.+.+.-...||+|
T Consensus 2 C~~C~~Ey~~p~~RR~~ 18 (35)
T PF07503_consen 2 CDDCLKEYFDPSNRRFH 18 (35)
T ss_dssp -HHHHHHHCSTTSTTTT
T ss_pred CHHHHHHHcCCCCCccc
Confidence 44454443212345555
No 128
>PF09947 DUF2180: Uncharacterized protein conserved in archaea (DUF2180); InterPro: IPR017211 This group represents a predicted zinc finger protein, AF1427 type.
Probab=23.15 E-value=33 Score=27.43 Aligned_cols=40 Identities=30% Similarity=0.574 Sum_probs=25.4
Q ss_pred cccccCCceEcCCCCCCcccccccC----------CCCCccccCcchHhHh
Q 015607 238 HHCRFCGGIFCGECSKGRSLLPVKF----------RVSDPQRVCDVCCVRL 278 (403)
Q Consensus 238 HHCR~CG~vfC~~CS~~~~~lP~~~----------~~~~pvRVC~~C~~~L 278 (403)
--|..||.-+|...+... .+|..- ...-|.-+|..|+..+
T Consensus 17 avCivCG~GlC~~H~~~e-~~~~~~g~yp~~~~~~~~~l~RilC~~C~~a~ 66 (68)
T PF09947_consen 17 AVCIVCGAGLCMDHSKRE-EIPVWEGGYPFPSKKLKKPLPRILCPECHAAL 66 (68)
T ss_pred ehHHhcCchhhHHHHhhh-heeeeccCCCCccccccCCCCeeecHHHHHHh
Confidence 358999999999988642 333210 1112344899999865
No 129
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=23.03 E-value=55 Score=23.22 Aligned_cols=23 Identities=26% Similarity=0.684 Sum_probs=11.9
Q ss_pred CCcccCcccccccccccCCceEcCCCC
Q 015607 226 CGVRFHPIMCSRHHCRFCGGIFCGECS 252 (403)
Q Consensus 226 C~~~F~~~~~RrHHCR~CG~vfC~~CS 252 (403)
|++.-.+ ...|+.||+.||.+.-
T Consensus 6 C~~~~~~----~~~C~~C~~~FC~~Hr 28 (43)
T PF01428_consen 6 CKKKDFL----PFKCKHCGKSFCLKHR 28 (43)
T ss_dssp T--BCTS----HEE-TTTS-EE-TTTH
T ss_pred CcCccCC----CeECCCCCcccCcccc
Confidence 6664332 3579999999998653
No 130
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=22.97 E-value=40 Score=33.18 Aligned_cols=55 Identities=25% Similarity=0.545 Sum_probs=37.6
Q ss_pred CCCC--CCCcccCcccccccccccCCceEcCCCCCCccc-ccccCCCCCccccCcchHhHhc
Q 015607 221 SACM--LCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSL-LPVKFRVSDPQRVCDVCCVRLQ 279 (403)
Q Consensus 221 ~~C~--~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~-lP~~~~~~~pvRVC~~C~~~L~ 279 (403)
.+|. .|++--. | ..||-.|+++||...-++... =|..+.....|.+|..|-.-+.
T Consensus 9 kHCs~~~CkqlDF-L---Pf~Cd~C~~~FC~eHrsye~H~Cp~~~~~~~~v~icp~cs~pv~ 66 (250)
T KOG3183|consen 9 KHCSVPYCKQLDF-L---PFKCDGCSGIFCLEHRSYESHHCPKGLRIDVQVPICPLCSKPVP 66 (250)
T ss_pred cccCcchhhhccc-c---ceeeCCccchhhhccchHhhcCCCcccccceeecccCCCCCCCC
Confidence 5677 6776322 2 368999999999887665533 2434456678899999986554
No 131
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 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 zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=22.92 E-value=45 Score=25.69 Aligned_cols=13 Identities=38% Similarity=0.984 Sum_probs=10.9
Q ss_pred ccccccCCceEcC
Q 015607 237 RHHCRFCGGIFCG 249 (403)
Q Consensus 237 rHHCR~CG~vfC~ 249 (403)
--.|-+||+|+|.
