Query 001072
Match_columns 1164
No_of_seqs 416 out of 672
Neff 5.1
Searched_HMMs 46136
Date Thu Mar 28 15:03:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001072.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001072hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1940 Zn-finger protein [Gen 100.0 8.5E-44 1.8E-48 387.8 1.5 175 976-1155 21-204 (276)
2 PF05495 zf-CHY: CHY zinc fing 99.8 3.7E-21 8E-26 173.1 1.8 70 990-1067 1-71 (71)
3 PF01814 Hemerythrin: Hemeryth 99.2 8.6E-11 1.9E-15 113.4 11.6 129 43-176 2-133 (133)
4 PF01814 Hemerythrin: Hemeryth 99.2 2.5E-10 5.4E-15 110.2 14.3 125 292-425 1-133 (133)
5 COG4357 Zinc finger domain con 98.9 2E-10 4.4E-15 107.1 0.4 57 986-1042 11-75 (105)
6 PRK10992 iron-sulfur cluster r 98.8 5.6E-08 1.2E-12 105.8 13.6 131 294-427 76-218 (220)
7 PRK10992 iron-sulfur cluster r 98.7 1.6E-07 3.5E-12 102.3 14.7 131 48-178 81-218 (220)
8 TIGR03652 FeS_repair_RIC iron- 98.7 1.4E-07 3.1E-12 102.2 11.9 126 297-425 76-216 (216)
9 TIGR03652 FeS_repair_RIC iron- 98.6 6E-07 1.3E-11 97.4 13.6 129 47-175 76-215 (216)
10 COG3945 Uncharacterized conser 98.5 1.9E-06 4.1E-11 89.7 14.6 142 292-441 8-159 (189)
11 PRK13276 cell wall biosynthesi 98.3 6.4E-06 1.4E-10 89.9 12.9 125 297-424 83-222 (224)
12 PRK13276 cell wall biosynthesi 98.3 1E-05 2.2E-10 88.2 14.0 127 47-174 83-221 (224)
13 COG2846 Regulator of cell morp 98.0 4.5E-05 9.6E-10 80.8 11.8 128 295-425 79-217 (221)
14 COG3945 Uncharacterized conser 97.9 0.00014 3.1E-09 76.1 12.0 140 43-189 9-156 (189)
15 PF13639 zf-RING_2: Ring finge 97.8 7.7E-06 1.7E-10 67.0 1.7 37 1117-1154 1-44 (44)
16 COG2846 Regulator of cell morp 97.7 0.00052 1.1E-08 73.0 12.9 128 45-176 79-217 (221)
17 COG5243 HRD1 HRD ubiquitin lig 97.3 7.7E-05 1.7E-09 84.7 1.7 64 1094-1160 268-347 (491)
18 PF13923 zf-C3HC4_2: Zinc fing 96.9 0.00044 9.4E-09 55.4 1.5 28 1119-1149 1-28 (39)
19 cd00162 RING RING-finger (Real 96.9 0.00042 9.1E-09 55.1 1.4 36 1118-1156 1-44 (45)
20 PF14634 zf-RING_5: zinc-RING 96.5 0.0013 2.8E-08 54.2 1.6 37 1118-1155 1-44 (44)
21 PF12678 zf-rbx1: RING-H2 zinc 96.4 0.002 4.4E-08 58.9 2.3 40 1115-1154 18-73 (73)
22 PHA02929 N1R/p28-like protein; 96.3 0.0018 4E-08 71.6 2.2 46 1114-1159 172-228 (238)
23 PF13920 zf-C3HC4_3: Zinc fing 96.0 0.0031 6.7E-08 53.2 1.5 38 1116-1157 2-47 (50)
24 smart00184 RING Ring finger. E 95.9 0.0036 7.9E-08 47.9 1.5 27 1119-1149 1-27 (39)
25 COG2461 Uncharacterized conser 95.5 0.091 2E-06 61.5 11.1 132 291-441 85-223 (409)
26 PF12861 zf-Apc11: Anaphase-pr 95.3 0.008 1.7E-07 56.6 1.6 25 1135-1159 49-83 (85)
27 PF13445 zf-RING_UBOX: RING-ty 95.3 0.011 2.3E-07 49.1 1.9 31 1119-1151 1-32 (43)
28 PF00097 zf-C3HC4: Zinc finger 95.2 0.0095 2.1E-07 47.8 1.5 28 1119-1149 1-28 (41)
29 KOG1940 Zn-finger protein [Gen 95.1 0.002 4.3E-08 72.4 -3.8 133 690-854 17-149 (276)
30 PF10367 Vps39_2: Vacuolar sor 94.2 0.017 3.6E-07 55.3 0.8 38 1109-1148 71-108 (109)
31 KOG0804 Cytoplasmic Zn-finger 93.4 0.032 7E-07 65.7 1.3 40 1117-1156 176-220 (493)
32 KOG0802 E3 ubiquitin ligase [P 93.4 0.031 6.8E-07 68.9 1.3 49 1112-1160 287-343 (543)
33 KOG4628 Predicted E3 ubiquitin 93.2 0.03 6.5E-07 65.0 0.6 41 1117-1158 230-278 (348)
34 PLN03208 E3 ubiquitin-protein 92.9 0.063 1.4E-06 57.8 2.5 32 1113-1148 15-46 (193)
35 COG5540 RING-finger-containing 92.9 0.04 8.6E-07 62.1 1.0 43 1114-1157 321-371 (374)
36 PF15227 zf-C3HC4_4: zinc fing 92.7 0.05 1.1E-06 44.8 1.1 27 1119-1149 1-27 (42)
37 PHA02926 zinc finger-like prot 91.7 0.093 2E-06 57.4 1.9 47 1113-1159 167-231 (242)
38 KOG2272 Focal adhesion protein 91.6 0.074 1.6E-06 58.6 1.1 108 988-1123 62-199 (332)
39 COG2461 Uncharacterized conser 90.4 1.7 3.6E-05 51.4 10.5 137 41-191 85-222 (409)
40 TIGR00599 rad18 DNA repair pro 90.4 0.12 2.6E-06 61.4 1.3 38 1116-1157 26-70 (397)
41 COG5592 Uncharacterized conser 88.9 1.1 2.5E-05 47.0 6.9 102 679-817 28-136 (171)
42 smart00504 Ubox Modified RING 88.6 0.24 5.1E-06 43.1 1.6 36 1118-1157 3-45 (63)
43 KOG0320 Predicted E3 ubiquitin 88.3 0.21 4.6E-06 53.0 1.2 37 1117-1156 132-176 (187)
44 KOG0828 Predicted E3 ubiquitin 88.1 0.17 3.8E-06 60.3 0.5 24 1133-1156 601-632 (636)
45 KOG4445 Uncharacterized conser 87.7 0.22 4.7E-06 56.4 0.9 33 1115-1148 114-146 (368)
46 PF11793 FANCL_C: FANCL C-term 87.3 0.19 4.1E-06 45.8 0.2 34 1116-1149 2-39 (70)
47 KOG4275 Predicted E3 ubiquitin 87.1 0.17 3.6E-06 57.1 -0.4 36 1116-1157 300-341 (350)
48 PF05502 Dynactin_p62: Dynacti 86.9 0.43 9.3E-06 58.3 2.9 60 1058-1132 6-68 (483)
49 smart00744 RINGv The RING-vari 86.2 0.36 7.9E-06 41.1 1.3 30 1118-1149 1-35 (49)
50 KOG1428 Inhibitor of type V ad 86.1 0.25 5.5E-06 64.4 0.4 95 1028-1149 3416-3518(3738)
51 COG5592 Uncharacterized conser 85.4 2.4 5.3E-05 44.6 7.0 75 643-734 70-144 (171)
52 KOG1493 Anaphase-promoting com 84.9 0.28 6.1E-06 45.4 0.0 51 1077-1159 22-82 (84)
53 KOG1941 Acetylcholine receptor 83.0 0.33 7.1E-06 56.6 -0.5 48 1107-1155 357-413 (518)
54 PRK04023 DNA polymerase II lar 82.1 1.1 2.4E-05 58.0 3.6 43 1031-1079 628-670 (1121)
55 COG5194 APC11 Component of SCF 81.8 0.63 1.4E-05 43.5 1.0 24 1136-1159 52-82 (88)
56 TIGR02481 hemeryth_dom hemeryt 81.8 5 0.00011 39.7 7.5 51 361-421 12-62 (126)
57 PF14447 Prok-RING_4: Prokaryo 81.1 0.46 1E-05 41.6 -0.1 27 1134-1160 21-52 (55)
58 PF09538 FYDLN_acid: Protein o 78.3 1.1 2.3E-05 44.5 1.4 22 1059-1080 11-34 (108)
59 PF06524 NOA36: NOA36 protein; 78.0 0.94 2E-05 50.6 1.0 64 1005-1079 140-216 (314)
60 KOG0309 Conserved WD40 repeat- 77.4 1.2 2.5E-05 55.8 1.7 29 1119-1149 1031-1059(1081)
61 PF01529 zf-DHHC: DHHC palmito 76.5 1.5 3.3E-05 45.5 2.0 47 1052-1104 43-89 (174)
62 PF14357 DUF4404: Domain of un 75.4 17 0.00036 34.7 8.4 82 54-139 2-83 (85)
63 TIGR02300 FYDLN_acid conserved 73.8 1.7 3.7E-05 44.1 1.5 25 1057-1081 9-35 (129)
64 PRK14890 putative Zn-ribbon RN 73.2 2.8 6.1E-05 37.3 2.4 46 1028-1080 6-56 (59)
65 PF02084 Bindin: Bindin; Inte 71.9 15 0.00032 40.8 8.0 38 73-126 125-168 (238)
66 KOG0825 PHD Zn-finger protein 71.0 1.7 3.7E-05 54.7 0.8 66 1091-1157 96-170 (1134)
67 TIGR02481 hemeryth_dom hemeryt 68.5 74 0.0016 31.4 11.7 110 296-424 12-125 (126)
68 KOG0317 Predicted E3 ubiquitin 67.8 2.4 5.1E-05 48.3 1.1 36 1118-1157 241-283 (293)
69 PF07227 DUF1423: Protein of u 67.5 5.1 0.00011 48.3 3.7 41 1060-1100 131-192 (446)
70 PF04641 Rtf2: Rtf2 RING-finge 67.0 2.9 6.2E-05 47.3 1.6 44 1113-1157 110-160 (260)
71 PRK07219 DNA topoisomerase I; 66.3 8.8 0.00019 50.2 5.9 64 1060-1128 672-745 (822)
72 KOG1734 Predicted RING-contain 65.6 2.6 5.5E-05 47.6 0.8 42 1116-1157 224-280 (328)
73 KOG2164 Predicted E3 ubiquitin 65.4 3.9 8.5E-05 49.8 2.3 41 1115-1159 185-237 (513)
74 COG0143 MetG Methionyl-tRNA sy 63.9 4.2 9.2E-05 50.7 2.3 45 1054-1104 123-168 (558)
75 PRK00808 hypothetical protein; 63.9 22 0.00048 36.8 7.2 95 361-466 16-121 (150)
76 KOG1701 Focal adhesion adaptor 63.2 0.83 1.8E-05 54.2 -3.7 81 1060-1157 277-370 (468)
77 TIGR00595 priA primosomal prot 62.6 5.4 0.00012 49.3 2.9 48 999-1052 214-261 (505)
78 KOG0287 Postreplication repair 61.8 2.7 5.9E-05 48.6 0.1 36 1118-1157 25-67 (442)
79 PRK14714 DNA polymerase II lar 61.8 6.9 0.00015 52.4 3.7 47 1030-1079 668-716 (1337)
80 COG4888 Uncharacterized Zn rib 61.3 4.5 9.6E-05 39.6 1.4 30 1070-1099 20-54 (104)
81 PF14446 Prok-RING_1: Prokaryo 61.3 4.7 0.0001 35.4 1.4 39 1114-1152 3-44 (54)
82 COG2888 Predicted Zn-ribbon RN 61.1 6.4 0.00014 35.2 2.2 45 1029-1080 9-58 (61)
83 KOG2114 Vacuolar assembly/sort 59.5 3.3 7.1E-05 52.9 0.3 24 1131-1154 852-879 (933)
84 KOG2462 C2H2-type Zn-finger pr 59.1 6.6 0.00014 44.6 2.5 31 1090-1125 160-196 (279)
85 KOG4265 Predicted E3 ubiquitin 57.7 4.8 0.0001 47.2 1.2 40 1114-1157 288-335 (349)
86 KOG1571 Predicted E3 ubiquitin 57.5 5.6 0.00012 46.7 1.6 43 1111-1157 300-346 (355)
87 cd00350 rubredoxin_like Rubred 56.2 7.8 0.00017 30.4 1.8 24 1057-1080 1-25 (33)
88 KOG1785 Tyrosine kinase negati 56.1 3.5 7.5E-05 48.6 -0.3 44 1108-1155 361-413 (563)
89 cd00522 Hemerythrin Hemerythri 54.3 65 0.0014 31.7 8.3 85 361-464 14-105 (113)
90 PF14570 zf-RING_4: RING/Ubox 54.0 9.7 0.00021 32.7 2.1 36 1119-1156 1-46 (48)
91 PRK01917 cation-binding hemery 53.7 35 0.00075 35.0 6.5 69 398-466 38-119 (139)
92 PRK05580 primosome assembly pr 53.1 9.1 0.0002 49.0 2.7 48 999-1052 382-429 (679)
93 COG1198 PriA Primosomal protei 53.0 11 0.00023 48.7 3.2 53 999-1058 436-488 (730)
94 COG5273 Uncharacterized protei 52.8 6.7 0.00014 45.6 1.3 46 1052-1103 104-149 (309)
95 COG5175 MOT2 Transcriptional r 52.0 8.5 0.00018 44.7 1.9 41 1116-1156 14-62 (480)
96 KOG3970 Predicted E3 ubiquitin 51.9 6.1 0.00013 43.6 0.8 57 1097-1158 24-105 (299)
97 PRK14890 putative Zn-ribbon RN 51.6 11 0.00025 33.6 2.2 9 1090-1098 47-55 (59)
98 PRK00808 hypothetical protein; 51.1 3E+02 0.0066 28.5 13.0 111 296-428 16-130 (150)
99 COG5574 PEX10 RING-finger-cont 51.0 7.3 0.00016 44.1 1.2 38 1116-1157 215-261 (271)
100 PRK14559 putative protein seri 50.6 11 0.00024 48.0 2.8 46 1030-1079 2-48 (645)
101 PRK14892 putative transcriptio 49.4 9.4 0.0002 37.5 1.5 33 1090-1127 20-53 (99)
102 PRK04023 DNA polymerase II lar 49.3 13 0.00028 48.8 3.2 48 1042-1101 626-673 (1121)
103 KOG0978 E3 ubiquitin ligase in 48.9 5.8 0.00012 50.4 0.0 36 1118-1157 645-688 (698)
104 PF12773 DZR: Double zinc ribb 48.8 17 0.00038 30.5 2.9 49 1032-1098 1-50 (50)
105 PRK14873 primosome assembly pr 48.5 12 0.00025 48.0 2.6 47 999-1052 384-430 (665)
106 KOG2879 Predicted E3 ubiquitin 47.2 10 0.00023 43.1 1.7 39 1116-1157 239-286 (298)
107 PF09538 FYDLN_acid: Protein o 47.2 11 0.00024 37.5 1.6 32 997-1042 8-39 (108)
108 KOG1312 DHHC-type Zn-finger pr 45.8 6.8 0.00015 44.8 -0.0 33 1076-1112 149-181 (341)
109 PF05883 Baculo_RING: Baculovi 43.4 9 0.00019 39.5 0.4 33 1116-1149 26-64 (134)
110 PRK14892 putative transcriptio 43.2 16 0.00035 35.9 2.1 33 1070-1104 19-55 (99)
111 TIGR00373 conserved hypothetic 42.7 8.2 0.00018 40.6 0.0 23 1057-1079 109-135 (158)
112 PF07227 DUF1423: Protein of u 42.4 14 0.0003 44.8 1.8 30 1118-1148 130-162 (446)
113 KOG2593 Transcription initiati 42.2 10 0.00022 45.6 0.7 19 912-930 50-68 (436)
114 KOG3002 Zn finger protein [Gen 41.3 12 0.00025 43.5 1.0 35 1117-1156 49-89 (299)
115 PRK06266 transcription initiat 40.9 9.5 0.00021 41.0 0.2 24 1056-1079 116-143 (178)
116 PF14835 zf-RING_6: zf-RING of 40.9 10 0.00022 34.5 0.4 36 1118-1156 9-49 (65)
117 KOG4399 C2HC-type Zn-finger pr 40.7 6 0.00013 44.4 -1.4 74 1052-1128 199-273 (325)
118 KOG1280 Uncharacterized conser 40.7 20 0.00044 42.0 2.7 25 1053-1080 61-87 (381)
119 PRK00398 rpoP DNA-directed RNA 40.2 21 0.00047 29.8 2.1 23 1057-1079 3-28 (46)
120 KOG2272 Focal adhesion protein 40.0 18 0.0004 40.6 2.1 93 992-1098 114-228 (332)
121 PF04564 U-box: U-box domain; 39.6 17 0.00037 33.3 1.6 36 1117-1156 5-48 (73)
122 PF03833 PolC_DP2: DNA polymer 38.4 10 0.00023 48.9 0.0 20 924-943 582-601 (900)
123 PLN03086 PRLI-interacting fact 38.3 20 0.00044 44.9 2.4 53 1070-1126 451-514 (567)
124 PRK00432 30S ribosomal protein 38.2 20 0.00044 30.9 1.7 24 1074-1099 22-45 (50)
125 smart00132 LIM Zinc-binding do 38.2 10 0.00022 29.2 -0.1 36 1118-1156 1-36 (39)
126 PF05502 Dynactin_p62: Dynacti 37.6 22 0.00048 43.9 2.6 15 1051-1065 20-34 (483)
127 KOG1311 DHHC-type Zn-finger pr 36.5 18 0.0004 41.4 1.6 48 1051-1104 107-154 (299)
128 PF14445 Prok-RING_2: Prokaryo 36.2 3.5 7.6E-05 35.6 -3.1 45 1054-1103 4-53 (57)
129 PF07191 zinc-ribbons_6: zinc- 35.8 12 0.00025 34.7 -0.1 10 1055-1064 48-57 (70)
130 KOG0823 Predicted E3 ubiquitin 34.8 18 0.00039 40.3 1.1 38 1116-1157 47-94 (230)
131 COG1144 Pyruvate:ferredoxin ox 34.8 17 0.00038 35.1 0.8 15 1089-1103 63-77 (91)
132 PF05129 Elf1: Transcription e 34.5 20 0.00044 33.9 1.2 35 1070-1104 20-59 (81)
133 PF08271 TF_Zn_Ribbon: TFIIB z 34.5 18 0.00039 29.8 0.8 7 1093-1099 21-27 (43)
134 cd00729 rubredoxin_SM Rubredox 33.7 29 0.00063 27.6 1.8 23 1057-1079 2-25 (34)
135 KOG3268 Predicted E3 ubiquitin 32.8 23 0.0005 38.0 1.4 22 1136-1157 188-227 (234)
136 KOG3362 Predicted BBOX Zn-fing 32.2 15 0.00032 38.2 -0.1 26 1055-1084 116-143 (156)
137 KOG2034 Vacuolar sorting prote 31.7 18 0.0004 46.9 0.6 31 1116-1148 817-847 (911)
138 COG5432 RAD18 RING-finger-cont 31.6 21 0.00044 41.0 0.9 38 1117-1158 26-70 (391)
139 PF07191 zinc-ribbons_6: zinc- 31.5 21 0.00045 33.1 0.7 24 1091-1126 17-40 (70)
140 KOG4399 C2HC-type Zn-finger pr 31.1 12 0.00027 42.1 -0.8 63 1031-1102 240-302 (325)
141 PRK00432 30S ribosomal protein 30.9 26 0.00056 30.3 1.2 23 1058-1080 21-45 (50)
142 PRK06266 transcription initiat 29.4 19 0.0004 38.8 0.1 10 1070-1079 115-124 (178)
143 PF02891 zf-MIZ: MIZ/SP-RING z 29.2 18 0.00038 31.1 -0.1 32 1118-1155 4-49 (50)
144 PF12126 DUF3583: Protein of u 28.8 7.8E+02 0.017 29.0 12.4 132 45-197 13-152 (324)
145 PF03107 C1_2: C1 domain; Int 28.5 41 0.0009 25.8 1.8 20 1077-1098 2-22 (30)
146 KOG0311 Predicted E3 ubiquitin 28.3 14 0.0003 43.4 -1.1 39 1116-1157 43-89 (381)
147 PF12906 RINGv: RING-variant d 28.2 25 0.00054 29.8 0.6 29 1119-1149 1-34 (47)
148 cd00522 Hemerythrin Hemerythri 28.0 2.7E+02 0.0059 27.4 8.0 60 116-193 13-76 (113)
149 PF13824 zf-Mss51: Zinc-finger 28.0 36 0.00078 30.2 1.6 21 1060-1080 2-22 (55)
150 COG1996 RPC10 DNA-directed RNA 27.6 33 0.00072 29.7 1.3 29 1054-1082 3-34 (49)
151 PF01780 Ribosomal_L37ae: Ribo 27.5 28 0.0006 33.8 0.9 29 1070-1099 33-61 (90)
152 PRK14714 DNA polymerase II lar 27.3 47 0.001 45.1 3.1 20 1059-1080 681-700 (1337)
153 PF03833 PolC_DP2: DNA polymer 27.1 21 0.00045 46.3 0.0 34 1029-1065 655-688 (900)
154 PF12126 DUF3583: Protein of u 26.8 3.6E+02 0.0077 31.6 9.4 80 147-226 33-115 (324)
155 PF00301 Rubredoxin: Rubredoxi 26.7 42 0.00091 28.8 1.7 9 1057-1065 1-9 (47)
156 PF01529 zf-DHHC: DHHC palmito 26.4 36 0.00079 35.3 1.6 35 1070-1111 46-80 (174)
157 COG2888 Predicted Zn-ribbon RN 25.9 36 0.00079 30.6 1.2 9 1090-1098 49-57 (61)
158 PRK03564 formate dehydrogenase 25.8 53 0.0011 38.5 2.9 12 1117-1128 253-264 (309)
159 COG5236 Uncharacterized conser 24.8 42 0.0009 39.4 1.8 53 1098-1154 42-104 (493)
160 TIGR00058 Hemerythrin hemeryth 24.8 3.6E+02 0.0077 26.8 8.2 20 401-420 39-58 (115)
161 TIGR00373 conserved hypothetic 24.7 24 0.00052 37.2 -0.0 10 1070-1079 107-116 (158)
162 COG1198 PriA Primosomal protei 24.7 66 0.0014 41.8 3.7 44 1027-1079 433-482 (730)
163 TIGR02300 FYDLN_acid conserved 24.6 43 0.00093 34.4 1.7 32 997-1042 8-39 (129)
164 PRK03824 hypA hydrogenase nick 24.6 40 0.00086 34.7 1.5 9 1071-1079 106-114 (135)
165 smart00531 TFIIE Transcription 24.2 27 0.00059 36.2 0.2 9 1056-1064 98-106 (147)
166 cd02341 ZZ_ZZZ3 Zinc finger, Z 23.7 55 0.0012 28.1 1.9 22 1073-1098 1-22 (48)
167 PF07282 OrfB_Zn_ribbon: Putat 23.6 48 0.001 29.6 1.7 40 1110-1149 22-63 (69)
168 COG1675 TFA1 Transcription ini 23.6 35 0.00075 36.9 0.8 32 1089-1126 111-142 (176)
169 PF15353 HECA: Headcase protei 23.2 40 0.00086 33.6 1.1 13 1137-1149 39-51 (107)
170 PHA00626 hypothetical protein 23.0 68 0.0015 28.6 2.3 9 1031-1039 2-10 (59)
171 KOG4172 Predicted E3 ubiquitin 22.7 32 0.0007 30.5 0.3 36 1116-1157 7-53 (62)
172 PF01780 Ribosomal_L37ae: Ribo 22.7 32 0.00069 33.4 0.3 30 1055-1084 33-65 (90)
173 PRK13428 F0F1 ATP synthase sub 22.5 5E+02 0.011 32.0 10.4 30 923-952 216-245 (445)
174 PF14255 Cys_rich_CPXG: Cystei 22.4 20 0.00042 31.4 -1.0 35 1118-1159 2-36 (52)
175 PF06220 zf-U1: U1 zinc finger 22.0 34 0.00073 28.0 0.3 13 1055-1067 1-13 (38)
176 smart00531 TFIIE Transcription 22.0 37 0.0008 35.2 0.7 10 1117-1126 124-133 (147)
177 PTZ00255 60S ribosomal protein 22.0 40 0.00087 32.7 0.8 10 1070-1079 34-43 (90)
178 PF11781 RRN7: RNA polymerase 21.7 45 0.00098 27.0 0.9 24 1119-1142 11-35 (36)
179 PRK14559 putative protein seri 21.6 61 0.0013 41.6 2.5 34 1029-1066 15-50 (645)
180 TIGR00280 L37a ribosomal prote 21.5 39 0.00085 32.8 0.7 11 1070-1080 51-61 (91)
181 KOG1311 DHHC-type Zn-finger pr 21.4 69 0.0015 36.8 2.8 27 1072-1103 113-139 (299)
182 KOG4577 Transcription factor L 21.3 16 0.00035 41.7 -2.2 23 1071-1093 114-138 (383)
183 PRK00464 nrdR transcriptional 21.2 54 0.0012 34.7 1.7 9 1091-1099 28-36 (154)
184 PHA00626 hypothetical protein 21.1 55 0.0012 29.2 1.4 19 1059-1080 13-31 (59)
185 TIGR00100 hypA hydrogenase nic 20.8 55 0.0012 32.8 1.6 8 1072-1079 86-93 (115)
186 KOG3850 Predicted membrane pro 20.8 1.6E+03 0.034 27.5 15.6 126 301-444 262-395 (455)
187 PF06524 NOA36: NOA36 protein; 20.7 76 0.0016 36.2 2.7 10 1092-1101 183-192 (314)
188 smart00451 ZnF_U1 U1-like zinc 20.1 49 0.0011 25.4 0.8 11 1056-1066 2-12 (35)
No 1
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=100.00 E-value=8.5e-44 Score=387.76 Aligned_cols=175 Identities=48% Similarity=1.113 Sum_probs=167.2
Q ss_pred CCCCcccccccccCcccccccccccccccCCcccChhhhcccCCCCCcccccCceecccccccccCCCCCCCCCCCCccc
Q 001072 976 CSPSFRDAEKQVFGCEHYKRNCKLRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSGLSM 1055 (1164)
Q Consensus 976 ~~~~~~~~~~~~~gC~HY~r~c~l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~Q~~~~~C~~~~C~~~~~ 1055 (1164)
..+++.|+...++||+||+|+|++++|||+++|+|++||++..+|.++|+.+.+|+|+.|.++||+++.|.+ | +..+
T Consensus 21 ~~~~~~d~~~~~~~c~hy~r~~~~~a~ccd~~~~C~hCH~~s~~h~~~r~~v~~~~C~~C~~~q~~~~~c~~--c-~~~~ 97 (276)
T KOG1940|consen 21 IHSDAEDEIAFPYGCPHYRRNCKSRAPCCDREITCRHCHNESEDHDLDRKTVYELLCMKCRKIQPVGQICSN--C-HVEL 97 (276)
T ss_pred cccccccccccccCCchhhhccccccccccceeeeEEecChhhhcccchhhhhhhhhhhHHhhhhhhhcccc--c-hhhh
Confidence 346788999999999999999999999999999999999999999999999999999999999999999998 4 7789
Q ss_pred ceEeccccccccCC-CCcccCCCCCcccccCCCCcceeecccccccccccc-cccccccCCcCCCCcccccccccccCcc
Q 001072 1056 AKYYCGICKFFDDE-RVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKKL-VDHKCREKGLETNCPICCDFLFTSSATV 1133 (1164)
Q Consensus 1056 a~y~C~~C~l~d~~-k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~~~~-~~H~C~e~~~~~~CpiC~e~lfts~~~~ 1133 (1164)
++|||.+||||||+ ..||||+.|||||+|+++ |||||++|+.|++..+ +.|+|+|++++.|||||.|+||+|...+
T Consensus 98 g~~~c~~C~l~dd~~~~~~hC~~C~icr~g~~~--~~fhc~~c~~c~~~~~~~~H~c~e~~~~~ncPic~e~l~~s~~~~ 175 (276)
T KOG1940|consen 98 GEYYCLICKLFDDDPSKQYHCDLCGICREGLGL--DFFHCKKCKACLSAYLSNWHKCVERSSEFNCPICKEYLFLSFEDA 175 (276)
T ss_pred hhhcCcccccccccccceecccccccccccccc--chhHHhhhHhHHhhhcccccchhhhcccCCCchhHHHhccccccC
Confidence 99999999999988 599999999999999876 9999999999999999 6699999999999999999999999999
Q ss_pred cccCCCccccHhhHhh-------hhhhhh
Q 001072 1134 RALPCGHFMHSDCFQV-------CSVLCF 1155 (1164)
Q Consensus 1134 ~~l~CGH~~H~~C~~~-------~~~~~~ 1155 (1164)
.+++|||+||..||++ ||+|.+
T Consensus 176 ~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 176 GVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CccCcccchHHHHHHHHhccCCCCCcccc
Confidence 9999999999999998 999988
No 2
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 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. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=99.81 E-value=3.7e-21 Score=173.06 Aligned_cols=70 Identities=44% Similarity=1.197 Sum_probs=53.7
Q ss_pred ccccccc-ccccccccCCcccChhhhcccCCCCCcccccCceecccccccccCCCCCCCCCCCCcccceEecccccccc
Q 001072 990 CEHYKRN-CKLRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKFFD 1067 (1164)
Q Consensus 990 C~HY~r~-c~l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~Q~~~~~C~~~~C~~~~~a~y~C~~C~l~d 1067 (1164)
|+||+|+ |+|+||||++|||||+|||+.++|+++|+.+++|+||.|+++|++++. + | + |+|+|++|++||
T Consensus 1 C~HY~~~~~~~~~~cC~~~y~C~~CHde~~~H~~~~~~~~~v~Cg~C~~~~~~~~~--~--c-~---~~~~C~~C~~~~ 71 (71)
T PF05495_consen 1 CKHYHRSLCAIRFPCCGKYYPCRFCHDELEDHPFDRWPVKRVICGKCRTEQPIDEY--S--C-G---ADYFCPICGLYF 71 (71)
T ss_dssp -SS---S-EEEEETTTTEEESSHHHHHHCSSS---TTT--EEEETTT--EEES-SB--T--T------SEEETTTTEEE
T ss_pred CCCCCCCcEEEECCcccCeecHHHHHHHhccCccccccccCeECCCCCCccChhhh--h--c-C---CCccCcCcCCCC
Confidence 8999999 999999999999999999999999999999999999999999999988 4 5 4 999999999986
No 3
>PF01814 Hemerythrin: Hemerythrin HHE cation binding domain; InterPro: IPR012312 The haemerythrin family is composed of haemerythrin proteins found in invertebrates, and a broader collection of bacterial and archaeal homologues. Haemerythrin is an oxygen-binding protein found in the vascular system and coelemic fluid, or in muscles (myohaemerythrin) in invertebrates []. Many of the homologous proteins found in prokaryotes are multi-domain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (IPR000160 from INTERPRO) and methyl-accepting chemotaxis protein (MCP) signalling domain (IPR004089 from INTERPRO). Most haemerythrins are oxygen-carriers with a bound non-haem iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. The prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium. Haemerythrins and myohaemerythrins [, ] are small proteins of about 110 to 129 amino acid residues that bind two iron atoms. They are left-twisted 4-alpha-helical bundles, which provide a hydrophobic pocket where dioxygen binds as a peroxo species, interacting with adjacent aliphatic side chains via van der Waals forces []. In both haemerythrins and myohaemerythrins, the active centre is a binuclear iron complex, bound directly to the protein via 7 amino acid side chains [], 5 His, 1 Glu and 1 Asp []. Ovohaemerythrin [], a yolk protein from the leech Theromyzon tessulatum seems to belong to this family of proteins, it may play a role in the detoxification of free iron after a blood meal []. This entry represents a haemerythrin/HHE cation-binding motif that occurs as a duplicated domain in haemerythrin and related proteins. This domain binds iron in haemerythrin, but can bind other metals in related proteins, such as cadmium in a Nereis diversicolor protein (P80255 from SWISSPROT). A bacterial protein, Q7WX96 from SWISSPROT, is a regulator of response to NO, which suggests a different set-up for its metal ligands. A protein from Cryptococcus neoformans (Filobasidiella neoformans) that contains haemerythrin/HHE cation-binding motifs is also involved in NO response []. A Staphylococcus aureus protein (P72360 from SWISSPROT) has been noted to be important when the organism switches to living in environments with low oxygen concentrations; perhaps this protein acts as an oxygen store or scavenger.; PDB: 3CAX_A 3V5Z_B 3U9M_G 3V5Y_A 3U9J_B 3V5X_A 2MHR_A 1A7E_A 1A7D_A 2IGF_P ....
