Query 010937
Match_columns 497
No_of_seqs 294 out of 993
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 06:15:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010937.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010937hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2185 Predicted RNA-processi 100.0 8E-104 2E-108 799.0 23.9 459 17-497 1-486 (486)
2 KOG3026 Splicing factor SPF30 99.8 3.4E-20 7.4E-25 178.7 12.6 118 13-139 1-128 (262)
3 KOG2184 Tuftelin-interacting p 99.7 4.4E-17 9.6E-22 179.7 9.4 201 286-487 105-351 (767)
4 PF01585 G-patch: G-patch doma 99.4 2.4E-13 5.2E-18 101.4 3.7 44 296-339 1-44 (45)
5 smart00443 G_patch glycine ric 99.2 2E-11 4.3E-16 91.6 3.8 45 295-339 2-46 (47)
6 KOG2809 Telomerase elongation 98.7 1.3E-08 2.8E-13 104.0 3.4 54 289-342 18-71 (326)
7 PF06003 SMN: Survival motor n 98.5 1.3E-07 2.8E-12 95.4 4.3 55 101-179 66-122 (264)
8 KOG3673 FtsJ-like RNA methyltr 98.3 3.6E-07 7.9E-12 98.1 3.1 50 296-345 82-131 (845)
9 PF12656 G-patch_2: DExH-box s 98.2 1.4E-06 3.1E-11 72.2 3.9 44 297-340 30-73 (77)
10 cd04508 TUDOR Tudor domains ar 98.2 2.8E-06 6.1E-11 63.1 5.1 35 107-141 1-36 (48)
11 PF15057 DUF4537: Domain of un 98.2 1.1E-05 2.5E-10 72.7 9.9 102 107-234 1-107 (124)
12 KOG0965 Predicted RNA-binding 98.2 1E-06 2.3E-11 97.2 3.1 58 284-341 893-951 (988)
13 cd04508 TUDOR Tudor domains ar 98.1 4.9E-06 1.1E-10 61.8 5.7 47 189-237 1-47 (48)
14 smart00333 TUDOR Tudor domain. 98.1 4.7E-06 1E-10 64.0 5.7 37 103-139 2-38 (57)
15 smart00333 TUDOR Tudor domain. 98.1 6.1E-06 1.3E-10 63.4 5.5 51 185-238 2-52 (57)
16 KOG1996 mRNA splicing factor [ 98.0 2.7E-06 5.9E-11 85.6 3.1 51 286-336 201-251 (378)
17 PF00642 zf-CCCH: Zinc finger 97.9 4.9E-06 1.1E-10 55.5 1.2 24 145-168 3-27 (27)
18 PF06003 SMN: Survival motor n 97.8 2.5E-05 5.4E-10 79.0 5.9 54 185-239 68-121 (264)
19 KOG2384 Major histocompatibili 97.8 1.6E-05 3.5E-10 76.2 4.2 55 288-342 119-173 (223)
20 smart00356 ZnF_C3H1 zinc finge 97.5 4.4E-05 9.6E-10 50.0 1.1 23 145-167 4-26 (27)
21 PF09038 53-BP1_Tudor: Tumour 97.4 0.00075 1.6E-08 60.4 8.2 103 104-240 3-108 (122)
22 KOG1994 Predicted RNA binding 97.3 0.00019 4.2E-09 70.2 4.2 50 297-346 81-133 (268)
23 KOG4327 mRNA splicing protein 97.3 0.00041 8.9E-09 66.6 6.3 41 99-139 63-105 (218)
24 smart00743 Agenet Tudor-like d 97.0 0.0014 3E-08 51.3 5.5 37 103-139 2-39 (61)
25 KOG0154 RNA-binding protein RB 97.0 0.0004 8.8E-09 77.3 2.7 46 295-340 510-555 (573)
26 KOG4315 G-patch nucleic acid b 96.8 0.0013 2.8E-08 69.4 4.2 55 288-343 144-199 (455)
27 PF11717 Tudor-knot: RNA bindi 96.3 0.0074 1.6E-07 46.8 4.9 37 104-140 1-37 (55)
28 PF09465 LBR_tudor: Lamin-B re 95.7 0.021 4.5E-07 44.5 4.8 40 102-141 4-45 (55)
29 smart00743 Agenet Tudor-like d 95.6 0.033 7.2E-07 43.4 5.6 52 185-238 2-55 (61)
30 PF09465 LBR_tudor: Lamin-B re 95.4 0.054 1.2E-06 42.3 6.0 46 185-232 5-50 (55)
31 PF14608 zf-CCCH_2: Zinc finge 95.2 0.0077 1.7E-07 37.1 0.8 19 147-167 1-19 (19)
32 PF07039 DUF1325: SGF29 tudor- 95.2 0.2 4.4E-06 45.6 10.4 108 105-228 1-114 (130)
33 PF00567 TUDOR: Tudor domain; 95.1 0.037 8E-07 47.2 5.2 51 185-237 51-101 (121)
34 PF05641 Agenet: Agenet domain 94.5 0.049 1.1E-06 43.9 3.9 60 104-181 1-66 (68)
35 KOG3038 Histone acetyltransfer 93.9 0.53 1.1E-05 47.4 10.6 107 101-224 125-237 (264)
36 KOG2185 Predicted RNA-processi 93.6 0.21 4.5E-06 53.2 7.5 50 6-55 3-52 (486)
37 KOG4368 Predicted RNA binding 93.4 0.045 9.7E-07 60.2 2.3 45 296-341 686-734 (757)
38 PF11717 Tudor-knot: RNA bindi 92.4 0.23 4.9E-06 38.5 4.3 41 186-228 1-43 (55)
39 PF00567 TUDOR: Tudor domain; 92.0 0.13 2.9E-06 43.7 3.0 59 103-186 51-110 (121)
40 KOG1677 CCCH-type Zn-finger pr 91.2 0.11 2.3E-06 53.8 1.8 37 140-176 172-209 (332)
41 KOG1039 Predicted E3 ubiquitin 90.8 0.11 2.4E-06 54.7 1.4 25 146-170 9-33 (344)
42 PF15057 DUF4537: Domain of un 90.3 0.5 1.1E-05 42.7 5.0 41 189-232 1-41 (124)
43 KOG2138 Predicted RNA binding 90.2 0.16 3.5E-06 57.1 2.1 21 296-316 147-167 (883)
44 PF07039 DUF1325: SGF29 tudor- 90.1 0.65 1.4E-05 42.4 5.7 42 100-141 68-112 (130)
45 KOG4327 mRNA splicing protein 89.3 0.25 5.4E-06 47.9 2.3 56 183-239 65-120 (218)
46 KOG2039 Transcriptional coacti 89.2 0.46 1E-05 55.8 5.0 50 186-237 696-745 (875)
47 KOG1763 Uncharacterized conser 87.9 0.21 4.5E-06 51.2 0.8 27 145-171 92-118 (343)
48 KOG3026 Splicing factor SPF30 87.3 0.72 1.6E-05 46.0 4.1 45 187-232 92-136 (262)
49 PLN00104 MYST -like histone ac 86.8 2 4.4E-05 46.8 7.6 30 100-129 50-80 (450)
50 KOG1994 Predicted RNA binding 86.6 0.35 7.6E-06 47.9 1.6 46 297-342 38-83 (268)
51 PF09038 53-BP1_Tudor: Tumour 86.0 1.5 3.2E-05 39.7 5.1 50 187-238 4-53 (122)
52 KOG2039 Transcriptional coacti 86.0 0.96 2.1E-05 53.3 5.1 46 102-147 694-740 (875)
53 KOG1677 CCCH-type Zn-finger pr 82.1 0.49 1.1E-05 48.9 0.4 32 139-170 126-159 (332)
54 PF14853 Fis1_TPR_C: Fis1 C-te 81.5 2.4 5.2E-05 32.8 4.0 38 15-52 12-49 (53)
55 PF14282 FlxA: FlxA-like prote 77.6 12 0.00026 32.9 7.7 56 430-485 18-74 (106)
56 KOG1492 C3H1-type Zn-finger pr 77.6 1.6 3.4E-05 43.4 2.3 44 118-166 210-254 (377)
57 cd06080 MUM1_like Mutated mela 76.7 5.5 0.00012 33.5 5.0 50 187-238 2-52 (80)
58 PF02736 Myosin_N: Myosin N-te 75.5 8.4 0.00018 28.2 5.1 40 190-234 2-41 (42)
59 PF14257 DUF4349: Domain of un 75.2 14 0.0003 37.1 8.5 60 426-486 134-193 (262)
60 COG5084 YTH1 Cleavage and poly 72.7 1.6 3.6E-05 44.8 1.1 26 143-168 132-158 (285)
61 PF10805 DUF2730: Protein of u 71.8 11 0.00024 33.1 5.9 54 7-61 35-91 (106)
62 PF12148 DUF3590: Protein of u 69.5 9.4 0.0002 32.6 4.7 64 112-197 4-77 (85)
63 KOG2494 C3H1-type Zn-finger pr 63.3 3.8 8.2E-05 42.8 1.5 25 145-169 37-62 (331)
64 cd06080 MUM1_like Mutated mela 62.6 18 0.0004 30.4 5.2 36 104-139 1-37 (80)
65 KOG1141 Predicted histone meth 62.6 10 0.00022 44.1 4.8 28 183-213 343-370 (1262)
66 KOG1040 Polyadenylation factor 62.4 4.3 9.3E-05 42.6 1.7 52 142-195 74-126 (325)
67 PF05531 NPV_P10: Nucleopolyhe 61.5 37 0.0008 28.3 6.7 60 426-485 6-65 (75)
68 PF00855 PWWP: PWWP domain; I 60.5 17 0.00036 29.7 4.6 49 187-237 2-56 (86)
69 PF00855 PWWP: PWWP domain; I 59.0 15 0.00033 30.0 4.1 36 104-139 1-43 (86)
70 COG5063 CTH1 CCCH-type Zn-fing 58.7 6.6 0.00014 40.8 2.2 68 103-186 244-313 (351)
71 PF10458 Val_tRNA-synt_C: Valy 58.4 35 0.00076 27.2 6.0 52 430-481 3-65 (66)
72 cd05162 PWWP The PWWP domain, 56.6 19 0.00041 29.9 4.3 25 104-129 1-26 (87)
73 KOG1595 CCCH-type Zn-finger pr 56.5 4.6 0.0001 44.7 0.8 26 144-169 235-260 (528)
74 PF13851 GAS: Growth-arrest sp 56.5 59 0.0013 31.8 8.4 68 426-493 57-124 (201)
75 COG5152 Uncharacterized conser 56.4 4.3 9.3E-05 39.7 0.5 23 146-168 142-165 (259)
76 PF05641 Agenet: Agenet domain 54.3 28 0.0006 27.8 4.8 37 187-224 2-40 (68)
77 KOG2202 U2 snRNP splicing fact 53.7 5.3 0.00012 40.4 0.6 50 116-173 131-180 (260)
78 PF10650 zf-C3H1: Putative zin 53.0 5.9 0.00013 25.8 0.5 19 147-166 2-21 (23)
79 smart00561 MBT Present in Dros 52.9 29 0.00062 30.0 5.0 40 101-141 25-66 (96)
80 COG5084 YTH1 Cleavage and poly 52.6 7.8 0.00017 40.0 1.6 30 142-171 101-130 (285)
81 KOG2333 Uncharacterized conser 51.8 6.6 0.00014 43.2 1.0 23 146-168 77-102 (614)
82 PF04420 CHD5: CHD5-like prote 51.4 87 0.0019 29.5 8.4 58 430-487 39-98 (161)
83 PF07106 TBPIP: Tat binding pr 50.3 72 0.0016 29.8 7.7 52 9-61 81-135 (169)
84 KOG4791 Uncharacterized conser 50.1 6.6 0.00014 43.0 0.7 22 145-166 3-24 (667)
85 KOG3038 Histone acetyltransfer 49.7 27 0.00059 35.5 4.9 39 101-139 196-237 (264)
86 PRK04406 hypothetical protein; 49.7 1.2E+02 0.0026 25.2 7.9 46 435-483 8-53 (75)
87 KOG3364 Membrane protein invol 47.5 40 0.00087 31.5 5.2 37 15-51 82-118 (149)
88 smart00293 PWWP domain with co 46.9 34 0.00074 26.9 4.2 24 104-128 1-25 (63)
89 cd05834 HDGF_related The PWWP 46.8 40 0.00086 28.3 4.8 51 185-237 2-55 (83)
90 COG5252 Uncharacterized conser 46.3 7.9 0.00017 38.9 0.5 26 145-170 85-110 (299)
91 KOG2333 Uncharacterized conser 46.0 4.5 9.7E-05 44.5 -1.3 25 148-172 117-142 (614)
92 cd05162 PWWP The PWWP domain, 45.3 47 0.001 27.5 5.0 49 187-237 2-59 (87)
93 PF15188 CCDC-167: Coiled-coil 44.9 1.2E+02 0.0027 25.8 7.4 46 8-54 6-52 (85)
94 smart00561 MBT Present in Dros 44.4 70 0.0015 27.6 6.0 54 170-225 12-65 (96)
95 KOG1492 C3H1-type Zn-finger pr 44.0 8.5 0.00018 38.3 0.3 21 147-168 263-283 (377)
96 cd05834 HDGF_related The PWWP 43.5 50 0.0011 27.7 4.9 36 103-139 2-42 (83)
97 PF14282 FlxA: FlxA-like prote 43.2 69 0.0015 28.1 5.9 66 422-488 18-84 (106)
98 PRK10884 SH3 domain-containing 43.0 1.4E+02 0.003 29.5 8.6 27 460-486 137-163 (206)
99 cd05841 BS69_related The PWWP 42.7 44 0.00095 28.3 4.4 47 187-237 8-55 (83)
100 PRK13182 racA polar chromosome 41.7 75 0.0016 30.5 6.4 59 427-485 88-148 (175)
101 PF10805 DUF2730: Protein of u 41.6 2.3E+02 0.0049 24.8 8.9 59 426-485 37-95 (106)
102 COG1579 Zn-ribbon protein, pos 41.4 1.6E+02 0.0035 29.8 8.9 67 426-493 61-127 (239)
103 PRK05431 seryl-tRNA synthetase 41.2 98 0.0021 33.7 7.9 62 426-487 37-98 (425)
104 TIGR00479 rumA 23S rRNA (uraci 40.9 29 0.00064 37.2 3.9 51 103-167 20-72 (431)
105 KOG4571 Activating transcripti 40.8 73 0.0016 33.1 6.4 57 429-487 223-280 (294)
106 PRK11637 AmiB activator; Provi 40.7 1.3E+02 0.0028 32.4 8.8 20 461-480 102-121 (428)
107 cd00677 S15_NS1_EPRS_RNA-bind 40.5 1E+02 0.0022 22.7 5.6 43 431-473 2-44 (46)
108 COG5252 Uncharacterized conser 39.5 18 0.0004 36.4 1.9 42 140-181 136-192 (299)
109 PF09177 Syntaxin-6_N: Syntaxi 39.4 1.4E+02 0.0031 25.4 7.2 53 12-64 9-61 (97)
110 PF03961 DUF342: Protein of un 39.0 1.4E+02 0.0031 32.4 8.9 64 425-488 335-408 (451)
111 cd05835 Dnmt3b_related The PWW 38.7 35 0.00076 28.7 3.3 26 104-129 1-26 (87)
112 PRK04098 sec-independent trans 38.5 86 0.0019 29.8 6.1 58 5-63 52-109 (158)
113 PF12718 Tropomyosin_1: Tropom 38.4 1.8E+02 0.004 26.8 8.2 59 426-484 44-102 (143)
114 PF03962 Mnd1: Mnd1 family; I 37.8 2.2E+02 0.0049 27.5 9.0 57 426-482 71-130 (188)
115 PRK13168 rumA 23S rRNA m(5)U19 37.8 39 0.00084 36.6 4.2 51 103-167 42-94 (443)
116 smart00293 PWWP domain with co 36.3 88 0.0019 24.5 5.0 49 187-237 2-60 (63)
117 PLN00104 MYST -like histone ac 36.1 1.1E+02 0.0025 33.6 7.4 46 182-228 50-101 (450)
118 PRK14011 prefoldin subunit alp 35.9 3.7E+02 0.0079 25.1 9.8 36 9-51 5-40 (144)
119 PF12325 TMF_TATA_bd: TATA ele 35.7 1.5E+02 0.0032 26.8 6.9 56 426-481 32-87 (120)
120 PF02388 FemAB: FemAB family; 34.8 1.1E+02 0.0025 32.8 7.2 50 426-475 244-293 (406)
121 PF02403 Seryl_tRNA_N: Seryl-t 33.6 1.7E+02 0.0036 25.2 6.8 61 427-487 39-99 (108)
122 PF06698 DUF1192: Protein of u 33.5 65 0.0014 25.7 3.7 36 425-460 22-57 (59)