T Consensus 18 ~~NCl~CGkIiC~ 30 (57)
T PF06221_consen 18 APNCLNCGKIICE 30 (57)
T ss_pred cccccccChhhcc
Confidence 4679999999987
No 132
>PF14279 HNH_5: HNH endonuclease
Probab=22.89 E-value=55 Score=26.10 Aligned_cols=24 Identities=25% Similarity=0.477 Sum_probs=15.7
Q ss_pred cccccCCCCCccc-cCcchHhHhcc
Q 015607 257 LLPVKFRVSDPQR-VCDVCCVRLQS 280 (403)
Q Consensus 257 ~lP~~~~~~~pvR-VC~~C~~~L~~ 280 (403)
.+|...++...+. ||+.|...+-.
T Consensus 18 IIP~sLGG~~~~~~vC~~CN~~~g~ 42 (71)
T PF14279_consen 18 IIPESLGGKLKINNVCDKCNNKFGS 42 (71)
T ss_pred cCchhcCCcccccchhHHHhHHHhH
Confidence 4566555543333 99999998753
No 133
>PF05458 Siva: Cd27 binding protein (Siva); InterPro: IPR022773 Siva binds to the CD27 cytoplasmic tail. It has a DD homology region, a box-B-like ring finger, and a zinc finger-like domain. Overexpression of Siva in various cell lines induces apoptosis, suggesting an important role for Siva in the CD27-transduced apoptotic pathway []. Siva-1 binds to and inhibits BCL-X(L)-mediated protection against UV radiation-induced apoptosis. Indeed, the unique amphipathic helical region (SAH) present in Siva-1 is required for its binding to BCL-X(L) and sensitising cells to UV radiation. Natural complexes of Siva-1/BCL-X(L) are detected in HUT78 and murine thymocyte, suggesting a potential role for Siva-1 in regulating T cell homeostasis []. This family contains both Siva-1 and the shorter Siva-2 lacking the sequence coded by exon 2. It has been suggested that Siva-2 could regulate the function of Siva-1 [].
Probab=22.78 E-value=32 Score=32.17 Aligned_cols=30 Identities=27% Similarity=0.754 Sum_probs=17.6
Q ss_pred cccCCceEcCCCCCCcccccccCCCCCccccCcchH
Q 015607 240 CRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCC 275 (403)
Q Consensus 240 CR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~ 275 (403)
|-.|+.+||..|+... +......-.|..|.
T Consensus 142 C~~C~~~~Cs~Cs~~~------y~~~~e~~lC~~C~ 171 (175)
T PF05458_consen 142 CSSCSEVFCSLCSTVN------YSDQYERVLCLSCS 171 (175)
T ss_pred hhchhhhhhcCccccc------cCCcccccccCCCC
Confidence 7777777777777432 22233445566664
No 134
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=22.76 E-value=52 Score=29.45 Aligned_cols=29 Identities=17% Similarity=0.430 Sum_probs=17.6
Q ss_pred CCCCCCCCCcccCccc-------ccccccccCCceE
Q 015607 219 SASACMLCGVRFHPIM-------CSRHHCRFCGGIF 247 (403)
Q Consensus 219 ~~~~C~~C~~~F~~~~-------~RrHHCR~CG~vf 247 (403)
..-.|..|+..|++.- .+...|..||..+
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEE
Confidence 3457999999998421 1225566666554
No 135
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.68 E-value=47 Score=34.93 Aligned_cols=47 Identities=21% Similarity=0.457 Sum_probs=30.6
Q ss_pred CCCCCCCCCCcccCcccccccccccCCceEcCCCCCCcccccccCCCCCccccCcchHhHh
Q 015607 218 SSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRL 278 (403)
Q Consensus 218 ~~~~~C~~C~~~F~~~~~RrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L 278 (403)
...-.|.+|...|.- .---.||+.||..|-..... ....|..|...+
T Consensus 24 e~~l~C~IC~d~~~~-----PvitpCgH~FCs~CI~~~l~---------~~~~CP~Cr~~~ 70 (397)
T TIGR00599 24 DTSLRCHICKDFFDV-----PVLTSCSHTFCSLCIRRCLS---------NQPKCPLCRAED 70 (397)