Probab=99.21 E-value=8.6e-11 Score=113.45 Aligned_cols=129 Identities=33% Similarity=0.417 Sum_probs=114.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHhhcccccccchhHHhh---hhhhHHHHH
Q 001072 43 PILIFLFFHKAIKSELDVLHRAAMAFATNLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIR---VKNIARTYS 119 (1164)
Q Consensus 43 pid~~~~iHkAlRrEL~~L~~~~~~~~~~~~d~~~~~~l~~r~~~l~~~l~~Hh~~EDe~ifPaL~~R---~~~v~~~~~ 119 (1164)
||+.+...|+.+|+.+..+...+...+ ++.....+...+..|...+..|+..||.++||.|+.+ .++.+..+.
T Consensus 2 ~i~~l~~~H~~~~~~~~~l~~~~~~~~----~~~~~~~l~~~~~~l~~~l~~H~~~EE~~l~p~l~~~~~~~~~~~~~~~ 77 (133)
T PF01814_consen 2 PIDELRRDHRALRRLLAELEEALDELP----DDEDLRALRELLDELRRELRHHHAREEEYLFPALERRDPRGDALIAELR 77 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHC----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHH-CCCHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhCc----CchhHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhccccchhhHH
Confidence 689999999999999999999998872 3567899999999999999999999999999999944 567889999
Q ss_pred HhhhhHHHHHHHHHHHHhhhccCchHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhh
Q 001072 120 LEHEGESVLFDQLFELLNSSMRNEESYRRELASCTGALQTSISQHMSKEEEQVFPLL 176 (1164)
Q Consensus 120 ~EH~~i~~l~~~L~~~L~~~~~~~~~~~~eLa~~~~~l~t~L~~HL~~EEeqvlPLL 176 (1164)
.||..+..+++++...+.... .......++...+..+...+..|+..||+.++|++
T Consensus 78 ~eH~~~~~~l~~l~~~~~~~~-~~~~~~~~~~~~~~~l~~~l~~H~~~Ee~~l~P~~ 133 (133)
T PF01814_consen 78 REHEEIRALLDELEEALARYS-GDEEDAEELREALRALAEWLRRHIAKEEEVLFPLL 133 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHTHGGGHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhCc-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 999999999999999999998 33356677777788888999999999999999986
No 4
>PF01814 Hemerythrin: Hemerythrin HHE cation binding domain; InterPro: IPR012312 The haemerythrin family is composed of haemerythrin proteins found in invertebrates, and a broader collection of bacterial and archaeal homologues. Haemerythrin is an oxygen-binding protein found in the vascular system and coelemic fluid, or in muscles (myohaemerythrin) in invertebrates []. Many of the homologous proteins found in prokaryotes are multi-domain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (IPR000160 from INTERPRO) and methyl-accepting chemotaxis protein (MCP) signalling domain (IPR004089 from INTERPRO). Most haemerythrins are oxygen-carriers with a bound non-haem iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. The prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium. Haemerythrins and myohaemerythrins [, ] are small proteins of about 110 to 129 amino acid residues that bind two iron atoms. They are left-twisted 4-alpha-helical bundles, which provide a hydrophobic pocket where dioxygen binds as a peroxo species, interacting with adjacent aliphatic side chains via van der Waals forces []. In both haemerythrins and myohaemerythrins, the active centre is a binuclear iron complex, bound directly to the protein via 7 amino acid side chains [], 5 His, 1 Glu and 1 Asp []. Ovohaemerythrin [], a yolk protein from the leech Theromyzon tessulatum seems to belong to this family of proteins, it may play a role in the detoxification of free iron after a blood meal []. This entry represents a haemerythrin/HHE cation-binding motif that occurs as a duplicated domain in haemerythrin and related proteins. This domain binds iron in haemerythrin, but can bind other metals in related proteins, such as cadmium in a Nereis diversicolor protein (P80255 from SWISSPROT). A bacterial protein, Q7WX96 from SWISSPROT, is a regulator of response to NO, which suggests a different set-up for its metal ligands. A protein from Cryptococcus neoformans (Filobasidiella neoformans) that contains haemerythrin/HHE cation-binding motifs is also involved in NO response []. A Staphylococcus aureus protein (P72360 from SWISSPROT) has been noted to be important when the organism switches to living in environments with low oxygen concentrations; perhaps this protein acts as an oxygen store or scavenger.; PDB: 3CAX_A 3V5Z_B 3U9M_G 3V5Y_A 3U9J_B 3V5X_A 2MHR_A 1A7E_A 1A7D_A 2IGF_P ....
Probab=99.20 E-value=2.5e-10 Score=110.25 Aligned_cols=125 Identities=26% Similarity=0.360 Sum_probs=110.1
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHhhhhhhcccccchhhhhhhh--------hhH
Q 001072 292 CPIDEIMLWHNAIKRELNDIAEAARKIQLSGDFSDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL--------SFA 363 (1164)
Q Consensus 292 ~Pid~L~~~HkALRrEL~~L~~~a~~i~~~gd~~~L~~L~~r~~fL~~vL~~Hs~aEDevlFPaL~~r~--------~me 363 (1164)
.+++.|...|+.||+.++.+...+... ++..++..+...+.+|...+..|+..||+++||.|..+. .+.
T Consensus 1 ~~i~~l~~~H~~~~~~~~~l~~~~~~~---~~~~~~~~l~~~~~~l~~~l~~H~~~EE~~l~p~l~~~~~~~~~~~~~~~ 77 (133)
T PF01814_consen 1 MPIDELRRDHRALRRLLAELEEALDEL---PDDEDLRALRELLDELRRELRHHHAREEEYLFPALERRDPRGDALIAELR 77 (133)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHH---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHH-CCCHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHhC---cCchhHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhccccchhhHH
Confidence 378999999999999999999999987 445578999999999999999999999999999998332 888
Q ss_pred HhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 001072 364 QEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLA 425 (1164)
Q Consensus 364 ~EH~~ie~l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qvfPLl 425 (1164)
.||..+...++.+...+...... ......+...+..+...+..|+.+||+.+||++
T Consensus 78 ~eH~~~~~~l~~l~~~~~~~~~~------~~~~~~~~~~~~~l~~~l~~H~~~Ee~~l~P~~ 133 (133)
T PF01814_consen 78 REHEEIRALLDELEEALARYSGD------EEDAEELREALRALAEWLRRHIAKEEEVLFPLL 133 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHTHGGGHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhCccc------cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 99999999999999999776511 356778889999999999999999999999986
No 5
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=98.92 E-value=2e-10 Score=107.14 Aligned_cols=57 Identities=30% Similarity=0.725 Sum_probs=50.0
Q ss_pred cccCccccccc---ccccccccCCcccChhhhcccCCCCCccc-----ccCceecccccccccCC
Q 001072 986 QVFGCEHYKRN---CKLRAACCGKLFTCRFCHDKVSDHSMDRK-----ATTEMMCMRCLKVQPVG 1042 (1164)
Q Consensus 986 ~~~gC~HY~r~---c~l~~~cC~k~y~Cr~CHde~~~H~~~r~-----~~~~~~C~~C~~~Q~~~ 1042 (1164)
++++|.||+.. ++|+|.||+|||+|..|||+.++|++.++ ..+.|+||.|.++..++
T Consensus 11 ~etRC~Hyht~~Diialkc~~C~kyYaCy~CHdel~~Hpf~p~~~~~~~~~~iiCGvC~~~LT~~ 75 (105)
T COG4357 11 QETRCLHYHTPLDIIALKCKCCQKYYACYHCHDELEDHPFEPWGLQEFNPKAIICGVCRKLLTRA 75 (105)
T ss_pred ccceeeEecCccceEeeeechhhhhhhHHHHHhHHhcCCCccCChhhcCCccEEhhhhhhhhhHH
Confidence 56899999999 78999999999999999999999999864 34679999998776654
No 6
>PRK10992 iron-sulfur cluster repair di-iron protein; Provisional
Probab=98.79 E-value=5.6e-08 Score=105.77 Aligned_cols=131 Identities=18% Similarity=0.340 Sum_probs=106.8
Q ss_pred hhHH-HHHHHHHHHHHHHHHHHHHhhc-ccC-CcccHHHHHHHHHHHHHHhhhhhhcccccchhhhhhhh---------h
Q 001072 294 IDEI-MLWHNAIKRELNDIAEAARKIQ-LSG-DFSDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL---------S 361 (1164)
Q Consensus 294 id~L-~~~HkALRrEL~~L~~~a~~i~-~~g-d~~~L~~L~~r~~fL~~vL~~Hs~aEDevlFPaL~~r~---------~ 361 (1164)
||.+ ..-|..+|++|..|...+..+. ..| +...+..++..+..|...+..|+..|++++||+|.+.. .
T Consensus 76 idyI~~~~H~~~r~~lp~L~~l~~kv~~vhg~~~~~~~~~~~l~~~~~~el~~H~~kEE~~LFP~l~~~~~~~~~~pi~v 155 (220)
T PRK10992 76 IDHIIVRYHDRHREQLPELILLATKVERVHGDKPDCPRGLAKYLTALHEELSSHMMKEEQILFPMIKQGMGSQAMGPISV 155 (220)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhcccccccchHHH
Confidence 4544 7889999999999999997774 223 33467888999999999999999999999999999631 8
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 001072 362 FAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLARR 427 (1164)
Q Consensus 362 me~EH~~ie~l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qvfPLl~~ 427 (1164)
|..||+++...+.+|..++..... +..+...++.+-..+..+...|.+|..+||+.+||++..
T Consensus 156 m~~EHd~~~~~l~~L~~lt~~~~~---p~~ac~~~~~l~~~l~~~~~dL~~HI~~EnniLFP~a~~ 218 (220)
T PRK10992 156 MESEHDEAGELLEVIKHLTNNVTP---PPEACTTWRALYNGINELIDDLMEHIHLENNVLFPRALA 218 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCC---ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 889999999999999988865421 111134577788888889999999999999999998864
No 7
>PRK10992 iron-sulfur cluster repair di-iron protein; Provisional
Probab=98.73 E-value=1.6e-07 Score=102.26 Aligned_cols=131 Identities=17% Similarity=0.214 Sum_probs=107.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc-cCCCCchHHHHHHHHHHHHHHHHHhhcccccccchhHHhh----hhhhHHHHHHhh
Q 001072 48 LFFHKAIKSELDVLHRAAMAFAT-NLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIR----VKNIARTYSLEH 122 (1164)
Q Consensus 48 ~~iHkAlRrEL~~L~~~~~~~~~-~~~d~~~~~~l~~r~~~l~~~l~~Hh~~EDe~ifPaL~~R----~~~v~~~~~~EH 122 (1164)
...|.-+|++|..|.+++..+.. -.+++.....++.-++.|...+..|+..|..++||.|... +.+.+..|..||
T Consensus 81 ~~~H~~~r~~lp~L~~l~~kv~~vhg~~~~~~~~~~~l~~~~~~el~~H~~kEE~~LFP~l~~~~~~~~~~pi~vm~~EH 160 (220)
T PRK10992 81 VRYHDRHREQLPELILLATKVERVHGDKPDCPRGLAKYLTALHEELSSHMMKEEQILFPMIKQGMGSQAMGPISVMESEH 160 (220)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhcccccccchHHHHHHHH
Confidence 46799999999999999877652 1145566778899999999999999999999999999962 456799999999
Q ss_pred hhHHHHHHHHHHHHhhhccCch--HHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhhhh
Q 001072 123 EGESVLFDQLFELLNSSMRNEE--SYRRELASCTGALQTSISQHMSKEEEQVFPLLIE 178 (1164)
Q Consensus 123 ~~i~~l~~~L~~~L~~~~~~~~--~~~~eLa~~~~~l~t~L~~HL~~EEeqvlPLL~~ 178 (1164)
..+..++.+|.++.+......+ ..++.+-..+..+...|.+|..+||..+||.+.+
T Consensus 161 d~~~~~l~~L~~lt~~~~~p~~ac~~~~~l~~~l~~~~~dL~~HI~~EnniLFP~a~~ 218 (220)
T PRK10992 161 DEAGELLEVIKHLTNNVTPPPEACTTWRALYNGINELIDDLMEHIHLENNVLFPRALA 218 (220)
T ss_pred HHHHHHHHHHHHHHhcCCCChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 9999999999999988754332 3455555566666677999999999999998754
No 8
>TIGR03652 FeS_repair_RIC iron-sulfur cluster repair di-iron protein. Members of this protein family, designated variously as YftE, NorA, DrnN, and NipC, are di-iron proteins involved in the repair of iron-sulfur clusters. Previously assigned names reflect pleiotropic effects of damage from NO or other oxidative stress when this protein is mutated. The suggested name now is RIC, for Repair of Iron Centers.
Probab=98.66 E-value=1.4e-07 Score=102.19 Aligned_cols=126 Identities=18% Similarity=0.290 Sum_probs=102.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc--cCCcccHHHHHHHHHHHHHHhhhhhhcccccchhhhhhh------------h-h
Q 001072 297 IMLWHNAIKRELNDIAEAARKIQL--SGDFSDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVE------------L-S 361 (1164)
Q Consensus 297 L~~~HkALRrEL~~L~~~a~~i~~--~gd~~~L~~L~~r~~fL~~vL~~Hs~aEDevlFPaL~~r------------~-~ 361 (1164)
+...|..||++|..|...+.++.. ..+...+..+..-+..|...+..|+..|++++||+|... + .
T Consensus 76 ~~~hH~~i~~~l~~L~~l~~kv~~~hg~~~~~l~~l~~~~~~~~~eL~~H~~kEE~~LFP~l~~~~~g~~~~~~~~pi~~ 155 (216)
T TIGR03652 76 VDRHHEYLREELPELIPLATKVARVHGDHHPELIGLAELFRELKAELEQHLMKEEQILFPAIIEYKRGNPAQAIGTPISV 155 (216)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHccCccccccchHHH
Confidence 367899999999999998877742 223446788999999999999999999999999999741 1 6
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 001072 362 FAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLA 425 (1164)
Q Consensus 362 me~EH~~ie~l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qvfPLl 425 (1164)
|..||+++...+.+|+.++..... +..+...++.+...+..+...|.+|..+||+.+||.+
T Consensus 156 m~~EH~~~~~~l~~L~~l~~~~~~---p~~ac~~~~~~~~~l~~~~~~L~~HI~~En~iLFP~~ 216 (216)
T TIGR03652 156 MESEHDEAGDLLKELRELTNDYTP---PEDACNTWRALYSGLEELEDDLHEHIHLENNILFPRA 216 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCC---CcchhHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Confidence 899999999999999988865321 1112355778888888899999999999999999963
No 9
>TIGR03652 FeS_repair_RIC iron-sulfur cluster repair di-iron protein. Members of this protein family, designated variously as YftE, NorA, DrnN, and NipC, are di-iron proteins involved in the repair of iron-sulfur clusters. Previously assigned names reflect pleiotropic effects of damage from NO or other oxidative stress when this protein is mutated. The suggested name now is RIC, for Repair of Iron Centers.
Probab=98.57 E-value=6e-07 Score=97.41 Aligned_cols=129 Identities=24% Similarity=0.289 Sum_probs=104.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc-cCCCCchHHHHHHHHHHHHHHHHHhhcccccccchhHHh--h-h-----hhhHHH
Q 001072 47 FLFFHKAIKSELDVLHRAAMAFAT-NLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDI--R-V-----KNIART 117 (1164)
Q Consensus 47 ~~~iHkAlRrEL~~L~~~~~~~~~-~~~d~~~~~~l~~r~~~l~~~l~~Hh~~EDe~ifPaL~~--R-~-----~~v~~~ 117 (1164)
....|+.+|++|..|.+.+..+.. ...++.....+..-+..|..-+..|+..|..++||.|.. + . ...+..
T Consensus 76 ~~~hH~~i~~~l~~L~~l~~kv~~~hg~~~~~l~~l~~~~~~~~~eL~~H~~kEE~~LFP~l~~~~~g~~~~~~~~pi~~ 155 (216)
T TIGR03652 76 VDRHHEYLREELPELIPLATKVARVHGDHHPELIGLAELFRELKAELEQHLMKEEQILFPAIIEYKRGNPAQAIGTPISV 155 (216)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHccCccccccchHHH
Confidence 347899999999999998877653 114456678899999999999999999999999999985 3 2 238899
Q ss_pred HHHhhhhHHHHHHHHHHHHhhhccCch--HHHHHHHHHHHHHHHHHHHhHHHHHHHhhhh
Q 001072 118 YSLEHEGESVLFDQLFELLNSSMRNEE--SYRRELASCTGALQTSISQHMSKEEEQVFPL 175 (1164)
Q Consensus 118 ~~~EH~~i~~l~~~L~~~L~~~~~~~~--~~~~eLa~~~~~l~t~L~~HL~~EEeqvlPL 175 (1164)
|..||..+..++.+|..+++......+ ..++.+...+.++...|.+|.++||..+||.
T Consensus 156 m~~EH~~~~~~l~~L~~l~~~~~~p~~ac~~~~~~~~~l~~~~~~L~~HI~~En~iLFP~ 215 (216)
T TIGR03652 156 MESEHDEAGDLLKELRELTNDYTPPEDACNTWRALYSGLEELEDDLHEHIHLENNILFPR 215 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 999999999999999999988763322 3445555556666677999999999999995
No 10
>COG3945 Uncharacterized conserved protein [Function unknown]
Probab=98.51 E-value=1.9e-06 Score=89.72 Aligned_cols=142 Identities=21% Similarity=0.267 Sum_probs=110.5
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHh-hhhhhcccccchhhhhhhh---------h
Q 001072 292 CPIDEIMLWHNAIKRELNDIAEAARKIQLSGDFSDLSAFNKRLQFIAEVC-IFHSIAEDKVIFPAVDVEL---------S 361 (1164)
Q Consensus 292 ~Pid~L~~~HkALRrEL~~L~~~a~~i~~~gd~~~L~~L~~r~~fL~~vL-~~Hs~aEDevlFPaL~~r~---------~ 361 (1164)
.-++.|+-.|+.|.+-|.-|+..+..+. .| +-+-..+..-++|+...- +.||..|+.++||-|..+. .
T Consensus 8 ~~i~~lvEeH~yIlraL~iLr~~~~~~~-~g-~i~y~~v~~iidFi~nfaDkcHH~KEE~~LF~~m~~~g~~~~~~~i~~ 85 (189)
T COG3945 8 DSIKLLVEEHTYILRALSILRKALDLIK-NG-PIDYSDVKEIIDFIRNFADKCHHGKEEKLLFNYMEHEGGPFEEGPIYV 85 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccc-CC-CCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCcccCceee
Confidence 3567889999999999999999888876 44 223344444444444333 3689999999999998763 8
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhCCHHHHHHHHHHH
Q 001072 362 FAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLARRHFSPKRQRELLYQS 441 (1164)
Q Consensus 362 me~EH~~ie~l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qvfPLl~~~fS~eEq~eL~~~~ 441 (1164)
|..||...-.++..|.+.+..+.+.+. +....++..+......+.+|.++|+.++||++++.||.+ |.++.++.
T Consensus 86 m~~EH~~~R~i~r~lee~~~~~kngd~-----~~~~~~i~~A~~y~~likrHIdkEdnvlfp~a~~~~s~e-~~~v~~e~ 159 (189)
T COG3945 86 MTVEHGEGRYIIRDLEEAYERLKNGDE-----DSKDDVIDYAVAYLNLIKRHIDKEDNVLFPFAESTLSEE-LNEVNSEC 159 (189)
T ss_pred ehhhhhhHHHHHHHHHHHHHHHHcccc-----chHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHH-HHHHHHHH
Confidence 999999999999999999999875532 234556666777788999999999999999999999999 66666543
No 11
>PRK13276 cell wall biosynthesis protein ScdA; Provisional
Probab=98.30 E-value=6.4e-06 Score=89.86 Aligned_cols=125 Identities=13% Similarity=0.165 Sum_probs=105.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc--cCCcccHHHHHHHHHHHHHHhhhhhhcccccchhhhhhh-------------hh
Q 001072 297 IMLWHNAIKRELNDIAEAARKIQL--SGDFSDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVE-------------LS 361 (1164)
Q Consensus 297 L~~~HkALRrEL~~L~~~a~~i~~--~gd~~~L~~L~~r~~fL~~vL~~Hs~aEDevlFPaL~~r-------------~~ 361 (1164)
+...|..+|++|..|...+.++.. .++...+..+...+..+..-|..|-..|+.++||++... ..
T Consensus 83 ~~~hH~~~r~~lp~l~~l~~kV~~VHg~~~p~l~~l~~lf~~l~~eL~~H~~KEE~ilFP~i~~~~~~~~~~~~~~pI~~ 162 (224)
T PRK13276 83 QSAYHEPLREEFKNLTPYVTKLSKVHGPNHPYLVELKETYDTFKNGMLEHMQKEDDVDFPKLIKYEQGEVVDDINTVIDD 162 (224)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhccccchhhhhHHHH
Confidence 367899999999999999988842 334557899999999999999999999999999999651 18
Q ss_pred hHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 001072 362 FAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPL 424 (1164)
Q Consensus 362 me~EH~~ie~l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qvfPL 424 (1164)
|..||+++.+.+.+|++++..... |..+...|+.|=..+.++...|.+|.+.|-+.|||-
T Consensus 163 m~~EH~~~g~~l~~i~~lTn~yt~---P~~AC~t~r~ly~~L~~fe~dL~~HIhLENnILFPr 222 (224)
T PRK13276 163 LVSDHIATGQLLVKMSELTSSYEP---PIEACGTWRLVYQRLKALEVLTHEHVHLENHVLFKK 222 (224)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCC---CcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC
Confidence 999999999999999999866532 222356788888888999999999999999999993
No 12
>PRK13276 cell wall biosynthesis protein ScdA; Provisional
Probab=98.28 E-value=1e-05 Score=88.24 Aligned_cols=127 Identities=20% Similarity=0.237 Sum_probs=105.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc--cCCCCchHHHHHHHHHHHHHHHHHhhcccccccchhHHhh--------hhhhHH
Q 001072 47 FLFFHKAIKSELDVLHRAAMAFAT--NLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIR--------VKNIAR 116 (1164)
Q Consensus 47 ~~~iHkAlRrEL~~L~~~~~~~~~--~~~d~~~~~~l~~r~~~l~~~l~~Hh~~EDe~ifPaL~~R--------~~~v~~ 116 (1164)
....|.-+|++|..|..++..+.. + ++......+...+..+..-|..|-.-|..++||.+... +.+.+.
T Consensus 83 ~~~hH~~~r~~lp~l~~l~~kV~~VHg-~~~p~l~~l~~lf~~l~~eL~~H~~KEE~ilFP~i~~~~~~~~~~~~~~pI~ 161 (224)
T PRK13276 83 QSAYHEPLREEFKNLTPYVTKLSKVHG-PNHPYLVELKETYDTFKNGMLEHMQKEDDVDFPKLIKYEQGEVVDDINTVID 161 (224)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhccccchhhhhHHH
Confidence 347899999999999999988664 2 44557889999999999999999999999999999762 346789
Q ss_pred HHHHhhhhHHHHHHHHHHHHhhhccCch--HHHHHHHHHHHHHHHHHHHhHHHHHHHhhh
Q 001072 117 TYSLEHEGESVLFDQLFELLNSSMRNEE--SYRRELASCTGALQTSISQHMSKEEEQVFP 174 (1164)
Q Consensus 117 ~~~~EH~~i~~l~~~L~~~L~~~~~~~~--~~~~eLa~~~~~l~t~L~~HL~~EEeqvlP 174 (1164)
.|+.||+++.+++.+|+++.+......+ ..++.|=.-+.++...|.+|.+.|-.-+||
T Consensus 162 ~m~~EH~~~g~~l~~i~~lTn~yt~P~~AC~t~r~ly~~L~~fe~dL~~HIhLENnILFP 221 (224)
T PRK13276 162 DLVSDHIATGQLLVKMSELTSSYEPPIEACGTWRLVYQRLKALEVLTHEHVHLENHVLFK 221 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 9999999999999999999999975443 444444444555557799999999999998
No 13
>COG2846 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]
Probab=98.02 E-value=4.5e-05 Score=80.83 Aligned_cols=128 Identities=18% Similarity=0.318 Sum_probs=105.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcc-cCCc-ccHHHHHHHHHHHHHHhhhhhhcccccchhhhhhhh---------hhH
Q 001072 295 DEIMLWHNAIKRELNDIAEAARKIQL-SGDF-SDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL---------SFA 363 (1164)
Q Consensus 295 d~L~~~HkALRrEL~~L~~~a~~i~~-~gd~-~~L~~L~~r~~fL~~vL~~Hs~aEDevlFPaL~~r~---------~me 363 (1164)
.++...|+-.|.+|.+|-..+.++.. .||. +-+..|.+-+..|...|.-|-..|++++||++..-. .|+
T Consensus 79 hIi~ryH~~hReqlpeLi~latKverVHgd~p~~p~gl~~~L~~l~~eL~~HMmKEEqIlFPmi~~G~g~~a~~pI~vm~ 158 (221)
T COG2846 79 HIIVRYHERHREQLPELIPLATKVERVHGDKPSCPAGLAELLEALKEELESHMMKEEQILFPMIKQGMGSQAAGPISVME 158 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHhhHHHHhccCcccCcchHHHH
Confidence 45688999999999999999888732 4443 456889999999999999999999999999998431 899
Q ss_pred HhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 001072 364 QEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLA 425 (1164)
Q Consensus 364 ~EH~~ie~l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qvfPLl 425 (1164)
.||++..++++.+..++...... ..+...++.|=.-+..+.+.+.+|++-|=.++||=+
T Consensus 159 ~EHde~g~~l~~lk~lT~n~tpP---~~AC~tWkalY~gl~~~~dDl~~HIHLENnvLFpr~ 217 (221)
T COG2846 159 SEHDEAGELLEVLKHLTNNYTPP---EEACGTWKALYNGLNEFIDDLMEHIHLENNVLFPRV 217 (221)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCC---hHHHhHHHHHHHHHHHHHHHHHHHHHhhhccccchh
Confidence 99999999999999998765322 222445677777778889999999999999999954
No 14
>COG3945 Uncharacterized conserved protein [Function unknown]
Probab=97.86 E-value=0.00014 Score=76.12 Aligned_cols=140 Identities=18% Similarity=0.235 Sum_probs=112.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHhhcccccccchhHHhhh----hhhHHHH
Q 001072 43 PILIFLFFHKAIKSELDVLHRAAMAFATNLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIRV----KNIARTY 118 (1164)
Q Consensus 43 pid~~~~iHkAlRrEL~~L~~~~~~~~~~~~d~~~~~~l~~r~~~l~~~l~~Hh~~EDe~ifPaL~~R~----~~v~~~~ 118 (1164)
-|.+|+-=|+-+-|-|..|+....-..++-=|+.++..+.+-.+-|.+ ++||.-|+-++||-|..+. ++....|
T Consensus 9 ~i~~lvEeH~yIlraL~iLr~~~~~~~~g~i~y~~v~~iidFi~nfaD--kcHH~KEE~~LF~~m~~~g~~~~~~~i~~m 86 (189)
T COG3945 9 SIKLLVEEHTYILRALSILRKALDLIKNGPIDYSDVKEIIDFIRNFAD--KCHHGKEEKLLFNYMEHEGGPFEEGPIYVM 86 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHH--hccchHHHHHHHHHHHHhCCCcccCceeee
Confidence 367888999999999999988877765411256677777666665555 5689999999999999994 5788899
Q ss_pred HHhhhhHHHHHHHHHHHHhhhccCch----HHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhhhhhCCHHHHHHHH
Q 001072 119 SLEHEGESVLFDQLFELLNSSMRNEE----SYRRELASCTGALQTSISQHMSKEEEQVFPLLIEKFSFEEQASLV 189 (1164)
Q Consensus 119 ~~EH~~i~~l~~~L~~~L~~~~~~~~----~~~~eLa~~~~~l~t~L~~HL~~EEeqvlPLL~~~fS~~Eqa~L~ 189 (1164)
.-||..-..++..+.+++..+.-+++ .+...+++.+ ..+.+|+++|+..+||.+.+.||.+ |..+.