123 COG4575 ElaB Uncharacterized c 33.4 1.8E+02 0.0038 25.9 6.8 52 6-61 7-60 (104)
124 KOG0245 Kinesin-like protein [ 33.4 1.2E+02 0.0026 36.7 7.4 47 431-477 361-420 (1221)
125 PRK13729 conjugal transfer pil 33.0 1.2E+02 0.0026 33.7 6.9 54 419-478 64-120 (475)
126 PRK11020 hypothetical protein; 32.6 2.1E+02 0.0046 25.8 7.1 51 429-479 3-55 (118)
127 TIGR00414 serS seryl-tRNA synt 32.0 1.9E+02 0.004 31.5 8.3 62 426-487 39-101 (418)
128 PRK02119 hypothetical protein; 31.5 2.9E+02 0.0064 22.7 7.5 26 426-451 11-36 (73)
129 PF11926 DUF3444: Domain of un 31.1 99 0.0021 30.8 5.5 92 101-198 25-134 (217)
130 PF08605 Rad9_Rad53_bind: Fung 30.8 89 0.0019 28.7 4.7 48 185-237 9-56 (131)
131 PF11559 ADIP: Afadin- and alp 30.0 3.6E+02 0.0078 24.6 8.8 10 388-397 4-13 (151)
132 PF08169 RBB1NT: RBB1NT (NUC16 29.4 76 0.0016 27.7 3.8 30 105-134 7-38 (96)
133 KOG0644 Uncharacterized conser 29.3 61 0.0013 38.2 4.1 40 101-140 976-1029(1113)
134 cd05835 Dnmt3b_related The PWW 29.0 88 0.0019 26.3 4.1 49 187-237 2-56 (87)
135 KOG1763 Uncharacterized conser 28.7 29 0.00062 36.1 1.3 27 140-166 151-188 (343)
136 COG2900 SlyX Uncharacterized p 28.7 3.4E+02 0.0075 22.6 7.3 51 435-488 5-55 (72)
137 PF14085 DUF4265: Domain of un 28.7 1.2E+02 0.0026 26.9 5.2 42 101-142 23-64 (117)
138 PRK04325 hypothetical protein; 28.6 3.3E+02 0.0071 22.4 7.3 27 426-452 11-37 (74)
139 PHA02562 46 endonuclease subun 28.6 2E+02 0.0043 31.7 8.0 50 429-478 304-353 (562)
140 PLN02678 seryl-tRNA synthetase 28.2 2.2E+02 0.0047 31.5 8.0 62 426-487 42-103 (448)
141 PRK10884 SH3 domain-containing 28.1 2.7E+02 0.0059 27.4 7.9 18 467-484 137-154 (206)
142 COG5509 Uncharacterized small 27.4 1E+02 0.0022 24.8 3.9 36 427-462 28-63 (65)
143 KOG0995 Centromere-associated 27.3 2.4E+02 0.0053 31.9 8.1 59 428-486 263-325 (581)
144 PTZ00464 SNF-7-like protein; P 27.2 6.2E+02 0.013 25.0 10.3 23 426-448 27-49 (211)
145 COG2451 Ribosomal protein L35A 27.2 1E+02 0.0022 26.9 4.1 41 101-141 40-82 (100)
146 KOG2991 Splicing regulator [RN 27.2 1.3E+02 0.0028 31.0 5.5 40 12-51 147-190 (330)
147 KOG1813 Predicted E3 ubiquitin 26.6 26 0.00057 36.3 0.6 21 147-167 188-209 (313)
148 PF05529 Bap31: B-cell recepto 26.6 2.8E+02 0.006 26.5 7.6 60 426-485 127-191 (192)
149 PRK02793 phi X174 lysis protei 26.4 3.6E+02 0.0078 22.0 7.4 27 426-452 10-36 (72)
150 PHA03395 p10 fibrous body prot 26.1 2.2E+02 0.0048 24.5 6.0 60 426-485 6-65 (87)
151 PRK01203 prefoldin subunit alp 26.1 1E+02 0.0022 28.4 4.2 21 107-127 48-68 (130)
152 smart00536 AXH domain in Ataxi 26.1 74 0.0016 28.7 3.3 35 149-195 77-113 (116)
153 PF11623 DUF3252: Protein of u 25.4 1.7E+02 0.0036 22.9 4.5 35 186-224 2-38 (53)
154 PF03148 Tektin: Tektin family 25.4 3.5E+02 0.0075 29.0 8.8 27 426-452 267-293 (384)
155 PF08605 Rad9_Rad53_bind: Fung 25.3 73 0.0016 29.3 3.2 29 112-140 15-46 (131)
156 KOG4053 Ataxin-1, involved in 25.2 1E+02 0.0022 30.3 4.3 66 119-196 72-148 (224)
157 PF09740 DUF2043: Uncharacteri 25.1 54 0.0012 29.3 2.2 54 121-175 42-102 (110)
158 PF10283 zf-CCHH: Zinc-finger 24.9 28 0.00061 23.3 0.3 9 155-163 2-10 (26)
159 PF03357 Snf7: Snf7; InterPro 24.2 5.3E+02 0.011 23.3 8.8 57 426-482 10-68 (171)
160 PF04977 DivIC: Septum formati 24.2 2.2E+02 0.0048 22.6 5.6 39 424-462 24-62 (80)
161 PF11853 DUF3373: Protein of u 24.1 60 0.0013 36.1 2.8 24 463-486 32-55 (489)
162 KOG3702 Nuclear polyadenylated 23.6 39 0.00084 38.6 1.2 16 148-163 639-654 (681)
163 PF11623 DUF3252: Protein of u 23.4 1.4E+02 0.003 23.3 3.8 35 104-139 2-38 (53)
164 PF07544 Med9: RNA polymerase 23.4 4E+02 0.0086 22.3 7.0 58 427-484 24-81 (83)
165 KOG1853 LIS1-interacting prote 22.2 4.6E+02 0.0099 27.0 8.3 62 425-486 53-115 (333)
166 PF10186 Atg14: UV radiation r 22.1 5E+02 0.011 25.7 8.9 61 426-486 79-143 (302)
167 PRK00736 hypothetical protein; 21.6 4.4E+02 0.0095 21.3 6.9 29 426-454 7-35 (68)
168 PTZ00419 valyl-tRNA synthetase 21.3 2.3E+02 0.005 34.2 7.2 56 427-482 925-991 (995)
169 PF10186 Atg14: UV radiation r 21.2 5.3E+02 0.011 25.6 8.9 7 437-443 69-75 (302)
170 PF14915 CCDC144C: CCDC144C pr 21.2 4.2E+02 0.0092 27.8 8.0 65 426-490 181-249 (305)
171 PF10819 DUF2564: Protein of u 21.1 5.2E+02 0.011 21.9 7.6 57 432-488 4-62 (79)
172 PF07106 TBPIP: Tat binding pr 20.7 4.6E+02 0.01 24.4 7.8 56 426-482 81-136 (169)
173 PF07730 HisKA_3: Histidine ki 20.6 3.9E+02 0.0085 20.3 6.2 51 11-61 11-63 (68)
174 PF12761 End3: Actin cytoskele 20.6 3.8E+02 0.0081 26.4 7.2 49 12-60 100-150 (195)
175 PF14362 DUF4407: Domain of un 20.5 6.1E+02 0.013 25.8 9.2 61 426-486 144-213 (301)
176 PF06657 Cep57_MT_bd: Centroso 20.4 4.5E+02 0.0097 21.9 6.7 48 7-55 17-67 (79)
177 PF06120 Phage_HK97_TLTM: Tail 20.0 6.3E+02 0.014 26.5 9.1 52 426-477 90-149 (301)
No 1
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=100.00 E-value=8.4e-104 Score=798.97 Aligned_cols=459 Identities=46% Similarity=0.697 Sum_probs=369.7
Q ss_pred HHHHHHHHHHHHHHhcc---CCCCHHHHHHHHHHHHHHHHHHHhhhhhhHHH-----------HHHHhhhhcCCCCCCCc
Q 010937 17 LNEQRDSLTALNDAVAS---DPFNPELQEVLKELVQAIKDAEEGLFHLKRAR-----------LLREADLVLHGCSSRTE 82 (497)
Q Consensus 17 L~~Yk~QLqQVe~aL~~---DP~n~ELl~Lk~DL~elI~LTee~L~~lk~s~-----------ll~e~d~~~~~~~~~~e 82 (497)
|++|++||.+|++||.. +.+-.||++|+.||.|||.||++++..+.... ++...|.....-+.
T Consensus 1 lEny~aQll~veqaieq~~d~s~r~ellqlk~dl~ELlsLteellaaide~p~D~l~de~re~~~E~~D~~aag~~~--- 77 (486)
T KOG2185|consen 1 LENYDAQLLLVEQAIEQKEDLSSRDELLQLKPDLPELLSLTEELLAAIDEVPDDGLLDEKRERLLEEADIVAAGLNH--- 77 (486)
T ss_pred CcchHHHHHHHHHHHHhhcchhHHHHHHHhCCcHHHHHHHHHHHHHhhhcCCCcchHHHHHHHHhhhhhhhhccccC---
Confidence 46899999999999984 33367899999999999999998877654321 11111111111011
Q ss_pred ccCCCCCCCCCCCCCCccccCCCCCCeeEEEeC--CCc-eeeeEEEeeccCCceEEEEecCCCccccchhhhhhccccCC
Q 010937 83 DVQAEPLDPADVEPEPLEDQRYSVGSKCRFRYN--DGR-WYDGRIIGLEETDSAKVSFLRPTSENMLMCKFFLQQRCRFG 159 (497)
Q Consensus 83 d~~~~p~~~~~~e~~~~~~~~~~vG~kC~A~~~--dG~-~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~ 159 (497)
++. ..|...+++..++...++|+||+|||+ ||. ||||+|++++++..|||+|+||||++|+||+|||+|.|||+
T Consensus 78 ~s~---t~p~~e~~e~~e~~~~L~GsKcsaph~ss~gl~yHna~I~g~E~sarvRVlfl~PTh~sMkpC~ffLeg~CRF~ 154 (486)
T KOG2185|consen 78 DSG---TKPEHEEPEKTEEKKDLDGSKCSAPHTSSRGLYYHNARIIGFEGSARVRVLFLTPTHESMKPCKFFLEGRCRFG 154 (486)
T ss_pred Ccc---cCcccccchhcchhhhccCCcccccccCCccceecceeEEeeccccceEEEeecCcchhhccchHhhccccccC
Confidence 011 123333333345677899999999997 674 45999999999999999999999999999999999999999
Q ss_pred CccccCCCcccCcccccccCCCCcccccCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeecccccccc
Q 010937 160 TNCRLSHGIDVPLSFLKKYVPTSWEQSLVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLGIEAMTLS 239 (497)
Q Consensus 160 ~~Cr~sHg~~v~~~~L~~~~~pd~~~l~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~~d~~~~~ 239 (497)
+|||||||.+|++++||+|++|||++|++|+.|||+ +.++|||.|+|++||.++++|+|+|.....++.. .|.++|+
T Consensus 155 enCRfSHG~~V~lsslr~yq~pD~s~L~~gs~vlak--~~sdiWh~ari~~vd~~~q~vkv~~~g~~~s~ke-gD~~~~~ 231 (486)
T KOG2185|consen 155 ENCRFSHGLDVPLSSLRNYQQPDWSQLMVGSKVLAK--SGSDIWHKARIESVDDELQVVKVVFRGDKSSAKE-GDSLALS 231 (486)
T ss_pred cccccccCcccchhhcccCCCccHHHHhhcCeeeee--ccchhhhhhheeeeccceeEEEEEeccchhhhhc-ccccCcc
Confidence 999999999999999999999999999999999999 6699999999999999999999999876655554 5999999
Q ss_pred ccccCCCCCCCC----------CCCCCCCCCCcCCCCCCcccccccccccCCccCccccccccccCcCcHHHHHHHHcCC
Q 010937 240 EYAQMSDEEDSD----------FSSEQSDSSDYEEDSPHGVGFDESNNLKRGVRNDTVVFAKWENHTRGIASKMMANMGY 309 (497)
Q Consensus 240 e~~~~~d~~~~~----------~~s~~s~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~we~~t~gig~klm~kmG~ 309 (497)
+|+.+.|.|.++ ++|+||.++|.++.+...+|++.++++++ ++++..||.||.||+|||+|||+||||
T Consensus 232 ~y~e~TdqD~dse~~~~e~~s~d~s~Ds~eSd~d~~~e~~~g~~~~~~l~~--~t~t~~fakWe~hTRGIgsKLM~kMGY 309 (486)
T KOG2185|consen 232 EYAEMTDQDGDSEEEEDEQQSADDSEDSVESDYDEGSEQGIGFLESTNLPR--QTDTALFAKWENHTRGIGSKLMAKMGY 309 (486)
T ss_pred cccccccccccchhhhhhhcccCCcccchhhcccccchhcccccccccccc--cccHHHHhhhccccchHHHHHHHHhch
Confidence 998776655433 23344555666666667888888888764 678999999999999999999999999
Q ss_pred CCCCCCCCCCCCccccccccccCCCccccccccccccccCCchHhhhhhccccchhhhHHHHHHHHHhhhhccCCCCcee
Q 010937 310 REGMGLGASGQGILDPVAVKVLPPKQSLDHAVELHQSKEGKDEKQRKKRSRGGRRKREKKFAEAVRAARDEEESRPDVFS 389 (497)
Q Consensus 310 ~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~~~e~~~~~~~~~~~~~~k~~r~~k~k~~~k~ae~~~~~k~~~~~~~~VFd 389 (497)
+.|+|||++++|||+||.|+|.|.+++||.||+..++. ++.|++|||+.++.++..++.+. ++++.+||+
T Consensus 310 ~~G~GLG~~g~GiV~pI~a~vlp~grSLDecme~kqk~---------~r~r~gkrk~~rkrk~~aKa~~r-ee~r~dvF~ 379 (486)
T KOG2185|consen 310 REGMGLGVSGQGIVNPILAKVLPAGRSLDECMEEKQKK---------KRSRGGKRKRGRKRKEAAKAAKR-EEERKDVFS 379 (486)
T ss_pred hhccccCcCCCccccchhhhhccCCCCHHHHHHHHHHh---------hccccccccchhhhhhhccccCC-ccccccHHH
Confidence 99999999999999999999999999999999876543 34677777777766666666543 334667999
Q ss_pred eccccccccccccCCCCCcccccccchhhhhhhhHHhhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHH
Q 010937 390 LINNQLRVHHETINGSSPKMQQHKGSVKEKKISRRDLVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRK 469 (497)
Q Consensus 390 fiN~~L~~~~~~~~~~~~~~~~~~~~~~~~k~~~r~l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~ 469 (497)
|||.+|.+.......+..+..+.+. ....|....+||+++++|++|++++.||+++|.||++|+++.++++++|.++++
T Consensus 380 fiNekl~g~~~~~~~~~rkkt~e~a-g~s~Ktl~~~lv~~edeirrlkrdm~klkq~l~RN~gd~v~s~~lqe~L~ev~~ 458 (486)
T KOG2185|consen 380 FINEKLFGTRHEKVHSERKKTRENA-GPSDKTLGAALVEYEDEIRRLKRDMLKLKQMLNRNKGDLVVSEALQERLKEVRK 458 (486)
T ss_pred HHHHHhcccccccccchhhhhhhhc-CcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHH
Confidence 9999999854322211111111111 123344445599999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhHHHHHHhHHhhhhcccC
Q 010937 470 ALAQAEAAQASASHEVSSREKEKRWLKF 497 (497)
Q Consensus 470 ~L~~~~a~~~si~~~~~~~~~~k~~~~f 497 (497)
+|++++|++++|+++|.+|+.+|||+.|
T Consensus 459 ~Lasl~aqea~ls~eq~sr~s~kKm~eF 486 (486)
T KOG2185|consen 459 ALASLLAQEAALSNEQVSRESEKKMLEF 486 (486)
T ss_pred HHHHHHHHHHHHhHHHhhhhhhhhhccC
Confidence 9999999999999999999999999999
No 2
>KOG3026 consensus Splicing factor SPF30 [RNA processing and modification]
Probab=99.83 E-value=3.4e-20 Score=178.70 Aligned_cols=118 Identities=23% Similarity=0.312 Sum_probs=85.2
Q ss_pred HHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHhhhhcCCCCCCCcccCCCCC--C
Q 010937 13 LEQQLNEQRDSLTALNDAVASDPFNPELQEVLKELVQAIKDAEEGLFHLKRARLLREADLVLHGCSSRTEDVQAEPL--D 90 (497)
Q Consensus 13 Le~~L~~Yk~QLqQVe~aL~~DP~n~ELl~Lk~DL~elI~LTee~L~~lk~s~ll~e~d~~~~~~~~~~ed~~~~p~--~ 90 (497)
|+.+|.+|++|||||++||+.||.|+||+.|++||.|||.||+++|..-+- -+.++...-..+ .+.+. .