T ss_pred ccccCCCcCchhhhC-----ccCCCCCCchhHHHHHHHHh---------CCCCCCCCCCcc
Confidence 344789999987752 22358999999999764321 123566666544
No 136
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=22.66 E-value=51 Score=23.48 Aligned_cols=28 Identities=32% Similarity=0.788 Sum_probs=18.5
Q ss_pred CCCCCCCcccCcccccccccccCCc-eEcCCC
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGG-IFCGEC 251 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~-vfC~~C 251 (403)
..|..|++++. ..|+||..|.. -+|..|
T Consensus 5 ~~C~~C~~~i~---g~ry~C~~C~d~dlC~~C 33 (44)
T smart00291 5 YSCDTCGKPIV---GVRYHCLVCPDYDLCQSC 33 (44)
T ss_pred cCCCCCCCCCc---CCEEECCCCCCccchHHH
Confidence 57999999543 46788888733 244444
No 137
>KOG4690 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.45 E-value=73 Score=29.01 Aligned_cols=34 Identities=26% Similarity=0.352 Sum_probs=24.4
Q ss_pred ceeecCCCCCCCCCchhhhcccccCCCCccCCCCCcccccccCceeehhhHHHHHH
Q 015607 101 VWIPVSVPPMLDSKDDEWARGFHSDGGYFPEVDMGWSQYLKEDKELTMWDVVVEML 156 (403)
Q Consensus 101 ~~~~~s~p~~~~~~~~~~~~g~~~~~~~~~~~~~~w~~~~~~~~~i~mwdv~~~~l 156 (403)
+.+-|+|||++| .-|.|.++|+. +-+|||++..|
T Consensus 70 k~~GV~VPPkPE------EP~nCC~SGCv----------------~CVWDVY~DdL 103 (165)
T KOG4690|consen 70 KIAGVQVPPKPE------EPDNCCMSGCV----------------NCVWDVYSDDL 103 (165)
T ss_pred eeeeeeCCCCCC------Ccccchhhccc----------------eeehHhhHHHH
Confidence 345589999997 45777776653 36899998644
No 138
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=22.16 E-value=41 Score=24.58 Aligned_cols=21 Identities=29% Similarity=0.376 Sum_probs=14.0
Q ss_pred CCCCCCcccCcccccccccccCC
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCG 244 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG 244 (403)
.|-.|+..- |.-+|++|..|-
T Consensus 2 ~CDgCg~~P--I~G~RykC~~C~ 22 (43)
T cd02342 2 QCDGCGVLP--ITGPRYKSKVKE 22 (43)
T ss_pred CCCCCCCCc--ccccceEeCCCC
Confidence 578888622 335888888763
No 139
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=22.02 E-value=54 Score=29.26 Aligned_cols=14 Identities=29% Similarity=0.534 Sum_probs=10.5
Q ss_pred CCCCCCCCCcccCc
Q 015607 219 SASACMLCGVRFHP 232 (403)
Q Consensus 219 ~~~~C~~C~~~F~~ 232 (403)
.-+.|..|+..+-.
T Consensus 90 ~~sRC~~CN~~L~~ 103 (147)
T PF01927_consen 90 IFSRCPKCNGPLRP 103 (147)
T ss_pred CCCccCCCCcEeee
Confidence 34789999987754
No 140
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=21.97 E-value=47 Score=28.65 Aligned_cols=24 Identities=21% Similarity=0.469 Sum_probs=16.1
Q ss_pred CCCCCCCcccCcccccccccccCCc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGG 245 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~ 245 (403)
-.|..|+..|.. ..+..-|..||.
T Consensus 71 ~~C~~Cg~~~~~-~~~~~~CP~Cgs 94 (113)
T PRK12380 71 AWCWDCSQVVEI-HQHDAQCPHCHG 94 (113)
T ss_pred EEcccCCCEEec-CCcCccCcCCCC
Confidence 579999998884 233344777664
No 141
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=21.84 E-value=48 Score=28.63 Aligned_cols=25 Identities=20% Similarity=0.440 Sum_probs=15.1
Q ss_pred CCCCCCCcccCcccccccccccCCc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGG 245 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~ 245 (403)
-.|..|+..|.........|..||.