T Consensus 87 ~~EH~~~R~i~r~lee~~~~~kngd~~~~~~~i~~A~~y~----~likrHIdkEdnvlfp~a~~~~s~e-~~~v~ 156 (189)
T COG3945 87 TVEHGEGRYIIRDLEEAYERLKNGDEDSKDDVIDYAVAYL----NLIKRHIDKEDNVLFPFAESTLSEE-LNEVN 156 (189)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHH----HHHHHHHhhhhhHHHHHHHHHHHHH-HHHHH
Confidence 99999999999999999999975543 4555555666 6699999999999999999999999 55443
No 15
>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=97.82 E-value=7.7e-06 Score=67.03 Aligned_cols=37 Identities=38% Similarity=0.898 Sum_probs=30.1
Q ss_pred CCCcccccccccccCcccccCCCccccHhhHhh-------hhhhh
Q 001072 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQV-------CSVLC 1154 (1164)
Q Consensus 1117 ~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~-------~~~~~ 1154 (1164)
.+||||++.+-+ ...+..++|||..|.+|+.. ||+|+
T Consensus 1 d~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 379999999987 44566789999999999986 88885
No 16
>COG2846 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]
Probab=97.68 E-value=0.00052 Score=72.98 Aligned_cols=128 Identities=19% Similarity=0.251 Sum_probs=106.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc-cCCCCchHHHHHHHHHHHHHHHHHhhcccccccchhHHhh----hhhhHHHHH
Q 001072 45 LIFLFFHKAIKSELDVLHRAAMAFAT-NLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIR----VKNIARTYS 119 (1164)
Q Consensus 45 d~~~~iHkAlRrEL~~L~~~~~~~~~-~~~d~~~~~~l~~r~~~l~~~l~~Hh~~EDe~ifPaL~~R----~~~v~~~~~ 119 (1164)
-+...+|.-.|.+|..|-.++..+.. -++.|.--+.|..-+..|...|.-|-.-|++++||.+..= ..+.+.-|+
T Consensus 79 hIi~ryH~~hReqlpeLi~latKverVHgd~p~~p~gl~~~L~~l~~eL~~HMmKEEqIlFPmi~~G~g~~a~~pI~vm~ 158 (221)
T COG2846 79 HIIVRYHERHREQLPELIPLATKVERVHGDKPSCPAGLAELLEALKEELESHMMKEEQILFPMIKQGMGSQAAGPISVME 158 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHhhHHHHhccCcccCcchHHHH
Confidence 35668999999999999999888654 1155677788899999999999999999999999999754 446889999
Q ss_pred HhhhhHHHHHHHHHHHHhhhccCch------HHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhh
Q 001072 120 LEHEGESVLFDQLFELLNSSMRNEE------SYRRELASCTGALQTSISQHMSKEEEQVFPLL 176 (1164)
Q Consensus 120 ~EH~~i~~l~~~L~~~L~~~~~~~~------~~~~eLa~~~~~l~t~L~~HL~~EEeqvlPLL 176 (1164)
.||++...+++.|.++.+....-++ ++|.-|..++ +-|.+|++-|-.-+||=+
T Consensus 159 ~EHde~g~~l~~lk~lT~n~tpP~~AC~tWkalY~gl~~~~----dDl~~HIHLENnvLFpr~ 217 (221)
T COG2846 159 SEHDEAGELLEVLKHLTNNYTPPEEACGTWKALYNGLNEFI----DDLMEHIHLENNVLFPRV 217 (221)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCChHHHhHHHHHHHHHHHHH----HHHHHHHHhhhccccchh
Confidence 9999999999999999999875444 5555555555 669999999999888854
No 17
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=7.7e-05 Score=84.72 Aligned_cols=64 Identities=25% Similarity=0.587 Sum_probs=46.9
Q ss_pred cccccccccccccccccccCCcCCCCccccccccccc---------CcccccCCCccccHhhHhh-------hhhhhhhh
Q 001072 1094 CMTCNCCLAKKLVDHKCREKGLETNCPICCDFLFTSS---------ATVRALPCGHFMHSDCFQV-------CSVLCFAF 1157 (1164)
Q Consensus 1094 C~~C~~C~~~~~~~H~C~e~~~~~~CpiC~e~lfts~---------~~~~~l~CGH~~H~~C~~~-------~~~~~~~~ 1157 (1164)
|+.=+.|+.......- ...+.-|-||+|.||-+. ...+-|||||.+|-+|.+. ||||++.|
T Consensus 268 ~kdl~~~~~t~t~eql---~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 268 TKDLNAMYPTATEEQL---TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred hhHHHhhcchhhhhhh---cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 4444566653221111 445778999999998876 3346799999999999975 99999998
Q ss_pred hcc
Q 001072 1158 FFG 1160 (1164)
Q Consensus 1158 ~~~ 1160 (1164)
.|-
T Consensus 345 ifd 347 (491)
T COG5243 345 IFD 347 (491)
T ss_pred ccc
Confidence 874
No 18
>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=96.89 E-value=0.00044 Score=55.44 Aligned_cols=28 Identities=43% Similarity=0.946 Sum_probs=24.5
Q ss_pred CcccccccccccCcccccCCCccccHhhHhh
Q 001072 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQV 1149 (1164)
Q Consensus 1119 CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~ 1149 (1164)
||||++.+.+ |+++++|||.+...|...
T Consensus 1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~ 28 (39)
T PF13923_consen 1 CPICLDELRD---PVVVTPCGHSFCKECIEK 28 (39)
T ss_dssp ETTTTSB-SS---EEEECTTSEEEEHHHHHH
T ss_pred CCCCCCcccC---cCEECCCCCchhHHHHHH
Confidence 8999998877 678999999999999986
No 19
>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=96.88 E-value=0.00042 Score=55.07 Aligned_cols=36 Identities=33% Similarity=0.859 Sum_probs=29.6
Q ss_pred CCcccccccccccCcccccCCCccccHhhHh--------hhhhhhhh
Q 001072 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQ--------VCSVLCFA 1156 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~--------~~~~~~~~ 1156 (1164)
.||||++.+ ..++...+|||.+|..|++ .||+|.+.
T Consensus 1 ~C~iC~~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhh---hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 499999988 4566777899999999996 38888764
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=96.49 E-value=0.0013 Score=54.22 Aligned_cols=37 Identities=24% Similarity=0.678 Sum_probs=31.1
Q ss_pred CCcccccccccccCcccccCCCccccHhhHhh-------hhhhhh
Q 001072 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQV-------CSVLCF 1155 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~-------~~~~~~ 1155 (1164)
.|+||.+.. +...+..+++|||.+...|.+. ||+|++
T Consensus 1 ~C~~C~~~~-~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKY-SEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccc-cCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 499999988 6666778899999999999975 888864
No 21
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=96.36 E-value=0.002 Score=58.88 Aligned_cols=40 Identities=30% Similarity=0.689 Sum_probs=30.0
Q ss_pred cCCCCccccccccccc---------CcccccCCCccccHhhHhh-------hhhhh
Q 001072 1115 LETNCPICCDFLFTSS---------ATVRALPCGHFMHSDCFQV-------CSVLC 1154 (1164)
Q Consensus 1115 ~~~~CpiC~e~lfts~---------~~~~~l~CGH~~H~~C~~~-------~~~~~ 1154 (1164)
.+.+|+||++.|.+.. .++...+|||..|..|... ||+|+
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 3567999999996553 3445579999999999985 99885
No 22
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.34 E-value=0.0018 Score=71.60 Aligned_cols=46 Identities=20% Similarity=0.527 Sum_probs=35.3
Q ss_pred CcCCCCcccccccccccC----cccccCCCccccHhhHhh-------hhhhhhhhhc
Q 001072 1114 GLETNCPICCDFLFTSSA----TVRALPCGHFMHSDCFQV-------CSVLCFAFFF 1159 (1164)
Q Consensus 1114 ~~~~~CpiC~e~lfts~~----~~~~l~CGH~~H~~C~~~-------~~~~~~~~~~ 1159 (1164)
+....||||+|.++.... -....+|||..|..|... ||+|+..+.+
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 345789999999875431 123468999999999965 9999987754
No 23
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=96.01 E-value=0.0031 Score=53.16 Aligned_cols=38 Identities=32% Similarity=0.824 Sum_probs=29.9
Q ss_pred CCCCcccccccccccCcccccCCCcc-ccHhhHhh-------hhhhhhhh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCGHF-MHSDCFQV-------CSVLCFAF 1157 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CGH~-~H~~C~~~-------~~~~~~~~ 1157 (1164)
+..|+||++.. ..+.++||||. +-..|+.. ||+|++.+
T Consensus 2 ~~~C~iC~~~~----~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i 47 (50)
T PF13920_consen 2 DEECPICFENP----RDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPI 47 (50)
T ss_dssp HSB-TTTSSSB----SSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred cCCCccCCccC----CceEEeCCCChHHHHHHhHHhcccCCCCCcCChhh
Confidence 35799999863 34778999999 99999975 89998865
No 24
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=95.93 E-value=0.0036 Score=47.87 Aligned_cols=27 Identities=37% Similarity=0.890 Sum_probs=22.9
Q ss_pred CcccccccccccCcccccCCCccccHhhHhh
Q 001072 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQV 1149 (1164)
Q Consensus 1119 CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~ 1149 (1164)
||||++. ......++|||.+|..|++.
T Consensus 1 C~iC~~~----~~~~~~~~C~H~~c~~C~~~ 27 (39)
T smart00184 1 CPICLEE----LKDPVVLPCGHTFCRSCIRK 27 (39)
T ss_pred CCcCccC----CCCcEEecCCChHHHHHHHH
Confidence 8999988 34567789999999999975
No 25
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=95.50 E-value=0.091 Score=61.46 Aligned_cols=132 Identities=14% Similarity=0.208 Sum_probs=102.1
Q ss_pred CchhhHHHHHHHHHHHHHHHHHHHHHhhcccCCcccH-HHHHHHHHHHHHHhhhhhhcccccchhhhhhhh------hhH
Q 001072 291 SCPIDEIMLWHNAIKRELNDIAEAARKIQLSGDFSDL-SAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL------SFA 363 (1164)
Q Consensus 291 ~~Pid~L~~~HkALRrEL~~L~~~a~~i~~~gd~~~L-~~L~~r~~fL~~vL~~Hs~aEDevlFPaL~~r~------~me 363 (1164)
-+|+..|...-++||..|+.+.+. .. + ..+ ..+...+.+|-.+=+ |=+++...|||.++.|- .|-
T Consensus 85 gHPv~tl~~EN~~i~~ll~~~l~~---~~---~-~~ik~~l~~lv~~L~~vg~-Hy~RKe~lIfp~~Er~GitapptVmW 156 (409)
T COG2461 85 GHPVRTLKRENKAIRSLLANLLQF---PP---K-KEIKEKLVELVSELDKIGK-HYTRKEMLIFPYIERRGITAPPTVMW 156 (409)
T ss_pred CCcHHHHhcccHHHHHHHHHHhhc---cc---c-HHHHHHHHHHHHHHHHhcc-ccccccccchhHHHHcCCCCCCeeee
Confidence 579999999999999554444333 22 1 233 555666666666666 99999999999999884 788
Q ss_pred HhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhCCHHHHHHHHHHH
Q 001072 364 QEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLARRHFSPKRQRELLYQS 441 (1164)
Q Consensus 364 ~EH~~ie~l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qvfPLl~~~fS~eEq~eL~~~~ 441 (1164)
-.|+++-..|..+..++... + ..++...+..+.+.+..=+.+||+.+.|.+-..||..||.++-.+.
T Consensus 157 ~~dDeiRe~lk~~~~~l~~~--s---------~~~~ve~~~~~~t~i~dmIFkEe~Ilypt~~d~~te~ew~~i~~~~ 223 (409)
T COG2461 157 VKDDEIREALKELLKLLKEV--S---------IEEFVEKAESVLTEIEDMIFKEENILYPTLLDLLTEGEWEAIKEQS 223 (409)
T ss_pred ccCcHHHHHHHHHHHHhhcc--C---------hHHHHHHHHHHHHHHHHHHHhhhhhHHhHHHHhcCHHHHHHHHhcC
Confidence 89999988888888887621 1 2456666777788899999999999999999999999999987654
No 26
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=95.33 E-value=0.008 Score=56.63 Aligned_cols=25 Identities=24% Similarity=0.491 Sum_probs=20.7
Q ss_pred ccCCCccccHhhHhh----------hhhhhhhhhc
Q 001072 1135 ALPCGHFMHSDCFQV----------CSVLCFAFFF 1159 (1164)
Q Consensus 1135 ~l~CGH~~H~~C~~~----------~~~~~~~~~~ 1159 (1164)
.-.|||..|.+|... ||.|++.+-|
T Consensus 49 ~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 49 WGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred eccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 346999999999865 9999987655
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=95.25 E-value=0.011 Score=49.12 Aligned_cols=31 Identities=45% Similarity=1.044 Sum_probs=18.4
Q ss_pred Ccccccccccc-cCcccccCCCccccHhhHhhhh
Q 001072 1119 CPICCDFLFTS-SATVRALPCGHFMHSDCFQVCS 1151 (1164)
Q Consensus 1119 CpiC~e~lfts-~~~~~~l~CGH~~H~~C~~~~~ 1151 (1164)
||||.| |++ ..+.++|+|||.+=..|.+...
T Consensus 1 CpIc~e--~~~~~n~P~~L~CGH~~c~~cl~~l~ 32 (43)
T PF13445_consen 1 CPICKE--FSTEENPPMVLPCGHVFCKDCLQKLS 32 (43)
T ss_dssp -TTT------TTSS-EEE-SSS-EEEHHHHHHHH
T ss_pred CCcccc--ccCCCCCCEEEeCccHHHHHHHHHHH
Confidence 999999 444 4445679999999999988754
No 28
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=95.19 E-value=0.0095 Score=47.82 Aligned_cols=28 Identities=43% Similarity=0.967 Sum_probs=23.8
Q ss_pred CcccccccccccCcccccCCCccccHhhHhh
Q 001072 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQV 1149 (1164)
Q Consensus 1119 CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~ 1149 (1164)
||||.+.+... +..++|||.+...|+..
T Consensus 1 C~iC~~~~~~~---~~~~~C~H~fC~~C~~~ 28 (41)
T PF00097_consen 1 CPICLEPFEDP---VILLPCGHSFCRDCLRK 28 (41)
T ss_dssp ETTTSSBCSSE---EEETTTSEEEEHHHHHH
T ss_pred CCcCCccccCC---CEEecCCCcchHHHHHH
Confidence 89999976553 36899999999999986
No 29
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.07 E-value=0.002 Score=72.41 Aligned_cols=133 Identities=17% Similarity=0.114 Sum_probs=91.9
Q ss_pred HHHHHHhhhccccccccccccccccccccccchhhHHHHHHHHHHHHHHHhhhhhhhhcccCccCccccccccccchhhh
Q 001072 690 GLYRAHSNAEDDIVFPALESKETLSNVSHSYTLDHKQEEKLFEDISSALSELTELHECLSTDLTGDLTRNSLESCDQNET 769 (1164)
Q Consensus 690 ~v~~~HS~AEDeivfPALe~k~~~~nvshS~~~EH~~ee~lfedi~~~L~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 769 (1164)
.++..|+.++|++-||+..+.....+..++...||--.=.+..+.+.... . .+
T Consensus 17 ~~~~~~~~~~d~~~~~~~c~hy~r~~~~~a~ccd~~~~C~hCH~~s~~h~--------------------------~-~r 69 (276)
T KOG1940|consen 17 ALSSIHSDAEDEIAFPYGCPHYRRNCKSRAPCCDREITCRHCHNESEDHD--------------------------L-DR 69 (276)
T ss_pred hhhhcccccccccccccCCchhhhccccccccccceeeeEEecChhhhcc--------------------------c-ch
Confidence 78999999999999999988877777777765555443333433311000 0 12
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHhhHhhhhhhhhHHhhhCCHHHHHHHHHHHhhccCHHHHHHhhhHHhhcCCHHHHHH
Q 001072 770 VRKYNEKATELQGMCKSIRVTLDQHVFREELELWPLFDRHFSVEEQDKIVGRIIGTTGAEVLQSMLPWVTSALTQEEQNT 849 (1164)
Q Consensus 770 ~~~~~e~~~kL~~~~ksl~~~L~~Hi~~EE~EvfPL~~K~fS~eeQ~~Lv~~~l~~~p~~lLq~~LPWl~~~LteeE~~~ 849 (1164)
..++.-...+.....++....+..|+. +.++|=++.+.|+++.+ +++.-+++.+--+.++. |||.-.....++.+
T Consensus 70 ~~v~~~~C~~C~~~q~~~~~c~~c~~~--~g~~~c~~C~l~dd~~~-~~~hC~~C~icr~g~~~--~~fhc~~c~~c~~~ 144 (276)
T KOG1940|consen 70 KTVYELLCMKCRKIQPVGQICSNCHVE--LGEYYCLICKLFDDDPS-KQYHCDLCGICREGLGL--DFFHCKKCKACLSA 144 (276)
T ss_pred hhhhhhhhhhHHhhhhhhhccccchhh--hhhhcCccccccccccc-ceecccccccccccccc--chhHHhhhHhHHhh
Confidence 223334455555555566688888888 99999999999999999 88888866554333332 99998887777776
Q ss_pred HHHHh
Q 001072 850 MMDTW 854 (1164)
Q Consensus 850 ml~~~ 854 (1164)
-|.+|
T Consensus 145 ~~~~~ 149 (276)
T KOG1940|consen 145 YLSNW 149 (276)
T ss_pred hcccc
Confidence 66665
No 30
>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=94.23 E-value=0.017 Score=55.34 Aligned_cols=38 Identities=29% Similarity=0.626 Sum_probs=30.1
Q ss_pred ccccCCcCCCCcccccccccccCcccccCCCccccHhhHh
Q 001072 1109 KCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ 1148 (1164)
Q Consensus 1109 ~C~e~~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~ 1148 (1164)
+++.=.....|+||+..|++| +..+.||||.+|..|++
T Consensus 71 ~~v~i~~~~~C~vC~k~l~~~--~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 71 RSVVITESTKCSVCGKPLGNS--VFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ceEEECCCCCccCcCCcCCCc--eEEEeCCCeEEeccccc
Confidence 334334467799999999994 56779999999999975
No 31
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=93.40 E-value=0.032 Score=65.74 Aligned_cols=40 Identities=25% Similarity=0.738 Sum_probs=36.6
Q ss_pred CCCcccccccccccCcccccCCCccccHhhHhh-----hhhhhhh
Q 001072 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQV-----CSVLCFA 1156 (1164)
Q Consensus 1117 ~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~-----~~~~~~~ 1156 (1164)
--||||+|.|-.|++.+....|-|..|-.|... ||||+..
T Consensus 176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~ 220 (493)
T KOG0804|consen 176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYC 220 (493)
T ss_pred CCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhh
Confidence 469999999999999999999999999999875 9999853
No 32
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.40 E-value=0.031 Score=68.93 Aligned_cols=49 Identities=27% Similarity=0.570 Sum_probs=38.5
Q ss_pred cCCcCCCCcccccccccccC-cccccCCCccccHhhHhh-------hhhhhhhhhcc
Q 001072 1112 EKGLETNCPICCDFLFTSSA-TVRALPCGHFMHSDCFQV-------CSVLCFAFFFG 1160 (1164)
Q Consensus 1112 e~~~~~~CpiC~e~lfts~~-~~~~l~CGH~~H~~C~~~-------~~~~~~~~~~~ 1160 (1164)
......-|+||.|.|+++.. .++.|||||..|..|+.. ||+|+..+.=|
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDY 343 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence 33446789999999998644 235699999999999975 99999855433
No 33
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.18 E-value=0.03 Score=65.02 Aligned_cols=41 Identities=29% Similarity=0.711 Sum_probs=34.1
Q ss_pred CCCcccccccccccCcccccCCCccccHhhHhh--------hhhhhhhhh
Q 001072 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQV--------CSVLCFAFF 1158 (1164)
Q Consensus 1117 ~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~--------~~~~~~~~~ 1158 (1164)
.-|-||+|+ |.....++.|||+|.-|..|.+- ||||.+.+.
T Consensus 230 ~~CaIClEd-Y~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLED-YEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecc-cccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 579999986 55666788999999999999973 999987653
No 34
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=92.95 E-value=0.063 Score=57.77 Aligned_cols=32 Identities=28% Similarity=0.664 Sum_probs=24.4
Q ss_pred CCcCCCCcccccccccccCcccccCCCccccHhhHh
Q 001072 1113 KGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ 1148 (1164)
Q Consensus 1113 ~~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~ 1148 (1164)
....-.||||++.+ ..| ++.+|||.....|..
T Consensus 15 ~~~~~~CpICld~~---~dP-VvT~CGH~FC~~CI~ 46 (193)
T PLN03208 15 SGGDFDCNICLDQV---RDP-VVTLCGHLFCWPCIH 46 (193)
T ss_pred CCCccCCccCCCcC---CCc-EEcCCCchhHHHHHH
Confidence 34467899999964 234 447999999999995
No 35
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.88 E-value=0.04 Score=62.15 Aligned_cols=43 Identities=30% Similarity=0.672 Sum_probs=35.3
Q ss_pred CcCCCCcccccccccccCcccccCCCccccHhhHhh--------hhhhhhhh
Q 001072 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV--------CSVLCFAF 1157 (1164)
Q Consensus 1114 ~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~--------~~~~~~~~ 1157 (1164)
..-.+|.||+++. +....++++||-|-.|..|.+. ||||+-.+
T Consensus 321 ~~GveCaICms~f-iK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i 371 (374)
T COG5540 321 DKGVECAICMSNF-IKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371 (374)
T ss_pred CCCceEEEEhhhh-cccceEEEeccCceechhHHHHHHhhhcccCCccCCCC
Confidence 3347899999886 5666789999999999999874 99998653
No 36
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=92.69 E-value=0.05 Score=44.76 Aligned_cols=27 Identities=41% Similarity=1.045 Sum_probs=21.0
Q ss_pred CcccccccccccCcccccCCCccccHhhHhh
Q 001072 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQV 1149 (1164)
Q Consensus 1119 CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~ 1149 (1164)
||||++++..- +.|+|||..=..|...
T Consensus 1 CpiC~~~~~~P----v~l~CGH~FC~~Cl~~ 27 (42)
T PF15227_consen 1 CPICLDLFKDP----VSLPCGHSFCRSCLER 27 (42)
T ss_dssp ETTTTSB-SSE----EE-SSSSEEEHHHHHH
T ss_pred CCccchhhCCc----cccCCcCHHHHHHHHH
Confidence 89999988763 3499999999999875
No 37
>PHA02926 zinc finger-like protein; Provisional
Probab=91.67 E-value=0.093 Score=57.39 Aligned_cols=47 Identities=19% Similarity=0.465 Sum_probs=36.3
Q ss_pred CCcCCCCccccccccccc-----CcccccCCCccccHhhHhh-------------hhhhhhhhhc
Q 001072 1113 KGLETNCPICCDFLFTSS-----ATVRALPCGHFMHSDCFQV-------------CSVLCFAFFF 1159 (1164)
Q Consensus 1113 ~~~~~~CpiC~e~lfts~-----~~~~~l~CGH~~H~~C~~~-------------~~~~~~~~~~ 1159 (1164)
.+.+-.|+||+|.++.-+ ..-+..+|||.....|... ||+|+..+.|
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 455678999999988642 2235579999999999862 9999987754
No 38
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=91.62 E-value=0.074 Score=58.62 Aligned_cols=108 Identities=29% Similarity=0.608 Sum_probs=65.4
Q ss_pred cCcccccccccccccccCC--------------------cccChhhhcccCCCCCcccccCceecccccccccCCCCCCC
Q 001072 988 FGCEHYKRNCKLRAACCGK--------------------LFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTT 1047 (1164)
Q Consensus 988 ~gC~HY~r~c~l~~~cC~k--------------------~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~Q~~~~~C~~ 1047 (1164)
-.|.|=-. -|.+|||+| -|.|..|.....|--+-|. ....+|-.|...-.+
T Consensus 62 kYCEhDF~--~LfaPcC~kC~EFiiGrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~rn-qgr~LC~~Cn~k~Ka------ 132 (332)
T KOG2272|consen 62 KYCEHDFH--VLFAPCCGKCGEFIIGRVIKAMNNSWHPACFRCDLCNKHLADQGFYRN-QGRALCRECNQKEKA------ 132 (332)
T ss_pred ccccccch--hhhchhhcccccchhhHHHHhhccccCcccchhHHHHHHHhhhhhHhh-cchHHhhhhhhhhcc------
Confidence 35776321 377888876 3678888777777666664 347788877654322
Q ss_pred CCCCCcccceEecccccc-ccCC-----CCcccCCCCCcccccCCCCcceeecccccccccccc----cccccccCCcCC
Q 001072 1048 LSCSGLSMAKYYCGICKF-FDDE-----RVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKKL----VDHKCREKGLET 1117 (1164)
Q Consensus 1048 ~~C~~~~~a~y~C~~C~l-~d~~-----k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~~~~----~~H~C~e~~~~~ 1117 (1164)
.--++|-|.+|+- .|++ .++|| -+-|.|.+||-=+...- +.=.|..--...