T Consensus 1 ma~eL~sYK~QLqqVeaaL~~dP~NeEllkLe~DLkEvIsLTedLlqT~~e------e~~sss~a~~ss---q~~h~s~~ 71 (262)
T KOG3026|consen 1 MAKELASYKLQLQQVEAALQGDPENEELLKLEKDLKEVISLTEDLLQTQKE------EDKSSSDAFVSS---QPTHSSFT 71 (262)
T ss_pred ChhHHHHHHHHHHHHHHHHccCCccHHHHHHHHHHHHHHHHHHHHHHhhhh------hhcccccccccC---ccccCCCc
Confidence 467888999999999999999999999999999999999999998876221 111111000000 00011 0
Q ss_pred CCC------CCCCCccccCCCCCCeeEEEeC-CCceeeeEEEeecc-CCceEEEEec
Q 010937 91 PAD------VEPEPLEDQRYSVGSKCRFRYN-DGRWYDGRIIGLEE-TDSAKVSFLR 139 (497)
Q Consensus 91 ~~~------~e~~~~~~~~~~vG~kC~A~~~-dG~~Y~A~I~~i~~-~~~vrV~Fl~ 139 (497)
|.- .-+.+.....|.||+||+|+|. ||.||.|+|..|+. .+++.|.|..
T Consensus 72 ~~~~~~~~l~~~~~i~a~~w~vg~K~~A~~~ddg~~y~AtIe~ita~~~~~ai~f~s 128 (262)
T KOG3026|consen 72 PRWVSGDYLFYPSRITAVGWKVGDKVQAVFSDDGQIYDATIEHITAMEGTVAIIFAS 128 (262)
T ss_pred hhhhhhhhccccccchhcccccCCEEEEeecCCCceEEeehhhccCCCCceeEEEee
Confidence 100 0111233458999999999999 89999999999987 5689999987
No 3
>KOG2184 consensus Tuftelin-interacting protein TIP39, contains G-patch domain [RNA processing and modification]
Probab=99.69 E-value=4.4e-17 Score=179.72 Aligned_cols=201 Identities=22% Similarity=0.349 Sum_probs=151.2
Q ss_pred cccccccccCcCcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCcccccccccccc---ccC------Cc-----
Q 010937 286 TVVFAKWENHTRGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQSLDHAVELHQS---KEG------KD----- 351 (497)
Q Consensus 286 ~~~~g~we~~t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~~~e~~~~---~~~------~~----- 351 (497)
+..||.||.||+|||+|||.+|||++|+|||+++|||++||+++++|.+.|+|+...-... +.. ++
T Consensus 105 ~~~~~~~e~~t~gig~Kll~kMGYkpG~GLGkn~qGIv~Pieaq~Rp~rgg~Gay~~e~~~ss~~~~~~~~~~e~~~~~s 184 (767)
T KOG2184|consen 105 TNVFGDFEKGTKGIGAKLLEKMGYKPGKGLGKNAQGIVAPIEAQLRPGRGGLGAYGFETEASSHKDLEKVDSSEDTVSVS 184 (767)
T ss_pred hhhhhhhhhcccchhHHHHHHcCCccccccCccccccccHHhcccCccCccccccccccccccccchhhhhccccccccc
Confidence 4568999999999999999999999999999999999999999999999999986543332 110 00
Q ss_pred --h-----Hhhhhhc---cccchhhhHHHHHHHHHh--hhhcc--CCCCceeeccccccc----------cccccCCCC-
Q 010937 352 --E-----KQRKKRS---RGGRRKREKKFAEAVRAA--RDEEE--SRPDVFSLINNQLRV----------HHETINGSS- 406 (497)
Q Consensus 352 --~-----~~~~k~~---r~~k~k~~~k~ae~~~~~--k~~~~--~~~~VFdfiN~~L~~----------~~~~~~~~~- 406 (497)
. .+..++. .+..+|..|++.+++.+. +++.. ....|+||.+++-.. +...+.+.+
T Consensus 185 ~se~~~~~~~~~~~~~~~kk~~~k~~y~t~eEl~~~g~~~~~~~~~~~~vid~~g~~~~vvs~~~~~~~~~~~~~d~v~~ 264 (767)
T KOG2184|consen 185 VSEDKEKHGSKGRKGSEKKKKGVKTSYRTVEELMAKGLKQESKFLSGVKVIDMTGPEKRVVSGYESLLEEEKASDDGVPQ 264 (767)
T ss_pred cchhhhhcccccccChhhccCccchhhccHHHHHhccccchhhhccCceeeccCCcceeeehhhhcchhhhcCCcccccc
Confidence 0 0001111 223344467999999887 32211 456799999998874 112233445
Q ss_pred Ccccccccch-------hhhhhhhHHhhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010937 407 PKMQQHKGSV-------KEKKISRRDLVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQA 479 (497)
Q Consensus 407 ~~~~~~~~~~-------~~~k~~~r~l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~ 479 (497)
+|+++||+.. .+.++++. |.-..+....++.+++++++++.-+..+......+.+-+.++......-..+++
T Consensus 265 ~pel~hnl~~~v~~~E~~i~~~~~~-lr~e~~~~~~le~~~e~~~~~~~~~~~~~~~l~~~~e~v~~~e~~~~~~~~tld 343 (767)
T KOG2184|consen 265 RPELQHNLQLLVSLQESQIRRSDRQ-LRIERDQALNLEKEIEKLEEELDLEKTHEQSLRKVEESVDEAELDVSSKRLTLD 343 (767)
T ss_pred ccchhhhhHHHhhhhHHHHHHhhhH-HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhhhhhhccCCccccHH
Confidence 8899998773 34556665 888899999999999999999999999999999999999998888877777777
Q ss_pred hHHHHHHh
Q 010937 480 SASHEVSS 487 (497)
Q Consensus 480 si~~~~~~ 487 (497)
.+++.+..
T Consensus 344 ~~~~~fe~ 351 (767)
T KOG2184|consen 344 ELAILFEL 351 (767)
T ss_pred HHHHHHHH
Confidence 77776653
No 4
>PF01585 G-patch: G-patch domain; InterPro: IPR000467 The D111/G-patch domain [] is a short conserved region of about 40 amino acids which occurs in a number of putative RNA-binding proteins, including tumor suppressor and DNA-damage-repair proteins, suggesting that this domain may have an RNA binding function. This domain has seven highly conserved glycines. A multiple alignment of a small subset of D111/G-patch domains is shown in Fig. 2b of [].; GO: 0003676 nucleic acid binding, 0005622 intracellular
Probab=99.39 E-value=2.4e-13 Score=101.38 Aligned_cols=44 Identities=41% Similarity=0.736 Sum_probs=42.7
Q ss_pred cCcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCccccc
Q 010937 296 TRGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQSLDH 339 (497)
Q Consensus 296 t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~ 339 (497)
|++||.+||.+|||++|+|||++.+||++||.++.+..+.|||+
T Consensus 1 t~~~g~~lm~kmGw~~G~GLGk~~~G~~~pi~~~~~~~~~GlG~ 44 (45)
T PF01585_consen 1 TSSIGFKLMKKMGWKPGQGLGKNGQGIAEPIEVKKKKDRKGLGA 44 (45)
T ss_pred CCcHHHHHHHHCCCCCCcCCCcCCccCCcceEEeeEcCCccccC
Confidence 68999999999999999999999999999999999999999996
No 5
>smart00443 G_patch glycine rich nucleic binding domain. A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.
Probab=99.17 E-value=2e-11 Score=91.60 Aligned_cols=45 Identities=33% Similarity=0.714 Sum_probs=42.9
Q ss_pred CcCcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCccccc
Q 010937 295 HTRGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQSLDH 339 (497)
Q Consensus 295 ~t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~ 339 (497)
.+.++|.+||.+|||++|+|||+++|||++||++..++++.|||+
T Consensus 2 ~~~~~g~~~l~~mGw~~G~GLG~~~~g~~~pi~~~~~~~~~GlG~ 46 (47)
T smart00443 2 STSNIGYKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGA 46 (47)
T ss_pred CcccHHHHHHHHcCCCCCCcCCCCCCcCccceeEeeccCCcCcCC
Confidence 368999999999999999999999999999999999999999986
No 6
>KOG2809 consensus Telomerase elongation inhibitor/RNA maturation protein PINX1 [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.66 E-value=1.3e-08 Score=104.03 Aligned_cols=54 Identities=31% Similarity=0.583 Sum_probs=50.7
Q ss_pred ccccccCcCcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCcccccccc
Q 010937 289 FAKWENHTRGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQSLDHAVE 342 (497)
Q Consensus 289 ~g~we~~t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~~~e 342 (497)
.-.|.+.+..||.|||.+|||.+|.|||++.||+..||.|.+..++.|||+...
T Consensus 18 n~~w~nd~~~fg~KlLekmGW~eG~GLG~~~qG~~~~IKvs~K~d~~GLGa~~~ 71 (326)
T KOG2809|consen 18 NTAWSNDDSRFGKKLLEKMGWSEGDGLGKNEQGITDPIKVSLKNDTLGLGADKN 71 (326)
T ss_pred cchhcccchHHHHHHHHHcCCccCCcccccccCCccceEEEeccCCcccCcccc
Confidence 458999999999999999999999999999999999999999999999998643
No 7
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=98.45 E-value=1.3e-07 Score=95.35 Aligned_cols=55 Identities=33% Similarity=0.608 Sum_probs=42.4
Q ss_pred ccCCCCCCeeEEEeC-CCceeeeEEEeecc-CCceEEEEecCCCccccchhhhhhccccCCCccccCCCcccCccccccc
Q 010937 101 DQRYSVGSKCRFRYN-DGRWYDGRIIGLEE-TDSAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLSHGIDVPLSFLKKY 178 (497)
Q Consensus 101 ~~~~~vG~kC~A~~~-dG~~Y~A~I~~i~~-~~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~sHg~~v~~~~L~~~ 178 (497)
...|.||++|+|+|+ ||.||+|+|++|.. .++|.|.|.. || +-.+|.+++|++.
T Consensus 66 ~~~WkvGd~C~A~~s~Dg~~Y~A~I~~i~~~~~~~~V~f~g------------------Yg------n~e~v~l~dL~~~ 121 (264)
T PF06003_consen 66 NKKWKVGDKCMAVYSEDGQYYPATIESIDEEDGTCVVVFTG------------------YG------NEEEVNLSDLKPS 121 (264)
T ss_dssp TT---TT-EEEEE-TTTSSEEEEEEEEEETTTTEEEEEETT------------------TT------EEEEEEGGGEEET
T ss_pred ccCCCCCCEEEEEECCCCCEEEEEEEEEcCCCCEEEEEEcc------------------cC------CeEeeehhhhccc
Confidence 468999999999998 99999999999987 4689999988 55 3378888998876
Q ss_pred C
Q 010937 179 V 179 (497)
Q Consensus 179 ~ 179 (497)
.
T Consensus 122 ~ 122 (264)
T PF06003_consen 122 E 122 (264)
T ss_dssp T
T ss_pred c
Confidence 5
No 8
>KOG3673 consensus FtsJ-like RNA methyltransferase [RNA processing and modification]
Probab=98.29 E-value=3.6e-07 Score=98.06 Aligned_cols=50 Identities=30% Similarity=0.516 Sum_probs=45.7
Q ss_pred cCcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCccccccccccc
Q 010937 296 TRGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQSLDHAVELHQ 345 (497)
Q Consensus 296 t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~~~e~~~ 345 (497)
...++.+||+||||+.|+||||++|||.+||.+....+++|||+.....+
T Consensus 82 y~~va~~lMakMG~~~geGLGK~~QGr~epi~as~Q~GRrGlGl~l~~~~ 131 (845)
T KOG3673|consen 82 YLTVAERLMAKMGHKAGEGLGKHGQGRSEPIAASTQRGRRGLGLNLKATA 131 (845)
T ss_pred cchHHHHHHHHhCccccccccccCCCccchhhhhhhccccccCccchhhh
Confidence 46899999999999999999999999999999999999999998765443
No 9
>PF12656 G-patch_2: DExH-box splicing factor binding site
Probab=98.19 E-value=1.4e-06 Score=72.24 Aligned_cols=44 Identities=23% Similarity=0.464 Sum_probs=42.3
Q ss_pred CcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCcccccc
Q 010937 297 RGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQSLDHA 340 (497)
Q Consensus 297 ~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~~ 340 (497)
..||..||.-|||++|+|+|++.++.+.|+..+.++.+.|||+.
T Consensus 30 e~FG~AlLRGMGW~~~~~~g~~~~~~~~~~~~~~Rp~~lGLGA~ 73 (77)
T PF12656_consen 30 EEFGAALLRGMGWKPGEGIGKNKKKSVKPVEPKRRPKGLGLGAK 73 (77)
T ss_pred HHHHHHHHHHcCCCCCCCCCCCcccccCcccccccccCcCCCcC
Confidence 68999999999999999999999999999999999999999975
No 10
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=98.18 E-value=2.8e-06 Score=63.07 Aligned_cols=35 Identities=29% Similarity=0.693 Sum_probs=31.6
Q ss_pred CCeeEEEeC-CCceeeeEEEeeccCCceEEEEecCC
Q 010937 107 GSKCRFRYN-DGRWYDGRIIGLEETDSAKVSFLRPT 141 (497)
Q Consensus 107 G~kC~A~~~-dG~~Y~A~I~~i~~~~~vrV~Fl~pt 141 (497)
|+.|.|+|. ||.||.|+|+++.++..+.|+|+-..
T Consensus 1 G~~c~a~~~~d~~wyra~V~~~~~~~~~~V~f~DyG 36 (48)
T cd04508 1 GDLCLAKYSDDGKWYRAKITSILSDGKVEVFFVDYG 36 (48)
T ss_pred CCEEEEEECCCCeEEEEEEEEECCCCcEEEEEEcCC
Confidence 789999998 69999999999998778999999843
No 11
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=98.18 E-value=1.1e-05 Score=72.67 Aligned_cols=102 Identities=20% Similarity=0.183 Sum_probs=79.0
Q ss_pred CCeeEEEeC-CCceeeeEEEeeccCCceEEEEecCCCccccchhhhhhccccCCCccccCCCcccCcccccccCCCCccc
Q 010937 107 GSKCRFRYN-DGRWYDGRIIGLEETDSAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLSHGIDVPLSFLKKYVPTSWEQ 185 (497)
Q Consensus 107 G~kC~A~~~-dG~~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~sHg~~v~~~~L~~~~~pd~~~ 185 (497)
|++|.|++. ||-||+|+|...-..+.+-|-|.+ .+...|+.+.+-.+....-..
T Consensus 1 g~~VlAR~~~DG~YY~GtV~~~~~~~~~lV~f~~-------------------------~~~~~v~~~~iI~~~~~~~~~ 55 (124)
T PF15057_consen 1 GQKVLARREEDGFYYPGTVKKCVSSGQFLVEFDD-------------------------GDTQEVPISDIIALSDAMRHS 55 (124)
T ss_pred CCeEEEeeCCCCcEEeEEEEEccCCCEEEEEECC-------------------------CCEEEeChHHeEEccCcccCc
Confidence 789999997 999999999877666778888833 145678888888888777889
Q ss_pred ccCCCeEEEeecCCCCceEeeEEeee----eCCCceEEEEEeCCCCceeeccc
Q 010937 186 SLVGSTIWALSDDKVGIWRKAELGSW----DDEHRMGEVVFRDDGSSAKLGIE 234 (497)
Q Consensus 186 l~~Gs~~la~~~~~dglW~~a~i~~~----d~~~~~~~V~f~~~g~~~~~~~d 234 (497)
|++|..|||+-...+.-|.+|+|... ......|+|.|-++. .+.++..