T Consensus 71 ~~C~~Cg~~~~~~~~~~~~CP~Cgs 95 (114)
T PRK03681 71 CWCETCQQYVTLLTQRVRRCPQCHG 95 (114)
T ss_pred EEcccCCCeeecCCccCCcCcCcCC
Confidence 5799999988742111133666664
No 142
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=21.66 E-value=30 Score=34.28 Aligned_cols=62 Identities=27% Similarity=0.513 Sum_probs=30.8
Q ss_pred CCCCCCCcccC--cc------cccccccccCCc------eEcCCCCCCccc-cc---ccCCCCCccccCcchHhHhcccc
Q 015607 221 SACMLCGVRFH--PI------MCSRHHCRFCGG------IFCGECSKGRSL-LP---VKFRVSDPQRVCDVCCVRLQSVQ 282 (403)
Q Consensus 221 ~~C~~C~~~F~--~~------~~RrHHCR~CG~------vfC~~CS~~~~~-lP---~~~~~~~pvRVC~~C~~~L~~~~ 282 (403)
..|..|+..=. .+ +.|..||-.||. +-|..|-+.... +- ........+-||+.|..-++.+.
T Consensus 173 g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~~YlK~vd 252 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCGSYLKTVD 252 (290)
T ss_dssp SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---SS-EEE--------SEEEEEETTTTEEEEEEE
T ss_pred CcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCCCcceeeEecCCCCcEEEEECCcccchHHHHh
Confidence 68999998421 11 247889999995 579999764421 11 01112234568999998776544
No 143
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=21.58 E-value=46 Score=29.06 Aligned_cols=26 Identities=35% Similarity=0.775 Sum_probs=20.8
Q ss_pred CCCCCcccCcccccccccccCCceEcCCC
Q 015607 223 CMLCGVRFHPIMCSRHHCRFCGGIFCGEC 251 (403)
Q Consensus 223 C~~C~~~F~~~~~RrHHCR~CG~vfC~~C 251 (403)
|+.|+.++. ..+.+|..||-.+-+.-
T Consensus 1 CPvCg~~l~---vt~l~C~~C~t~i~G~F 26 (113)
T PF09862_consen 1 CPVCGGELV---VTRLKCPSCGTEIEGEF 26 (113)
T ss_pred CCCCCCceE---EEEEEcCCCCCEEEeee
Confidence 899999876 37899999988876643
No 144
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=21.42 E-value=68 Score=23.03 Aligned_cols=30 Identities=27% Similarity=0.651 Sum_probs=19.0
Q ss_pred CcccCCCCCCCCCCCcc-cCccc-ccccccccCCc
Q 015607 213 RWLADSSASACMLCGVR-FHPIM-CSRHHCRFCGG 245 (403)
Q Consensus 213 ~Wvpd~~~~~C~~C~~~-F~~~~-~RrHHCR~CG~ 245 (403)
.|-.. ..|+.|+.. ...+. ..++.|+.|++
T Consensus 14 RW~~g---~~CP~Cg~~~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 14 RWPDG---FVCPHCGSTKHYRLKTRGRYRCKACRK 45 (46)
T ss_pred cCCCC---CCCCCCCCeeeEEeCCCCeEECCCCCC
Confidence 46554 679999963 11122 36788988874
No 145
>PF13005 zf-IS66: zinc-finger binding domain of transposase IS66 ; InterPro: IPR024474 This entry represents a predicted helix-turn-helix domain from insertion element IS66 transposases [].
Probab=21.35 E-value=58 Score=23.07 Aligned_cols=13 Identities=38% Similarity=0.733 Sum_probs=8.8
Q ss_pred CCCCCCCcccCcc
Q 015607 221 SACMLCGVRFHPI 233 (403)
Q Consensus 221 ~~C~~C~~~F~~~ 233 (403)
..|..|+..+..+
T Consensus 3 ~~C~~Cg~~l~~i 15 (47)
T PF13005_consen 3 RACPDCGGELKEI 15 (47)
T ss_pred CcCCCCCceeeEC
Confidence 5677777776644
No 146
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=21.34 E-value=20 Score=22.26 Aligned_cols=10 Identities=40% Similarity=0.956 Sum_probs=7.8
Q ss_pred CCCCCCcccC
Q 015607 222 ACMLCGVRFH 231 (403)
Q Consensus 222 ~C~~C~~~F~ 231 (403)
.|..|++.|.