T Consensus 133 -----~~~g~YvC~KCh~~iD~~~l~fr~d~yH--------------~yHFkCt~C~keL~sdaRevk~eLyClrChD~m 193 (332)
T KOG2272|consen 133 -----KGRGRYVCQKCHAHIDEQPLTFRGDPYH--------------PYHFKCTTCGKELTSDAREVKGELYCLRCHDKM 193 (332)
T ss_pred -----cccceeehhhhhhhcccccccccCCCCC--------------ccceecccccccccchhhhhccceecccccccc
Confidence 2357999999984 5665 56777 25677777775544321 233333333334
Q ss_pred CCcccc
Q 001072 1118 NCPICC 1123 (1164)
Q Consensus 1118 ~CpiC~ 1123 (1164)
-||||+
T Consensus 194 gipiCg 199 (332)
T KOG2272|consen 194 GIPICG 199 (332)
T ss_pred CCcccc
Confidence 556655
No 39
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=90.42 E-value=1.7 Score=51.39 Aligned_cols=137 Identities=22% Similarity=0.251 Sum_probs=100.8
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHhhcccccccchhHHhh-hhhhHHHHH
Q 001072 41 KSPILIFLFFHKAIKSELDVLHRAAMAFATNLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIR-VKNIARTYS 119 (1164)
Q Consensus 41 ~~pid~~~~iHkAlRrEL~~L~~~~~~~~~~~~d~~~~~~l~~r~~~l~~~l~~Hh~~EDe~ifPaL~~R-~~~v~~~~~ 119 (1164)
.+|+..|..=-+++|..|+.+.+ ... +..-.-++-..+-+|..+=+ |-+.+-..|||-++.| ...+...|-
T Consensus 85 gHPv~tl~~EN~~i~~ll~~~l~---~~~----~~~ik~~l~~lv~~L~~vg~-Hy~RKe~lIfp~~Er~GitapptVmW 156 (409)
T COG2461 85 GHPVRTLKRENKAIRSLLANLLQ---FPP----KKEIKEKLVELVSELDKIGK-HYTRKEMLIFPYIERRGITAPPTVMW 156 (409)
T ss_pred CCcHHHHhcccHHHHHHHHHHhh---ccc----cHHHHHHHHHHHHHHHHhcc-ccccccccchhHHHHcCCCCCCeeee
Confidence 56998888888888855444333 221 22234445555555555555 9999999999999999 455666778
Q ss_pred HhhhhHHHHHHHHHHHHhhhccCchHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhhhhhCCHHHHHHHHHh
Q 001072 120 LEHEGESVLFDQLFELLNSSMRNEESYRRELASCTGALQTSISQHMSKEEEQVFPLLIEKFSFEEQASLVWQ 191 (1164)
Q Consensus 120 ~EH~~i~~l~~~L~~~L~~~~~~~~~~~~eLa~~~~~l~t~L~~HL~~EEeqvlPLL~~~fS~~Eqa~L~~~ 191 (1164)
--|..+-..+..+...|. ..+.+.+.+... .+.+.+..=+-+||.-+.|.+...||..||.++..+
T Consensus 157 ~~dDeiRe~lk~~~~~l~--~~s~~~~ve~~~----~~~t~i~dmIFkEe~Ilypt~~d~~te~ew~~i~~~ 222 (409)
T COG2461 157 VKDDEIREALKELLKLLK--EVSIEEFVEKAE----SVLTEIEDMIFKEENILYPTLLDLLTEGEWEAIKEQ 222 (409)
T ss_pred ccCcHHHHHHHHHHHHhh--ccChHHHHHHHH----HHHHHHHHHHHhhhhhHHhHHHHhcCHHHHHHHHhc
Confidence 889999899999998888 333434444444 444778889999999999999999999999888765
No 40
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.36 E-value=0.12 Score=61.43 Aligned_cols=38 Identities=29% Similarity=0.550 Sum_probs=31.1
Q ss_pred CCCCcccccccccccCcccccCCCccccHhhHh-------hhhhhhhhh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ-------VCSVLCFAF 1157 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~-------~~~~~~~~~ 1157 (1164)
.-.||||.+++.. |+ .++|||.....|+. .||+|...+
T Consensus 26 ~l~C~IC~d~~~~---Pv-itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~ 70 (397)
T TIGR00599 26 SLRCHICKDFFDV---PV-LTSCSHTFCSLCIRRCLSNQPKCPLCRAED 70 (397)
T ss_pred ccCCCcCchhhhC---cc-CCCCCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence 3579999997743 34 58999999999998 499998765
No 41
>COG5592 Uncharacterized conserved protein [Function unknown]
Probab=88.90 E-value=1.1 Score=46.97 Aligned_cols=102 Identities=21% Similarity=0.231 Sum_probs=69.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhccccccccc-ccccc----cccc--ccccchhhHHHHHHHHHHHHHHHhhhhhhhhcccC
Q 001072 679 RQFTGRFRLLWGLYRAHSNAEDDIVFPAL-ESKET----LSNV--SHSYTLDHKQEEKLFEDISSALSELTELHECLSTD 751 (1164)
Q Consensus 679 ~~f~~rf~~L~~v~~~HS~AEDeivfPAL-e~k~~----~~nv--shS~~~EH~~ee~lfedi~~~L~~~~~l~~~~~~~ 751 (1164)
-...+...|+|.++..|-.-|.++.||+. ..+.. .... .--+..||+.++.|+..+..-
T Consensus 28 ~e~le~~gf~~k~~k~h~e~Ee~ilF~v~Vd~~~ed~~~fkdt~~~~~i~~DHkliE~l~tnlik~-------------- 93 (171)
T COG5592 28 LEILEFEGFNEKLGKDHVELEEKILFPVIVDADMEDLYVFKDTPEVDRIKNDHKLIETLATNLIKW-------------- 93 (171)
T ss_pred HHHHhhcchHHHHhhhHHHHHHHhhhhhccchHHHHHHhhhccchhhHhHhhHHHHHHHHHHHHhh--------------
Confidence 33444555899999999999999999987 32211 1122 124668999999999888110
Q ss_pred ccCccccccccccchhhhHhhHHHHHHHHHHHHHHHHHHHHHhhHhhhhhhhhHHhhhCCHHHHHH
Q 001072 752 LTGDLTRNSLESCDQNETVRKYNEKATELQGMCKSIRVTLDQHVFREELELWPLFDRHFSVEEQDK 817 (1164)
Q Consensus 752 ~~~~~~~~~~~~~~~~~~~~~~~e~~~kL~~~~ksl~~~L~~Hi~~EE~EvfPL~~K~fS~eeQ~~ 817 (1164)
.+..|+.++. -.+.++|..|=..||.-+||..++.=...+|.+
T Consensus 94 ----------------kR~~k~~e~~-------p~fyK~LtdHn~aEE~~IfPrvks~~~E~~~~~ 136 (171)
T COG5592 94 ----------------KRPDKIKERV-------PLFYKTLTDHNLAEEEYIFPRVKSLKGEDEQSA 136 (171)
T ss_pred ----------------ccchHHHHHH-------HHHHHHHHHccccccchhhHHHHhhcchhhHHH
Confidence 0112323333 566778899999999999999988776655554
No 42
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=88.63 E-value=0.24 Score=43.10 Aligned_cols=36 Identities=22% Similarity=0.364 Sum_probs=29.1
Q ss_pred CCcccccccccccCcccccCCCccccHhhHhh-------hhhhhhhh
Q 001072 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQV-------CSVLCFAF 1157 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~-------~~~~~~~~ 1157 (1164)
-||||++.|-+ || .++|||..-..|+.. ||+|++.+
T Consensus 3 ~Cpi~~~~~~~---Pv-~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~ 45 (63)
T smart00504 3 LCPISLEVMKD---PV-ILPSGQTYERRAIEKWLLSHGTDPVTGQPL 45 (63)
T ss_pred CCcCCCCcCCC---CE-ECCCCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence 59999998654 54 479999999999984 89988654
No 43
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.27 E-value=0.21 Score=52.99 Aligned_cols=37 Identities=32% Similarity=0.693 Sum_probs=29.4
Q ss_pred CCCcccccccccccCcccc-cCCCccccHhhHhh-------hhhhhhh
Q 001072 1117 TNCPICCDFLFTSSATVRA-LPCGHFMHSDCFQV-------CSVLCFA 1156 (1164)
Q Consensus 1117 ~~CpiC~e~lfts~~~~~~-l~CGH~~H~~C~~~-------~~~~~~~ 1156 (1164)
.+||||++..= +.+.+ -+|||..=+.|.+. ||+|.+-
T Consensus 132 ~~CPiCl~~~s---ek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kk 176 (187)
T KOG0320|consen 132 YKCPICLDSVS---EKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKK 176 (187)
T ss_pred cCCCceecchh---hccccccccchhHHHHHHHHHHHhCCCCCCcccc
Confidence 78999998642 23333 79999999999987 9999953
No 44
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.10 E-value=0.17 Score=60.27 Aligned_cols=24 Identities=29% Similarity=0.683 Sum_probs=19.5
Q ss_pred ccccCCCccccHhhHhh--------hhhhhhh
Q 001072 1133 VRALPCGHFMHSDCFQV--------CSVLCFA 1156 (1164)
Q Consensus 1133 ~~~l~CGH~~H~~C~~~--------~~~~~~~ 1156 (1164)
..+-||-|.+|+.|.+. ||||+.-
T Consensus 601 Ym~tPC~HifH~~CL~~WMd~ykl~CPvCR~p 632 (636)
T KOG0828|consen 601 YMLTPCHHIFHRQCLLQWMDTYKLICPVCRCP 632 (636)
T ss_pred ccccchHHHHHHHHHHHHHhhhcccCCccCCC
Confidence 34459999999999864 9999864
No 45
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=87.67 E-value=0.22 Score=56.40 Aligned_cols=33 Identities=33% Similarity=0.785 Sum_probs=27.2
Q ss_pred cCCCCcccccccccccCcccccCCCccccHhhHh
Q 001072 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ 1148 (1164)
Q Consensus 1115 ~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~ 1148 (1164)
-.+.|-||+ |=|-|.....+-+|-||||..||.
T Consensus 114 p~gqCvICL-ygfa~~~~ft~T~C~Hy~H~~Cla 146 (368)
T KOG4445|consen 114 PNGQCVICL-YGFASSPAFTVTACDHYMHFACLA 146 (368)
T ss_pred CCCceEEEE-EeecCCCceeeehhHHHHHHHHHH
Confidence 467899999 566666667788999999999996
No 46
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=87.31 E-value=0.19 Score=45.80 Aligned_cols=34 Identities=24% Similarity=0.544 Sum_probs=14.0
Q ss_pred CCCCcccccccc-cccCcccc---cCCCccccHhhHhh
Q 001072 1116 ETNCPICCDFLF-TSSATVRA---LPCGHFMHSDCFQV 1149 (1164)
Q Consensus 1116 ~~~CpiC~e~lf-ts~~~~~~---l~CGH~~H~~C~~~ 1149 (1164)
+..|+||..++. +...|+.+ -.||...|..|..+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~ 39 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSE 39 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHH
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHH
Confidence 458999999988 55556655 37999999999875
No 47
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.14 E-value=0.17 Score=57.14 Aligned_cols=36 Identities=28% Similarity=0.668 Sum_probs=29.7
Q ss_pred CCCCcccccccccccCcccccCCCccccHhhHh------hhhhhhhhh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ------VCSVLCFAF 1157 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~------~~~~~~~~~ 1157 (1164)
+.-|-||++ .+...++|+|||.. +||+ +||||+|-+
T Consensus 300 ~~LC~ICmD----aP~DCvfLeCGHmV--tCt~CGkrm~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMD----APRDCVFLECGHMV--TCTKCGKRMNECPICRQYI 341 (350)
T ss_pred HHHHHHHhc----CCcceEEeecCcEE--eehhhccccccCchHHHHH
Confidence 788999985 56668999999987 5774 699999865
No 48
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=86.86 E-value=0.43 Score=58.34 Aligned_cols=60 Identities=23% Similarity=0.651 Sum_probs=33.1
Q ss_pred EeccccccccCCCCcccCCCCCcccccCCCCcceeecccccccccccc---cccccccCCcCCCCcccccccccccCc
Q 001072 1058 YYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKKL---VDHKCREKGLETNCPICCDFLFTSSAT 1132 (1164)
Q Consensus 1058 y~C~~C~l~d~~k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~~~~---~~H~C~e~~~~~~CpiC~e~lfts~~~ 1132 (1164)
|||..|.-. .|+-|-... ++.+-|..|-.-++.+. ...+|..+.. +||+|.-.|-+....
T Consensus 6 ~fC~~C~~i----------rc~~c~~~E---i~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf--~CP~C~~~L~~~~~~ 68 (483)
T PF05502_consen 6 YFCEHCHKI----------RCPRCVSEE---IDSYYCPNCLFEVPSSEARSEKNRCSRNCF--DCPICFSPLSVRASD 68 (483)
T ss_pred eeccccccc----------CChhhcccc---cceeECccccccCChhhheeccceeccccc--cCCCCCCcceeEecc
Confidence 666666543 233343332 45666666666555433 4666665543 577777776555433
No 49
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=86.20 E-value=0.36 Score=41.09 Aligned_cols=30 Identities=27% Similarity=0.716 Sum_probs=23.7
Q ss_pred CCcccccccccccCcccccCCC-----ccccHhhHhh
Q 001072 1118 NCPICCDFLFTSSATVRALPCG-----HFMHSDCFQV 1149 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CG-----H~~H~~C~~~ 1149 (1164)
.|-||++ +.+.....++||. |++|..|...
T Consensus 1 ~CrIC~~--~~~~~~~l~~PC~C~G~~~~vH~~Cl~~ 35 (49)
T smart00744 1 ICRICHD--EGDEGDPLVSPCRCKGSLKYVHQECLER 35 (49)
T ss_pred CccCCCC--CCCCCCeeEeccccCCchhHHHHHHHHH
Confidence 3889998 5555556678994 9999999975
No 50
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=86.08 E-value=0.25 Score=64.37 Aligned_cols=95 Identities=28% Similarity=0.627 Sum_probs=62.6
Q ss_pred Cceeccccccc-----ccCCCCCCCCCCCCcccceEeccc---cccccCCCCcccCCCCCcccccCCCCcceeecccccc
Q 001072 1028 TEMMCMRCLKV-----QPVGPVCTTLSCSGLSMAKYYCGI---CKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNC 1099 (1164)
Q Consensus 1028 ~~~~C~~C~~~-----Q~~~~~C~~~~C~~~~~a~y~C~~---C~l~d~~k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~ 1099 (1164)
..--|..|+.. |.++.+|....| +..|+.-|.+ |+-+ || | . +|--||--|=.
T Consensus 3416 S~~aCRFCGs~~~tE~sav~~vCs~aDC--~eYAK~ACs~~H~C~H~-----------CG----G--v-kNEE~CLPCl~ 3475 (3738)
T KOG1428|consen 3416 SSEACRFCGSRSGTELSAVGSVCSDADC--QEYAKIACSKTHPCGHP-----------CG----G--V-KNEEHCLPCLH 3475 (3738)
T ss_pred chhHhhhccCCCCcchhcccCccccHHH--HHHHHHHHhccCcCCCc-----------cc----C--c-cchhhcccccc
Confidence 34478888744 566789998888 5788888875 3333 43 1 1 35667666655
Q ss_pred cccccccccccccCCcCCCCcccccccccccCcccccCCCccccHhhHhh
Q 001072 1100 CLAKKLVDHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV 1149 (1164)
Q Consensus 1100 C~~~~~~~H~C~e~~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~ 1149 (1164)
|-.-. + ..-.+..|-||.-.-. |-.|.+.|.|||..|-+|-.-
T Consensus 3476 Cdks~--t----kQD~DDmCmICFTE~L-~AAP~IqL~C~HiFHlqC~R~ 3518 (3738)
T KOG1428|consen 3476 CDKSA--T----KQDADDMCMICFTEAL-SAAPAIQLDCSHIFHLQCCRR 3518 (3738)
T ss_pred cChhh--h----hcccCceEEEEehhhh-CCCcceecCCccchhHHHHHH
Confidence 52211 1 1223567999965443 567889999999999999864
No 51
>COG5592 Uncharacterized conserved protein [Function unknown]
Probab=85.41 E-value=2.4 Score=44.60 Aligned_cols=75 Identities=21% Similarity=0.229 Sum_probs=59.8
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHhhccCCCCChhhHHHHHHHHHHHHHHHHHHhhhccccccccccccccccccccccch
Q 001072 643 SRPIDNIFKFHKAIRKDLEYLDGESGKLNDCNETFLRQFTGRFRLLWGLYRAHSNAEDDIVFPALESKETLSNVSHSYTL 722 (1164)
Q Consensus 643 ~~pID~I~~~HkAIRkdL~~L~~ea~~l~~~d~~~l~~f~~rf~~L~~v~~~HS~AEDeivfPALe~k~~~~nvshS~~~ 722 (1164)
.+..+.|..+|+.|-+.-..+.... .+ +.+..|+..+...+..|--||++.+||-+++..+. .
T Consensus 70 t~~~~~i~~DHkliE~l~tnlik~k------R~---~k~~e~~p~fyK~LtdHn~aEE~~IfPrvks~~~E--------~ 132 (171)
T COG5592 70 TPEVDRIKNDHKLIETLATNLIKWK------RP---DKIKERVPLFYKTLTDHNLAEEEYIFPRVKSLKGE--------D 132 (171)
T ss_pred cchhhHhHhhHHHHHHHHHHHHhhc------cc---hHHHHHHHHHHHHHHHccccccchhhHHHHhhcch--------h
Confidence 4467899999999999988888542 22 37899999999999999999999999999876432 4
Q ss_pred hhHHHHHHHHHH
Q 001072 723 DHKQEEKLFEDI 734 (1164)
Q Consensus 723 EH~~ee~lfedi 734 (1164)
+..+...+++.|
T Consensus 133 ~~~~~kl~LeiI 144 (171)
T COG5592 133 EQSALKLALEII 144 (171)
T ss_pred hHHHHHHHHHHH
Confidence 555566667777
No 52
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=84.91 E-value=0.28 Score=45.39 Aligned_cols=51 Identities=27% Similarity=0.680 Sum_probs=37.0
Q ss_pred CCCcccccCCCCcceeecccccccccccccccccccCCcCCCCcccccccccccCcccccCCCccccHhhHhh-------
Q 001072 1077 FCNLCRVGRGLGVDFFHCMTCNCCLAKKLVDHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV------- 1149 (1164)
Q Consensus 1077 ~CgiCR~g~gl~~~~fHC~~C~~C~~~~~~~H~C~e~~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~------- 1149 (1164)
-|||||..-. ..|..|-.- ..|||+ |.. -|-|..|.+|...
T Consensus 22 ~CGiCRm~Fd--------g~Cp~Ck~P------------gDdCPL-----------v~G-~C~h~fh~hCI~~wl~~~ts 69 (84)
T KOG1493|consen 22 TCGICRMPFD--------GCCPDCKLP------------GDDCPL-----------VWG-YCLHAFHAHCILKWLNTPTS 69 (84)
T ss_pred ccceEecccC--------CcCCCCcCC------------CCCCcc-----------HHH-HHHHHHHHHHHHHHhcCccc
Confidence 7999999631 135666333 578887 222 6899999999975
Q ss_pred ---hhhhhhhhhc
Q 001072 1150 ---CSVLCFAFFF 1159 (1164)
Q Consensus 1150 ---~~~~~~~~~~ 1159 (1164)
||.|+|-+-|
T Consensus 70 q~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 70 QGQCPMCRQTWQF 82 (84)
T ss_pred cccCCcchheeEe
Confidence 9999998755
No 53
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=82.99 E-value=0.33 Score=56.61 Aligned_cols=48 Identities=31% Similarity=0.683 Sum_probs=41.4
Q ss_pred ccccccCCcCCCCcccccccccccCcccccCCCccccHhhHhh---------hhhhhh
Q 001072 1107 DHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV---------CSVLCF 1155 (1164)
Q Consensus 1107 ~H~C~e~~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~---------~~~~~~ 1155 (1164)
-|.|.+. ++-+|-.|+|.+=-..+....|||.|..|..|..+ ||-|++
T Consensus 357 a~~~~~e-~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 357 AHECVEE-TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHHHHHH-HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 5677765 67899999999977777888999999999999984 999993
No 54
>PRK04023 DNA polymerase II large subunit; Validated
Probab=82.06 E-value=1.1 Score=58.01 Aligned_cols=43 Identities=26% Similarity=0.471 Sum_probs=21.0
Q ss_pred ecccccccccCCCCCCCCCCCCcccceEeccccccccCCCCcccCCCCC
Q 001072 1031 MCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCN 1079 (1164)
Q Consensus 1031 ~C~~C~~~Q~~~~~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~Cg 1079 (1164)
.|..|++.. +...|.+ |+.....-|+|+.|. ..-..|.|++||
T Consensus 628 fCpsCG~~t-~~frCP~--CG~~Te~i~fCP~CG---~~~~~y~CPKCG 670 (1121)
T PRK04023 628 KCPSCGKET-FYRRCPF--CGTHTEPVYRCPRCG---IEVEEDECEKCG 670 (1121)
T ss_pred cCCCCCCcC-CcccCCC--CCCCCCcceeCcccc---CcCCCCcCCCCC
Confidence 455555543 3345654 533334455666662 122335566665
No 55
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=81.84 E-value=0.63 Score=43.50 Aligned_cols=24 Identities=21% Similarity=0.527 Sum_probs=20.1
Q ss_pred cCCCccccHhhHhh-------hhhhhhhhhc
Q 001072 1136 LPCGHFMHSDCFQV-------CSVLCFAFFF 1159 (1164)
Q Consensus 1136 l~CGH~~H~~C~~~-------~~~~~~~~~~ 1159 (1164)
=-|.|..|.+|..- ||.++|.+.|
T Consensus 52 G~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 52 GVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred EecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 47999999999974 9999987654
No 56
>TIGR02481 hemeryth_dom hemerythrin-like metal-binding domain. This model describes both members of the hemerythrin (TIGR00058) family of marine invertebrates and a broader collection of bacterial and archaeal homologs. Many of the latter group are multidomain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (TIGR00254, pfam00990) and methyl-accepting chemotaxis protein signaling domain (pfam00015). Most hemerythrins are oxygen-carriers with a bound non-heme iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. Patterns of conserved residues suggest that all prokaryotic instances of this domain bind iron or another heavy metal, but the exact function is unknown. Not surprisingly, the prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium.
Probab=81.82 E-value=5 Score=39.75 Aligned_cols=51 Identities=18% Similarity=0.214 Sum_probs=36.6
Q ss_pred hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 001072 361 SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQV 421 (1164)
Q Consensus 361 ~me~EH~~ie~l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qv 421 (1164)
.+..+|++.-++++.|...+.. .. . ..++...+..|..-+..||..||.-.
T Consensus 12 ~ID~qH~~l~~~in~l~~a~~~---~~-~------~~~~~~~l~~L~~y~~~HF~~EE~~M 62 (126)
T TIGR02481 12 EIDAQHKELFELINELYDALSA---GN-G------KDELKEILDELIDYTENHFADEEELM 62 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc---CC-C------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888877777777765532 11 1 24677788888999999999999765
No 57
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=81.10 E-value=0.46 Score=41.57 Aligned_cols=27 Identities=37% Similarity=0.904 Sum_probs=23.1
Q ss_pred cccCCCccccHhhHh-----hhhhhhhhhhcc
Q 001072 1134 RALPCGHFMHSDCFQ-----VCSVLCFAFFFG 1160 (1164)
Q Consensus 1134 ~~l~CGH~~H~~C~~-----~~~~~~~~~~~~ 1160 (1164)
.++||||.|=..||. .||+|.+-|=+|
T Consensus 21 ~~~pCgH~I~~~~f~~~rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 21 TVLPCGHLICDNCFPGERYNGCPFCGTPFEFD 52 (55)
T ss_pred ccccccceeeccccChhhccCCCCCCCcccCC
Confidence 469999999999986 499999887665
No 58
>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=78.31 E-value=1.1 Score=44.50 Aligned_cols=22 Identities=36% Similarity=0.852 Sum_probs=17.4
Q ss_pred ecccc--ccccCCCCcccCCCCCc
Q 001072 1059 YCGIC--KFFDDERVVYHCPFCNL 1080 (1164)
Q Consensus 1059 ~C~~C--~l~d~~k~~yHC~~Cgi 1080 (1164)
.|+.| ||||-.|.+-.||+||.
T Consensus 11 ~Cp~CG~kFYDLnk~PivCP~CG~ 34 (108)
T PF09538_consen 11 TCPSCGAKFYDLNKDPIVCPKCGT 34 (108)
T ss_pred cCCCCcchhccCCCCCccCCCCCC
Confidence 34444 78999999999999983
No 59
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=77.95 E-value=0.94 Score=50.62 Aligned_cols=64 Identities=30% Similarity=0.816 Sum_probs=44.5
Q ss_pred CCcccChhhhccc-CCCCCcccccCceecccccccccCCCCCCCCCCCCcccceEecccccc-ccCC-----------CC
Q 001072 1005 GKLFTCRFCHDKV-SDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKF-FDDE-----------RV 1071 (1164)
Q Consensus 1005 ~k~y~Cr~CHde~-~~H~~~r~~~~~~~C~~C~~~Q~~~~~C~~~~C~~~~~a~y~C~~C~l-~d~~-----------k~ 1071 (1164)
|+.|.|-+|++-. +|-+|.-.+ .|+....-+-.|.+ |+ .++.|.|-.||. |-|+ ..
T Consensus 140 Grif~CsfC~~flCEDDQFEHQA-------sCQvLe~E~~KC~S--CN--rlGq~sCLRCK~cfCddHvrrKg~ky~k~k 208 (314)
T PF06524_consen 140 GRIFKCSFCDNFLCEDDQFEHQA-------SCQVLESETFKCQS--CN--RLGQYSCLRCKICFCDDHVRRKGFKYEKGK 208 (314)
T ss_pred CeEEEeecCCCeeeccchhhhhh-------hhhhhhcccccccc--cc--cccchhhhheeeeehhhhhhhcccccccCC
Confidence 6789999999874 555554322 36666666777876 63 799999999996 4443 34
Q ss_pred cccCCCCC
Q 001072 1072 VYHCPFCN 1079 (1164)
Q Consensus 1072 ~yHC~~Cg 1079 (1164)
++-||+||
T Consensus 209 ~~PCPKCg 216 (314)
T PF06524_consen 209 PIPCPKCG 216 (314)
T ss_pred CCCCCCCC
Confidence 66777776
No 60
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=77.41 E-value=1.2 Score=55.81 Aligned_cols=29 Identities=34% Similarity=0.590 Sum_probs=20.8
Q ss_pred CcccccccccccCcccccCCCccccHhhHhh
Q 001072 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQV 1149 (1164)
Q Consensus 1119 CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~ 1149 (1164)
|-||.-.+..|. .+...|||.||++|+.+
T Consensus 1031 C~~C~l~V~gss--~~Cg~C~Hv~H~sc~~e 1059 (1081)
T KOG0309|consen 1031 CAICHLAVRGSS--NFCGTCGHVGHTSCMME 1059 (1081)
T ss_pred eeeEeeEeeccc--hhhccccccccHHHHHH
Confidence 666665555543 34468999999999987
No 61
>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=76.48 E-value=1.5 Score=45.49 Aligned_cols=47 Identities=28% Similarity=0.627 Sum_probs=39.2
Q ss_pred CcccceEeccccccccCCCCcccCCCCCcccccCCCCcceeeccccccccccc
Q 001072 1052 GLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKK 1104 (1164)
Q Consensus 1052 ~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~~~ 1104 (1164)
+......||.+|+.+...| .+||..||.|-.+- -.||.=-|.|+...