T Consensus 56 L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~~~~~~~~~~~V~f~ng~-~~~vp~~ 107 (124)
T PF15057_consen 56 LQVGDKVLAPWEPDDCRYGPGTVIAGPERRASEDKEYTVRFYNGK-TAKVPRG 107 (124)
T ss_pred CCCCCEEEEecCcCCCEEeCEEEEECccccccCCceEEEEEECCC-CCccchh
Confidence 99999999995444677999999963 223478999998654 5555433
No 12
>KOG0965 consensus Predicted RNA-binding protein, contains SWAP and G-patch domains [General function prediction only]
Probab=98.15 E-value=1e-06 Score=97.19 Aligned_cols=58 Identities=28% Similarity=0.410 Sum_probs=46.8
Q ss_pred CccccccccccCcCcHHHHHHHHcCCCCCCCCCCCCCCccccccccc-cCCCccccccc
Q 010937 284 NDTVVFAKWENHTRGIASKMMANMGYREGMGLGASGQGILDPVAVKV-LPPKQSLDHAV 341 (497)
Q Consensus 284 ~~~~~~g~we~~t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~-~~~~~gLg~~~ 341 (497)
++.+.|..+.-...+||.+||+|||||+|.|||..++||.+||.+-- ...|.|+|...
T Consensus 893 pd~sdyke~KLt~dNiGfQMLqKMGWKEGeGLGS~gkGI~dPVnkg~~~~~g~G~G~s~ 951 (988)
T KOG0965|consen 893 PDDSDYKEQKLTDDNIGFQMLQKMGWKEGEGLGSLGKGIRDPVNKGAAGSLGWGWGGSQ 951 (988)
T ss_pred CChHHHHHhhccccchHHHHHHHhCccccccccccCcccccchhhcccccCCcccccCC
Confidence 34455666666668999999999999999999999999999998754 45677777643
No 13
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=98.14 E-value=4.9e-06 Score=61.79 Aligned_cols=47 Identities=23% Similarity=0.312 Sum_probs=39.8
Q ss_pred CCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeecccccc
Q 010937 189 GSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLGIEAMT 237 (497)
Q Consensus 189 Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~~d~~~ 237 (497)
|..|+|+.. .|+.||+|+|.+++. .+.|.|.|-++|+...|+.+.|.
T Consensus 1 G~~c~a~~~-~d~~wyra~V~~~~~-~~~~~V~f~DyG~~~~v~~~~l~ 47 (48)
T cd04508 1 GDLCLAKYS-DDGKWYRAKITSILS-DGKVEVFFVDYGNTEVVPLSDLR 47 (48)
T ss_pred CCEEEEEEC-CCCeEEEEEEEEECC-CCcEEEEEEcCCCcEEEeHHHcC
Confidence 788999963 579999999999996 57799999999999988766553
No 14
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=98.14 E-value=4.7e-06 Score=64.04 Aligned_cols=37 Identities=35% Similarity=0.743 Sum_probs=34.1
Q ss_pred CCCCCCeeEEEeCCCceeeeEEEeeccCCceEEEEec
Q 010937 103 RYSVGSKCRFRYNDGRWYDGRIIGLEETDSAKVSFLR 139 (497)
Q Consensus 103 ~~~vG~kC~A~~~dG~~Y~A~I~~i~~~~~vrV~Fl~ 139 (497)
.|.+|+.|.|+|.||.||.|+|+++.++..+.|.|+-
T Consensus 2 ~~~~G~~~~a~~~d~~wyra~I~~~~~~~~~~V~f~D 38 (57)
T smart00333 2 TFKVGDKVAARWEDGEWYRARIIKVDGEQLYEVFFID 38 (57)
T ss_pred CCCCCCEEEEEeCCCCEEEEEEEEECCCCEEEEEEEC
Confidence 4789999999998899999999999987779999988
No 15
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=98.10 E-value=6.1e-06 Score=63.40 Aligned_cols=51 Identities=25% Similarity=0.290 Sum_probs=44.4
Q ss_pred cccCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeeccccccc
Q 010937 185 QSLVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLGIEAMTL 238 (497)
Q Consensus 185 ~l~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~~d~~~~ 238 (497)
.+.+|..|+|+. .+|.||+|+|.+++.+ +.|.|.|.++|+...|+.+.|.+
T Consensus 2 ~~~~G~~~~a~~--~d~~wyra~I~~~~~~-~~~~V~f~D~G~~~~v~~~~l~~ 52 (57)
T smart00333 2 TFKVGDKVAARW--EDGEWYRARIIKVDGE-QLYEVFFIDYGNEEVVPPSDLRP 52 (57)
T ss_pred CCCCCCEEEEEe--CCCCEEEEEEEEECCC-CEEEEEEECCCccEEEeHHHeec
Confidence 457899999995 5899999999999986 78999999999999988776653
No 16
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=98.04 E-value=2.7e-06 Score=85.64 Aligned_cols=51 Identities=29% Similarity=0.468 Sum_probs=42.0
Q ss_pred cccccccccCcCcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCcc
Q 010937 286 TVVFAKWENHTRGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQS 336 (497)
Q Consensus 286 ~~~~g~we~~t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~g 336 (497)
|+.||.=-...-+++++||+||||+.|+||||+.||+..|+.+.....+.|
T Consensus 201 tn~fg~~~gg~ltvA~~im~k~G~keGqGLGKsEQGlsTalsveKT~~rgG 251 (378)
T KOG1996|consen 201 TNSFGANTGGGLTVAHKIMQKYGFKEGQGLGKSEQGLSTALSVEKTSKRGG 251 (378)
T ss_pred cchhhhhcccchhHHHHHHHHhCcccccCcCccccccccceeeeeccccCc
Confidence 456664332222588999999999999999999999999999998888777
No 17
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 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 C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=97.88 E-value=4.9e-06 Score=55.51 Aligned_cols=24 Identities=42% Similarity=1.187 Sum_probs=19.0
Q ss_pred ccchhhhhh-ccccCCCccccCCCc
Q 010937 145 MLMCKFFLQ-QRCRFGTNCRLSHGI 168 (497)
Q Consensus 145 ~~pC~~fl~-g~C~f~~~Cr~sHg~ 168 (497)
+.+|++|++ |.|+||++|+|+|+.
T Consensus 3 ~~~C~~f~~~g~C~~G~~C~f~H~~ 27 (27)
T PF00642_consen 3 TKLCRFFMRTGTCPFGDKCRFAHGE 27 (27)
T ss_dssp SSB-HHHHHTS--TTGGGSSSBSSG
T ss_pred cccChhhccCCccCCCCCcCccCCC
Confidence 578999999 999999999999973
No 18
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=97.83 E-value=2.5e-05 Score=78.98 Aligned_cols=54 Identities=24% Similarity=0.311 Sum_probs=44.5
Q ss_pred cccCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeecccccccc
Q 010937 185 QSLVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLGIEAMTLS 239 (497)
Q Consensus 185 ~l~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~~d~~~~~ 239 (497)
...+|..|+|.+ ..||.||+|+|.+|+.+.+.|.|+|..||+..+|.+..|.+.
T Consensus 68 ~WkvGd~C~A~~-s~Dg~~Y~A~I~~i~~~~~~~~V~f~gYgn~e~v~l~dL~~~ 121 (264)
T PF06003_consen 68 KWKVGDKCMAVY-SEDGQYYPATIESIDEEDGTCVVVFTGYGNEEEVNLSDLKPS 121 (264)
T ss_dssp ---TT-EEEEE--TTTSSEEEEEEEEEETTTTEEEEEETTTTEEEEEEGGGEEET
T ss_pred CCCCCCEEEEEE-CCCCCEEEEEEEEEcCCCCEEEEEEcccCCeEeeehhhhccc
Confidence 567999999997 479999999999999988899999999999999887777764
No 19
>KOG2384 consensus Major histocompatibility complex protein BAT4, contains G-patch and ankyrin domains [General function prediction only]
Probab=97.82 E-value=1.6e-05 Score=76.19 Aligned_cols=55 Identities=18% Similarity=0.378 Sum_probs=48.4
Q ss_pred cccccccCcCcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCcccccccc
Q 010937 288 VFAKWENHTRGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQSLDHAVE 342 (497)
Q Consensus 288 ~~g~we~~t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~~~e 342 (497)
.|-..-...+++|.+||.+.||.++.|||.+++|+..||.+++++++.|||....
T Consensus 119 k~~p~~i~pks~GyrLl~~~GW~pe~GLGp~~~Grr~PvrTvlkkdr~GLG~e~~ 173 (223)
T KOG2384|consen 119 KFQPHLIKPKSLGYRLLSQYGWSPEAGLGPENQGRRAPVRTVLKKDRIGLGTEID 173 (223)
T ss_pred CCCCCcCCCCCchHHHHHhcCCCcccCCCccccCcccchhHHHhhcccccchhhc
Confidence 3444445568999999999999999999999999999999999999999998543
No 20
>smart00356 ZnF_C3H1 zinc finger.
Probab=97.47 E-value=4.4e-05 Score=50.02 Aligned_cols=23 Identities=35% Similarity=0.999 Sum_probs=21.0
Q ss_pred ccchhhhhhccccCCCccccCCC
Q 010937 145 MLMCKFFLQQRCRFGTNCRLSHG 167 (497)
Q Consensus 145 ~~pC~~fl~g~C~f~~~Cr~sHg 167 (497)
..+|++|+.|.|.+|.+|+|+|+
T Consensus 4 ~~~C~~~~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 4 TELCKFFKRGYCPYGDRCKFAHP 26 (27)
T ss_pred CCcCcCccCCCCCCCCCcCCCCc
Confidence 45899999999999999999996
No 21
>PF09038 53-BP1_Tudor: Tumour suppressor p53-binding protein-1 Tudor; InterPro: IPR015125 This domain consist of ten beta-strands and a carboxy-terminal alpha-helix. The amino-terminal five beta-strands and the C-terminal five beta-strands adopt folds that are identical to each other. The domain is essential for the recruitment of proteins to double stranded breaks in DNA, which is mediated by interaction with methylated Lys 79 of histone H3 []. ; PDB: 3LGL_A 1XNI_B 3LGF_A 2G3R_A 2IG0_A 3LH0_A 1SSF_A.
Probab=97.39 E-value=0.00075 Score=60.36 Aligned_cols=103 Identities=18% Similarity=0.233 Sum_probs=67.3
Q ss_pred CCCCCeeEEEeCCCc-eeeeEEEeeccCCceEEEEecCCCccccchhhhhhccccCCCccccCCCcccCcccccccCCCC
Q 010937 104 YSVGSKCRFRYNDGR-WYDGRIIGLEETDSAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLSHGIDVPLSFLKKYVPTS 182 (497)
Q Consensus 104 ~~vG~kC~A~~~dG~-~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~sHg~~v~~~~L~~~~~pd 182 (497)
-.+|-+|.|+|+|-. ||+++|+.-.+..+++|+|.- |..|+.. .++|- .+|
T Consensus 3 ~~iG~rV~AkWS~n~yyY~G~I~~~~~~~kykv~FdD-------------------G~~~~v~------~~div---~~d 54 (122)
T PF09038_consen 3 SFIGLRVFAKWSDNGYYYPGKITSDKGKNKYKVLFDD-------------------GYECRVL------GKDIV---VCD 54 (122)
T ss_dssp -STT-EEEEESSTTSEEEEEEEEEEETTTEEEEEETT-------------------S-EEEEE------CCCEE---EES
T ss_pred cccccEEEEEEccCCcccCceEeecCCCCeEEEEecC-------------------Cccceec------cCcEE---EEc
Confidence 479999999999544 589999987788899999976 5556522 12221 222
Q ss_pred cccccCCCeEEEeecCCCCceEeeEEeee--eCCCceEEEEEeCCCCceeeccccccccc
Q 010937 183 WEQSLVGSTIWALSDDKVGIWRKAELGSW--DDEHRMGEVVFRDDGSSAKLGIEAMTLSE 240 (497)
Q Consensus 183 ~~~l~~Gs~~la~~~~~dglW~~a~i~~~--d~~~~~~~V~f~~~g~~~~~~~d~~~~~e 240 (497)
.|..|..|.|. ..|..|..|+|..+ +.+.-+|.|..+ |....+.--.|+|+.
T Consensus 55 --plpl~~eV~A~--~eddY~~~GvV~~h~~~~~e~yY~Ve~d--G~~~~~~r~~viLs~ 108 (122)
T PF09038_consen 55 --PLPLGTEVTAL--SEDDYFSPGVVKGHKTDSGEVYYCVETD--GQRKRYQRKDVILSA 108 (122)
T ss_dssp --SS-TTEEEEEC--CTTCTSEEEEEEEEEEETTEEEEEEEET--TEEEEEEGGGEEEEH
T ss_pred --ceeccceeEEe--ecCCcccccEEEEEEccCCcEEEEEEEC--CCEEEEEeeeEEEcH
Confidence 34457789997 45899999999866 333356777755 544445545555543
No 22
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=97.34 E-value=0.00019 Score=70.16 Aligned_cols=50 Identities=16% Similarity=0.266 Sum_probs=44.8
Q ss_pred CcHHHHHHHHcCCCCCCCCCCCCCC---ccccccccccCCCcccccccccccc
Q 010937 297 RGIASKMMANMGYREGMGLGASGQG---ILDPVAVKVLPPKQSLDHAVELHQS 346 (497)
Q Consensus 297 ~gig~klm~kmG~~~G~GLG~~~qG---~~~pi~~~~~~~~~gLg~~~e~~~~ 346 (497)
..+|.++|.+|||++|.-|||++.| |.+||-+.++..+.|||......+.
T Consensus 81 e~~gf~lm~~Mg~kpg~~lgkq~e~~~~r~epI~~dI~~~r~g~G~ed~~~~~ 133 (268)
T KOG1994|consen 81 EKPGFSLMNDMGMKPGRFLGKQSEMKNKRLEPIWYDIQVAREGMGDEDLYNPG 133 (268)
T ss_pred cCcChHHHHHhCCCccchhccccccccccccceeehHHHHhhccCcccccccc
Confidence 5778999999999999999999999 9999999999999999987654433
No 23
>KOG4327 consensus mRNA splicing protein SMN (survival motor neuron) [RNA processing and modification]
Probab=97.34 E-value=0.00041 Score=66.57 Aligned_cols=41 Identities=29% Similarity=0.510 Sum_probs=34.4
Q ss_pred ccccCCCCCCeeEEEeC-CCceeeeEEEeecc-CCceEEEEec
Q 010937 99 LEDQRYSVGSKCRFRYN-DGRWYDGRIIGLEE-TDSAKVSFLR 139 (497)
Q Consensus 99 ~~~~~~~vG~kC~A~~~-dG~~Y~A~I~~i~~-~~~vrV~Fl~ 139 (497)
.....|.||++|+|+|. +|.+|+|+|++|.. -.++.|.|++
T Consensus 63 ~~~~~wKVgdkc~A~Y~e~g~~ypatidsi~~~~~tcvv~ylg 105 (218)
T KOG4327|consen 63 ASLQQWKVGDKCSAIYSEDGCIYPATIDSIDFKRETCVVVYLG 105 (218)
T ss_pred cchhhheecceeeeeeecCcccccceecccccccCceEEEEEe
Confidence 34678999999999998 67899999999974 3456699998
No 24
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=97.04 E-value=0.0014 Score=51.29 Aligned_cols=37 Identities=11% Similarity=0.352 Sum_probs=33.4
Q ss_pred CCCCCCeeEEEeC-CCceeeeEEEeeccCCceEEEEec
Q 010937 103 RYSVGSKCRFRYN-DGRWYDGRIIGLEETDSAKVSFLR 139 (497)
Q Consensus 103 ~~~vG~kC~A~~~-dG~~Y~A~I~~i~~~~~vrV~Fl~ 139 (497)
.|.+|+.|.|.|. +|.||.|+|+.+.+...+.|.|..