T Consensus 3 ~C~~C~~~F~ 12 (27)
T PF13912_consen 3 ECDECGKTFS 12 (27)
T ss_dssp EETTTTEEES
T ss_pred CCCccCCccC
Confidence 5788888887
No 147
>PRK04351 hypothetical protein; Provisional
Probab=21.31 E-value=57 Score=29.64 Aligned_cols=11 Identities=27% Similarity=0.842 Sum_probs=6.4
Q ss_pred CCCCCCCcccC
Q 015607 221 SACMLCGVRFH 231 (403)
Q Consensus 221 ~~C~~C~~~F~ 231 (403)
-.|..|+..+.
T Consensus 113 Y~C~~Cg~~~~ 123 (149)
T PRK04351 113 YECQSCGQQYL 123 (149)
T ss_pred EECCCCCCEee
Confidence 45666776443
No 148
>PF10170 C6_DPF: Cysteine-rich domain; InterPro: IPR018785 This entry represents the N-terminal approximately 100 amino acids of a family of proteins found in a range of organisms, including human, chicken and Drosophila [, , ]. It contains between six and eight highly conserved cysteine residues and a characteristic DPF sequence motif. One member is putatively named as receptor for egg jelly protein but this could not confirmed.
Probab=21.07 E-value=45 Score=28.44 Aligned_cols=29 Identities=34% Similarity=0.730 Sum_probs=23.5
Q ss_pred cccccCCceEcCC--CCCCcccccccCCCCCccccCcchHhH
Q 015607 238 HHCRFCGGIFCGE--CSKGRSLLPVKFRVSDPQRVCDVCCVR 277 (403)
Q Consensus 238 HHCR~CG~vfC~~--CS~~~~~lP~~~~~~~pvRVC~~C~~~ 277 (403)
-+|-.||+.||-. ||-+. ..|.|..|...
T Consensus 50 a~CS~C~~~VC~~~~CSlFY-----------tkrFC~pC~~~ 80 (97)
T PF10170_consen 50 APCSICGKPVCVGQDCSLFY-----------TKRFCLPCVKR 80 (97)
T ss_pred ccccccCCceEcCCCccEEe-----------eCceeHHHHHH
Confidence 7899999999964 88543 35899999875
No 149
>PRK14873 primosome assembly protein PriA; Provisional
Probab=21.03 E-value=56 Score=36.60 Aligned_cols=35 Identities=26% Similarity=0.641 Sum_probs=18.5
Q ss_pred CCCCCCCcccCcc-cccccccccCCce----EcCCCCCCc
Q 015607 221 SACMLCGVRFHPI-MCSRHHCRFCGGI----FCGECSKGR 255 (403)
Q Consensus 221 ~~C~~C~~~F~~~-~~RrHHCR~CG~v----fC~~CS~~~ 255 (403)
..|..|..+.++- ..++-.|+.||.. .|..|.+..
T Consensus 393 ~~C~~C~~~L~~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~~ 432 (665)
T PRK14873 393 ARCRHCTGPLGLPSAGGTPRCRWCGRAAPDWRCPRCGSDR 432 (665)
T ss_pred eECCCCCCceeEecCCCeeECCCCcCCCcCccCCCCcCCc
Confidence 3466666655521 1123457777763 466665543
No 150
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=21.03 E-value=44 Score=23.59 Aligned_cols=8 Identities=38% Similarity=0.916 Sum_probs=4.0
Q ss_pred CCCCCccc
Q 015607 223 CMLCGVRF 230 (403)
Q Consensus 223 C~~C~~~F 230 (403)
|..|+...