T Consensus 43 ~~~~~~~~C~~C~~~kp~R-s~HC~~C~~CV~~~-----DHHC~w~~~cIG~~ 89 (174)
T PF01529_consen 43 DENGELKYCSTCKIIKPPR-SHHCRVCNRCVLRF-----DHHCPWLGNCIGRR 89 (174)
T ss_pred ccCCCCEECcccCCcCCCc-ceeccccccccccc-----cccchhhccccccc
Confidence 4567788999999986664 78999999999974 46999999998864
No 62
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=75.45 E-value=17 Score=34.69 Aligned_cols=82 Identities=13% Similarity=0.095 Sum_probs=64.0
Q ss_pred HHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHhhcccccccchhHHhhhhhhHHHHHHhhhhHHHHHHHHH
Q 001072 54 IKSELDVLHRAAMAFATNLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIRVKNIARTYSLEHEGESVLFDQLF 133 (1164)
Q Consensus 54 lRrEL~~L~~~~~~~~~~~~d~~~~~~l~~r~~~l~~~l~~Hh~~EDe~ifPaL~~R~~~v~~~~~~EH~~i~~l~~~L~ 133 (1164)
||..|..|+..+....+ -|+...+.|..=-..+...+.. ..+...--+.|..|+...+.+++.+|=.....+..|-
T Consensus 2 L~~~L~~L~~eL~~~~~--ld~~~~~~L~~l~~dIe~~L~~--~~~~~~~~~~l~d~l~~av~~FE~~HP~l~~~lr~i~ 77 (85)
T PF14357_consen 2 LQELLEKLHQELEQNPP--LDEETRAELSSLDDDIEAQLAE--EDEAEAEDESLVDRLNEAVERFEASHPKLAGILRNIM 77 (85)
T ss_pred HHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHHHHHHHHhc--CCcccccchhHHHHHHHHHHHHHHhCCcHHHHHHHHH
Confidence 67889999999888665 4555555555555555555554 5566778899999999999999999999999999998
Q ss_pred HHHhhh
Q 001072 134 ELLNSS 139 (1164)
Q Consensus 134 ~~L~~~ 139 (1164)
..|+.+
T Consensus 78 ~sLa~M 83 (85)
T PF14357_consen 78 DSLANM 83 (85)
T ss_pred HHHHHC
Confidence 888765
No 63
>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=73.75 E-value=1.7 Score=44.08 Aligned_cols=25 Identities=28% Similarity=0.380 Sum_probs=19.4
Q ss_pred eEecccc--ccccCCCCcccCCCCCcc
Q 001072 1057 KYYCGIC--KFFDDERVVYHCPFCNLC 1081 (1164)
Q Consensus 1057 ~y~C~~C--~l~d~~k~~yHC~~CgiC 1081 (1164)
|+.|+.| ||||-.|.+-.||+||.=
T Consensus 9 Kr~Cp~cg~kFYDLnk~p~vcP~cg~~ 35 (129)
T TIGR02300 9 KRICPNTGSKFYDLNRRPAVSPYTGEQ 35 (129)
T ss_pred cccCCCcCccccccCCCCccCCCcCCc
Confidence 3445555 789999999999999853
No 64
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=73.16 E-value=2.8 Score=37.33 Aligned_cols=46 Identities=26% Similarity=0.626 Sum_probs=24.8
Q ss_pred CceecccccccccCCC-----CCCCCCCCCcccceEeccccccccCCCCcccCCCCCc
Q 001072 1028 TEMMCMRCLKVQPVGP-----VCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNL 1080 (1164)
Q Consensus 1028 ~~~~C~~C~~~Q~~~~-----~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~Cgi 1080 (1164)
....|..|+..-.+.. .|-| | |.. -=|-|.+|+-+. ..|.||+||+
T Consensus 6 ~~~~CtSCg~~i~~~~~~~~F~CPn--C-G~~-~I~RC~~CRk~~---~~Y~CP~CGF 56 (59)
T PRK14890 6 EPPKCTSCGIEIAPREKAVKFLCPN--C-GEV-IIYRCEKCRKQS---NPYTCPKCGF 56 (59)
T ss_pred cCccccCCCCcccCCCccCEeeCCC--C-CCe-eEeechhHHhcC---CceECCCCCC
Confidence 3446777775554332 4644 4 432 124466665443 4577777774
No 65
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=71.93 E-value=15 Score=40.76 Aligned_cols=38 Identities=29% Similarity=0.369 Sum_probs=23.1
Q ss_pred CCCchHHHHHHHHHHHHHHHHHhhcccccccchhHHhh-----hh-hhHHHHHHhhhhHH
Q 001072 73 GGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIR-----VK-NIARTYSLEHEGES 126 (1164)
Q Consensus 73 ~d~~~~~~l~~r~~~l~~~l~~Hh~~EDe~ifPaL~~R-----~~-~v~~~~~~EH~~i~ 126 (1164)
.||=++.-|.+ -||||++ |.+. |+ -|+.+|.+|-++++
T Consensus 125 NDPYDlGLLLR-------hLRHHSN---------LLAnIgdP~VreqVLsAMqEeeeEEe 168 (238)
T PF02084_consen 125 NDPYDLGLLLR-------HLRHHSN---------LLANIGDPEVREQVLSAMQEEEEEEE 168 (238)
T ss_pred CChhhHHHHHH-------HHHHHHH---------HHhhcCCHHHHHHHHHHHhhhHHHHH
Confidence 67766665544 4678887 3333 33 37888866655444
No 66
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=71.02 E-value=1.7 Score=54.71 Aligned_cols=66 Identities=17% Similarity=0.308 Sum_probs=40.0
Q ss_pred eeecccccccccccc-cccccc-cCCcCCCCcccccccccccCcccccCCCccccHhhHhh-------hhhhhhhh
Q 001072 1091 FFHCMTCNCCLAKKL-VDHKCR-EKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV-------CSVLCFAF 1157 (1164)
Q Consensus 1091 ~fHC~~C~~C~~~~~-~~H~C~-e~~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~-------~~~~~~~~ 1157 (1164)
-..|..|-.|.|-.. ..-.|+ .+..+.-||+|...--+... ..--+|||+.|.+||.. ||||+.-|
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~-~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF 170 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLE-ESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF 170 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhh-ccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence 334444444444422 222333 22345689999865544332 23379999999999975 99998765
No 67
>TIGR02481 hemeryth_dom hemerythrin-like metal-binding domain. This model describes both members of the hemerythrin (TIGR00058) family of marine invertebrates and a broader collection of bacterial and archaeal homologs. Many of the latter group are multidomain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (TIGR00254, pfam00990) and methyl-accepting chemotaxis protein signaling domain (pfam00015). Most hemerythrins are oxygen-carriers with a bound non-heme iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. Patterns of conserved residues suggest that all prokaryotic instances of this domain bind iron or another heavy metal, but the exact function is unknown. Not surprisingly, the prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium.
Probab=68.46 E-value=74 Score=31.44 Aligned_cols=110 Identities=16% Similarity=0.257 Sum_probs=69.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHhhhhhhcccccc----hhhhhhhhhhHHhHHHHHH
Q 001072 296 EIMLWHNAIKRELNDIAEAARKIQLSGDFSDLSAFNKRLQFIAEVCIFHSIAEDKVI----FPAVDVELSFAQEHAEEEI 371 (1164)
Q Consensus 296 ~L~~~HkALRrEL~~L~~~a~~i~~~gd~~~L~~L~~r~~fL~~vL~~Hs~aEDevl----FPaL~~r~~me~EH~~ie~ 371 (1164)
.+=.-|+.|=..++.+.+.+..- .....+...+.+|.+....|-..|+.++ ||.+..+. .+|+ .
T Consensus 12 ~ID~qH~~l~~~in~l~~a~~~~------~~~~~~~~~l~~L~~y~~~HF~~EE~~M~~~~yp~~~~H~---~~H~---~ 79 (126)
T TIGR02481 12 EIDAQHKELFELINELYDALSAG------NGKDELKEILDELIDYTENHFADEEELMEEYGYPDLEEHK---KEHE---K 79 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcC------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHH---HHHH---H
Confidence 34456888888888887766531 1246777888889999999999998765 77666443 3444 4
Q ss_pred HHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 001072 372 QFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPL 424 (1164)
Q Consensus 372 l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qvfPL 424 (1164)
.++.+..+...+.... . ..... ..+..+..-|..|+..+-..+.+.
T Consensus 80 ~l~~l~~l~~~~~~~~-~---~~~~~---~~~~~l~~Wl~~HI~~~D~~~~~~ 125 (126)
T TIGR02481 80 FVKKIEELQEAVAEGA-D---ESLAE---ELLDFLKDWLVNHILKEDKKYAPY 125 (126)
T ss_pred HHHHHHHHHHHHHcCC-c---hhHHH---HHHHHHHHHHHHHhHHHhHHHHhh
Confidence 4455555544443221 1 12222 333456778999999888776553
No 68
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=67.76 E-value=2.4 Score=48.33 Aligned_cols=36 Identities=28% Similarity=0.683 Sum_probs=28.0
Q ss_pred CCcccccccccccCcccccCCCccccHhhHhh-------hhhhhhhh
Q 001072 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQV-------CSVLCFAF 1157 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~-------~~~~~~~~ 1157 (1164)
.|-+|+|..-.. ...||||..=.+|..+ ||.|+..+
T Consensus 241 kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~ 283 (293)
T KOG0317|consen 241 KCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKAECPLCREKF 283 (293)
T ss_pred ceEEEecCCCCC----CcCcCcchHHHHHHHHHHccccCCCcccccC
Confidence 477888776443 3479999999999975 99999764
No 69
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=67.54 E-value=5.1 Score=48.31 Aligned_cols=41 Identities=37% Similarity=0.852 Sum_probs=27.0
Q ss_pred ccccccccCCCCcc---cCCCCC-c----c-------c----ccCCCC--cceeeccccccc
Q 001072 1060 CGICKFFDDERVVY---HCPFCN-L----C-------R----VGRGLG--VDFFHCMTCNCC 1100 (1164)
Q Consensus 1060 C~~C~l~d~~k~~y---HC~~Cg-i----C-------R----~g~gl~--~~~fHC~~C~~C 1100 (1164)
|-||+-||+++++| -|+.|| . | + ++++.| +--|||-.||.=
T Consensus 131 C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~ 192 (446)
T PF07227_consen 131 CCICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKT 192 (446)
T ss_pred ccccCCcccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCCh
Confidence 67888899888887 677776 1 1 1 122222 358999999853
No 70
>PF04641 Rtf2: Rtf2 RING-finger
Probab=67.01 E-value=2.9 Score=47.26 Aligned_cols=44 Identities=18% Similarity=0.358 Sum_probs=34.5
Q ss_pred CCcCCCCcccccccccccCcccc-cCCCccccHhhHhh------hhhhhhhh
Q 001072 1113 KGLETNCPICCDFLFTSSATVRA-LPCGHFMHSDCFQV------CSVLCFAF 1157 (1164)
Q Consensus 1113 ~~~~~~CpiC~e~lfts~~~~~~-l~CGH~~H~~C~~~------~~~~~~~~ 1157 (1164)
....--|||....| ++....++ -||||.+=..++++ ||+|.+.|
T Consensus 110 ~~~~~~CPvt~~~~-~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f 160 (260)
T PF04641_consen 110 SEGRFICPVTGKEF-NGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPF 160 (260)
T ss_pred CCceeECCCCCccc-CCceeEEEEcCCCCEeeHHHHHhhcccccccccCCcc
Confidence 44567899999888 55555555 59999999999875 99998875
No 71
>PRK07219 DNA topoisomerase I; Validated
Probab=66.28 E-value=8.8 Score=50.20 Aligned_cols=64 Identities=25% Similarity=0.478 Sum_probs=38.1
Q ss_pred ccccccccCC----CCcccCCCCCcc---cccCCCCcceeeccc---ccccccccccccccccCCcCCCCccccccccc
Q 001072 1060 CGICKFFDDE----RVVYHCPFCNLC---RVGRGLGVDFFHCMT---CNCCLAKKLVDHKCREKGLETNCPICCDFLFT 1128 (1164)
Q Consensus 1060 C~~C~l~d~~----k~~yHC~~CgiC---R~g~gl~~~~fHC~~---C~~C~~~~~~~H~C~e~~~~~~CpiC~e~lft 1128 (1164)
|+.|+..... .....|+.||-- |.|+. |. |+-|.+ |+.-..+.-..+. ..+...||-|+..|+-
T Consensus 672 CP~C~~~~~~~~~~~~~~~CP~Cg~~l~~k~gr~-G~-F~~Cs~yp~C~~~~~l~~~~~~---~~~~~~CpkCg~~l~~ 745 (822)
T PRK07219 672 CPDCEAEKEEEDPDEVIGPCPKCGGELAIKQLKY-GS-FLGCTNYPKCKYTLPLPRRGKI---TVTDEKCPECGLPLLR 745 (822)
T ss_pred CCCCCCCccccccccccccCCCCCCeeEEEcCCC-CC-eeeCCCCCCCCceeeccccccc---ccccCCCCCCCCeEEE
Confidence 8888876432 246799999822 23432 33 899975 7654433211111 1245789999987764
No 72
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.56 E-value=2.6 Score=47.57 Aligned_cols=42 Identities=21% Similarity=0.513 Sum_probs=32.0
Q ss_pred CCCCccccccccccc------CcccccCCCccccHhhHh---------hhhhhhhhh
Q 001072 1116 ETNCPICCDFLFTSS------ATVRALPCGHFMHSDCFQ---------VCSVLCFAF 1157 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~------~~~~~l~CGH~~H~~C~~---------~~~~~~~~~ 1157 (1164)
++-|.||+..++.|. +...-|.|+|..|..|.+ .||.|-+-|
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 356788888887776 123459999999999996 499997654
No 73
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.43 E-value=3.9 Score=49.79 Aligned_cols=41 Identities=27% Similarity=0.643 Sum_probs=29.0
Q ss_pred cCCCCcccccccccccCcccccCCCccccHhhHh------------hhhhhhhhhhc
Q 001072 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ------------VCSVLCFAFFF 1159 (1164)
Q Consensus 1115 ~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~------------~~~~~~~~~~~ 1159 (1164)
+...||||+++- ..|+ .+.|||..=-.|.- .||+|...|--
T Consensus 185 t~~~CPICL~~~---~~p~-~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 185 TDMQCPICLEPP---SVPV-RTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred cCCcCCcccCCC---Cccc-ccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 378999999763 2223 35699988777753 49999987754
No 74
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=63.95 E-value=4.2 Score=50.73 Aligned_cols=45 Identities=24% Similarity=0.462 Sum_probs=35.5
Q ss_pred ccceEeccccccccCCCC-cccCCCCCcccccCCCCcceeeccccccccccc
Q 001072 1054 SMAKYYCGICKFFDDERV-VYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKK 1104 (1164)
Q Consensus 1054 ~~a~y~C~~C~l~d~~k~-~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~~~ 1104 (1164)
...-+||..|.-|=.|+. .=.||+||.+..++ -||+.||.++.-.
T Consensus 123 ~~~~~Yc~~~e~fl~dr~v~g~cp~cg~~~arG------D~Ce~Cg~~~~P~ 168 (558)
T COG0143 123 EYEGLYCVSCERFLPDRYVEGTCPKCGGEDARG------DQCENCGRTLDPT 168 (558)
T ss_pred ceeeeEcccccccccchheeccCCCcCccccCc------chhhhccCcCCch
Confidence 455679999987766643 34899999999985 3899999998864
No 75
>PRK00808 hypothetical protein; Provisional
Probab=63.87 E-value=22 Score=36.80 Aligned_cols=95 Identities=19% Similarity=0.201 Sum_probs=56.6
Q ss_pred hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHH----HHHHHhhCCH-----
Q 001072 361 SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQV----LPLARRHFSP----- 431 (1164)
Q Consensus 361 ~me~EH~~ie~l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qv----fPLl~~~fS~----- 431 (1164)
.+..+|++.-++++.|..++.. .+ ...+...+..|.+-...||..||.-. +|-+..|--.
T Consensus 16 ~ID~qH~~L~~lin~l~~a~~~---~~--------~~~i~~~l~~L~~y~~~HF~~EE~lM~~~~Yp~~~~H~~~H~~fl 84 (150)
T PRK00808 16 VIDQQHKRIVDYINHLHDAQDS---PD--------RLAVAEVIDELIDYTLSHFAFEESLMEEAGYPFLVPHKRVHELFI 84 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc---Cc--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 5667888777777776655421 11 24677778889999999999999754 4444433221
Q ss_pred HHHHHHHHHHhh--cCCHHHHHHHHhhhcCCCCHHHH
Q 001072 432 KRQRELLYQSLC--VMPLKLIECVLPWLVGSLSEEEA 466 (1164)
Q Consensus 432 eEq~eL~~~~l~--smPl~~L~~vLpWl~~~LS~~Er 466 (1164)
++..++..++.. .+...++..+..|++.++.-..+
T Consensus 85 ~~l~~l~~~~~~g~~~~~~l~~~L~~WL~~HI~~~D~ 121 (150)
T PRK00808 85 KRVEEYRERFQAGEDVADELHGMLSRWLFNHIRNDDA 121 (150)
T ss_pred HHHHHHHHHHHccchHHHHHHHHHHHHHHHHHHHHhH
Confidence 222233333221 12344566677888888754443
No 76
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=63.19 E-value=0.83 Score=54.15 Aligned_cols=81 Identities=23% Similarity=0.619 Sum_probs=0.0
Q ss_pred ccccc--cccCC------CCccc--CCCCCcccccCCCCcceeeccc---ccccccccccccccccCCcCCCCccccccc
Q 001072 1060 CGICK--FFDDE------RVVYH--CPFCNLCRVGRGLGVDFFHCMT---CNCCLAKKLVDHKCREKGLETNCPICCDFL 1126 (1164)
Q Consensus 1060 C~~C~--l~d~~------k~~yH--C~~CgiCR~g~gl~~~~fHC~~---C~~C~~~~~~~H~C~e~~~~~~CpiC~e~l 1126 (1164)
|-.|+ ++.+. +.+|| |-.|+.||.-.. |..||-=+. |--||.-+ -..|-.|++.+
T Consensus 277 C~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~-Gq~FY~v~~k~~CE~cyq~t-----------lekC~~Cg~~I 344 (468)
T KOG1701|consen 277 CAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLA-GQSFYQVDGKPYCEGCYQDT-----------LEKCNKCGEPI 344 (468)
T ss_pred hhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhc-cccccccCCcccchHHHHHH-----------HHHHhhhhhHH
Q ss_pred ccccCcccccCCCccccHhhHhhhhhhhhhh
Q 001072 1127 FTSSATVRALPCGHFMHSDCFQVCSVLCFAF 1157 (1164)
Q Consensus 1127 fts~~~~~~l~CGH~~H~~C~~~~~~~~~~~ 1157 (1164)
-+ -+.=-||-..|-.||. |.||-+..
T Consensus 345 ~d----~iLrA~GkayHp~CF~-Cv~C~r~l 370 (468)
T KOG1701|consen 345 MD----RILRALGKAYHPGCFT-CVVCARCL 370 (468)
T ss_pred HH----HHHHhcccccCCCceE-EEEecccc
No 77
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=62.56 E-value=5.4 Score=49.28 Aligned_cols=48 Identities=23% Similarity=0.632 Sum_probs=41.2
Q ss_pred ccccccCCcccChhhhcccCCCCCcccccCceecccccccccCCCCCCCCCCCC
Q 001072 999 LRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSG 1052 (1164)
Q Consensus 999 l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~Q~~~~~C~~~~C~~ 1052 (1164)
+.|.-||....|..|.-...-|.- ...+.|-.|+..+++...|.+ |.+
T Consensus 214 ~~C~~Cg~~~~C~~C~~~l~~h~~----~~~l~Ch~Cg~~~~~~~~Cp~--C~s 261 (505)
T TIGR00595 214 LLCRSCGYILCCPNCDVSLTYHKK----EGKLRCHYCGYQEPIPKTCPQ--CGS 261 (505)
T ss_pred eEhhhCcCccCCCCCCCceEEecC----CCeEEcCCCcCcCCCCCCCCC--CCC
Confidence 789999999999999877777743 458999999999999999976 744
No 78
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=61.83 E-value=2.7 Score=48.63 Aligned_cols=36 Identities=28% Similarity=0.761 Sum_probs=29.3
Q ss_pred CCcccccccccccCcccccCCCccccHhhHhh-------hhhhhhhh
Q 001072 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQV-------CSVLCFAF 1157 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~-------~~~~~~~~ 1157 (1164)
-|-||.||+-- ...-||||..=+-|... ||.||+-|
T Consensus 25 RC~IC~eyf~i----p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~ 67 (442)
T KOG0287|consen 25 RCGICFEYFNI----PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTV 67 (442)
T ss_pred HHhHHHHHhcC----ceeccccchHHHHHHHHHhccCCCCCceeccc
Confidence 48999999853 34468999999999975 99999765
No 79
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=61.82 E-value=6.9 Score=52.37 Aligned_cols=47 Identities=26% Similarity=0.494 Sum_probs=21.5
Q ss_pred eecccccccccCCCCCCCCCCCCcccceEeccccccc--cCCCCcccCCCCC
Q 001072 1030 MMCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKFF--DDERVVYHCPFCN 1079 (1164)
Q Consensus 1030 ~~C~~C~~~Q~~~~~C~~~~C~~~~~a~y~C~~C~l~--d~~k~~yHC~~Cg 1079 (1164)
..|..|+++-+. ..|.+ |+...-..|+|+.|..- .++.....|++||
T Consensus 668 rkCPkCG~~t~~-~fCP~--CGs~te~vy~CPsCGaev~~des~a~~CP~CG 716 (1337)
T PRK14714 668 RRCPSCGTETYE-NRCPD--CGTHTEPVYVCPDCGAEVPPDESGRVECPRCD 716 (1337)
T ss_pred EECCCCCCcccc-ccCcc--cCCcCCCceeCccCCCccCCCccccccCCCCC
Confidence 344444443322 24533 42222344566666542 1222255788777
No 80
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=61.33 E-value=4.5 Score=39.60 Aligned_cols=30 Identities=23% Similarity=0.677 Sum_probs=26.5
Q ss_pred CCcccCCCCC-----cccccCCCCcceeecccccc
Q 001072 1070 RVVYHCPFCN-----LCRVGRGLGVDFFHCMTCNC 1099 (1164)
Q Consensus 1070 k~~yHC~~Cg-----iCR~g~gl~~~~fHC~~C~~ 1099 (1164)
+..|-|+.|| +|-|-+++++-+-||..||.
T Consensus 20 ~k~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGl 54 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGL 54 (104)
T ss_pred CceEecCccCCeeeeEEEEEecCceeEEEcccCcc
Confidence 4678999999 89999888889999999996
No 81
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=61.31 E-value=4.7 Score=35.42 Aligned_cols=39 Identities=26% Similarity=0.563 Sum_probs=33.4
Q ss_pred CcCCCCcccccccccccCcccccCCCccccHhhHhh---hhh
Q 001072 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV---CSV 1152 (1164)
Q Consensus 1114 ~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~---~~~ 1152 (1164)
-+...|++|++.++....-|+-.-||=.-|+.|+.. |.+
T Consensus 3 ~~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~ 44 (54)
T PF14446_consen 3 YEGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCIN 44 (54)
T ss_pred ccCccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEe
Confidence 356789999999998888888899999999999965 655
No 82
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=61.10 E-value=6.4 Score=35.17 Aligned_cols=45 Identities=29% Similarity=0.790 Sum_probs=27.1
Q ss_pred ceecccccccccCC-----CCCCCCCCCCcccceEeccccccccCCCCcccCCCCCc
Q 001072 1029 EMMCMRCLKVQPVG-----PVCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNL 1080 (1164)
Q Consensus 1029 ~~~C~~C~~~Q~~~-----~~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~Cgi 1080 (1164)
...|..|+.+-.+. -.|-| | | ..-=|-|.+|+-. -.+|.||+||+
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPn--C-G-e~~I~Rc~~CRk~---g~~Y~Cp~CGF 58 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPN--C-G-EVEIYRCAKCRKL---GNPYRCPKCGF 58 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCC--C-C-ceeeehhhhHHHc---CCceECCCcCc
Confidence 45788888777443 24655 4 4 2233566666655 34678888874
No 83
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.54 E-value=3.3 Score=52.94 Aligned_cols=24 Identities=25% Similarity=0.616 Sum_probs=20.8
Q ss_pred CcccccCCCccccHhhHh----hhhhhh
Q 001072 1131 ATVRALPCGHFMHSDCFQ----VCSVLC 1154 (1164)
Q Consensus 1131 ~~~~~l~CGH~~H~~C~~----~~~~~~ 1154 (1164)
-|++...|||..|++|+. +||-|.
T Consensus 852 lP~VhF~CgHsyHqhC~e~~~~~CP~C~ 879 (933)
T KOG2114|consen 852 LPFVHFLCGHSYHQHCLEDKEDKCPKCL 879 (933)
T ss_pred cceeeeecccHHHHHhhccCcccCCccc
Confidence 367779999999999998 599985
No 84
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=59.06 E-value=6.6 Score=44.65 Aligned_cols=31 Identities=26% Similarity=0.597 Sum_probs=17.6
Q ss_pred ceeecccccccccc------cccccccccCCcCCCCcccccc
Q 001072 1090 DFFHCMTCNCCLAK------KLVDHKCREKGLETNCPICCDF 1125 (1164)
Q Consensus 1090 ~~fHC~~C~~C~~~------~~~~H~C~e~~~~~~CpiC~e~ 1125 (1164)
.-|+|..||-=|.- .+-+|+ +...|+||+..
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~-----l~c~C~iCGKa 196 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHT-----LPCECGICGKA 196 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccC-----CCccccccccc
Confidence 35556666554431 113665 56778888864
No 85
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.66 E-value=4.8 Score=47.17 Aligned_cols=40 Identities=28% Similarity=0.591 Sum_probs=30.4
Q ss_pred CcCCCCcccccccccccCcccccCCCcc-ccHhhHhh-------hhhhhhhh
Q 001072 1114 GLETNCPICCDFLFTSSATVRALPCGHF-MHSDCFQV-------CSVLCFAF 1157 (1164)
Q Consensus 1114 ~~~~~CpiC~e~lfts~~~~~~l~CGH~-~H~~C~~~-------~~~~~~~~ 1157 (1164)
.....|-||+.. +..+.+|||-|. |=+.|-+. ||||++-|
T Consensus 288 ~~gkeCVIClse----~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi 335 (349)
T KOG4265|consen 288 ESGKECVICLSE----SRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPI 335 (349)
T ss_pred cCCCeeEEEecC----CcceEEecchhhehhHhHHHHHHHhhcCCCccccch
Confidence 335689999964 344778999996 67778654 99999865
No 86
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.46 E-value=5.6 Score=46.69 Aligned_cols=43 Identities=28% Similarity=0.502 Sum_probs=30.9
Q ss_pred ccCCcCCCCcccccccccccCcccccCCCcccc-HhhHh---hhhhhhhhh
Q 001072 1111 REKGLETNCPICCDFLFTSSATVRALPCGHFMH-SDCFQ---VCSVLCFAF 1157 (1164)
Q Consensus 1111 ~e~~~~~~CpiC~e~lfts~~~~~~l~CGH~~H-~~C~~---~~~~~~~~~ 1157 (1164)
.+.+...+|-||.+.= +..+++||||..= ..|++ .||||+++.
T Consensus 300 ~~~~~p~lcVVcl~e~----~~~~fvpcGh~ccct~cs~~l~~CPvCR~rI 346 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDEP----KSAVFVPCGHVCCCTLCSKHLPQCPVCRQRI 346 (355)
T ss_pred cccCCCCceEEecCCc----cceeeecCCcEEEchHHHhhCCCCchhHHHH
Confidence 3556789999999644 4478899999843 33443 399999874
No 87
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=56.25 E-value=7.8 Score=30.39 Aligned_cols=24 Identities=38% Similarity=1.089 Sum_probs=18.9
Q ss_pred eEeccccccc-cCCCCcccCCCCCc
Q 001072 1057 KYYCGICKFF-DDERVVYHCPFCNL 1080 (1164)
Q Consensus 1057 ~y~C~~C~l~-d~~k~~yHC~~Cgi 1080 (1164)
.|-|.+|.+. +.++.++.||.||.
T Consensus 1 ~~~C~~CGy~y~~~~~~~~CP~Cg~ 25 (33)
T cd00350 1 KYVCPVCGYIYDGEEAPWVCPVCGA 25 (33)
T ss_pred CEECCCCCCEECCCcCCCcCcCCCC
Confidence 4789999765 66689999999974
No 88
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=56.08 E-value=3.5 Score=48.60 Aligned_cols=44 Identities=25% Similarity=0.668 Sum_probs=35.2
Q ss_pred cccccCCcCCCCcccccccccccCcccccCCCccccHhhHhh---------hhhhhh
Q 001072 1108 HKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV---------CSVLCF 1155 (1164)
Q Consensus 1108 H~C~e~~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~---------~~~~~~ 1155 (1164)
=.|-=.++-.-|-||.| +.+.|++=||||.|-+.|..+ ||.|+-
T Consensus 361 LYceMgsTFeLCKICae----ndKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRc 413 (563)
T KOG1785|consen 361 LYCEMGSTFELCKICAE----NDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRC 413 (563)
T ss_pred HHHHccchHHHHHHhhc----cCCCcccccccchHHHHHHHhhcccCCCCCCCceee
Confidence 34555677778889987 456789999999999999865 999963
No 89
>cd00522 Hemerythrin Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the muscle tissue of sipunculids as well as in polycheate and oligocheate annelids. In addition to oxygen transport, Mhr proteins are involved in cadmium fixation and host anti-bacterial defense. Hr and Mhr proteins have the same "four alpha helix bundle" motif and active site structure. Hr forms oligomers, the octameric form being most prevalent, while Mhr is monomeric.
Probab=54.28 E-value=65 Score=31.74 Aligned_cols=85 Identities=18% Similarity=0.228 Sum_probs=44.1
Q ss_pred hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHH----HHHHHhhCCHHHHHH
Q 001072 361 SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQV----LPLARRHFSPKRQRE 436 (1164)
Q Consensus 361 ~me~EH~~ie~l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qv----fPLl~~~fS~eEq~e 436 (1164)
.+..+|++.-++++.|..++.. ...+..|..-...||..||.-. +|-+..| -++=+.
T Consensus 14 ~ID~qH~~L~~l~n~l~~a~~~-----------------~~~l~~L~~y~~~HF~~EE~~M~~~~yp~~~~H--~~~H~~ 74 (113)
T cd00522 14 VIDDEHKTLFNGINDLSEANNR-----------------ADNLKELVDYTVKHFKDEEALMEAAGYPDYEEH--KKIHED 74 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHhH-----------------HHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHH--HHHHHH
Confidence 3445666655555555544321 2346677777899999999764 4545444 111111
Q ss_pred HH---HHHhhcCCHHHHHHHHhhhcCCCCHH
Q 001072 437 LL---YQSLCVMPLKLIECVLPWLVGSLSEE 464 (1164)
Q Consensus 437 L~---~~~l~smPl~~L~~vLpWl~~~LS~~ 464 (1164)
+. ..+....+..++..+-.|++.++...
T Consensus 75 f~~~~~~~~~~~~~~~~~~l~~Wl~~HI~~~ 105 (113)
T cd00522 75 FVEKVGGLKAPVGQADLKYLKDWLVNHIKTE 105 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhH
Confidence 21 11222223444555556666655433
No 90
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=53.97 E-value=9.7 Score=32.75 Aligned_cols=36 Identities=22% Similarity=0.488 Sum_probs=17.0
Q ss_pred CcccccccccccCccccc--CCCccccHhhHhh--------hhhhhhh
Q 001072 1119 CPICCDFLFTSSATVRAL--PCGHFMHSDCFQV--------CSVLCFA 1156 (1164)
Q Consensus 1119 CpiC~e~lfts~~~~~~l--~CGH~~H~~C~~~--------~~~~~~~ 1156 (1164)
||+|.|.|. .+...++ +||+-|=..||.. ||-|++.