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V~~~~~~~~~~V~~~~ 39 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVVTKVLGDGKYLVRYLT 39 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEEEEECCCCEEEEEECC
Confidence 4899999999996 789999999999987789999976
No 25
>KOG0154 consensus RNA-binding protein RBM5 and related proteins, contain G-patch and RRM domains [General function prediction only]
Probab=96.97 E-value=0.0004 Score=77.26 Aligned_cols=46 Identities=30% Similarity=0.600 Sum_probs=44.3
Q ss_pred CcCcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCcccccc
Q 010937 295 HTRGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQSLDHA 340 (497)
Q Consensus 295 ~t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~~ 340 (497)
.+.++|.+||.+|||..|.|||+.++||+.||++..+-.+.|||..
T Consensus 510 ~~sn~~~~~l~~~gw~~g~Glg~~~~g~~~~~e~~~~~~~~~lg~~ 555 (573)
T KOG0154|consen 510 DTSNVGNRMLQSMGWKEGSGLGKKNQGIKEPIEAEGRDRGAGLGAK 555 (573)
T ss_pred CCCccchhhhhccCcccccccccccCCCcccccccccccCCCCCcc
Confidence 4789999999999999999999999999999999999999999986
No 26
>KOG4315 consensus G-patch nucleic acid binding protein [General function prediction only]
Probab=96.76 E-value=0.0013 Score=69.44 Aligned_cols=55 Identities=24% Similarity=0.384 Sum_probs=44.9
Q ss_pred cccccccC-cCcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCccccccccc
Q 010937 288 VFAKWENH-TRGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQSLDHAVEL 343 (497)
Q Consensus 288 ~~g~we~~-t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~~~e~ 343 (497)
...+|++. ..+||..||+-|||++|.|+|+++|+ +.+..-..+|.+.|||+....
T Consensus 144 e~~DyeaiPVe~FGlAmLrG~GWkpg~gigk~~q~-v~~~~~~~rpkglGLGa~~~~ 199 (455)
T KOG4315|consen 144 ELADYEAIPVEGFGLAMLRGMGWKPGPGIGKNKQD-VKIKEPFLRPKGLGLGADPAL 199 (455)
T ss_pred chhccccCchhHHHHHHHhcCCCCCCCCcCcCCcc-ccccccccCCCCcccCCCccc
Confidence 45666654 38999999999999999999999666 446667889999999997543
No 27
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=96.32 E-value=0.0074 Score=46.75 Aligned_cols=37 Identities=27% Similarity=0.758 Sum_probs=30.7
Q ss_pred CCCCCeeEEEeCCCceeeeEEEeeccCCceEEEEecC
Q 010937 104 YSVGSKCRFRYNDGRWYDGRIIGLEETDSAKVSFLRP 140 (497)
Q Consensus 104 ~~vG~kC~A~~~dG~~Y~A~I~~i~~~~~vrV~Fl~p 140 (497)
+.||++|.+.|.+|.||+|.|+.+.......-+|+|.
T Consensus 1 ~~vG~~v~~~~~~~~~y~A~I~~~r~~~~~~~YyVHY 37 (55)
T PF11717_consen 1 FEVGEKVLCKYKDGQWYEAKILDIREKNGEPEYYVHY 37 (55)
T ss_dssp --TTEEEEEEETTTEEEEEEEEEEEECTTCEEEEEEE
T ss_pred CCcCCEEEEEECCCcEEEEEEEEEEecCCCEEEEEEc
Confidence 4689999999988999999999998766667788875
No 28
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=95.71 E-value=0.021 Score=44.52 Aligned_cols=40 Identities=18% Similarity=0.541 Sum_probs=29.8
Q ss_pred cCCCCCCeeEEEeC-CCceeeeEEEeecc-CCceEEEEecCC
Q 010937 102 QRYSVGSKCRFRYN-DGRWYDGRIIGLEE-TDSAKVSFLRPT 141 (497)
Q Consensus 102 ~~~~vG~kC~A~~~-dG~~Y~A~I~~i~~-~~~vrV~Fl~pt 141 (497)
..|..|+.||++|. +..||.|.|++.+. +..+.|.|..-|
T Consensus 4 ~k~~~Ge~V~~rWP~s~lYYe~kV~~~d~~~~~y~V~Y~DGt 45 (55)
T PF09465_consen 4 RKFAIGEVVMVRWPGSSLYYEGKVLSYDSKSDRYTVLYEDGT 45 (55)
T ss_dssp SSS-SS-EEEEE-TTTS-EEEEEEEEEETTTTEEEEEETTS-
T ss_pred ccccCCCEEEEECCCCCcEEEEEEEEecccCceEEEEEcCCC
Confidence 57999999999998 45699999999876 557899997744
No 29
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=95.56 E-value=0.033 Score=43.42 Aligned_cols=52 Identities=10% Similarity=0.041 Sum_probs=42.2
Q ss_pred cccCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeC--CCCceeeccccccc
Q 010937 185 QSLVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRD--DGSSAKLGIEAMTL 238 (497)
Q Consensus 185 ~l~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~--~g~~~~~~~d~~~~ 238 (497)
.+.+|..|-|... .++-||+|+|+++.. .+.|.|.|.+ .+....++...|-|
T Consensus 2 ~~~~G~~Ve~~~~-~~~~W~~a~V~~~~~-~~~~~V~~~~~~~~~~e~v~~~~LRp 55 (61)
T smart00743 2 DFKKGDRVEVFSK-EEDSWWEAVVTKVLG-DGKYLVRYLTESEPLKETVDWSDLRP 55 (61)
T ss_pred CcCCCCEEEEEEC-CCCEEEEEEEEEECC-CCEEEEEECCCCcccEEEEeHHHccc
Confidence 3578999999864 378899999999997 4679999999 88777777666654
No 30
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=95.36 E-value=0.054 Score=42.26 Aligned_cols=46 Identities=15% Similarity=0.292 Sum_probs=34.1
Q ss_pred cccCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeec
Q 010937 185 QSLVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLG 232 (497)
Q Consensus 185 ~l~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~ 232 (497)
....|..|.++-. .+.+||.|+|++.|...+.|+|+|++ |.+..|+
T Consensus 5 k~~~Ge~V~~rWP-~s~lYYe~kV~~~d~~~~~y~V~Y~D-Gtel~lk 50 (55)
T PF09465_consen 5 KFAIGEVVMVRWP-GSSLYYEGKVLSYDSKSDRYTVLYED-GTELELK 50 (55)
T ss_dssp SS-SS-EEEEE-T-TTS-EEEEEEEEEETTTTEEEEEETT-S-EEEEE
T ss_pred cccCCCEEEEECC-CCCcEEEEEEEEecccCceEEEEEcC-CCEEEec
Confidence 3458999999963 68999999999999999999999987 5455543
No 31
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=95.23 E-value=0.0077 Score=37.05 Aligned_cols=19 Identities=47% Similarity=0.882 Sum_probs=16.8
Q ss_pred chhhhhhccccCCCccccCCC
Q 010937 147 MCKFFLQQRCRFGTNCRLSHG 167 (497)
Q Consensus 147 pC~~fl~g~C~f~~~Cr~sHg 167 (497)
||+||.. |+++++|.|+|+
T Consensus 1 ~Ck~~~~--C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGPN--CTNGDNCPFSHP 19 (19)
T ss_pred CCcCcCC--CCCCCcCccCCc
Confidence 6898876 999999999995
No 32
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=95.22 E-value=0.2 Score=45.63 Aligned_cols=108 Identities=14% Similarity=0.161 Sum_probs=64.3
Q ss_pred CCCCeeEEEeC----CCceeeeEEEeeccCC-ceEEEEecCCCccccchhhhhhccccCCCccccCCCcccCcccccccC
Q 010937 105 SVGSKCRFRYN----DGRWYDGRIIGLEETD-SAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLSHGIDVPLSFLKKYV 179 (497)
Q Consensus 105 ~vG~kC~A~~~----dG~~Y~A~I~~i~~~~-~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~sHg~~v~~~~L~~~~ 179 (497)
.+|++|-|+.. ++.|--|.|+++.+.+ ++-|.=..|.- ++. +| ++..+|-..+|. --+..
T Consensus 1 q~G~~VAak~~~~~~~~~WIla~Vv~~~~~~~rYeV~D~d~~~-~~~----------~~--~~~~~~iIPLP~--~~~~~ 65 (130)
T PF07039_consen 1 QPGDQVAAKVKQGNEEEEWILAEVVKYNSDGNRYEVEDPDPEE-EKK----------RY--KLSRKQIIPLPK--KAPPD 65 (130)
T ss_dssp -TT-EEEEEECTTTTTCEEEEEEEEEEETTTTEEEEEETTTCT-TTE----------EE--EEEGGGEEEE-S--B--TT
T ss_pred CCCCEEEEEcCCCCCCCCEEEEEEEEEeCCCCEEEEecCCCCC-CCc----------eE--EeCHHHEEECCC--ccCCC
Confidence 47999999874 3569999999987765 67777776642 100 11 122233333333 22222
Q ss_pred CCCcccccCCCeEEEeecCCCCceEeeEEeee-eCCCceEEEEEeCCCCc
Q 010937 180 PTSWEQSLVGSTIWALSDDKVGIWRKAELGSW-DDEHRMGEVVFRDDGSS 228 (497)
Q Consensus 180 ~pd~~~l~~Gs~~la~~~~~dglW~~a~i~~~-d~~~~~~~V~f~~~g~~ 228 (497)
......+..|+.|||.+. +.-..|+|+|.+. ....+.|.|.|+++...
T Consensus 66 ~~~~~~f~~g~~VLAlYP-~TT~FY~A~V~~~p~~~~~~y~l~Fedd~~~ 114 (130)
T PF07039_consen 66 TDPLAEFPKGTKVLALYP-DTTCFYPATVVSPPKKKSGEYKLKFEDDEDA 114 (130)
T ss_dssp T-GGGS--TT-EEEEE-T-TSSEEEEEEEEEE-SSTTS-EEEEECTTTST
T ss_pred CCchhhCCCCCEEEEECC-CCceEEEEEEEeCCCCCCCcEEEEEeCCCCc
Confidence 334556789999999974 4788999999988 22347899999985543
No 33
>PF00567 TUDOR: Tudor domain; InterPro: IPR008191 There are multiple copies of this domain in the Drosophila melanogaster tudor protein and it has been identified in several RNA-binding proteins []. Although the function of this domain is unknown, in Drosophila melanogaster the tudor protein is required during oogenesis for the formation of primordial germ cells and for normal abdominal segmentation [].; PDB: 3NTI_A 3NTK_B 3NTH_A 2DIQ_A 3FDR_A 3PNW_O 3S6W_A 3PMT_A 2WAC_A 2O4X_A ....
Probab=95.15 E-value=0.037 Score=47.17 Aligned_cols=51 Identities=20% Similarity=0.304 Sum_probs=38.5
Q ss_pred cccCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeecccccc
Q 010937 185 QSLVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLGIEAMT 237 (497)
Q Consensus 185 ~l~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~~d~~~ 237 (497)
...+|..|++.. +.++.||||+| ..+.+...+.|.|-|+|....|+...|.
T Consensus 51 ~~~~~~~~~~~~-~~~~~w~Ra~I-~~~~~~~~~~V~~iD~G~~~~v~~~~l~ 101 (121)
T PF00567_consen 51 ESNPGEGCLCVV-SEDGRWYRAVI-TVDIDENQYKVFLIDYGNTEKVSASDLR 101 (121)
T ss_dssp T--TTEEEEEEE-TTTSEEEEEEE-EEEECTTEEEEEETTTTEEEEEEGGGEE
T ss_pred ccccCCEEEEEE-ecCCceeeEEE-EEecccceeEEEEEecCceEEEcHHHhh
Confidence 344677777775 56899999999 3333447899999999999998877665
No 34
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=94.46 E-value=0.049 Score=43.89 Aligned_cols=60 Identities=15% Similarity=0.229 Sum_probs=35.2
Q ss_pred CCCCCeeEEEeC-C---CceeeeEEEeeccCCceEEEEecCCCccccchhhhhhccccCCCccccC--CCcccCcccccc
Q 010937 104 YSVGSKCRFRYN-D---GRWYDGRIIGLEETDSAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLS--HGIDVPLSFLKK 177 (497)
Q Consensus 104 ~~vG~kC~A~~~-d---G~~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~s--Hg~~v~~~~L~~ 177 (497)
|.+|+.+..... + |.||.|+|+...+...+.|-|.+.+. .+..+ =-..|+...|||
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~~~~V~Y~~~~~------------------~~~~~~~l~e~V~~~~iRP 62 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENGDDKYLVEYDDLPD------------------EDGESPPLKEWVDARRIRP 62 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEETT-EEEEEETT-SS--------------------------EEEEEGGGEEE
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCCCcEEEEEECCccc------------------ccccccccEEEechheEEC
Confidence 578999998864 3 46999999999887689999987432 22211 135677788888
Q ss_pred cCCC
Q 010937 178 YVPT 181 (497)
Q Consensus 178 ~~~p 181 (497)
..|+
T Consensus 63 ~pP~ 66 (68)
T PF05641_consen 63 CPPP 66 (68)
T ss_dssp ----
T ss_pred cCcC
Confidence 8776
No 35
>KOG3038 consensus Histone acetyltransferase SAGA associated factor SGF29 [General function prediction only]
Probab=93.92 E-value=0.53 Score=47.45 Aligned_cols=107 Identities=17% Similarity=0.104 Sum_probs=69.1
Q ss_pred ccCCCCCCeeEEEe----CCCceeeeEEEeeccCCceEEEEecCCCccccchhhhhhccccCCCccccCCCcccCccccc
Q 010937 101 DQRYSVGSKCRFRY----NDGRWYDGRIIGLEETDSAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLSHGIDVPLSFLK 176 (497)
Q Consensus 101 ~~~~~vG~kC~A~~----~dG~~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~sHg~~v~~~~L~ 176 (497)
......|+.+-|++ .||.|.-|.|+++.+.++++|-=.-|-- +..--|+-|.+.++...+
T Consensus 125 ~~~~~~gd~VAa~v~~~~~dg~WIlaeVv~~~~~~~ye~ev~D~Ep----------------k~d~~g~r~~~yklp~~~ 188 (264)
T KOG3038|consen 125 DYVLLKGDEVAARVKAVSEDGDWILAEVVKVSSETRYEFEVVDPEP----------------KKDEVGNRGQLYKLPRWK 188 (264)
T ss_pred CccccCCceeeeeeeeccCCCCEEEEEEEEEecCCceEeEecCCCc----------------cccccccccceecccHhh
Confidence 35668999999999 4889999999999887766655555411 111112334444444444
Q ss_pred ccCCC-CcccccCCCeEEEeecCCCCceEeeEEeeeeC-CCceEEEEEeC
Q 010937 177 KYVPT-SWEQSLVGSTIWALSDDKVGIWRKAELGSWDD-EHRMGEVVFRD 224 (497)
Q Consensus 177 ~~~~p-d~~~l~~Gs~~la~~~~~dglW~~a~i~~~d~-~~~~~~V~f~~ 224 (497)
-...| ....+.+|..|||+|. ..--+|+|+|.+--- ....|.|.|.+
T Consensus 189 ~~p~p~p~~~fpp~~~VLA~YP-~TTcFY~aiVh~tp~d~s~~y~vlffD 237 (264)
T KOG3038|consen 189 LNPIPPPTALFPPGTIVLAVYP-GTTCFYKAIVHSTPRDGSCDYYVLFFD 237 (264)
T ss_pred cCCCCCCccCCCCCCEEEEEcC-CcceeeeeEeecCCCCCCCcceeeeec
Confidence 33322 3456799999999973 467799999975522 22456676653
No 36
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=93.63 E-value=0.21 Score=53.17 Aligned_cols=50 Identities=26% Similarity=0.327 Sum_probs=39.4
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHH
Q 010937 6 ERVLENQLEQQLNEQRDSLTALNDAVASDPFNPELQEVLKELVQAIKDAE 55 (497)
Q Consensus 6 ~~~iE~~Le~~L~~Yk~QLqQVe~aL~~DP~n~ELl~Lk~DL~elI~LTe 55 (497)
++..+..+-.++-+.++-+++...+|+++|+++||++|..+|.+.|.-..