T Consensus 3 Cp~Cg~~~ 10 (43)
T PF08271_consen 3 CPNCGSKE 10 (43)
T ss_dssp BTTTSSSE
T ss_pred CcCCcCCc
Confidence 55555543
No 151
>PRK11595 DNA utilization protein GntX; Provisional
Probab=20.74 E-value=24 Score=33.65 Aligned_cols=31 Identities=26% Similarity=0.763 Sum_probs=21.8
Q ss_pred CCCCCCCcccCcccccccccccCCce------EcCCCCCC
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCGGI------FCGECSKG 254 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG~v------fC~~CS~~ 254 (403)
..|..|...+.++ .++|..||+. +|..|...
T Consensus 21 ~lC~~C~~~l~~~---~~~C~~Cg~~~~~~~~~C~~C~~~ 57 (227)
T PRK11595 21 GICSVCSRALRTL---KTCCPQCGLPATHPHLPCGRCLQK 57 (227)
T ss_pred cccHHHHhhCCcc---cCcCccCCCcCCCCCCCcHHHHcC
Confidence 3688887777643 4789999974 47777553
No 152
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=20.72 E-value=82 Score=22.59 Aligned_cols=8 Identities=38% Similarity=0.862 Sum_probs=3.6
Q ss_pred cccCcchH
Q 015607 268 QRVCDVCC 275 (403)
Q Consensus 268 vRVC~~C~ 275 (403)
..||..|-
T Consensus 20 ~~vC~~Cg 27 (52)
T smart00661 20 RFVCRKCG 27 (52)
T ss_pred EEECCcCC
Confidence 34444444
No 153
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.62 E-value=22 Score=39.44 Aligned_cols=36 Identities=17% Similarity=0.194 Sum_probs=30.3
Q ss_pred CCCCCCCcccCcccccccccccCC-ceEcCCCCCCccc
Q 015607 221 SACMLCGVRFHPIMCSRHHCRFCG-GIFCGECSKGRSL 257 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~RrHHCR~CG-~vfC~~CS~~~~~ 257 (403)
.+|..|-..|++. .+.|||++|| .++|.-|+..++.
T Consensus 55 ~h~np~~~~~~~~-~~d~cvkn~G~gv~~ei~tre~m~ 91 (634)
T KOG1818|consen 55 DHENPNVQLFTLK-LTDHCVKNCGHGVHCEIATREFMD 91 (634)
T ss_pred hccCCCcccchhh-hHHHHHhcCCcchhHHHHHHHHHH
Confidence 3788999999975 7999999999 8899988865543
No 154
>PF02945 Endonuclease_7: Recombination endonuclease VII; InterPro: IPR004211 This family of proteins which includes Bacteriophage T4 endonuclease VII, Mycobacteriophage D29 gene 59, and other as yet uncharacterised proteins. The T4 endonuclease VII (Endo VII) recognises a broad spectrum of DNA substrates ranging from branched DNAs to single base mismatches. The structure of this enzyme has been resolved and it was found that the monomers form an elongated, intertwined molecular dimer that exibits extreme domain swapping. Two pairs of antiparallel helices which form a novel 'four-helix cross' motif are the major dimerisation elements [].; PDB: 3GOX_A 3FC3_A 1EN7_B 1E7L_B 2QNF_A 2QNC_A 1E7D_A.