T Consensus 1 cp~C~e~~d--~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELD--ETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B----CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccc--cCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 899999993 3334555 5699999999875 8888763
No 91
>PRK01917 cation-binding hemerythrin HHE family protein; Provisional
Probab=53.72 E-value=35 Score=35.04 Aligned_cols=69 Identities=13% Similarity=0.169 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHH----HHHHHhhCCH-----HHHHHHHHHHhh----cCCHHHHHHHHhhhcCCCCHH
Q 001072 398 KLCSQADLIMASIQKHFRNEEVQV----LPLARRHFSP-----KRQRELLYQSLC----VMPLKLIECVLPWLVGSLSEE 464 (1164)
Q Consensus 398 eLa~~le~L~~~L~~Hf~kEE~qv----fPLl~~~fS~-----eEq~eL~~~~l~----smPl~~L~~vLpWl~~~LS~~ 464 (1164)
.+...++.|..-...||..||.-. +|-+..|-.. ++..++..+... .+...++..+..|++.++.-.
T Consensus 38 ~i~~~l~~L~~y~~~HF~~EE~lM~~~~YP~~~~H~~eH~~fl~~v~~l~~~~~~~g~~~~~~~l~~~L~~Wl~~HI~~~ 117 (139)
T PRK01917 38 DFLQALDAWIDHTRHHFAQEERWMEATKFGPRHCHRAEHDEVLAVAADVREKVARDGDFELGRRLVAELPEWFDQHVRTM 117 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 366778888999999999999653 3433333211 122223332222 233455556678888887444
Q ss_pred HH
Q 001072 465 EA 466 (1164)
Q Consensus 465 Er 466 (1164)
.+
T Consensus 118 D~ 119 (139)
T PRK01917 118 DA 119 (139)
T ss_pred HH
Confidence 33
No 92
>PRK05580 primosome assembly protein PriA; Validated
Probab=53.08 E-value=9.1 Score=49.00 Aligned_cols=48 Identities=23% Similarity=0.633 Sum_probs=41.3
Q ss_pred ccccccCCcccChhhhcccCCCCCcccccCceecccccccccCCCCCCCCCCCC
Q 001072 999 LRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSG 1052 (1164)
Q Consensus 999 l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~Q~~~~~C~~~~C~~ 1052 (1164)
+.|.-||....|..|.-...-|.. ...+.|-.|+..+++...|.+ |.+
T Consensus 382 ~~C~~Cg~~~~C~~C~~~l~~h~~----~~~l~Ch~Cg~~~~~~~~Cp~--Cg~ 429 (679)
T PRK05580 382 LLCRDCGWVAECPHCDASLTLHRF----QRRLRCHHCGYQEPIPKACPE--CGS 429 (679)
T ss_pred eEhhhCcCccCCCCCCCceeEECC----CCeEECCCCcCCCCCCCCCCC--CcC
Confidence 899999999999999888777743 458999999999999999976 744
No 93
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=53.00 E-value=11 Score=48.69 Aligned_cols=53 Identities=25% Similarity=0.568 Sum_probs=41.9
Q ss_pred ccccccCCcccChhhhcccCCCCCcccccCceecccccccccCCCCCCCCCCCCcccceE
Q 001072 999 LRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSGLSMAKY 1058 (1164)
Q Consensus 999 l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~Q~~~~~C~~~~C~~~~~a~y 1058 (1164)
+.|.-||-.+.|++|=.-..=|.. +..+.|-+|+..+++-..|.+ | |...=+|
T Consensus 436 l~C~~Cg~v~~Cp~Cd~~lt~H~~----~~~L~CH~Cg~~~~~p~~Cp~--C-gs~~L~~ 488 (730)
T COG1198 436 LLCRDCGYIAECPNCDSPLTLHKA----TGQLRCHYCGYQEPIPQSCPE--C-GSEHLRA 488 (730)
T ss_pred eecccCCCcccCCCCCcceEEecC----CCeeEeCCCCCCCCCCCCCCC--C-CCCeeEE
Confidence 899999999999999655555533 469999999999999999976 6 5443333
No 94
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=52.78 E-value=6.7 Score=45.61 Aligned_cols=46 Identities=28% Similarity=0.664 Sum_probs=27.3
Q ss_pred CcccceEeccccccccCCCCcccCCCCCcccccCCCCcceeecccccccccc
Q 001072 1052 GLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAK 1103 (1164)
Q Consensus 1052 ~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~~ 1103 (1164)
+....+-||.+|+.|-.+| ..||.-||.|-..- --||.==|-|+..
T Consensus 104 ~~~~~~~~C~~C~~~KP~R-S~HC~~Cn~CV~k~-----DHHC~Wi~nCVG~ 149 (309)
T COG5273 104 GKFGTENFCSTCNIYKPPR-SHHCSICNRCVLKF-----DHHCPWINNCVGF 149 (309)
T ss_pred CccccceeccccccccCCC-Cccchhhcchhhcc-----CccCcccccccCc
Confidence 4555666888998887663 34666666665542 2355555555544
No 95
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=51.96 E-value=8.5 Score=44.68 Aligned_cols=41 Identities=22% Similarity=0.541 Sum_probs=34.9
Q ss_pred CCCCcccccccccccCcccccCCCccccHhhHhh--------hhhhhhh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV--------CSVLCFA 1156 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~--------~~~~~~~ 1156 (1164)
+.-||.|+|.|--+.+.-.--|||--|-+-||.. ||-|++.
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~ 62 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRK 62 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhh
Confidence 3459999999988877666678999999999975 9999985
No 96
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.90 E-value=6.1 Score=43.57 Aligned_cols=57 Identities=30% Similarity=0.732 Sum_probs=42.8
Q ss_pred cccccccccccc-ccccC---------CcCCCCcccccccccccCcccccCCCccccHhhHhh---------------hh
Q 001072 1097 CNCCLAKKLVDH-KCREK---------GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV---------------CS 1151 (1164)
Q Consensus 1097 C~~C~~~~~~~H-~C~e~---------~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~---------------~~ 1151 (1164)
|--|+- ++| |||-. -...||-.|.-.|-... .+-|-|=|..|..|+++ ||
T Consensus 24 CEhClV---~nHpkCiVQSYLqWL~DsDY~pNC~LC~t~La~gd--t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP 98 (299)
T KOG3970|consen 24 CEHCLV---ANHPKCIVQSYLQWLQDSDYNPNCRLCNTPLASGD--TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCP 98 (299)
T ss_pred HHHHHh---ccCchhhHHHHHHHHhhcCCCCCCceeCCccccCc--ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCC
Confidence 444533 344 78754 34689999998887543 34599999999999987 99
Q ss_pred hhhhhhh
Q 001072 1152 VLCFAFF 1158 (1164)
Q Consensus 1152 ~~~~~~~ 1158 (1164)
-|++-+|
T Consensus 99 ~Cs~eiF 105 (299)
T KOG3970|consen 99 CCSQEIF 105 (299)
T ss_pred CCCCccC
Confidence 9999877
No 97
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=51.56 E-value=11 Score=33.63 Aligned_cols=9 Identities=22% Similarity=0.899 Sum_probs=4.7
Q ss_pred ceeeccccc
Q 001072 1090 DFFHCMTCN 1098 (1164)
Q Consensus 1090 ~~fHC~~C~ 1098 (1164)
+-|.|.+||
T Consensus 47 ~~Y~CP~CG 55 (59)
T PRK14890 47 NPYTCPKCG 55 (59)
T ss_pred CceECCCCC
Confidence 445555554
No 98
>PRK00808 hypothetical protein; Provisional
Probab=51.08 E-value=3e+02 Score=28.51 Aligned_cols=111 Identities=17% Similarity=0.244 Sum_probs=72.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHhhhhhhcccccc----hhhhhhhhhhHHhHHHHHH
Q 001072 296 EIMLWHNAIKRELNDIAEAARKIQLSGDFSDLSAFNKRLQFIAEVCIFHSIAEDKVI----FPAVDVELSFAQEHAEEEI 371 (1164)
Q Consensus 296 ~L~~~HkALRrEL~~L~~~a~~i~~~gd~~~L~~L~~r~~fL~~vL~~Hs~aEDevl----FPaL~~r~~me~EH~~ie~ 371 (1164)
.+=.-|+.|=.-++.|...+. .++ -..+..-+.+|.+....|=..|+.++ ||.++.+. .+| +.
T Consensus 16 ~ID~qH~~L~~lin~l~~a~~----~~~---~~~i~~~l~~L~~y~~~HF~~EE~lM~~~~Yp~~~~H~---~~H---~~ 82 (150)
T PRK00808 16 VIDQQHKRIVDYINHLHDAQD----SPD---RLAVAEVIDELIDYTLSHFAFEESLMEEAGYPFLVPHK---RVH---EL 82 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHH----cCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHH---HHH---HH
Confidence 334568777677777666543 222 34666778889999999999998765 77766443 244 44
Q ss_pred HHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 001072 372 QFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLARRH 428 (1164)
Q Consensus 372 l~e~L~~ll~~l~~a~~~s~~~~~~~eLa~~le~L~~~L~~Hf~kEE~qvfPLl~~~ 428 (1164)
.++.+..+...... +. ... ...+.-|..-|..|...+-....+.+.+.
T Consensus 83 fl~~l~~l~~~~~~-g~-----~~~---~~l~~~L~~WL~~HI~~~D~~~~~~l~~~ 130 (150)
T PRK00808 83 FIKRVEEYRERFQA-GE-----DVA---DELHGMLSRWLFNHIRNDDAAYVDAVKAN 130 (150)
T ss_pred HHHHHHHHHHHHHc-cc-----hHH---HHHHHHHHHHHHHHHHHHhHHHHHHHHHh
Confidence 45555555544432 21 122 23445578889999999999999998885
No 99
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.98 E-value=7.3 Score=44.06 Aligned_cols=38 Identities=21% Similarity=0.585 Sum_probs=30.6
Q ss_pred CCCCcccccccccccCcccccCCCccccHhhHhh---------hhhhhhhh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV---------CSVLCFAF 1157 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~---------~~~~~~~~ 1157 (1164)
...|+||+|.+.+ ....||||..=..|.-. ||.|++-|
T Consensus 215 d~kC~lC~e~~~~----ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 215 DYKCFLCLEEPEV----PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccceeeeecccCC----cccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 4569999998765 34589999999999876 99998755
No 100
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=50.65 E-value=11 Score=48.04 Aligned_cols=46 Identities=28% Similarity=0.649 Sum_probs=22.8
Q ss_pred eecccccccccCC-CCCCCCCCCCcccceEeccccccccCCCCcccCCCCC
Q 001072 1030 MMCMRCLKVQPVG-PVCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCN 1079 (1164)
Q Consensus 1030 ~~C~~C~~~Q~~~-~~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~Cg 1079 (1164)
++|..|+.+-|.+ ..|.+ | |..+..-.|+.|.-- ...+.-.|+.||
T Consensus 2 ~~Cp~Cg~~n~~~akFC~~--C-G~~l~~~~Cp~CG~~-~~~~~~fC~~CG 48 (645)
T PRK14559 2 LICPQCQFENPNNNRFCQK--C-GTSLTHKPCPQCGTE-VPVDEAHCPNCG 48 (645)
T ss_pred CcCCCCCCcCCCCCccccc--c-CCCCCCCcCCCCCCC-CCcccccccccC
Confidence 3566676665543 44655 4 555544445555432 112333455554
No 101
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=49.36 E-value=9.4 Score=37.49 Aligned_cols=33 Identities=18% Similarity=0.421 Sum_probs=20.0
Q ss_pred ceeeccccc-ccccccccccccccCCcCCCCcccccccc
Q 001072 1090 DFFHCMTCN-CCLAKKLVDHKCREKGLETNCPICCDFLF 1127 (1164)
Q Consensus 1090 ~~fHC~~C~-~C~~~~~~~H~C~e~~~~~~CpiC~e~lf 1127 (1164)
.+|+|..|| ..+++.++. +..+-.||+|+.|-=
T Consensus 20 t~f~CP~Cge~~v~v~~~k-----~~~h~~C~~CG~y~~ 53 (99)
T PRK14892 20 KIFECPRCGKVSISVKIKK-----NIAIITCGNCGLYTE 53 (99)
T ss_pred cEeECCCCCCeEeeeecCC-----CcceEECCCCCCccC
Confidence 577777777 333333322 456778888887643
No 102
>PRK04023 DNA polymerase II large subunit; Validated
Probab=49.33 E-value=13 Score=48.85 Aligned_cols=48 Identities=25% Similarity=0.551 Sum_probs=30.9
Q ss_pred CCCCCCCCCCCcccceEeccccccccCCCCcccCCCCCcccccCCCCcceeecccccccc
Q 001072 1042 GPVCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCL 1101 (1164)
Q Consensus 1042 ~~~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~ 1101 (1164)
...|.+ | |......+|+.|.=- ...+|.|+.||..-.+ ..|.+||.=.
T Consensus 626 ~RfCps--C-G~~t~~frCP~CG~~--Te~i~fCP~CG~~~~~-------y~CPKCG~El 673 (1121)
T PRK04023 626 RRKCPS--C-GKETFYRRCPFCGTH--TEPVYRCPRCGIEVEE-------DECEKCGREP 673 (1121)
T ss_pred CccCCC--C-CCcCCcccCCCCCCC--CCcceeCccccCcCCC-------CcCCCCCCCC
Confidence 457865 5 666666778888643 3677888888654332 4488877643
No 103
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=48.92 E-value=5.8 Score=50.41 Aligned_cols=36 Identities=31% Similarity=0.696 Sum_probs=28.4
Q ss_pred CCcccccccccccCcccccCCCccccHhhHhh--------hhhhhhhh
Q 001072 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQV--------CSVLCFAF 1157 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~--------~~~~~~~~ 1157 (1164)
-||+|. |-.+.++...|||..=..|.+. ||.|..+|
T Consensus 645 kCs~Cn----~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 645 KCSVCN----TRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred eCCCcc----CchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 366665 4556678899999998888875 99999886
No 104
>PF12773 DZR: Double zinc ribbon
Probab=48.81 E-value=17 Score=30.47 Aligned_cols=49 Identities=22% Similarity=0.581 Sum_probs=24.5
Q ss_pred cccccccccC-CCCCCCCCCCCcccceEeccccccccCCCCcccCCCCCcccccCCCCcceeeccccc
Q 001072 1032 CMRCLKVQPV-GPVCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCN 1098 (1164)
Q Consensus 1032 C~~C~~~Q~~-~~~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCR~g~gl~~~~fHC~~C~ 1098 (1164)
|..|+++.+. +..|.+ | |..+. ..+...+.|+.||- .+..+..-|..||
T Consensus 1 Cp~Cg~~~~~~~~fC~~--C-G~~l~----------~~~~~~~~C~~Cg~-----~~~~~~~fC~~CG 50 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPH--C-GTPLP----------PPDQSKKICPNCGA-----ENPPNAKFCPNCG 50 (50)
T ss_pred CCCcCCcCCccccCChh--h-cCChh----------hccCCCCCCcCCcC-----CCcCCcCccCccc
Confidence 5566666554 345655 4 55444 22244555666652 1223455555554
No 105
>PRK14873 primosome assembly protein PriA; Provisional
Probab=48.48 E-value=12 Score=48.03 Aligned_cols=47 Identities=26% Similarity=0.461 Sum_probs=38.1
Q ss_pred ccccccCCcccChhhhcccCCCCCcccccCceecccccccccCCCCCCCCCCCC
Q 001072 999 LRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSG 1052 (1164)
Q Consensus 999 l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~Q~~~~~C~~~~C~~ 1052 (1164)
+.|.-||....|..|.--..=|. ....+.|-.|+..+ +...|.+ |.+
T Consensus 384 l~C~~Cg~~~~C~~C~~~L~~h~----~~~~l~Ch~CG~~~-~p~~Cp~--Cgs 430 (665)
T PRK14873 384 LACARCRTPARCRHCTGPLGLPS----AGGTPRCRWCGRAA-PDWRCPR--CGS 430 (665)
T ss_pred eEhhhCcCeeECCCCCCceeEec----CCCeeECCCCcCCC-cCccCCC--CcC
Confidence 89999999999999988877664 24589999999976 5778966 643
No 106
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.22 E-value=10 Score=43.10 Aligned_cols=39 Identities=23% Similarity=0.560 Sum_probs=26.0
Q ss_pred CCCCcccccccccccCcccccCCCccccHhhHhh---------hhhhhhhh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV---------CSVLCFAF 1157 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~---------~~~~~~~~ 1157 (1164)
...||+|+++ ++.|.+..+|||--=-.|... ||-|+-++
T Consensus 239 ~~~C~~Cg~~---PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 239 DTECPVCGEP---PTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENV 286 (298)
T ss_pred CceeeccCCC---CCCCeeeccccceeehhhhhhhhcchhhcccCccCCCC
Confidence 4578888886 677777788998554444432 77776543
No 107
>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=47.16 E-value=11 Score=37.55 Aligned_cols=32 Identities=25% Similarity=0.517 Sum_probs=23.5
Q ss_pred ccccccccCCcccChhhhcccCCCCCcccccCceecccccccccCC
Q 001072 997 CKLRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVG 1042 (1164)
Q Consensus 997 c~l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~Q~~~ 1042 (1164)
.|-.||-||+-| .+... ..++|.+|+++|++.
T Consensus 8 tKR~Cp~CG~kF-------------YDLnk-~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 8 TKRTCPSCGAKF-------------YDLNK-DPIVCPKCGTEFPPE 39 (108)
T ss_pred CcccCCCCcchh-------------ccCCC-CCccCCCCCCccCcc
Confidence 466789998733 23322 578999999999987
No 108
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=45.81 E-value=6.8 Score=44.75 Aligned_cols=33 Identities=30% Similarity=0.779 Sum_probs=26.0
Q ss_pred CCCCcccccCCCCcceeeccccccccccccccccccc
Q 001072 1076 PFCNLCRVGRGLGVDFFHCMTCNCCLAKKLVDHKCRE 1112 (1164)
Q Consensus 1076 ~~CgiCR~g~gl~~~~fHC~~C~~C~~~~~~~H~C~e 1112 (1164)
.+|..|++.|. --.-||..||.|+.. -.|.|+=
T Consensus 149 ~kCSTCki~KP--ARSKHCsiCNrCV~r--fDHHCiW 181 (341)
T KOG1312|consen 149 VKCSTCKIRKP--ARSKHCSICNRCVHR--FDHHCIW 181 (341)
T ss_pred CccccccCCCc--cccccchHHHHHHHH--hccceEe
Confidence 57788888774 568899999999876 4788874
No 109
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=43.44 E-value=9 Score=39.48 Aligned_cols=33 Identities=24% Similarity=0.465 Sum_probs=29.0
Q ss_pred CCCCcccccccccccCcccccCCC------ccccHhhHhh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCG------HFMHSDCFQV 1149 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CG------H~~H~~C~~~ 1149 (1164)
...|.||.+.+-. -..|+.++|| |.+|..|.+-
T Consensus 26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~r 64 (134)
T PF05883_consen 26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKR 64 (134)
T ss_pred Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHH
Confidence 3569999999998 7789999998 9999999874
No 110
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=43.19 E-value=16 Score=35.89 Aligned_cols=33 Identities=15% Similarity=0.596 Sum_probs=24.8
Q ss_pred CCcccCCCCC----cccccCCCCcceeeccccccccccc
Q 001072 1070 RVVYHCPFCN----LCRVGRGLGVDFFHCMTCNCCLAKK 1104 (1164)
Q Consensus 1070 k~~yHC~~Cg----iCR~g~gl~~~~fHC~~C~~C~~~~ 1104 (1164)
..+|+|++|| .|.+++ |+-...|.+||.=+...
T Consensus 19 pt~f~CP~Cge~~v~v~~~k--~~~h~~C~~CG~y~~~~ 55 (99)
T PRK14892 19 PKIFECPRCGKVSISVKIKK--NIAIITCGNCGLYTEFE 55 (99)
T ss_pred CcEeECCCCCCeEeeeecCC--CcceEECCCCCCccCEE
Confidence 4688999999 455666 46689999999766554
No 111
>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=42.75 E-value=8.2 Score=40.62 Aligned_cols=23 Identities=22% Similarity=0.711 Sum_probs=13.8
Q ss_pred eEecccccc---ccCC-CCcccCCCCC
Q 001072 1057 KYYCGICKF---FDDE-RVVYHCPFCN 1079 (1164)
Q Consensus 1057 ~y~C~~C~l---~d~~-k~~yHC~~Cg 1079 (1164)
-|+|+.|+. |++. ..-|+||.||
T Consensus 109 ~Y~Cp~c~~r~tf~eA~~~~F~Cp~Cg 135 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAMELNFTCPRCG 135 (158)
T ss_pred eEECCCCCcEeeHHHHHHcCCcCCCCC
Confidence 366777753 3443 4567777775
No 112
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=42.44 E-value=14 Score=44.79 Aligned_cols=30 Identities=37% Similarity=0.711 Sum_probs=21.7
Q ss_pred CCcccccccccccCcccccC---CCccccHhhHh
Q 001072 1118 NCPICCDFLFTSSATVRALP---CGHFMHSDCFQ 1148 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~---CGH~~H~~C~~ 1148 (1164)
.|+||..|=|.+ .|...+. |||.-|..|--
T Consensus 130 ~C~iC~kfD~~~-n~~~Wi~Cd~CgH~cH~dCAL 162 (446)
T PF07227_consen 130 MCCICSKFDDNK-NTCSWIGCDVCGHWCHLDCAL 162 (446)
T ss_pred CccccCCcccCC-CCeeEEeccCCCceehhhhhc
Confidence 588998875554 4555554 58999999974
No 113
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=42.17 E-value=10 Score=45.58 Aligned_cols=19 Identities=16% Similarity=0.469 Sum_probs=14.2
Q ss_pred hHHHhcCHHHHHHHHhhhc
Q 001072 912 NDIFRMNQNELEAEIRKVS 930 (1164)
Q Consensus 912 ~~~~~~~q~~l~~~Ir~i~ 930 (1164)
...+++|+.+||..|++.-
T Consensus 50 ~~llk~~~KqLR~li~~Lr 68 (436)
T KOG2593|consen 50 KELLKFNKKQLRKLIASLR 68 (436)
T ss_pred HHHhcccHHHHHHHHHHhh
Confidence 3456788888888887774
No 114
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=41.29 E-value=12 Score=43.52 Aligned_cols=35 Identities=29% Similarity=0.750 Sum_probs=27.1
Q ss_pred CCCcccccccccccCcccccCC--CccccHhhHh----hhhhhhhh
Q 001072 1117 TNCPICCDFLFTSSATVRALPC--GHFMHSDCFQ----VCSVLCFA 1156 (1164)
Q Consensus 1117 ~~CpiC~e~lfts~~~~~~l~C--GH~~H~~C~~----~~~~~~~~ 1156 (1164)
-+||||.++|--. .+.| ||..=++|.. .||+|+..
T Consensus 49 leCPvC~~~l~~P-----i~QC~nGHlaCssC~~~~~~~CP~Cr~~ 89 (299)
T KOG3002|consen 49 LDCPVCFNPLSPP-----IFQCDNGHLACSSCRTKVSNKCPTCRLP 89 (299)
T ss_pred ccCchhhccCccc-----ceecCCCcEehhhhhhhhcccCCccccc
Confidence 5799999988643 3677 8999999994 39998643
No 115
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=40.92 E-value=9.5 Score=40.99 Aligned_cols=24 Identities=29% Similarity=0.984 Sum_probs=14.4
Q ss_pred ceEecccccc---ccCC-CCcccCCCCC
Q 001072 1056 AKYYCGICKF---FDDE-RVVYHCPFCN 1079 (1164)
Q Consensus 1056 a~y~C~~C~l---~d~~-k~~yHC~~Cg 1079 (1164)
..|+|+.|+. |++. -..|+||.||
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~~~F~Cp~Cg 143 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAMEYGFRCPQCG 143 (178)
T ss_pred CEEECCCCCcEEeHHHHhhcCCcCCCCC
Confidence 3466777753 3443 4567777775
No 116
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=40.87 E-value=10 Score=34.49 Aligned_cols=36 Identities=33% Similarity=0.646 Sum_probs=17.3
Q ss_pred CCcccccccccccCcccccCCCccccHhhHhh-----hhhhhhh
Q 001072 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQV-----CSVLCFA 1156 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~-----~~~~~~~ 1156 (1164)
-|++|.++|-. ||..-.|.|..=+.|... ||||...
T Consensus 9 rCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~P 49 (65)
T PF14835_consen 9 RCSICFDILKE---PVCLGGCEHIFCSSCIRDCIGSECPVCHTP 49 (65)
T ss_dssp S-SSS-S--SS----B---SSS--B-TTTGGGGTTTB-SSS--B
T ss_pred CCcHHHHHhcC---CceeccCccHHHHHHhHHhcCCCCCCcCCh
Confidence 48999988754 666779999999888865 8888653
No 117
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=40.70 E-value=6 Score=44.44 Aligned_cols=74 Identities=22% Similarity=0.548 Sum_probs=44.9
Q ss_pred CcccceEeccccccccCCCCcccCCCCCcccccCCCCcceeecccccccccccc-cccccccCCcCCCCccccccccc
Q 001072 1052 GLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKKL-VDHKCREKGLETNCPICCDFLFT 1128 (1164)
Q Consensus 1052 ~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~~~~-~~H~C~e~~~~~~CpiC~e~lft 1128 (1164)
+..-+-.||..|-.|= .+..-||+.|+.|..-- |.-|-||..|-.|+-.++ .--.|..-+...-|-||+++...
T Consensus 199 ~~EE~~~~~~~~~~Yv-~~~~~H~~~~~S~~~~~--~~~~~H~~~~~~~~~~~~i~C~~~~~~A~~~~C~iC~~~~~~ 273 (325)
T KOG4399|consen 199 PTEEGYRFCSPCQRYV-SLENQHCEHCNSCTSKD--GRKWNHCFLCKKCVKPSWIHCSICNHCAVKHGCFICGELDHK 273 (325)
T ss_pred ccccceEEEeehHHHH-HHHhhhchhhcccccch--hHHHhHhHHhhhhcccceeeeecccchhhhcceeeccccccc
Confidence 4455666788887662 23455888888886643 246778888877777665 21112222234567777777654
No 118
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=40.66 E-value=20 Score=42.04 Aligned_cols=25 Identities=20% Similarity=0.777 Sum_probs=19.0
Q ss_pred cccceEe--ccccccccCCCCcccCCCCCc
Q 001072 1053 LSMAKYY--CGICKFFDDERVVYHCPFCNL 1080 (1164)
Q Consensus 1053 ~~~a~y~--C~~C~l~d~~k~~yHC~~Cgi 1080 (1164)
+.|--|| |.||++++. -|-|++||+
T Consensus 61 ~dfeL~f~Ge~i~~y~~q---SftCPyC~~ 87 (381)
T KOG1280|consen 61 VDFELYFGGEPISHYDPQ---SFTCPYCGI 87 (381)
T ss_pred cceeeEecCccccccccc---cccCCcccc
Confidence 4565565 999988765 799999985
No 119
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=40.24 E-value=21 Score=29.78 Aligned_cols=23 Identities=30% Similarity=0.894 Sum_probs=10.6
Q ss_pred eEecccccc---ccCCCCcccCCCCC
Q 001072 1057 KYYCGICKF---FDDERVVYHCPFCN 1079 (1164)
Q Consensus 1057 ~y~C~~C~l---~d~~k~~yHC~~Cg 1079 (1164)
.|.|+.|.- +++.....+||+||
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG 28 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCG 28 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCC
Confidence 455555542 22222355666665
No 120
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=40.01 E-value=18 Score=40.63 Aligned_cols=93 Identities=22% Similarity=0.565 Sum_probs=61.9
Q ss_pred cccccccccccccCC--------cccChhhhcccCCCCCc----ccccCceecccccccccCCCCCCCCCCCCcccceEe
Q 001072 992 HYKRNCKLRAACCGK--------LFTCRFCHDKVSDHSMD----RKATTEMMCMRCLKVQPVGPVCTTLSCSGLSMAKYY 1059 (1164)
Q Consensus 992 HY~r~c~l~~~cC~k--------~y~Cr~CHde~~~H~~~----r~~~~~~~C~~C~~~Q~~~~~C~~~~C~~~~~a~y~ 1059 (1164)
-|+..=...|.-|+. .|.|..||.-..+-++. .+..-...|..|+++...... ...+.-|
T Consensus 114 f~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~keL~sdaR--------evk~eLy 185 (332)
T KOG2272|consen 114 FYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCGKELTSDAR--------EVKGELY 185 (332)
T ss_pred hHhhcchHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceecccccccccchhh--------hhcccee
Confidence 344444455666643 79999999887664442 344457889999988765432 2345788
Q ss_pred ccccccccCCCCcccCCCCCcccc----------cCCCCcceeeccccc
Q 001072 1060 CGICKFFDDERVVYHCPFCNLCRV----------GRGLGVDFFHCMTCN 1098 (1164)
Q Consensus 1060 C~~C~l~d~~k~~yHC~~CgiCR~----------g~gl~~~~fHC~~C~ 1098 (1164)
|.-|. +.+-||-||-||. |+--..+-|-|.+|-
T Consensus 186 ClrCh------D~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~Ce 228 (332)
T KOG2272|consen 186 CLRCH------DKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCE 228 (332)
T ss_pred ccccc------cccCCcccccccCchHHHHHHHhccccchhheeehhcC
Confidence 98886 2456888999986 444445678888774
No 121
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=39.64 E-value=17 Score=33.25 Aligned_cols=36 Identities=22% Similarity=0.350 Sum_probs=24.8
Q ss_pred CCCcccccccccccCcccccCCCccccHhhHhh--------hhhhhhh
Q 001072 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQV--------CSVLCFA 1156 (1164)
Q Consensus 1117 ~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~--------~~~~~~~ 1156 (1164)
--|||+++-|-+ || .+||||+.=+.|... ||+|++.