T Consensus 3 ny~aQll~veqaieq~~d~s~r~ellqlk~dl~ELlsLteellaaide~p 52 (486)
T KOG2185|consen 3 NYDAQLLLVEQAIEQKEDLSSRDELLQLKPDLPELLSLTEELLAAIDEVP 52 (486)
T ss_pred chHHHHHHHHHHHHhhcchhHHHHHHHhCCcHHHHHHHHHHHHHhhhcCC
Confidence 33444444455566788899999999999999999999999998887653
No 37
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=93.43 E-value=0.045 Score=60.19 Aligned_cols=45 Identities=31% Similarity=0.547 Sum_probs=34.8
Q ss_pred cCcHHHHHHHHcCCCCCCCCCCCCCCccccccccccC----CCccccccc
Q 010937 296 TRGIASKMMANMGYREGMGLGASGQGILDPVAVKVLP----PKQSLDHAV 341 (497)
Q Consensus 296 t~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~----~~~gLg~~~ 341 (497)
+.+.|.+||+||||. |.|||...+||.+||..--.. --+|+|+.+
T Consensus 686 e~NKGhQml~KMGWs-G~GLGak~qGI~DPiSGGEVRdR~E~yKGvG~~l 734 (757)
T KOG4368|consen 686 EENKGHQMLVKMGWS-GSGLGAKEQGIQDPISGGEVRDRWEQYKGVGVAL 734 (757)
T ss_pred cccchhhhHhhcCcc-cCCcccccccccCcccCccccchhhhhcccCccc
Confidence 578899999999997 568999999999999653222 234677654
No 38
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=92.39 E-value=0.23 Score=38.45 Aligned_cols=41 Identities=17% Similarity=0.175 Sum_probs=31.7
Q ss_pred ccCCCeEEEeecCCCCceEeeEEeeeeCCC--ceEEEEEeCCCCc
Q 010937 186 SLVGSTIWALSDDKVGIWRKAELGSWDDEH--RMGEVVFRDDGSS 228 (497)
Q Consensus 186 l~~Gs~~la~~~~~dglW~~a~i~~~d~~~--~~~~V~f~~~g~~ 228 (497)
|.+|+.|++.. .+|.||.|+|.++.... ..|-|.|.+..+.
T Consensus 1 ~~vG~~v~~~~--~~~~~y~A~I~~~r~~~~~~~YyVHY~g~nkR 43 (55)
T PF11717_consen 1 FEVGEKVLCKY--KDGQWYEAKILDIREKNGEPEYYVHYQGWNKR 43 (55)
T ss_dssp --TTEEEEEEE--TTTEEEEEEEEEEEECTTCEEEEEEETTSTGC
T ss_pred CCcCCEEEEEE--CCCcEEEEEEEEEEecCCCEEEEEEcCCCCCC
Confidence 46899999985 58999999999997654 4678999876544
No 39
>PF00567 TUDOR: Tudor domain; InterPro: IPR008191 There are multiple copies of this domain in the Drosophila melanogaster tudor protein and it has been identified in several RNA-binding proteins []. Although the function of this domain is unknown, in Drosophila melanogaster the tudor protein is required during oogenesis for the formation of primordial germ cells and for normal abdominal segmentation [].; PDB: 3NTI_A 3NTK_B 3NTH_A 2DIQ_A 3FDR_A 3PNW_O 3S6W_A 3PMT_A 2WAC_A 2O4X_A ....
Probab=92.03 E-value=0.13 Score=43.74 Aligned_cols=59 Identities=24% Similarity=0.382 Sum_probs=41.1
Q ss_pred CCCCCCeeEEEeC-CCceeeeEEEeeccCCceEEEEecCCCccccchhhhhhccccCCCccccCCCcccCcccccccCCC
Q 010937 103 RYSVGSKCRFRYN-DGRWYDGRIIGLEETDSAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLSHGIDVPLSFLKKYVPT 181 (497)
Q Consensus 103 ~~~vG~kC~A~~~-dG~~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~sHg~~v~~~~L~~~~~p 181 (497)
.+.+|.-|.+.+. +|.||-|+|....+...+.|+|+- ||.. ..|+.+.|+.+. +
T Consensus 51 ~~~~~~~~~~~~~~~~~w~Ra~I~~~~~~~~~~V~~iD------------------~G~~------~~v~~~~l~~l~-~ 105 (121)
T PF00567_consen 51 ESNPGEGCLCVVSEDGRWYRAVITVDIDENQYKVFLID------------------YGNT------EKVSASDLRPLP-P 105 (121)
T ss_dssp T--TTEEEEEEETTTSEEEEEEEEEEECTTEEEEEETT------------------TTEE------EEEEGGGEEE---H
T ss_pred ccccCCEEEEEEecCCceeeEEEEEecccceeEEEEEe------------------cCce------EEEcHHHhhhhC-H
Confidence 4578888998876 899999999555566689999998 4522 446777788776 5
Q ss_pred Ccccc
Q 010937 182 SWEQS 186 (497)
Q Consensus 182 d~~~l 186 (497)
.|..+
T Consensus 106 ~~~~~ 110 (121)
T PF00567_consen 106 EFASL 110 (121)
T ss_dssp HHCSS
T ss_pred HHhhC
Confidence 55554
No 40
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=91.22 E-value=0.11 Score=53.76 Aligned_cols=37 Identities=24% Similarity=0.575 Sum_probs=29.0
Q ss_pred CCCccccchhhhhh-ccccCCCccccCCCcccCccccc
Q 010937 140 PTSENMLMCKFFLQ-QRCRFGTNCRLSHGIDVPLSFLK 176 (497)
Q Consensus 140 pt~~~~~pC~~fl~-g~C~f~~~Cr~sHg~~v~~~~L~ 176 (497)
|-.-..++|.+|+. |.|.||.+|+|-|+..-....+.
T Consensus 172 ~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~~~~~~~~ 209 (332)
T KOG1677|consen 172 PPKYKTKLCPKFQKTGLCKYGSRCRFIHGEPEDRASNR 209 (332)
T ss_pred CCCCCCcCCCccccCCCCCCCCcCeecCCCcccccccc
Confidence 34455688999998 99999999999999875544443
No 41
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.82 E-value=0.11 Score=54.69 Aligned_cols=25 Identities=40% Similarity=1.040 Sum_probs=22.6
Q ss_pred cchhhhhhccccCCCccccCCCccc
Q 010937 146 LMCKFFLQQRCRFGTNCRLSHGIDV 170 (497)
Q Consensus 146 ~pC~~fl~g~C~f~~~Cr~sHg~~v 170 (497)
..|+||+.|.|+||..|||+|...-
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~~~~ 33 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHSLPD 33 (344)
T ss_pred hhhhhcccccccccceeeeeccCch
Confidence 6899999999999999999997653
No 42
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=90.33 E-value=0.5 Score=42.72 Aligned_cols=41 Identities=15% Similarity=0.186 Sum_probs=31.6
Q ss_pred CCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeec
Q 010937 189 GSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLG 232 (497)
Q Consensus 189 Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~ 232 (497)
|..|||+. +.||.||+|+|.+.. ..+.+-|.|++.. ...++
T Consensus 1 g~~VlAR~-~~DG~YY~GtV~~~~-~~~~~lV~f~~~~-~~~v~ 41 (124)
T PF15057_consen 1 GQKVLARR-EEDGFYYPGTVKKCV-SSGQFLVEFDDGD-TQEVP 41 (124)
T ss_pred CCeEEEee-CCCCcEEeEEEEEcc-CCCEEEEEECCCC-EEEeC
Confidence 77899997 689999999999887 4577889995443 44443
No 43
>KOG2138 consensus Predicted RNA binding protein, contains G-patch domain [RNA processing and modification]
Probab=90.22 E-value=0.16 Score=57.09 Aligned_cols=21 Identities=38% Similarity=0.930 Sum_probs=19.9
Q ss_pred cCcHHHHHHHHcCCCCCCCCC
Q 010937 296 TRGIASKMMANMGYREGMGLG 316 (497)
Q Consensus 296 t~gig~klm~kmG~~~G~GLG 316 (497)
...||-+||.+|||++|.|+|
T Consensus 147 s~sIgvrlLrsMGWr~GqgIg 167 (883)
T KOG2138|consen 147 SDSIGVRLLRSMGWREGQGIG 167 (883)
T ss_pred hhhHHHHHHHHhcCccCCCcC
Confidence 468999999999999999999
No 44
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=90.15 E-value=0.65 Score=42.36 Aligned_cols=42 Identities=17% Similarity=0.302 Sum_probs=30.0
Q ss_pred cccCCCCCCeeEEEeCCC-ceeeeEEEee--ccCCceEEEEecCC
Q 010937 100 EDQRYSVGSKCRFRYNDG-RWYDGRIIGL--EETDSAKVSFLRPT 141 (497)
Q Consensus 100 ~~~~~~vG~kC~A~~~dG-~~Y~A~I~~i--~~~~~vrV~Fl~pt 141 (497)
....|..|++|+|.|.+= +||.|+|.+. ...+.++|.|..-.
T Consensus 68 ~~~~f~~g~~VLAlYP~TT~FY~A~V~~~p~~~~~~y~l~Fedd~ 112 (130)
T PF07039_consen 68 PLAEFPKGTKVLALYPDTTCFYPATVVSPPKKKSGEYKLKFEDDE 112 (130)
T ss_dssp GGGS--TT-EEEEE-TTSSEEEEEEEEEE-SSTTS-EEEEECTTT
T ss_pred chhhCCCCCEEEEECCCCceEEEEEEEeCCCCCCCcEEEEEeCCC
Confidence 456899999999999853 4999999998 45678999998753
No 45
>KOG4327 consensus mRNA splicing protein SMN (survival motor neuron) [RNA processing and modification]
Probab=89.28 E-value=0.25 Score=47.91 Aligned_cols=56 Identities=20% Similarity=0.190 Sum_probs=47.3
Q ss_pred cccccCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeecccccccc
Q 010937 183 WEQSLVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLGIEAMTLS 239 (497)
Q Consensus 183 ~~~l~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~~d~~~~~ 239 (497)
..+.++|-.|.|.| +.+|-.|+|+|.+|+...+.|.|+|-.||..++|..-.|.++
T Consensus 65 ~~~wKVgdkc~A~Y-~e~g~~ypatidsi~~~~~tcvv~ylgygnr~Ev~lsDLl~~ 120 (218)
T KOG4327|consen 65 LQQWKVGDKCSAIY-SEDGCIYPATIDSIDFKRETCVVVYLGYGNREEVNLSDLLSP 120 (218)
T ss_pred hhhheecceeeeee-ecCcccccceecccccccCceEEEEEeecchhhhhHHHhccc
Confidence 34678999999998 678888999999999888999999999999988766555543
No 46
>KOG2039 consensus Transcriptional coactivator p100 [Transcription]
Probab=89.23 E-value=0.46 Score=55.84 Aligned_cols=50 Identities=22% Similarity=0.174 Sum_probs=42.2
Q ss_pred ccCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeecccccc
Q 010937 186 SLVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLGIEAMT 237 (497)
Q Consensus 186 l~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~~d~~~ 237 (497)
-..|..|+|+++ .||.||||.|..|.+- +.+.|.|-+||+...+|.-.|.
T Consensus 696 p~~gd~c~A~y~-~D~qwyRa~i~~V~~~-~~~~V~yiDygn~E~lp~~~l~ 745 (875)
T KOG2039|consen 696 PKRGDLCVAKYS-LDGQWYRALIVEVLDP-ESMEVFYIDYGNIETLPFVRLK 745 (875)
T ss_pred CCCCCeeeeeec-cccceeeeeeeeeccC-cceeEEEEecCccccccccccc
Confidence 358999999973 5999999999998875 6689999999999998865544
No 47
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=87.88 E-value=0.21 Score=51.17 Aligned_cols=27 Identities=37% Similarity=0.886 Sum_probs=23.6
Q ss_pred ccchhhhhhccccCCCccccCCCcccC
Q 010937 145 MLMCKFFLQQRCRFGTNCRLSHGIDVP 171 (497)
Q Consensus 145 ~~pC~~fl~g~C~f~~~Cr~sHg~~v~ 171 (497)
...|-||.+|.|.-|..|.|||+..+.
T Consensus 92 SvvCafFk~g~C~KG~kCKFsHdl~~~ 118 (343)
T KOG1763|consen 92 SVVCAFFKQGTCTKGDKCKFSHDLAVE 118 (343)
T ss_pred HHHHHHHhccCCCCCCcccccchHHHh
Confidence 357999999999999999999986654
No 48
>KOG3026 consensus Splicing factor SPF30 [RNA processing and modification]
Probab=87.26 E-value=0.72 Score=46.00 Aligned_cols=45 Identities=16% Similarity=0.151 Sum_probs=38.2
Q ss_pred cCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeec
Q 010937 187 LVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLG 232 (497)
Q Consensus 187 ~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~ 232 (497)
.+|-.|.|+- ..||-||.|+|.+|+...+.+.|.|.+++......
T Consensus 92 ~vg~K~~A~~-~ddg~~y~AtIe~ita~~~~~ai~f~s~~~a~~t~ 136 (262)
T KOG3026|consen 92 KVGDKVQAVF-SDDGQIYDATIEHITAMEGTVAIIFASYGTAPSTY 136 (262)
T ss_pred ccCCEEEEee-cCCCceEEeehhhccCCCCceeEEEeecccccccc
Confidence 4899999984 25999999999999998888999999988765554
No 49
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=86.80 E-value=2 Score=46.77 Aligned_cols=30 Identities=20% Similarity=0.369 Sum_probs=26.6
Q ss_pred cccCCCCCCeeEEEeC-CCceeeeEEEeecc
Q 010937 100 EDQRYSVGSKCRFRYN-DGRWYDGRIIGLEE 129 (497)
Q Consensus 100 ~~~~~~vG~kC~A~~~-dG~~Y~A~I~~i~~ 129 (497)
....+.||++|+|.|. ||.||.|.|+.+..
T Consensus 50 ~~~~~~VGekVla~~~~Dg~~~~A~VI~~R~ 80 (450)
T PLN00104 50 VMLPLEVGTRVMCRWRFDGKYHPVKVIERRR 80 (450)
T ss_pred ccceeccCCEEEEEECCCCCEEEEEEEEEec
Confidence 3567999999999998 99999999999864
No 50
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=86.57 E-value=0.35 Score=47.89 Aligned_cols=46 Identities=28% Similarity=0.471 Sum_probs=41.4
Q ss_pred CcHHHHHHHHcCCCCCCCCCCCCCCccccccccccCCCcccccccc
Q 010937 297 RGIASKMMANMGYREGMGLGASGQGILDPVAVKVLPPKQSLDHAVE 342 (497)
Q Consensus 297 ~gig~klm~kmG~~~G~GLG~~~qG~~~pi~~~~~~~~~gLg~~~e 342 (497)
..++.+||..|||++|.-||.+..-+-+|++|-.++.++|+++...
T Consensus 38 ~r~e~k~~~n~~~~e~r~l~~~e~~~ee~~~~la~~~~~~i~~e~~ 83 (268)
T KOG1994|consen 38 MRREYKMMENMGYKEGRTLGSNESALEEPIKVLANTKRRGIRAEKP 83 (268)
T ss_pred hhhHHHHHHhcCCCCCCccchhhhhhcchHHHhhhhccccccccCc
Confidence 4567899999999999999999999999999999999988887543
No 51
>PF09038 53-BP1_Tudor: Tumour suppressor p53-binding protein-1 Tudor; InterPro: IPR015125 This domain consist of ten beta-strands and a carboxy-terminal alpha-helix. The amino-terminal five beta-strands and the C-terminal five beta-strands adopt folds that are identical to each other. The domain is essential for the recruitment of proteins to double stranded breaks in DNA, which is mediated by interaction with methylated Lys 79 of histone H3 []. ; PDB: 3LGL_A 1XNI_B 3LGF_A 2G3R_A 2IG0_A 3LH0_A 1SSF_A.