Probab=20.59 E-value=31 Score=28.28 Aligned_cols=26 Identities=19% Similarity=0.369 Sum_probs=13.8
Q ss_pred CCCCCCCcccCccccc--ccccccCCce
Q 015607 221 SACMLCGVRFHPIMCS--RHHCRFCGGI 246 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~R--rHHCR~CG~v 246 (403)
..|.+|+.++.....+ .-||..||.|
T Consensus 23 ~~C~iC~~~~~~~~~~~~vDHdH~tG~v 50 (81)
T PF02945_consen 23 GRCAICGKPLPGESRKLVVDHDHKTGRV 50 (81)
T ss_dssp TE-TTT-SEEETTCGGCEEEE-TTTTBE
T ss_pred CcCcCCCCCcccCCCcceecCCCCCCCc
Confidence 5899999955432222 2478877774
No 155
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=20.56 E-value=65 Score=28.60 Aligned_cols=26 Identities=35% Similarity=0.802 Sum_probs=15.5
Q ss_pred CCCCCCCCcccCcccccc------cccccCCceE
Q 015607 220 ASACMLCGVRFHPIMCSR------HHCRFCGGIF 247 (403)
Q Consensus 220 ~~~C~~C~~~F~~~~~Rr------HHCR~CG~vf 247 (403)
.-.|..|+..+.. .|| ..|+.||..+
T Consensus 112 ~y~C~~C~~~~~~--~rr~~~~~~y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCGQRYLR--VRRSNNVSRYRCGKCGGKL 143 (146)
T ss_pred EEECCCCCCCCce--EccccCcceEEcCCCCCEE
Confidence 3568888887652 233 4566666544
No 156
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=20.39 E-value=41 Score=22.92 Aligned_cols=20 Identities=40% Similarity=0.913 Sum_probs=6.9
Q ss_pred CCCCCCcccCcccccccccccCC
Q 015607 222 ACMLCGVRFHPIMCSRHHCRFCG 244 (403)
Q Consensus 222 ~C~~C~~~F~~~~~RrHHCR~CG 244 (403)
.|..|+..+.. .+..|..||
T Consensus 13 rC~~Cg~~~~p---Pr~~Cp~C~ 32 (37)
T PF12172_consen 13 RCRDCGRVQFP---PRPVCPHCG 32 (37)
T ss_dssp E-TTT--EEES-----SEETTTT
T ss_pred EcCCCCCEecC---CCcCCCCcC
Confidence 45555554331 334555554
No 157
>PHA02565 49 recombination endonuclease VII; Provisional
Probab=20.36 E-value=62 Score=29.86 Aligned_cols=33 Identities=21% Similarity=0.514 Sum_probs=20.7
Q ss_pred CCCCCCCcccCccccc--ccccc-----cCCc---eEcCCCCC
Q 015607 221 SACMLCGVRFHPIMCS--RHHCR-----FCGG---IFCGECSK 253 (403)
Q Consensus 221 ~~C~~C~~~F~~~~~R--rHHCR-----~CG~---vfC~~CS~ 253 (403)
..|.+|+.+|..-..+ --||. .+|. +.|..|=.
T Consensus 21 G~CaiC~~~l~~~~~~~~vDHDH~l~g~~TG~VRGLLC~~CN~ 63 (157)
T PHA02565 21 GICPLCKRELDGDVSKNHLDHDHELNGPNAGRVRGLLCNLCNA 63 (157)
T ss_pred CcCCCCCCccCCCccccccCCCCCCCCcccccccccCchhhhh
Confidence 5799999998632122 35777 4444 56777754
No 158
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=20.27 E-value=52 Score=20.79 Aligned_cols=13 Identities=31% Similarity=0.833 Sum_probs=9.2
Q ss_pred ccccccccCCceE
Q 015607 235 CSRHHCRFCGGIF 247 (403)
Q Consensus 235 ~RrHHCR~CG~vf 247 (403)
.|.|.|..|++.|
T Consensus 12 ~k~~~C~~C~k~F 24 (26)
T PF13465_consen 12 EKPYKCPYCGKSF 24 (26)
T ss_dssp SSSEEESSSSEEE
T ss_pred CCCCCCCCCcCee
Confidence 4667777777765
No 159
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=20.05 E-value=49 Score=30.12 Aligned_cols=26 Identities=31% Similarity=0.455 Sum_probs=19.0
Q ss_pred CCCCCCCcccCcc--cccccccccCCce
Q 015607 221 SACMLCGVRFHPI--MCSRHHCRFCGGI 246 (403)
Q Consensus 221 ~~C~~C~~~F~~~--~~RrHHCR~CG~v 246 (403)
=.|..|+.+|++. ..--.+|..||..
T Consensus 110 Y~Cp~c~~r~tf~eA~~~~F~Cp~Cg~~ 137 (158)
T TIGR00373 110 FICPNMCVRFTFNEAMELNFTCPRCGAM 137 (158)
T ss_pred EECCCCCcEeeHHHHHHcCCcCCCCCCE
Confidence 5699999999842 1345778888876
Done!