T Consensus 5 f~CpIt~~lM~d---PV-i~~~G~tyer~~I~~~l~~~~~~~P~t~~~ 48 (73)
T PF04564_consen 5 FLCPITGELMRD---PV-ILPSGHTYERSAIERWLEQNGGTDPFTRQP 48 (73)
T ss_dssp GB-TTTSSB-SS---EE-EETTSEEEEHHHHHHHHCTTSSB-TTT-SB
T ss_pred cCCcCcCcHhhC---ce-eCCcCCEEcHHHHHHHHHcCCCCCCCCCCc
Confidence 359999988876 44 479999999888865 7777654
No 122
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=38.39 E-value=10 Score=48.89 Aligned_cols=20 Identities=20% Similarity=0.157 Sum_probs=0.0
Q ss_pred HHHhhhccCCCCChHHHHHH
Q 001072 924 AEIRKVSRDSTLDPRRKAYL 943 (1164)
Q Consensus 924 ~~Ir~i~~~~~l~~~~ka~~ 943 (1164)
..+.-|+..+.+.=+.||.-
T Consensus 582 ~~l~~vn~~sg~~ir~rapt 601 (900)
T PF03833_consen 582 NALEAVNELSGFKIRDRAPT 601 (900)
T ss_dssp --------------------
T ss_pred cHHHHHHHhCCCEecccCcc
Confidence 34445555555555555543
No 123
>PLN03086 PRLI-interacting factor K; Provisional
Probab=38.30 E-value=20 Score=44.91 Aligned_cols=53 Identities=25% Similarity=0.615 Sum_probs=29.5
Q ss_pred CCcccCCCCCcccccC-CCC------cceeecccccccccccc-ccc---ccccCCcCCCCccccccc
Q 001072 1070 RVVYHCPFCNLCRVGR-GLG------VDFFHCMTCNCCLAKKL-VDH---KCREKGLETNCPICCDFL 1126 (1164)
Q Consensus 1070 k~~yHC~~CgiCR~g~-gl~------~~~fHC~~C~~C~~~~~-~~H---~C~e~~~~~~CpiC~e~l 1126 (1164)
+..+||+.||- ..+. .|. ..-+-|. ||..+.... ..| .|-++ ...|+.|...+
T Consensus 451 ~~H~~C~~Cgk-~f~~s~LekH~~~~Hkpv~Cp-Cg~~~~R~~L~~H~~thCp~K--pi~C~fC~~~v 514 (567)
T PLN03086 451 KNHVHCEKCGQ-AFQQGEMEKHMKVFHEPLQCP-CGVVLEKEQMVQHQASTCPLR--LITCRFCGDMV 514 (567)
T ss_pred ccCccCCCCCC-ccchHHHHHHHHhcCCCccCC-CCCCcchhHHHhhhhccCCCC--ceeCCCCCCcc
Confidence 56678888863 1111 000 0124577 776554433 677 36665 56799998655
No 124
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=38.21 E-value=20 Score=30.92 Aligned_cols=24 Identities=29% Similarity=0.664 Sum_probs=14.4
Q ss_pred cCCCCCcccccCCCCcceeecccccc
Q 001072 1074 HCPFCNLCRVGRGLGVDFFHCMTCNC 1099 (1164)
Q Consensus 1074 HC~~CgiCR~g~gl~~~~fHC~~C~~ 1099 (1164)
.||.||-- .-. ...+.++|.+||.
T Consensus 22 fCP~Cg~~-~m~-~~~~r~~C~~Cgy 45 (50)
T PRK00432 22 FCPRCGSG-FMA-EHLDRWHCGKCGY 45 (50)
T ss_pred cCcCCCcc-hhe-ccCCcEECCCcCC
Confidence 67777754 211 1346788888774
No 125
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=38.20 E-value=10 Score=29.24 Aligned_cols=36 Identities=31% Similarity=0.612 Sum_probs=24.2
Q ss_pred CCcccccccccccCcccccCCCccccHhhHhhhhhhhhh
Q 001072 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQVCSVLCFA 1156 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~~~~~~~~ 1156 (1164)
.|+.|.+.+..+...+..+ |...|..||. |..|.+.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~--~~~~H~~Cf~-C~~C~~~ 36 (39)
T smart00132 1 KCAGCGKPIRGGELVLRAL--GKVWHPECFK-CSKCGKP 36 (39)
T ss_pred CccccCCcccCCcEEEEeC--CccccccCCC-CcccCCc
Confidence 3888988887763322222 7899999985 5666654
No 126
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=37.61 E-value=22 Score=43.86 Aligned_cols=15 Identities=33% Similarity=0.848 Sum_probs=11.0
Q ss_pred CCcccceEecccccc
Q 001072 1051 SGLSMAKYYCGICKF 1065 (1164)
Q Consensus 1051 ~~~~~a~y~C~~C~l 1065 (1164)
.....-.|||+.|-+
T Consensus 20 ~~~Ei~~~yCp~CL~ 34 (483)
T PF05502_consen 20 VSEEIDSYYCPNCLF 34 (483)
T ss_pred cccccceeECccccc
Confidence 345677899999965
No 127
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=36.45 E-value=18 Score=41.39 Aligned_cols=48 Identities=27% Similarity=0.713 Sum_probs=36.1
Q ss_pred CCcccceEeccccccccCCCCcccCCCCCcccccCCCCcceeeccccccccccc
Q 001072 1051 SGLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKK 1104 (1164)
Q Consensus 1051 ~~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~~~ 1104 (1164)
.|....-+||..|+++-.. .-.||.-||.|-.+- --||.==|.|+...
T Consensus 107 ~~~~~~~~~C~~C~~~rPp-Rs~HCsvC~~CV~rf-----DHHC~WvnnCVG~r 154 (299)
T KOG1311|consen 107 NGIQVEWKYCDTCQLYRPP-RSSHCSVCNNCVLRF-----DHHCPWLNNCIGER 154 (299)
T ss_pred CCcccceEEcCcCcccCCC-Ccccchhhccccccc-----CCCCCCccceECCC
Confidence 3667778999999998444 457888888887764 35888888887653
No 128
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=36.17 E-value=3.5 Score=35.59 Aligned_cols=45 Identities=22% Similarity=0.700 Sum_probs=28.7
Q ss_pred ccceEeccccccccCCCCcccCCCCC-----cccccCCCCcceeecccccccccc
Q 001072 1054 SMAKYYCGICKFFDDERVVYHCPFCN-----LCRVGRGLGVDFFHCMTCNCCLAK 1103 (1164)
Q Consensus 1054 ~~a~y~C~~C~l~d~~k~~yHC~~Cg-----iCR~g~gl~~~~fHC~~C~~C~~~ 1103 (1164)
+|++|.|+.|+--..-+..-.|--|| -|-. +.||-|..||-=+.+
T Consensus 4 SFsry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~-----deYY~CksC~Gii~l 53 (57)
T PF14445_consen 4 SFSRYSCDLCNSSHPISELRQCVLCGRWACNSCWQ-----DEYYTCKSCNGIINL 53 (57)
T ss_pred HHhhHhHHhhcccCcHHHHHHHhhhchhhhhhhhh-----hhHhHHHhhhchhhh
Confidence 68888888887543334444555554 3433 468889888865544
No 129
>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=35.81 E-value=12 Score=34.66 Aligned_cols=10 Identities=30% Similarity=1.152 Sum_probs=7.5
Q ss_pred cceEeccccc
Q 001072 1055 MAKYYCGICK 1064 (1164)
Q Consensus 1055 ~a~y~C~~C~ 1064 (1164)
.+.|||..|+
T Consensus 48 AvdYFC~~c~ 57 (70)
T PF07191_consen 48 AVDYFCNHCH 57 (70)
T ss_dssp EEEEE-TTTT
T ss_pred ccceeeccCC
Confidence 4689999997
No 130
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.85 E-value=18 Score=40.33 Aligned_cols=38 Identities=26% Similarity=0.547 Sum_probs=26.0
Q ss_pred CCCCcccccccccccCcccccCCCccccHhhHhh----------hhhhhhhh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQV----------CSVLCFAF 1157 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~----------~~~~~~~~ 1157 (1164)
.-+|-||+|- .+..++-.|||..=.-|+-. ||||.-.|
T Consensus 47 ~FdCNICLd~----akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~V 94 (230)
T KOG0823|consen 47 FFDCNICLDL----AKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEV 94 (230)
T ss_pred ceeeeeeccc----cCCCEEeecccceehHHHHHHHhhcCCCeeCCcccccc
Confidence 3456666542 23345578999999999864 99996543
No 131
>COG1144 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]
Probab=34.83 E-value=17 Score=35.10 Aligned_cols=15 Identities=27% Similarity=0.762 Sum_probs=13.2
Q ss_pred cceeecccccccccc
Q 001072 1089 VDFFHCMTCNCCLAK 1103 (1164)
Q Consensus 1089 ~~~fHC~~C~~C~~~ 1103 (1164)
+||-+|+.||.|..+
T Consensus 63 idYdyCKGCGICa~v 77 (91)
T COG1144 63 IDYDYCKGCGICANV 77 (91)
T ss_pred eEcccccCceechhh
Confidence 699999999999764
No 132
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=34.52 E-value=20 Score=33.90 Aligned_cols=35 Identities=29% Similarity=0.826 Sum_probs=20.6
Q ss_pred CCcccCCCCC-----cccccCCCCcceeeccccccccccc
Q 001072 1070 RVVYHCPFCN-----LCRVGRGLGVDFFHCMTCNCCLAKK 1104 (1164)
Q Consensus 1070 k~~yHC~~Cg-----iCR~g~gl~~~~fHC~~C~~C~~~~ 1104 (1164)
...|.||+|| .|.+-+..|.-.-+|..||.=+...
T Consensus 20 ~~~F~CPfC~~~~sV~v~idkk~~~~~~~C~~Cg~~~~~~ 59 (81)
T PF05129_consen 20 PKVFDCPFCNHEKSVSVKIDKKEGIGILSCRVCGESFQTK 59 (81)
T ss_dssp SS----TTT--SS-EEEEEETTTTEEEEEESSS--EEEEE
T ss_pred CceEcCCcCCCCCeEEEEEEccCCEEEEEecCCCCeEEEc
Confidence 3678999999 6777666666788999998777654
No 133
>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=34.46 E-value=18 Score=29.83 Aligned_cols=7 Identities=29% Similarity=0.856 Sum_probs=2.5
Q ss_pred ecccccc
Q 001072 1093 HCMTCNC 1099 (1164)
Q Consensus 1093 HC~~C~~ 1099 (1164)
-|..||.
T Consensus 21 vC~~CG~ 27 (43)
T PF08271_consen 21 VCPNCGL 27 (43)
T ss_dssp EETTT-B
T ss_pred ECCCCCC
Confidence 4444443
No 134
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=33.73 E-value=29 Score=27.60 Aligned_cols=23 Identities=26% Similarity=0.953 Sum_probs=16.9
Q ss_pred eEeccccccc-cCCCCcccCCCCC
Q 001072 1057 KYYCGICKFF-DDERVVYHCPFCN 1079 (1164)
Q Consensus 1057 ~y~C~~C~l~-d~~k~~yHC~~Cg 1079 (1164)
.|-|.+|.+. +.++.+..||-||
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg 25 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICG 25 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCC
Confidence 4778888765 5556777888886
No 135
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.80 E-value=23 Score=38.03 Aligned_cols=22 Identities=23% Similarity=0.581 Sum_probs=17.6
Q ss_pred cCCCccccHhhHhh------------------hhhhhhhh
Q 001072 1136 LPCGHFMHSDCFQV------------------CSVLCFAF 1157 (1164)
Q Consensus 1136 l~CGH~~H~~C~~~------------------~~~~~~~~ 1157 (1164)
..||-..|+-|..+ ||.|++.+
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 67999999999764 88888765
No 136
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=32.17 E-value=15 Score=38.25 Aligned_cols=26 Identities=27% Similarity=0.837 Sum_probs=19.7
Q ss_pred cceEeccccccccCCCCcccCCCCC--ccccc
Q 001072 1055 MAKYYCGICKFFDDERVVYHCPFCN--LCRVG 1084 (1164)
Q Consensus 1055 ~a~y~C~~C~l~d~~k~~yHC~~Cg--iCR~g 1084 (1164)
-.+-||.+|-+| ++|-|-.|| +|-|+
T Consensus 116 P~r~fCaVCG~~----S~ysC~~CG~kyCsv~ 143 (156)
T KOG3362|consen 116 PLRKFCAVCGYD----SKYSCVNCGTKYCSVR 143 (156)
T ss_pred CcchhhhhcCCC----chhHHHhcCCceeech
Confidence 456688888865 688888888 66665
No 137
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.71 E-value=18 Score=46.87 Aligned_cols=31 Identities=32% Similarity=0.830 Sum_probs=24.8
Q ss_pred CCCCcccccccccccCcccccCCCccccHhhHh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ 1148 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~ 1148 (1164)
...|-+|+.+|+.- |-.+.||||.-|..|..
T Consensus 817 ~d~C~~C~~~ll~~--pF~vf~CgH~FH~~Cl~ 847 (911)
T KOG2034|consen 817 QDSCDHCGRPLLIK--PFYVFPCGHCFHRDCLI 847 (911)
T ss_pred ccchHHhcchhhcC--cceeeeccchHHHHHHH
Confidence 45677777777754 67789999999999984
No 138
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=31.57 E-value=21 Score=40.99 Aligned_cols=38 Identities=26% Similarity=0.395 Sum_probs=29.2
Q ss_pred CCCcccccccccccCcccccCCCccccHhhHhh-------hhhhhhhhh
Q 001072 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQV-------CSVLCFAFF 1158 (1164)
Q Consensus 1117 ~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~-------~~~~~~~~~ 1158 (1164)
--|-||.+|+-- ...-+|||..-+-|... ||+|++-+-
T Consensus 26 lrC~IC~~~i~i----p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 26 LRCRICDCRISI----PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred HHhhhhhheeec----ceecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 468999988743 22369999999999875 999987553
No 139
>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=31.47 E-value=21 Score=33.09 Aligned_cols=24 Identities=38% Similarity=0.793 Sum_probs=10.8
Q ss_pred eeecccccccccccccccccccCCcCCCCccccccc
Q 001072 1091 FFHCMTCNCCLAKKLVDHKCREKGLETNCPICCDFL 1126 (1164)
Q Consensus 1091 ~fHC~~C~~C~~~~~~~H~C~e~~~~~~CpiC~e~l 1126 (1164)
-|||..|+.=+.+ ...||-|++.|
T Consensus 17 ~~~C~~C~~~~~~------------~a~CPdC~~~L 40 (70)
T PF07191_consen 17 HYHCEACQKDYKK------------EAFCPDCGQPL 40 (70)
T ss_dssp EEEETTT--EEEE------------EEE-TTT-SB-
T ss_pred EEECcccccccee------------cccCCCcccHH
Confidence 5666666655444 35666666544
No 140
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=31.06 E-value=12 Score=42.05 Aligned_cols=63 Identities=22% Similarity=0.348 Sum_probs=43.0
Q ss_pred ecccccccccCCCCCCCCCCCCcccceEeccccccccCCCCcccCCCCCcccccCCCCcceeeccccccccc
Q 001072 1031 MCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLA 1102 (1164)
Q Consensus 1031 ~C~~C~~~Q~~~~~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~ 1102 (1164)
+|..|....- -.|+- | +...+.-+|.||-=+|.++ -|||.|.-||--+. ...-||..|..|..
T Consensus 240 ~~~~~~~~~~--i~C~~--~-~~~A~~~~C~iC~~~~~~R--~~C~~~kA~~~~~Q--~K~N~~~~~~~~~q 302 (325)
T KOG4399|consen 240 LCKKCVKPSW--IHCSI--C-NHCAVKHGCFICGELDHKR--STCPNIKAVRKQKQ--RKSNKMKMETTKGQ 302 (325)
T ss_pred Hhhhhcccce--eeeec--c-cchhhhcceeecccccccc--ccCccHHHHHHHHh--cccchhhhhhhhhh
Confidence 3444444333 24544 3 3345567899999988887 79999999997643 25778888888865
No 141
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=30.92 E-value=26 Score=30.33 Aligned_cols=23 Identities=26% Similarity=0.779 Sum_probs=14.8
Q ss_pred Eeccccc--cccCCCCcccCCCCCc
Q 001072 1058 YYCGICK--FFDDERVVYHCPFCNL 1080 (1164)
Q Consensus 1058 y~C~~C~--l~d~~k~~yHC~~Cgi 1080 (1164)
-||+.|. |.-+.++.|+|..||.
T Consensus 21 ~fCP~Cg~~~m~~~~~r~~C~~Cgy 45 (50)
T PRK00432 21 KFCPRCGSGFMAEHLDRWHCGKCGY 45 (50)
T ss_pred CcCcCCCcchheccCCcEECCCcCC
Confidence 3666663 3334467889999974
No 142
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=29.39 E-value=19 Score=38.83 Aligned_cols=10 Identities=30% Similarity=1.188 Sum_probs=5.8
Q ss_pred CCcccCCCCC
Q 001072 1070 RVVYHCPFCN 1079 (1164)
Q Consensus 1070 k~~yHC~~Cg 1079 (1164)
..-|+||.||
T Consensus 115 ~~~Y~Cp~C~ 124 (178)
T PRK06266 115 NMFFFCPNCH 124 (178)
T ss_pred CCEEECCCCC
Confidence 4556666665
No 143
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 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 MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=29.16 E-value=18 Score=31.13 Aligned_cols=32 Identities=28% Similarity=0.758 Sum_probs=19.0
Q ss_pred CCcccccccccccCcccccCCCccccHhhHhh--------------hhhhhh
Q 001072 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQV--------------CSVLCF 1155 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~--------------~~~~~~ 1155 (1164)
+|||...-|-+ |++...|-|. .||+. ||||.+
T Consensus 4 ~CPls~~~i~~---P~Rg~~C~H~---~CFDl~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 4 RCPLSFQRIRI---PVRGKNCKHL---QCFDLESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp B-TTTSSB-SS---EEEETT--SS-----EEHHHHHHHHHHS---B-TTT--
T ss_pred eCCCCCCEEEe---CccCCcCccc---ceECHHHHHHHhhccCCeECcCCcC
Confidence 69999888855 8888889887 59986 999976
No 144
>PF12126 DUF3583: Protein of unknown function (DUF3583); InterPro: IPR021978 This domain is found in eukaryotes, and is typically between 302 and 338 amino acids in length. It is found in association with PF00097 from PFAM and PF00643 from PFAM. Most members are promyelocytic leukemia proteins, and this family lies towards the C terminus.
Probab=28.79 E-value=7.8e+02 Score=28.98 Aligned_cols=132 Identities=17% Similarity=0.226 Sum_probs=84.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHhhcccccccchhHHhhhhhhHHHHHHhhhh
Q 001072 45 LIFLFFHKAIKSELDVLHRAAMAFATNLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIRVKNIARTYSLEHEG 124 (1164)
Q Consensus 45 d~~~~iHkAlRrEL~~L~~~~~~~~~~~~d~~~~~~l~~r~~~l~~~l~~Hh~~EDe~ifPaL~~R~~~v~~~~~~EH~~ 124 (1164)
..|-..|..+|.-...|-+.-.. .-..++.|++.+-. |..+....| +..|-.+|+.+|++
T Consensus 13 ~~F~aahaqm~sav~qL~~~r~~---------teelIr~rVrq~V~----hVqaqEreL-------Le~v~~rYqR~y~e 72 (324)
T PF12126_consen 13 GAFGAAHAQMRSAVSQLGRARAD---------TEELIRARVRQVVA----HVQAQEREL-------LEAVEARYQRDYEE 72 (324)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhh---------HHHHHHHHHHHHHH----HHHHHHHHH-------HHHHHHHHHHHHHH
Confidence 34667777777666655443222 22345555554432 333322111 56677899999999
Q ss_pred HHHHHHHHHHHHhhhccCch-----HHH---HHHHHHHHHHHHHHHHhHHHHHHHhhhhhhhhCCHHHHHHHHHhHhcCC
Q 001072 125 ESVLFDQLFELLNSSMRNEE-----SYR---RELASCTGALQTSISQHMSKEEEQVFPLLIEKFSFEEQASLVWQFLCSI 196 (1164)
Q Consensus 125 i~~l~~~L~~~L~~~~~~~~-----~~~---~eLa~~~~~l~t~L~~HL~~EEeqvlPLL~~~fS~~Eqa~L~~~~~~si 196 (1164)
++.-+.+|.+.|.++..+-. ..| +|+-.+=+-|+..| .+|..||=+-+-..-.+=.++|-..=...++..|
T Consensus 73 ma~~L~~LeavLqRir~G~~LVekM~~YASDQEVLdMh~FlreAL-~rLrqeePq~lqa~V~td~F~E~k~rLQ~L~scI 151 (324)
T PF12126_consen 73 MAGQLGRLEAVLQRIRTGGALVEKMKLYASDQEVLDMHGFLREAL-ERLRQEEPQNLQAAVRTDGFDEFKARLQDLVSCI 151 (324)
T ss_pred HHHHHhHHHHHHHHHHhHHHHHHHHHHhcchHHHHHHHHHHHHHH-HHhhhhcCcccccceecccHHHHHHHHHHHHHHH
Confidence 99999999999999975432 222 56666666666655 4688899888887777777787655444444444
Q ss_pred C
Q 001072 197 P 197 (1164)
Q Consensus 197 P 197 (1164)
.
T Consensus 152 t 152 (324)
T PF12126_consen 152 T 152 (324)
T ss_pred h
Confidence 3
No 145
>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=28.55 E-value=41 Score=25.81 Aligned_cols=20 Identities=35% Similarity=0.997 Sum_probs=12.7
Q ss_pred CCCcccccCCCCcc-eeeccccc
Q 001072 1077 FCNLCRVGRGLGVD-FFHCMTCN 1098 (1164)
Q Consensus 1077 ~CgiCR~g~gl~~~-~fHC~~C~ 1098 (1164)
.|++|+.-.. .. +|||..|+
T Consensus 2 ~C~~C~~~~~--~~~~Y~C~~c~ 22 (30)
T PF03107_consen 2 WCDVCRRKID--GFYFYHCSECC 22 (30)
T ss_pred CCCCCCCCcC--CCEeEEeCCCC
Confidence 4667755321 24 88998887
No 146
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.27 E-value=14 Score=43.42 Aligned_cols=39 Identities=26% Similarity=0.511 Sum_probs=31.0
Q ss_pred CCCCcccccccccccCcccccCCCccccHhhHh--------hhhhhhhhh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ--------VCSVLCFAF 1157 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~--------~~~~~~~~~ 1157 (1164)
+--||||++-|--+. ..+.|+|-+-..|+. +||-|++..
T Consensus 43 ~v~c~icl~llk~tm---ttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 43 QVICPICLSLLKKTM---TTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhccHHHHHHHHhhc---ccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 357999998776543 457999999999985 499999864
No 147
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=28.20 E-value=25 Score=29.83 Aligned_cols=29 Identities=24% Similarity=0.621 Sum_probs=19.7
Q ss_pred CcccccccccccCcccccCCC-----ccccHhhHhh
Q 001072 1119 CPICCDFLFTSSATVRALPCG-----HFMHSDCFQV 1149 (1164)
Q Consensus 1119 CpiC~e~lfts~~~~~~l~CG-----H~~H~~C~~~ 1149 (1164)
|-||.+.-.++. ..+.||+ -++|.+|...
T Consensus 1 CrIC~~~~~~~~--~li~pC~C~Gs~~~vH~~CL~~ 34 (47)
T PF12906_consen 1 CRICLEGEEEDE--PLISPCRCKGSMKYVHRSCLER 34 (47)
T ss_dssp ETTTTEE-SSSS---EE-SSS-SSCCGSEECCHHHH
T ss_pred CeEeCCcCCCCC--ceecccccCCCcchhHHHHHHH
Confidence 668887766655 4557884 7999999975
No 148
>cd00522 Hemerythrin Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the muscle tissue of sipunculids as well as in polycheate and oligocheate annelids. In addition to oxygen transport, Mhr proteins are involved in cadmium fixation and host anti-bacterial defense. Hr and Mhr proteins have the same "four alpha helix bundle" motif and active site structure. Hr forms oligomers, the octameric form being most prevalent, while Mhr is monomeric.
Probab=28.01 E-value=2.7e+02 Score=27.38 Aligned_cols=60 Identities=22% Similarity=0.184 Sum_probs=38.0
Q ss_pred HHHHHhhhhHHHHHHHHHHHHhhhccCchHHHHHHHHHHHHHHHHHHHhHHHHHHHh----hhhhhhhCCHHHHHHHHHh
Q 001072 116 RTYSLEHEGESVLFDQLFELLNSSMRNEESYRRELASCTGALQTSISQHMSKEEEQV----FPLLIEKFSFEEQASLVWQ 191 (1164)
Q Consensus 116 ~~~~~EH~~i~~l~~~L~~~L~~~~~~~~~~~~eLa~~~~~l~t~L~~HL~~EEeqv----lPLL~~~fS~~Eqa~L~~~ 191 (1164)
..+..+|+..=.++++|..++.. ...+..|..-...|+..||+-. .|-+..| .+.+.+
T Consensus 13 ~~ID~qH~~L~~l~n~l~~a~~~------------~~~l~~L~~y~~~HF~~EE~~M~~~~yp~~~~H------~~~H~~ 74 (113)
T cd00522 13 EVIDDEHKTLFNGINDLSEANNR------------ADNLKELVDYTVKHFKDEEALMEAAGYPDYEEH------KKIHED 74 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhH------------HHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHH------HHHHHH
Confidence 35667777766666666665543 2345555667889999999864 3433333 556666
Q ss_pred Hh
Q 001072 192 FL 193 (1164)
Q Consensus 192 ~~ 193 (1164)
|+
T Consensus 75 f~ 76 (113)
T cd00522 75 FV 76 (113)
T ss_pred HH
Confidence 66
No 149
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=27.96 E-value=36 Score=30.20 Aligned_cols=21 Identities=33% Similarity=0.822 Sum_probs=12.2
Q ss_pred ccccccccCCCCcccCCCCCc
Q 001072 1060 CGICKFFDDERVVYHCPFCNL 1080 (1164)
Q Consensus 1060 C~~C~l~d~~k~~yHC~~Cgi 1080 (1164)
|++|+-=-.....|-|++|||
T Consensus 2 Cpv~~~~~~~~v~~~Cp~cGi 22 (55)
T PF13824_consen 2 CPVCKKDLPAHVNFECPDCGI 22 (55)
T ss_pred CCCCccccccccCCcCCCCCC
Confidence 555543112256788888875
No 150
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=27.56 E-value=33 Score=29.73 Aligned_cols=29 Identities=24% Similarity=0.610 Sum_probs=21.2
Q ss_pred ccceEeccccc-cccCC--CCcccCCCCCccc
Q 001072 1054 SMAKYYCGICK-FFDDE--RVVYHCPFCNLCR 1082 (1164)
Q Consensus 1054 ~~a~y~C~~C~-l~d~~--k~~yHC~~CgiCR 1082 (1164)
.+..|-|..|. .++.+ ..-+.|+.||.=.
T Consensus 3 ~~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~rI 34 (49)
T COG1996 3 AMMEYKCARCGREVELDQETRGIRCPYCGSRI 34 (49)
T ss_pred ceEEEEhhhcCCeeehhhccCceeCCCCCcEE
Confidence 46779999994 45533 7778999998543
No 151
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=27.47 E-value=28 Score=33.76 Aligned_cols=29 Identities=31% Similarity=0.868 Sum_probs=13.0
Q ss_pred CCcccCCCCCcccccCCCCcceeecccccc
Q 001072 1070 RVVYHCPFCNLCRVGRGLGVDFFHCMTCNC 1099 (1164)
Q Consensus 1070 k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~ 1099 (1164)
+.-|.||+||-=.+.. .+.-..+|..||.
T Consensus 33 ~~ky~Cp~Cgk~~vkR-~a~GIW~C~~C~~ 61 (90)
T PF01780_consen 33 HAKYTCPFCGKTSVKR-VATGIWKCKKCGK 61 (90)
T ss_dssp HS-BEESSSSSSEEEE-EETTEEEETTTTE
T ss_pred hCCCcCCCCCCceeEE-eeeEEeecCCCCC
Confidence 3456666666333221 1112466666653
No 152
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=27.31 E-value=47 Score=45.07 Aligned_cols=20 Identities=35% Similarity=0.758 Sum_probs=9.0
Q ss_pred eccccccccCCCCcccCCCCCc
Q 001072 1059 YCGICKFFDDERVVYHCPFCNL 1080 (1164)
Q Consensus 1059 ~C~~C~l~d~~k~~yHC~~Cgi 1080 (1164)
||+.|.-.- +.+|+|+.||.