Probab=86.05 E-value=1.5 Score=39.65 Aligned_cols=50 Identities=20% Similarity=0.317 Sum_probs=34.8
Q ss_pred cCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeeccccccc
Q 010937 187 LVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLGIEAMTL 238 (497)
Q Consensus 187 ~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~~d~~~~ 238 (497)
.+|-+|+||=+ .++-+|+++|+. +.....|+|.|+++-+...++.|.|++
T Consensus 4 ~iG~rV~AkWS-~n~yyY~G~I~~-~~~~~kykv~FdDG~~~~v~~~div~~ 53 (122)
T PF09038_consen 4 FIGLRVFAKWS-DNGYYYPGKITS-DKGKNKYKVLFDDGYECRVLGKDIVVC 53 (122)
T ss_dssp STT-EEEEESS-TTSEEEEEEEEE-EETTTEEEEEETTS-EEEEECCCEEEE
T ss_pred ccccEEEEEEc-cCCcccCceEee-cCCCCeEEEEecCCccceeccCcEEEE
Confidence 47999999953 455668999988 556688999999765555555555543
No 52
>KOG2039 consensus Transcriptional coactivator p100 [Transcription]
Probab=86.04 E-value=0.96 Score=53.25 Aligned_cols=46 Identities=24% Similarity=0.487 Sum_probs=38.7
Q ss_pred cCCCCCCeeEEEeC-CCceeeeEEEeeccCCceEEEEecCCCccccc
Q 010937 102 QRYSVGSKCRFRYN-DGRWYDGRIIGLEETDSAKVSFLRPTSENMLM 147 (497)
Q Consensus 102 ~~~~vG~kC~A~~~-dG~~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~p 147 (497)
..-.+|+-|.|.|+ ||.||-|+|..|.+-..+.|+|+......+.|
T Consensus 694 ~~p~~gd~c~A~y~~D~qwyRa~i~~V~~~~~~~V~yiDygn~E~lp 740 (875)
T KOG2039|consen 694 YTPKRGDLCVAKYSLDGQWYRALIVEVLDPESMEVFYIDYGNIETLP 740 (875)
T ss_pred CCCCCCCeeeeeeccccceeeeeeeeeccCcceeEEEEecCcccccc
Confidence 35689999999998 99999999999865356999999876666666
No 53
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=82.10 E-value=0.49 Score=48.92 Aligned_cols=32 Identities=28% Similarity=0.900 Sum_probs=25.7
Q ss_pred cCCCccccchhhhhh-ccccC-CCccccCCCccc
Q 010937 139 RPTSENMLMCKFFLQ-QRCRF-GTNCRLSHGIDV 170 (497)
Q Consensus 139 ~pt~~~~~pC~~fl~-g~C~f-~~~Cr~sHg~~v 170 (497)
.|....+..|.+|.. |.|+| |++|+|-||..-
T Consensus 126 ~p~~~kt~lc~~~~~~g~c~y~ge~crfah~~~e 159 (332)
T KOG1677|consen 126 KPERYKTPLCRSFRKSGTCKYRGEQCRFAHGLEE 159 (332)
T ss_pred CcccccCCcceeeecCccccccCchhhhcCCccc
Confidence 455556778988887 99999 999999998653
No 54
>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A.
Probab=81.55 E-value=2.4 Score=32.78 Aligned_cols=38 Identities=16% Similarity=0.176 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHH
Q 010937 15 QQLNEQRDSLTALNDAVASDPFNPELQEVLKELVQAIK 52 (497)
Q Consensus 15 ~~L~~Yk~QLqQVe~aL~~DP~n~ELl~Lk~DL~elI~ 52 (497)
..|.+|..-+.-|+.+|..+|+|..-+.|+.-+.+-|+
T Consensus 12 ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~L~~~i~~~i~ 49 (53)
T PF14853_consen 12 YKLGEYEKARRYCDALLEIEPDNRQAQSLKELIEDKIQ 49 (53)
T ss_dssp HHTT-HHHHHHHHHHHHHHTTS-HHHHHHHHHHHHHHH
T ss_pred HHhhhHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHh
Confidence 35678999999999999999999999999988777663
No 55
>PF14282 FlxA: FlxA-like protein
Probab=77.65 E-value=12 Score=32.87 Aligned_cols=56 Identities=16% Similarity=0.240 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCc-hHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 010937 430 DDEIKDLRVRVVKLEEMVNRNKNE-KAVFEAAMRKLNETRKALAQAEAAQASASHEV 485 (497)
Q Consensus 430 ~e~i~~l~~~i~kL~e~l~Rn~~~-~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~ 485 (497)
...|++|++.|..|++.|..=..+ ....+.-+.++..++.+|..|+++.+.+-...
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~q~ 74 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQLQSQQ 74 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555555555433331 11333445555555555555555555544433
No 56
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=77.65 E-value=1.6 Score=43.36 Aligned_cols=44 Identities=36% Similarity=0.717 Sum_probs=29.5
Q ss_pred ceeeeEEEeeccCCceEEEEec-CCCccccchhhhhhccccCCCccccCC
Q 010937 118 RWYDGRIIGLEETDSAKVSFLR-PTSENMLMCKFFLQQRCRFGTNCRLSH 166 (497)
Q Consensus 118 ~~Y~A~I~~i~~~~~vrV~Fl~-pt~~~~~pC~~fl~g~C~f~~~Cr~sH 166 (497)
+||||.=++-.| +...|.| ||.+ ..||.||.|+|.-.+.|..||
T Consensus 210 ryynangicgkg---aacrfvheptrk--ticpkflngrcnkaedcnlsh 254 (377)
T KOG1492|consen 210 RYYNANGICGKG---AACRFVHEPTRK--TICPKFLNGRCNKAEDCNLSH 254 (377)
T ss_pred EEecCCCcccCC---ceeeeecccccc--ccChHHhcCccCchhcCCccc
Confidence 467775433332 2234444 5544 568999999999999999998
No 57
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=76.71 E-value=5.5 Score=33.50 Aligned_cols=50 Identities=24% Similarity=0.303 Sum_probs=38.7
Q ss_pred cCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCC-Cceeeccccccc
Q 010937 187 LVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDG-SSAKLGIEAMTL 238 (497)
Q Consensus 187 ~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g-~~~~~~~d~~~~ 238 (497)
.+|..||||. ..--|-+|+|.++....+.|.|.|=++. ..+.++...+.+
T Consensus 2 ~~gdlVWaK~--~g~P~WPa~I~~~~~~~~k~~V~FfG~~~~~a~~~~~~l~p 52 (80)
T cd06080 2 EKNDLVWAKI--QGYPWWPAVIKSISRKKQKARVNFIGDNMQSEKKGIRVVKR 52 (80)
T ss_pred CCCCEEEEeC--CCCCCCCEEEeeecCCCCEEEEEEeCCCCceeccchhhccc
Confidence 5799999995 3677889999999877788999998877 555555444443
No 58
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=75.47 E-value=8.4 Score=28.16 Aligned_cols=40 Identities=18% Similarity=0.190 Sum_probs=32.4
Q ss_pred CeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeeccc
Q 010937 190 STIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLGIE 234 (497)
Q Consensus 190 s~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~~d 234 (497)
..||+. ++..-|-.|+|.+... +.++|...+ |+...|+.|
T Consensus 2 ~~vWvp--D~~egfv~g~I~~~~g--~~vtV~~~~-G~~~tv~~d 41 (42)
T PF02736_consen 2 KWVWVP--DPKEGFVKGEIIEEEG--DKVTVKTED-GKEVTVKKD 41 (42)
T ss_dssp TEEEEE--ESSSSEEEEEEEEEES--SEEEEEETT-TEEEEEEGG
T ss_pred CEEEEe--CCcccEEEEEEEEEcC--CEEEEEECC-CCEEEeCCC
Confidence 479998 5578899999998887 668999988 888777643
No 59
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=75.22 E-value=14 Score=37.06 Aligned_cols=60 Identities=18% Similarity=0.254 Sum_probs=53.1
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEVS 486 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~ 486 (497)
...++-+|+.++....+|.+.+. ..+...-+-.|+.+|.++|.+|.+++.+...+.+.+.
T Consensus 134 y~D~~arl~~l~~~~~rl~~ll~-ka~~~~d~l~ie~~L~~v~~eIe~~~~~~~~l~~~v~ 193 (262)
T PF14257_consen 134 YVDLEARLKNLEAEEERLLELLE-KAKTVEDLLEIERELSRVRSEIEQLEGQLKYLDDRVD 193 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 67889999999999999999999 4557777889999999999999999999999887763
No 60
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=72.66 E-value=1.6 Score=44.84 Aligned_cols=26 Identities=31% Similarity=0.538 Sum_probs=20.1
Q ss_pred ccccchhhh-hhccccCCCccccCCCc
Q 010937 143 ENMLMCKFF-LQQRCRFGTNCRLSHGI 168 (497)
Q Consensus 143 ~~~~pC~~f-l~g~C~f~~~Cr~sHg~ 168 (497)
..|.||+|| +-|.|.+|..|.|.|..
T Consensus 132 s~~~~c~~Fs~~G~cs~g~~c~~~h~d 158 (285)
T COG5084 132 SQGPPCRSFSLKGSCSSGPSCGYSHID 158 (285)
T ss_pred ccCCCcccccccceeccCCCCCccccC
Confidence 347788888 77888888888888865
No 61
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=71.75 E-value=11 Score=33.11 Aligned_cols=54 Identities=24% Similarity=0.359 Sum_probs=43.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHH---HHHHHhhhhh
Q 010937 7 RVLENQLEQQLNEQRDSLTALNDAVASDPFNPELQEVLKELVQAI---KDAEEGLFHL 61 (497)
Q Consensus 7 ~~iE~~Le~~L~~Yk~QLqQVe~aL~~DP~n~ELl~Lk~DL~elI---~LTee~L~~l 61 (497)
.+++ .|++.+..+...|++||.-|..=|+..|+..|+-+|.++= +-++..|..+
T Consensus 35 ~~~~-~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v 91 (106)
T PF10805_consen 35 EDIE-KLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGV 91 (106)
T ss_pred HHHH-HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 3477 8889999999999999999999999999999999888875 3334444443
No 62
>PF12148 DUF3590: Protein of unknown function (DUF3590); InterPro: IPR021991 This domain is found in eukaryotes, and is typically between 83 and 97 amino acids in length. It is found in association with PF00097 from PFAM, PF02182 from PFAM, PF00628 from PFAM, PF00240 from PFAM. There are two conserved sequence motifs: RAR and NYN. The domain is part of the protein NIRF which has zinc finger and ubiquitinating domains. The function of this domain is likely to be mainly structural, however this has not been confirmed. ; PDB: 3DB4_A 3ASK_A 3DB3_A 2L3R_A.
Probab=69.53 E-value=9.4 Score=32.56 Aligned_cols=64 Identities=13% Similarity=0.321 Sum_probs=37.7
Q ss_pred EEeC-CCceeeeEEEeeccC-------CceEEEEecCCCccccchhhhhhccccCCCccccCCCcccCcccccccC--CC
Q 010937 112 FRYN-DGRWYDGRIIGLEET-------DSAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLSHGIDVPLSFLKKYV--PT 181 (497)
Q Consensus 112 A~~~-dG~~Y~A~I~~i~~~-------~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~sHg~~v~~~~L~~~~--~p 181 (497)
|+-. .|.|+.|.|+.|... --+.|.|.. |.+++- ..++...|||-. ..
T Consensus 4 ~~d~~~gAWfEa~i~~i~~~~~~~~e~viYhIkydd------------------ype~gv----v~~~~~~iRpRARt~l 61 (85)
T PF12148_consen 4 ARDRNMGAWFEAQIVTITKKCMSDDEDVIYHIKYDD------------------YPENGV----VEMRSKDIRPRARTIL 61 (85)
T ss_dssp EE-TTT-EEEEEEEEEEEES-SSSSTTEEEEEEETT-------------------GGG-E----EEEEGGGEEE---SBE
T ss_pred cccCCCcceEEEEEEEeeccCCCCCCCEEEEEEecc------------------CCCcCc----eecccccccceeeEec
Confidence 4433 688999999988532 246777774 333321 456777888744 55
Q ss_pred CcccccCCCeEEEeec
Q 010937 182 SWEQSLVGSTIWALSD 197 (497)
Q Consensus 182 d~~~l~~Gs~~la~~~ 197 (497)
+|+.|.+|..|++-|.
T Consensus 62 ~w~~L~VG~~VMvNYN 77 (85)
T PF12148_consen 62 KWDELKVGQVVMVNYN 77 (85)
T ss_dssp -GGG--TT-EEEEEE-
T ss_pred cHHhCCcccEEEEecC
Confidence 8999999999999863
No 63
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=63.34 E-value=3.8 Score=42.79 Aligned_cols=25 Identities=28% Similarity=0.793 Sum_probs=21.5
Q ss_pred ccchhhhhhccccCCCc-cccCCCcc
Q 010937 145 MLMCKFFLQQRCRFGTN-CRLSHGID 169 (497)
Q Consensus 145 ~~pC~~fl~g~C~f~~~-Cr~sHg~~ 169 (497)
...|+-||.|.|..+.+ |+|-|...
T Consensus 37 ~eVCReF~rn~C~R~d~~CkfaHP~~ 62 (331)
T KOG2494|consen 37 LEVCREFLRNTCSRGDRECKFAHPPK 62 (331)
T ss_pred HHHHHHHHhccccCCCccccccCCCC
Confidence 35799999999999988 99999643
No 64
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=62.56 E-value=18 Score=30.38 Aligned_cols=36 Identities=14% Similarity=0.349 Sum_probs=27.8
Q ss_pred CCCCCeeEEEeCCCceeeeEEEeecc-CCceEEEEec
Q 010937 104 YSVGSKCRFRYNDGRWYDGRIIGLEE-TDSAKVSFLR 139 (497)
Q Consensus 104 ~~vG~kC~A~~~dG~~Y~A~I~~i~~-~~~vrV~Fl~ 139 (497)
|.+|+-|-|++.-=-|.||+|.++.. ...++|.|.+
T Consensus 1 f~~gdlVWaK~~g~P~WPa~I~~~~~~~~k~~V~FfG 37 (80)
T cd06080 1 FEKNDLVWAKIQGYPWWPAVIKSISRKKQKARVNFIG 37 (80)
T ss_pred CCCCCEEEEeCCCCCCCCEEEeeecCCCCEEEEEEeC
Confidence 56899999998422478999999864 4579999965
No 65
>KOG1141 consensus Predicted histone methyl transferase [Chromatin structure and dynamics]
Probab=62.55 E-value=10 Score=44.10 Aligned_cols=28 Identities=11% Similarity=0.005 Sum_probs=23.8
Q ss_pred cccccCCCeEEEeecCCCCceEeeEEeeeeC
Q 010937 183 WEQSLVGSTIWALSDDKVGIWRKAELGSWDD 213 (497)
Q Consensus 183 ~~~l~~Gs~~la~~~~~dglW~~a~i~~~d~ 213 (497)
-.+++.|.+|+.+- .+.|..|++..++.
T Consensus 343 ~~~~k~g~~v~~~~---~~~~~~a~~~~~e~ 370 (1262)
T KOG1141|consen 343 GAQDKIGRRVLIKL---TTVLKNAVGSRNEI 370 (1262)
T ss_pred chhhhhccEEEeee---eehhhhhccccccc
Confidence 45778999999986 59999999998875
No 66
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=62.39 E-value=4.3 Score=42.64 Aligned_cols=52 Identities=23% Similarity=0.404 Sum_probs=35.1
Q ss_pred CccccchhhhhhccccCCCccccCCCcccCcc-cccccCCCCcccccCCCeEEEe
Q 010937 142 SENMLMCKFFLQQRCRFGTNCRLSHGIDVPLS-FLKKYVPTSWEQSLVGSTIWAL 195 (497)
Q Consensus 142 ~~~~~pC~~fl~g~C~f~~~Cr~sHg~~v~~~-~L~~~~~pd~~~l~~Gs~~la~ 195 (497)
......|+|||.|.|.-|+.|-|+|-+.+.-. .+..|.. |.....|.-|.+.
T Consensus 74 ~~~~~vcK~~l~glC~kgD~C~Flhe~~~~k~rec~ff~~--~g~c~~~~~c~y~ 126 (325)
T KOG1040|consen 74 SRGKVVCKHWLRGLCKKGDQCEFLHEYDLTKMRECKFFSL--FGECTNGKDCPYL 126 (325)
T ss_pred cCCceeehhhhhhhhhccCcCcchhhhhhccccccccccc--ccccccccCCccc
Confidence 44567899999999999999999996533222 3333332 2344566777765
No 67
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=61.55 E-value=37 Score=28.35 Aligned_cols=60 Identities=15% Similarity=0.178 Sum_probs=50.4
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEV 485 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~ 485 (497)
|..+.+.|+.+-.++-.|+..+..-+.....+..|..||...-.+|..+..+-..|....