T Consensus 681 fCP~CGs~t--e~vy~CPsCGa 700 (1337)
T PRK14714 681 RCPDCGTHT--EPVYVCPDCGA 700 (1337)
T ss_pred cCcccCCcC--CCceeCccCCC
Confidence 555554221 23455555543
No 153
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=27.08 E-value=21 Score=46.32 Aligned_cols=34 Identities=24% Similarity=0.536 Sum_probs=0.0
Q ss_pred ceecccccccccCCCCCCCCCCCCcccceEecccccc
Q 001072 1029 EMMCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKF 1065 (1164)
Q Consensus 1029 ~~~C~~C~~~Q~~~~~C~~~~C~~~~~a~y~C~~C~l 1065 (1164)
.-.|..|+++. ....|.. |++...-.|+|+.|+.
T Consensus 655 ~r~Cp~Cg~~t-~~~~Cp~--CG~~T~~~~~Cp~C~~ 688 (900)
T PF03833_consen 655 RRRCPKCGKET-FYNRCPE--CGSHTEPVYVCPDCGI 688 (900)
T ss_dssp -------------------------------------
T ss_pred cccCcccCCcc-hhhcCcc--cCCccccceecccccc
Confidence 44566666552 2344533 4333344455555543
No 154
>PF12126 DUF3583: Protein of unknown function (DUF3583); InterPro: IPR021978 This domain is found in eukaryotes, and is typically between 302 and 338 amino acids in length. It is found in association with PF00097 from PFAM and PF00643 from PFAM. Most members are promyelocytic leukemia proteins, and this family lies towards the C terminus.
Probab=26.76 E-value=3.6e+02 Score=31.58 Aligned_cols=80 Identities=15% Similarity=0.200 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHhhhhhhhhC--CHHHHHHHHHhHhcCCCH-HHHHHHhhhhcCCCCHHHHHHHHHH
Q 001072 147 RRELASCTGALQTSISQHMSKEEEQVFPLLIEKF--SFEEQASLVWQFLCSIPV-NMMAEFLPWLSSSISSDEHQDMRKC 223 (1164)
Q Consensus 147 ~~eLa~~~~~l~t~L~~HL~~EEeqvlPLL~~~f--S~~Eqa~L~~~~~~siP~-~~m~~~LpWl~~~lsp~Er~~~l~~ 223 (1164)
|.+...+|.+-...+.+|....|+.||-.+.+.| ..+|.+.=.+++=+.+.. ..-..+.-=|..++|..|.-+|..-
T Consensus 33 r~~teelIr~rVrq~V~hVqaqEreLLe~v~~rYqR~y~ema~~L~~LeavLqRir~G~~LVekM~~YASDQEVLdMh~F 112 (324)
T PF12126_consen 33 RADTEELIRARVRQVVAHVQAQERELLEAVEARYQRDYEEMAGQLGRLEAVLQRIRTGGALVEKMKLYASDQEVLDMHGF 112 (324)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHHHhcchHHHHHHHHH
Confidence 3444445555556789999999999999999999 455655555544433322 2223455567778888888888777
Q ss_pred Hhh
Q 001072 224 LCK 226 (1164)
Q Consensus 224 l~~ 226 (1164)
|++
T Consensus 113 lre 115 (324)
T PF12126_consen 113 LRE 115 (324)
T ss_pred HHH
Confidence 653
No 155
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=26.74 E-value=42 Score=28.76 Aligned_cols=9 Identities=44% Similarity=1.397 Sum_probs=6.2
Q ss_pred eEecccccc
Q 001072 1057 KYYCGICKF 1065 (1164)
Q Consensus 1057 ~y~C~~C~l 1065 (1164)
+|.|.+|..
T Consensus 1 ky~C~~Cgy 9 (47)
T PF00301_consen 1 KYQCPVCGY 9 (47)
T ss_dssp EEEETTTSB
T ss_pred CcCCCCCCE
Confidence 577777764
No 156
>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=26.39 E-value=36 Score=35.29 Aligned_cols=35 Identities=29% Similarity=0.698 Sum_probs=23.7
Q ss_pred CCcccCCCCCcccccCCCCcceeecccccccccccccccccc
Q 001072 1070 RVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKKLVDHKCR 1111 (1164)
Q Consensus 1070 k~~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~~~~~~H~C~ 1111 (1164)
.....|..|++ -+. ..-.||..||.|+..- .|.|.
T Consensus 46 ~~~~~C~~C~~---~kp--~Rs~HC~~C~~CV~~~--DHHC~ 80 (174)
T PF01529_consen 46 GELKYCSTCKI---IKP--PRSHHCRVCNRCVLRF--DHHCP 80 (174)
T ss_pred CCCEECcccCC---cCC--Ccceeccccccccccc--cccch
Confidence 45556666653 332 3589999999998764 66654
No 157
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=25.86 E-value=36 Score=30.62 Aligned_cols=9 Identities=22% Similarity=0.932 Sum_probs=5.7
Q ss_pred ceeeccccc
Q 001072 1090 DFFHCMTCN 1098 (1164)
Q Consensus 1090 ~~fHC~~C~ 1098 (1164)
+-|.|.+||
T Consensus 49 ~~Y~Cp~CG 57 (61)
T COG2888 49 NPYRCPKCG 57 (61)
T ss_pred CceECCCcC
Confidence 556666666
No 158
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=25.82 E-value=53 Score=38.45 Aligned_cols=12 Identities=25% Similarity=0.600 Sum_probs=8.4
Q ss_pred CCCccccccccc
Q 001072 1117 TNCPICCDFLFT 1128 (1164)
Q Consensus 1117 ~~CpiC~e~lft 1128 (1164)
.-|--|.-|+.+
T Consensus 253 e~C~~C~~YlK~ 264 (309)
T PRK03564 253 ESCGDCGTYLKI 264 (309)
T ss_pred eeccccccccee
Confidence 467777777765
No 159
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=24.77 E-value=42 Score=39.42 Aligned_cols=53 Identities=23% Similarity=0.403 Sum_probs=34.1
Q ss_pred cccccccc-cccccccCCcCCCCcccccccccccCcccccCCCccccHhhHh---------hhhhhh
Q 001072 1098 NCCLAKKL-VDHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ---------VCSVLC 1154 (1164)
Q Consensus 1098 ~~C~~~~~-~~H~C~e~~~~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~---------~~~~~~ 1154 (1164)
|.|..-.+ ++-+=..+-...+|-||.+.+=. +-++||||-|=--|-- .|++|.
T Consensus 42 nlsaEPnlttsSaddtDEen~~C~ICA~~~TY----s~~~PC~H~~CH~Ca~RlRALY~~K~C~~Cr 104 (493)
T COG5236 42 NLSAEPNLTTSSADDTDEENMNCQICAGSTTY----SARYPCGHQICHACAVRLRALYMQKGCPLCR 104 (493)
T ss_pred ccccCCccccccccccccccceeEEecCCceE----EEeccCCchHHHHHHHHHHHHHhccCCCccc
Confidence 45554444 33222233446899999986543 4569999998777752 388886
No 160
>TIGR00058 Hemerythrin hemerythrin family non-heme iron proteins. This family includes oxygen carrier proteins of various oligomeric states from the vascular fluid (hemerythrin) and muscle (myohemerythrin) of some marine invertebrates. Each unit binds 2 non-heme Fe using 5 H, one E and one D. One member of this family,from the sandworm Nereis diversicolor, is an unusual (non-metallothionein) cadmium-binding protein. Homologous proteins, excluded from this narrowly defined family, are found in archaea and bacteria (see pfam01814).
Probab=24.76 E-value=3.6e+02 Score=26.83 Aligned_cols=20 Identities=20% Similarity=0.283 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHhHHHHHHH
Q 001072 401 SQADLIMASIQKHFRNEEVQ 420 (1164)
Q Consensus 401 ~~le~L~~~L~~Hf~kEE~q 420 (1164)
..++.|..-...||..||.-
T Consensus 39 ~~l~~L~~y~~~HF~~EE~l 58 (115)
T TIGR00058 39 TALKELIDVTVLHFLDEEAM 58 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45677788899999999964
No 161
>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=24.74 E-value=24 Score=37.18 Aligned_cols=10 Identities=20% Similarity=0.607 Sum_probs=5.2
Q ss_pred CCcccCCCCC
Q 001072 1070 RVVYHCPFCN 1079 (1164)
Q Consensus 1070 k~~yHC~~Cg 1079 (1164)
..-|+||.||
T Consensus 107 ~~~Y~Cp~c~ 116 (158)
T TIGR00373 107 NMFFICPNMC 116 (158)
T ss_pred CCeEECCCCC
Confidence 4445555554
No 162
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=24.73 E-value=66 Score=41.81 Aligned_cols=44 Identities=23% Similarity=0.724 Sum_probs=27.9
Q ss_pred cCceecccccccccCCCCCCCCCCCCcccc------eEeccccccccCCCCcccCCCCC
Q 001072 1027 TTEMMCMRCLKVQPVGPVCTTLSCSGLSMA------KYYCGICKFFDDERVVYHCPFCN 1079 (1164)
Q Consensus 1027 ~~~~~C~~C~~~Q~~~~~C~~~~C~~~~~a------~y~C~~C~l~d~~k~~yHC~~Cg 1079 (1164)
.+.++|..|+.+- .|.| | ...+. ...|.-|..= .+.+.+||.||
T Consensus 433 s~~l~C~~Cg~v~----~Cp~--C-d~~lt~H~~~~~L~CH~Cg~~--~~~p~~Cp~Cg 482 (730)
T COG1198 433 APLLLCRDCGYIA----ECPN--C-DSPLTLHKATGQLRCHYCGYQ--EPIPQSCPECG 482 (730)
T ss_pred cceeecccCCCcc----cCCC--C-CcceEEecCCCeeEeCCCCCC--CCCCCCCCCCC
Confidence 4689999999874 5776 5 44433 3345555442 36677777776
No 163
>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=24.64 E-value=43 Score=34.39 Aligned_cols=32 Identities=16% Similarity=0.104 Sum_probs=22.7
Q ss_pred ccccccccCCcccChhhhcccCCCCCcccccCceecccccccccCC
Q 001072 997 CKLRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVG 1042 (1164)
Q Consensus 997 c~l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~Q~~~ 1042 (1164)
-|-.||.||+-|- -|.| ..++|.+|++.+++.
T Consensus 8 tKr~Cp~cg~kFY-----------DLnk---~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 8 TKRICPNTGSKFY-----------DLNR---RPAVSPYTGEQFPPE 39 (129)
T ss_pred ccccCCCcCcccc-----------ccCC---CCccCCCcCCccCcc
Confidence 4567888987331 1333 689999999999876
No 164
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=24.56 E-value=40 Score=34.73 Aligned_cols=9 Identities=33% Similarity=1.054 Sum_probs=5.8
Q ss_pred CcccCCCCC
Q 001072 1071 VVYHCPFCN 1079 (1164)
Q Consensus 1071 ~~yHC~~Cg 1079 (1164)
..|.||.||
T Consensus 106 ~~~~CP~Cg 114 (135)
T PRK03824 106 AFLKCPKCG 114 (135)
T ss_pred cCcCCcCCC
Confidence 345677777
No 165
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=24.23 E-value=27 Score=36.18 Aligned_cols=9 Identities=44% Similarity=0.966 Sum_probs=5.6
Q ss_pred ceEeccccc
Q 001072 1056 AKYYCGICK 1064 (1164)
Q Consensus 1056 a~y~C~~C~ 1064 (1164)
..|.|+.|+
T Consensus 98 ~~Y~Cp~C~ 106 (147)
T smart00531 98 AYYKCPNCQ 106 (147)
T ss_pred cEEECcCCC
Confidence 356677775
No 166
>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=23.67 E-value=55 Score=28.12 Aligned_cols=22 Identities=23% Similarity=0.857 Sum_probs=13.3
Q ss_pred ccCCCCCcccccCCCCcceeeccccc
Q 001072 1073 YHCPFCNLCRVGRGLGVDFFHCMTCN 1098 (1164)
Q Consensus 1073 yHC~~CgiCR~g~gl~~~~fHC~~C~ 1098 (1164)
|.|+.|+..-+-+ -.|||..|.
T Consensus 1 y~Cd~C~~~pI~G----~R~~C~~C~ 22 (48)
T cd02341 1 FKCDSCGIEPIPG----TRYHCSECD 22 (48)
T ss_pred CCCCCCCCCcccc----ceEECCCCC
Confidence 5677776544432 467777765
No 167
>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=23.61 E-value=48 Score=29.63 Aligned_cols=40 Identities=23% Similarity=0.292 Sum_probs=27.7
Q ss_pred cccCCcCCCCccccccccc--ccCcccccCCCccccHhhHhh
Q 001072 1110 CREKGLETNCPICCDFLFT--SSATVRALPCGHFMHSDCFQV 1149 (1164)
Q Consensus 1110 C~e~~~~~~CpiC~e~lft--s~~~~~~l~CGH~~H~~C~~~ 1149 (1164)
-.|..+...||.|+..... +.....-..||+.+|.+--.+
T Consensus 22 v~~~~TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 22 VDEAYTSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred ECCCCCccCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 3455577889999999888 333333456999999875443
No 168
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=23.59 E-value=35 Score=36.89 Aligned_cols=32 Identities=22% Similarity=0.531 Sum_probs=19.9
Q ss_pred cceeecccccccccccccccccccCCcCCCCccccccc
Q 001072 1089 VDFFHCMTCNCCLAKKLVDHKCREKGLETNCPICCDFL 1126 (1164)
Q Consensus 1089 ~~~fHC~~C~~C~~~~~~~H~C~e~~~~~~CpiC~e~l 1126 (1164)
.+||||..|+.=+|..-..+ +..+||.|++.|
T Consensus 111 ~~~y~C~~~~~r~sfdeA~~------~~F~Cp~Cg~~L 142 (176)
T COG1675 111 NNYYVCPNCHVKYSFDEAME------LGFTCPKCGEDL 142 (176)
T ss_pred CCceeCCCCCCcccHHHHHH------hCCCCCCCCchh
Confidence 46888866655554432111 137899999887
No 169
>PF15353 HECA: Headcase protein family homologue
Probab=23.25 E-value=40 Score=33.58 Aligned_cols=13 Identities=46% Similarity=1.306 Sum_probs=11.4
Q ss_pred CCCccccHhhHhh
Q 001072 1137 PCGHFMHSDCFQV 1149 (1164)
Q Consensus 1137 ~CGH~~H~~C~~~ 1149 (1164)
|.|++||..||++
T Consensus 39 p~~~~MH~~CF~~ 51 (107)
T PF15353_consen 39 PFGQYMHRECFEK 51 (107)
T ss_pred CCCCchHHHHHHH
Confidence 5599999999986
No 170
>PHA00626 hypothetical protein
Probab=23.03 E-value=68 Score=28.65 Aligned_cols=9 Identities=22% Similarity=0.556 Sum_probs=4.1
Q ss_pred ecccccccc
Q 001072 1031 MCMRCLKVQ 1039 (1164)
Q Consensus 1031 ~C~~C~~~Q 1039 (1164)
.|..|+..+
T Consensus 2 ~CP~CGS~~ 10 (59)
T PHA00626 2 SCPKCGSGN 10 (59)
T ss_pred CCCCCCCce
Confidence 455444433
No 171
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.66 E-value=32 Score=30.48 Aligned_cols=36 Identities=25% Similarity=0.701 Sum_probs=24.4
Q ss_pred CCCCcccccccccccCcccccCCCccccHhhHh-----------hhhhhhhhh
Q 001072 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ-----------VCSVLCFAF 1157 (1164)
Q Consensus 1116 ~~~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~-----------~~~~~~~~~ 1157 (1164)
...|-||.|.--+| +..-|||.- -||. .||+|+..+
T Consensus 7 ~dECTICye~pvds----VlYtCGHMC--mCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPVDS----VLYTCGHMC--MCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCcchH----HHHHcchHH--hHHHHHHHHHHccCCcCcchhhHH
Confidence 46799999876655 336799963 2554 299998643
No 172
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=22.66 E-value=32 Score=33.37 Aligned_cols=30 Identities=27% Similarity=0.525 Sum_probs=20.6
Q ss_pred cceEeccccccccCC---CCcccCCCCCccccc
Q 001072 1055 MAKYYCGICKFFDDE---RVVYHCPFCNLCRVG 1084 (1164)
Q Consensus 1055 ~a~y~C~~C~l~d~~---k~~yHC~~CgiCR~g 1084 (1164)
-++|.|+.|.--.-. -.|++|..||.=-.|
T Consensus 33 ~~ky~Cp~Cgk~~vkR~a~GIW~C~~C~~~~AG 65 (90)
T PF01780_consen 33 HAKYTCPFCGKTSVKRVATGIWKCKKCGKKFAG 65 (90)
T ss_dssp HS-BEESSSSSSEEEEEETTEEEETTTTEEEE-
T ss_pred hCCCcCCCCCCceeEEeeeEEeecCCCCCEEeC
Confidence 468999999653322 789999999965555
No 173
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=22.48 E-value=5e+02 Score=31.98 Aligned_cols=30 Identities=20% Similarity=0.282 Sum_probs=25.3
Q ss_pred HHHHhhhccCCCCChHHHHHHHHHHHHHHH
Q 001072 923 EAEIRKVSRDSTLDPRRKAYLIQNLMTSRW 952 (1164)
Q Consensus 923 ~~~Ir~i~~~~~l~~~~ka~~~q~lm~~~~ 952 (1164)
+..+|+--.|++-++..|+.|+.+|+.++-
T Consensus 216 ~~~lrr~l~d~~~~~~~k~~l~~~l~~~~~ 245 (445)
T PRK13428 216 EPVLTKHLTEPAEDAAPKIRLVERLFSGKV 245 (445)
T ss_pred cHHHHHHcCCCCCChhhHHHHHHHHhCcCC
Confidence 456677778999999999999999997664
No 174
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=22.36 E-value=20 Score=31.39 Aligned_cols=35 Identities=17% Similarity=0.407 Sum_probs=22.6
Q ss_pred CCcccccccccccCcccccCCCccccHhhHhhhhhhhhhhhc
Q 001072 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQVCSVLCFAFFF 1159 (1164)
Q Consensus 1118 ~CpiC~e~lfts~~~~~~l~CGH~~H~~C~~~~~~~~~~~~~ 1159 (1164)
.||-|++.+.....+... -+.=++.|+|||+...|
T Consensus 2 ~CPyCge~~~~~iD~s~~-------~Q~yiEDC~vCC~PI~~ 36 (52)
T PF14255_consen 2 QCPYCGEPIEILIDPSAG-------DQEYIEDCQVCCRPIEV 36 (52)
T ss_pred CCCCCCCeeEEEEecCCC-------CeeEEeehhhcCCccEE
Confidence 488888887765543331 23335679999987655
No 175
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=22.02 E-value=34 Score=27.95 Aligned_cols=13 Identities=46% Similarity=1.185 Sum_probs=5.4
Q ss_pred cceEecccccccc
Q 001072 1055 MAKYYCGICKFFD 1067 (1164)
Q Consensus 1055 ~a~y~C~~C~l~d 1067 (1164)
|.+|||+-|+.|=
T Consensus 1 m~ryyCdyC~~~~ 13 (38)
T PF06220_consen 1 MPRYYCDYCKKYL 13 (38)
T ss_dssp --S-B-TTT--B-
T ss_pred CcCeeccccccee
Confidence 5689999998763
No 176
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=22.00 E-value=37 Score=35.23 Aligned_cols=10 Identities=40% Similarity=0.909 Sum_probs=5.5
Q ss_pred CCCccccccc
Q 001072 1117 TNCPICCDFL 1126 (1164)
Q Consensus 1117 ~~CpiC~e~l 1126 (1164)
--||.|+..|
T Consensus 124 f~Cp~Cg~~l 133 (147)
T smart00531 124 FTCPRCGEEL 133 (147)
T ss_pred EECCCCCCEE
Confidence 3456665555
No 177
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=21.96 E-value=40 Score=32.72 Aligned_cols=10 Identities=50% Similarity=1.487 Sum_probs=5.0
Q ss_pred CCcccCCCCC
Q 001072 1070 RVVYHCPFCN 1079 (1164)
Q Consensus 1070 k~~yHC~~Cg 1079 (1164)
+..|.|++||
T Consensus 34 ~a~y~CpfCg 43 (90)
T PTZ00255 34 HAKYFCPFCG 43 (90)
T ss_pred hCCccCCCCC
Confidence 4445555554
No 178
>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=21.66 E-value=45 Score=26.98 Aligned_cols=24 Identities=33% Similarity=0.674 Sum_probs=20.3
Q ss_pred CcccccccccccCccccc-CCCccc
Q 001072 1119 CPICCDFLFTSSATVRAL-PCGHFM 1142 (1164)
Q Consensus 1119 CpiC~e~lfts~~~~~~l-~CGH~~ 1142 (1164)
|++|....|.+...-.+= .|||.+
T Consensus 11 C~~C~~~~~~~~dG~~yC~~cG~~~ 35 (36)
T PF11781_consen 11 CPVCGSRWFYSDDGFYYCDRCGHQS 35 (36)
T ss_pred CCCCCCeEeEccCCEEEhhhCceEc
Confidence 999999988888877764 999975
No 179
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=21.61 E-value=61 Score=41.59 Aligned_cols=34 Identities=21% Similarity=0.515 Sum_probs=18.8
Q ss_pred ceecccccccccCCCCCCCCCCCCc--ccceEeccccccc
Q 001072 1029 EMMCMRCLKVQPVGPVCTTLSCSGL--SMAKYYCGICKFF 1066 (1164)
Q Consensus 1029 ~~~C~~C~~~Q~~~~~C~~~~C~~~--~~a~y~C~~C~l~ 1066 (1164)
.-.|..|++..+. ..|.+ | |. ..+..||+.|-..
T Consensus 15 akFC~~CG~~l~~-~~Cp~--C-G~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 15 NRFCQKCGTSLTH-KPCPQ--C-GTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CccccccCCCCCC-CcCCC--C-CCCCCcccccccccCCc
Confidence 3456666665542 45655 4 32 3555677777543
No 180
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=21.53 E-value=39 Score=32.83 Aligned_cols=11 Identities=18% Similarity=0.649 Sum_probs=5.5
Q ss_pred CCcccCCCCCc
Q 001072 1070 RVVYHCPFCNL 1080 (1164)
Q Consensus 1070 k~~yHC~~Cgi 1080 (1164)
..|++|..||.
T Consensus 51 ~GIW~C~~C~~ 61 (91)
T TIGR00280 51 TGIWTCRKCGA 61 (91)
T ss_pred eEEEEcCCCCC
Confidence 44555555553
No 181
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=21.41 E-value=69 Score=36.78 Aligned_cols=27 Identities=33% Similarity=0.706 Sum_probs=13.3
Q ss_pred cccCCCCCcccccCCCCcceeecccccccccc
Q 001072 1072 VYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAK 1103 (1164)
Q Consensus 1072 ~yHC~~CgiCR~g~gl~~~~fHC~~C~~C~~~ 1103 (1164)
...|+.|.+-|-- ---||..||.|+..
T Consensus 113 ~~~C~~C~~~rPp-----Rs~HCsvC~~CV~r 139 (299)
T KOG1311|consen 113 WKYCDTCQLYRPP-----RSSHCSVCNNCVLR 139 (299)
T ss_pred eEEcCcCcccCCC-----Ccccchhhcccccc
Confidence 3455555544433 24555555555543
No 182
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=21.28 E-value=16 Score=41.69 Aligned_cols=23 Identities=35% Similarity=0.850 Sum_probs=17.4
Q ss_pred Ccc--cCCCCCcccccCCCCcceee
Q 001072 1071 VVY--HCPFCNLCRVGRGLGVDFFH 1093 (1164)
Q Consensus 1071 ~~y--HC~~CgiCR~g~gl~~~~fH 1093 (1164)
.+| ||--|=||..-..-|+.||-
T Consensus 114 ~VYHl~CF~C~iC~R~L~TGdEFYL 138 (383)
T KOG4577|consen 114 FVYHLHCFACFICKRQLATGDEFYL 138 (383)
T ss_pred ceeehhhhhhHhhhcccccCCeeEE
Confidence 456 78899999887766777764
No 183
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=21.18 E-value=54 Score=34.68 Aligned_cols=9 Identities=22% Similarity=0.667 Sum_probs=4.8
Q ss_pred eeecccccc
Q 001072 1091 FFHCMTCNC 1099 (1164)
Q Consensus 1091 ~fHC~~C~~ 1099 (1164)
+++|..||.
T Consensus 28 ~~~c~~c~~ 36 (154)
T PRK00464 28 RRECLACGK 36 (154)
T ss_pred eeeccccCC
Confidence 455555554
No 184
>PHA00626 hypothetical protein
Probab=21.13 E-value=55 Score=29.20 Aligned_cols=19 Identities=16% Similarity=0.160 Sum_probs=10.4
Q ss_pred eccccccccCCCCcccCCCCCc
Q 001072 1059 YCGICKFFDDERVVYHCPFCNL 1080 (1164)
Q Consensus 1059 ~C~~C~l~d~~k~~yHC~~Cgi 1080 (1164)
-|.||+.+ ++.|-|++||.
T Consensus 13 rcg~cr~~---snrYkCkdCGY 31 (59)
T PHA00626 13 KEKTMRGW---SDDYVCCDCGY 31 (59)
T ss_pred eeceeccc---CcceEcCCCCC
Confidence 45555544 34466666663
No 185
>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=20.81 E-value=55 Score=32.81 Aligned_cols=8 Identities=50% Similarity=1.609 Sum_probs=5.3
Q ss_pred cccCCCCC
Q 001072 1072 VYHCPFCN 1079 (1164)
Q Consensus 1072 ~yHC~~Cg 1079 (1164)
.|.||.||
T Consensus 86 ~~~CP~Cg 93 (115)
T TIGR00100 86 LYRCPKCH 93 (115)
T ss_pred CccCcCCc
Confidence 45677776
No 186
>KOG3850 consensus Predicted membrane protein [Function unknown]
Probab=20.78 E-value=1.6e+03 Score=27.50 Aligned_cols=126 Identities=19% Similarity=0.252 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCcccH-HHHHHHHHHHHHHhhhhhhcccccchhhhhhhh--hhHHhHHHHHHHHHHHH
Q 001072 301 HNAIKRELNDIAEAARKIQLSGDFSDL-SAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL--SFAQEHAEEEIQFDKLR 377 (1164)
Q Consensus 301 HkALRrEL~~L~~~a~~i~~~gd~~~L-~~L~~r~~fL~~vL~~Hs~aEDevlFPaL~~r~--~me~EH~~ie~l~e~L~ 377 (1164)
=+||-.||++|.+....++ .+..+| .++..-+.|+...|. |+.+-+--|++.. ..+....+|.. |.
T Consensus 262 l~aileeL~eIk~~q~~Le--esye~Lke~~krdy~fi~etLQ-----EERyR~erLEEqLNdlteLqQnEi~n----LK 330 (455)
T KOG3850|consen 262 LDAILEELREIKETQALLE--ESYERLKEQIKRDYKFIAETLQ-----EERYRYERLEEQLNDLTELQQNEIAN----LK 330 (455)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhHHHHHHHHHHHH----HH
Confidence 4577778887777777664 223344 555555666665553 3434344443332 22222222222 22
Q ss_pred HHHHHHHhcCCCCChHHHHH--HHHHHHHHHHHHHHHhHHHHHHHHH---HHHHhhCCHHHHHHHHHHHhhc
Q 001072 378 CLIESIQSAGANSSTAEFYT--KLCSQADLIMASIQKHFRNEEVQVL---PLARRHFSPKRQRELLYQSLCV 444 (1164)
Q Consensus 378 ~ll~~l~~a~~~s~~~~~~~--eLa~~le~L~~~L~~Hf~kEE~qvf---PLl~~~fS~eEq~eL~~~~l~s 444 (1164)
.-+..+++. -.|+ +=+..+.+.+++...|..+=|.+.- -+--++++++-|..|+.+++-.
T Consensus 331 qElasmeer-------vaYQsyERaRdIqEalEscqtrisKlEl~qq~qqv~Q~e~~~na~a~~llgk~iNi 395 (455)
T KOG3850|consen 331 QELASMEER-------VAYQSYERARDIQEALESCQTRISKLELQQQQQQVVQLEGLENAVARRLLGKFINI 395 (455)
T ss_pred HHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHH
Confidence 112111110 0111 2245566667777778777776554 2334667777888888887753
No 187
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=20.65 E-value=76 Score=36.20 Aligned_cols=10 Identities=30% Similarity=1.454 Sum_probs=5.2
Q ss_pred eecccccccc
Q 001072 1092 FHCMTCNCCL 1101 (1164)
Q Consensus 1092 fHC~~C~~C~ 1101 (1164)
+.|.+|-+|+
T Consensus 183 ~sCLRCK~cf 192 (314)
T PF06524_consen 183 YSCLRCKICF 192 (314)
T ss_pred hhhhheeeee
Confidence 4455555554
No 188
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=20.14 E-value=49 Score=25.40 Aligned_cols=11 Identities=27% Similarity=1.081 Sum_probs=8.2
Q ss_pred ceEeccccccc
Q 001072 1056 AKYYCGICKFF 1066 (1164)
Q Consensus 1056 a~y~C~~C~l~ 1066 (1164)
+.|||++|+.+
T Consensus 2 ~~~~C~~C~~~ 12 (35)
T smart00451 2 GGFYCKLCNVT 12 (35)
T ss_pred cCeEccccCCc
Confidence 56888888754
Done!