T Consensus 6 Ll~Ir~dIk~vd~KVdaLq~~V~~l~~~~~~v~~l~~klDa~~~~l~~l~~~V~~I~~iL 65 (75)
T PF05531_consen 6 LLVIRQDIKAVDDKVDALQTQVDDLESNLPDVTELNKKLDAQSAQLTTLNTKVNEIQDIL 65 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 677888899999999999998887777778888899999999999988888877776543
No 68
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=60.49 E-value=17 Score=29.73 Aligned_cols=49 Identities=20% Similarity=0.186 Sum_probs=35.8
Q ss_pred cCCCeEEEeecCCCCceEeeEEeeeeC------CCceEEEEEeCCCCceeecccccc
Q 010937 187 LVGSTIWALSDDKVGIWRKAELGSWDD------EHRMGEVVFRDDGSSAKLGIEAMT 237 (497)
Q Consensus 187 ~~Gs~~la~~~~~dglW~~a~i~~~d~------~~~~~~V~f~~~g~~~~~~~d~~~ 237 (497)
.+|+.||||.. .--|-+|+|.+.+. ..+.|.|.|=++..-+-|+.+.|.
T Consensus 2 ~~GdlVWaK~~--g~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg~~~~~wv~~~~i~ 56 (86)
T PF00855_consen 2 RPGDLVWAKLK--GYPWWPARVCDPDEKSKKKRKDGHVLVRFFGDNDYAWVKPSNIK 56 (86)
T ss_dssp STTEEEEEEET--TSEEEEEEEEECCHCTSCSSSSTEEEEEETTTTEEEEEEGGGEE
T ss_pred CCCCEEEEEeC--CCCCCceEEeecccccccCCCCCEEEEEecCCCCEEEECHHHhh
Confidence 47999999964 67799999998853 346788888776655556545444
No 69
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=59.04 E-value=15 Score=29.96 Aligned_cols=36 Identities=17% Similarity=0.380 Sum_probs=26.1
Q ss_pred CCCCCeeEEEeCCCceeeeEEEeecc-------CCceEEEEec
Q 010937 104 YSVGSKCRFRYNDGRWYDGRIIGLEE-------TDSAKVSFLR 139 (497)
Q Consensus 104 ~~vG~kC~A~~~dG~~Y~A~I~~i~~-------~~~vrV~Fl~ 139 (497)
|.+|+-|-|+...--|.||+|+.... .+.+.|.|.+
T Consensus 1 f~~GdlVWaK~~g~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg 43 (86)
T PF00855_consen 1 FRPGDLVWAKLKGYPWWPARVCDPDEKSKKKRKDGHVLVRFFG 43 (86)
T ss_dssp -STTEEEEEEETTSEEEEEEEEECCHCTSCSSSSTEEEEEETT
T ss_pred CCCCCEEEEEeCCCCCCceEEeecccccccCCCCCEEEEEecC
Confidence 57899999999533599999998753 3456777743
No 70
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=58.68 E-value=6.6 Score=40.76 Aligned_cols=68 Identities=26% Similarity=0.472 Sum_probs=42.2
Q ss_pred CCCCCCeeEEEeC-CCceeeeEEEeeccCCceEEEEecCCCccccchhhhhh-ccccCCCccccCCCcccCcccccccCC
Q 010937 103 RYSVGSKCRFRYN-DGRWYDGRIIGLEETDSAKVSFLRPTSENMLMCKFFLQ-QRCRFGTNCRLSHGIDVPLSFLKKYVP 180 (497)
Q Consensus 103 ~~~vG~kC~A~~~-dG~~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~pC~~fl~-g~C~f~~~Cr~sHg~~v~~~~L~~~~~ 180 (497)
-|..|++|.|.-. .| .-++... ..+-.|-+ .||.-+.- |.|+||.+|-|-||.. +.+..|.+
T Consensus 244 ~~~sG~~~q~a~~~HG------lN~l~~k-~k~~~frT------ePcinwe~sGyc~yg~Rc~F~hgd~---~~ie~~~~ 307 (351)
T COG5063 244 YWISGVKCQFACRGHG------LNELKSK-KKKQNFRT------EPCINWEKSGYCPYGLRCCFKHGDD---SDIEMYEE 307 (351)
T ss_pred cccccccccccccccc------ccccccc-cccccccc------CCccchhhcccCccccccccccCCh---hhcccccc
Confidence 4677999998842 22 0011111 12333432 68966665 9999999999999976 55566666
Q ss_pred CCcccc
Q 010937 181 TSWEQS 186 (497)
Q Consensus 181 pd~~~l 186 (497)
+..-.+
T Consensus 308 ~~~~y~ 313 (351)
T COG5063 308 ASLGYL 313 (351)
T ss_pred cccccc
Confidence 643333
No 71
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=58.36 E-value=35 Score=27.21 Aligned_cols=52 Identities=29% Similarity=0.369 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhccC-----------chHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 010937 430 DDEIKDLRVRVVKLEEMVNRNKN-----------EKAVFEAAMRKLNETRKALAQAEAAQASA 481 (497)
Q Consensus 430 ~e~i~~l~~~i~kL~e~l~Rn~~-----------~~~~~~~i~~kL~~~~~~L~~~~a~~~si 481 (497)
+.+|.+|++++.+++..+.+-.+ -..+++.-..+|.+...++..+..++..|
T Consensus 3 ~~E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 3 EAEIERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45666666666666666665442 23455666777777777777777766654
No 72
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=56.57 E-value=19 Score=29.93 Aligned_cols=25 Identities=12% Similarity=0.452 Sum_probs=20.6
Q ss_pred CCCCCeeEEEeCCC-ceeeeEEEeecc
Q 010937 104 YSVGSKCRFRYNDG-RWYDGRIIGLEE 129 (497)
Q Consensus 104 ~~vG~kC~A~~~dG-~~Y~A~I~~i~~ 129 (497)
|.+|+.|-|++. | -|.||+|+....
T Consensus 1 f~~GdlVwaK~~-g~pwWPa~V~~~~~ 26 (87)
T cd05162 1 FRPGDLVWAKMK-GYPWWPALVVDPPK 26 (87)
T ss_pred CCCCCEEEEeCC-CCCCCCEEEccccc
Confidence 578999999985 4 599999998754
No 73
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=56.53 E-value=4.6 Score=44.66 Aligned_cols=26 Identities=27% Similarity=0.619 Sum_probs=23.6
Q ss_pred cccchhhhhhccccCCCccccCCCcc
Q 010937 144 NMLMCKFFLQQRCRFGTNCRLSHGID 169 (497)
Q Consensus 144 ~~~pC~~fl~g~C~f~~~Cr~sHg~~ 169 (497)
.-.|||-|-.|.|+-|++|-|.||..
T Consensus 235 s~tpCPefrkG~C~rGD~CEyaHgvf 260 (528)
T KOG1595|consen 235 SSTPCPEFRKGSCERGDSCEYAHGVF 260 (528)
T ss_pred cCccCcccccCCCCCCCcccccccee
Confidence 45789999999999999999999964
No 74
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=56.50 E-value=59 Score=31.77 Aligned_cols=68 Identities=15% Similarity=0.206 Sum_probs=60.3
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHhhhh
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEVSSREKEKR 493 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~~~~~k~ 493 (497)
..+..+.+..++.++..|+..+....+|+.....+..++....++|..++-....+...+..=+.|+.
T Consensus 57 N~~L~epL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~Erd 124 (201)
T PF13851_consen 57 NKRLSEPLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERD 124 (201)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34467889999999999999999999999999999999999999999999999888888887777764
No 75
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=56.37 E-value=4.3 Score=39.74 Aligned_cols=23 Identities=26% Similarity=0.716 Sum_probs=18.7
Q ss_pred cchh-hhhhccccCCCccccCCCc
Q 010937 146 LMCK-FFLQQRCRFGTNCRLSHGI 168 (497)
Q Consensus 146 ~pC~-~fl~g~C~f~~~Cr~sHg~ 168 (497)
-.|+ |-+.|.|-||..|.|.|.-
T Consensus 142 dVCKdyk~TGYCGYGDsCKflH~R 165 (259)
T COG5152 142 DVCKDYKETGYCGYGDSCKFLHDR 165 (259)
T ss_pred ccccchhhcccccCCchhhhhhhh
Confidence 5694 5555999999999999953
No 76
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=54.28 E-value=28 Score=27.84 Aligned_cols=37 Identities=22% Similarity=0.220 Sum_probs=24.2
Q ss_pred cCCCeEEEeecC--CCCceEeeEEeeeeCCCceEEEEEeC
Q 010937 187 LVGSTIWALSDD--KVGIWRKAELGSWDDEHRMGEVVFRD 224 (497)
Q Consensus 187 ~~Gs~~la~~~~--~dglW~~a~i~~~d~~~~~~~V~f~~ 224 (497)
..|+.|=+.+.. -.|-|++|+|.+..... .|.|.|.+
T Consensus 2 ~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~-~~~V~Y~~ 40 (68)
T PF05641_consen 2 KKGDEVEVSSDEDGFRGAWFPATVLKENGDD-KYLVEYDD 40 (68)
T ss_dssp -TT-EEEEEE-SBTT--EEEEEEEEEEETT--EEEEEETT
T ss_pred CCCCEEEEEEcCCCCCcEEEEEEEEEeCCCc-EEEEEECC
Confidence 467776665521 25889999999999743 79999975
No 77
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=53.71 E-value=5.3 Score=40.45 Aligned_cols=50 Identities=28% Similarity=0.555 Sum_probs=37.3
Q ss_pred CCceeeeEEEeeccCCceEEEEecCCCccccchhhhhhccccCCCccccCCCcccCcc
Q 010937 116 DGRWYDGRIIGLEETDSAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLSHGIDVPLS 173 (497)
Q Consensus 116 dG~~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~sHg~~v~~~ 173 (497)
.|.||+..=+ --.|..=|+..+..|.+|-.+.|..|.-|.|-|...++-+
T Consensus 131 nnRw~~G~pi--------~ae~~pvT~~rea~C~~~e~~~C~rG~~CnFmH~k~~sr~ 180 (260)
T KOG2202|consen 131 NNRWYNGRPI--------HAELSPVTDFREAICGQFERTECSRGGACNFMHVKRLSRS 180 (260)
T ss_pred cCccccCCcc--------eeeecCcCchhhhhhcccccccCCCCCcCcchhhhhhhHH
Confidence 5788876533 2344445667789999999999999999999997744433
No 78
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=52.98 E-value=5.9 Score=25.77 Aligned_cols=19 Identities=26% Similarity=0.800 Sum_probs=15.8
Q ss_pred chhhhhhc-cccCCCccccCC
Q 010937 147 MCKFFLQQ-RCRFGTNCRLSH 166 (497)
Q Consensus 147 pC~~fl~g-~C~f~~~Cr~sH 166 (497)
-|+|.|.| .|.- ..|.|.|
T Consensus 2 lC~yEl~Gg~Cnd-~~C~~QH 21 (23)
T PF10650_consen 2 LCPYELTGGVCND-PDCEFQH 21 (23)
T ss_pred CCccccCCCeeCC-CCCCccc
Confidence 49999997 9964 5899998
No 79
>smart00561 MBT Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. These proteins are involved in transcriptional regulation.
Probab=52.95 E-value=29 Score=30.00 Aligned_cols=40 Identities=10% Similarity=0.005 Sum_probs=33.1
Q ss_pred ccCCCCCCeeEEEeC--CCceeeeEEEeeccCCceEEEEecCC
Q 010937 101 DQRYSVGSKCRFRYN--DGRWYDGRIIGLEETDSAKVSFLRPT 141 (497)
Q Consensus 101 ~~~~~vG~kC~A~~~--dG~~Y~A~I~~i~~~~~vrV~Fl~pt 141 (497)
...|.+|||..|.-. ...+..|+|+.+.|. .++|.|.+.-
T Consensus 25 ~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g~-~l~v~~dg~~ 66 (96)
T smart00561 25 PNGFKVGMKLEAVDPRNPSLICVATVVEVKGY-RLLLHFDGWD 66 (96)
T ss_pred cCcccCCCEEEEECCCCCceEEEEEEEEEECC-EEEEEEccCC
Confidence 467999999999965 346789999999865 7999999864
No 80
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=52.59 E-value=7.8 Score=40.00 Aligned_cols=30 Identities=33% Similarity=0.784 Sum_probs=25.8
Q ss_pred CccccchhhhhhccccCCCccccCCCcccC
Q 010937 142 SENMLMCKFFLQQRCRFGTNCRLSHGIDVP 171 (497)
Q Consensus 142 ~~~~~pC~~fl~g~C~f~~~Cr~sHg~~v~ 171 (497)
--...+|+||+.|.|.=+..|-|+|+..+-
T Consensus 101 ~~s~V~c~~~~~g~c~s~~~c~~lh~~d~~ 130 (285)
T COG5084 101 LSSSVVCKFFLRGLCKSGFSCEFLHEYDLR 130 (285)
T ss_pred ccCCcccchhccccCcCCCccccccCCCcc
Confidence 345689999999999999999999987643
No 81
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=51.82 E-value=6.6 Score=43.23 Aligned_cols=23 Identities=43% Similarity=1.070 Sum_probs=18.9
Q ss_pred cchhhhhhc---cccCCCccccCCCc
Q 010937 146 LMCKFFLQQ---RCRFGTNCRLSHGI 168 (497)
Q Consensus 146 ~pC~~fl~g---~C~f~~~Cr~sHg~ 168 (497)
.-||-..+| .|.|++||||-|-.
T Consensus 77 ~LCPsli~g~~~~C~f~d~Crf~HDi 102 (614)
T KOG2333|consen 77 RLCPSLIQGDISKCSFGDNCRFVHDI 102 (614)
T ss_pred ccChHhhcCCCccCcccccccccccH
Confidence 348888886 89999999999943
No 82
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=51.39 E-value=87 Score=29.45 Aligned_cols=58 Identities=21% Similarity=0.306 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 010937 430 DDEIKDLRVRVVKLEEMVNRNK--NEKAVFEAAMRKLNETRKALAQAEAAQASASHEVSS 487 (497)
Q Consensus 430 ~e~i~~l~~~i~kL~e~l~Rn~--~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~ 487 (497)
..+.++|+.|+.+|++.+..=. .+-+-+..+.++++.+.++|..++.+..+-...+..
T Consensus 39 ~~~~~~l~~Ei~~l~~E~~~iS~qDeFAkwaKl~Rk~~kl~~el~~~~~~~~~~~~~~~~ 98 (161)
T PF04420_consen 39 SKEQRQLRKEILQLKRELNAISAQDEFAKWAKLNRKLDKLEEELEKLNKSLSSEKSSFDK 98 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHTTS-TTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556677777777777766533 388888999999999999999888877665544443
No 83
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=50.34 E-value=72 Score=29.85 Aligned_cols=52 Identities=35% Similarity=0.563 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc---cCCCCHHHHHHHHHHHHHHHHHHHhhhhh
Q 010937 9 LENQLEQQLNEQRDSLTALNDAVA---SDPFNPELQEVLKELVQAIKDAEEGLFHL 61 (497)
Q Consensus 9 iE~~Le~~L~~Yk~QLqQVe~aL~---~DP~n~ELl~Lk~DL~elI~LTee~L~~l 61 (497)
|. +|..+|.+.+.+...+++-|. ..|+++||...-..|.+=|.-.++-|..+
T Consensus 81 i~-~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l 135 (169)
T PF07106_consen 81 IK-ELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKL 135 (169)
T ss_pred HH-HHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44 566666666666666665554 79999999988888888777777666554
No 84
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=50.15 E-value=6.6 Score=43.01 Aligned_cols=22 Identities=32% Similarity=0.775 Sum_probs=17.9
Q ss_pred ccchhhhhhccccCCCccccCC
Q 010937 145 MLMCKFFLQQRCRFGTNCRLSH 166 (497)
Q Consensus 145 ~~pC~~fl~g~C~f~~~Cr~sH 166 (497)
|--|-||++..|.|+..|-|+|
T Consensus 3 ~~dcyff~ys~cKk~d~c~~rh 24 (667)
T KOG4791|consen 3 GEDCYFFFYSTCKKGDSCPFRH 24 (667)
T ss_pred cccchhhhhhhhhccCcCcchh
Confidence 4458888888888888888888
No 85
>KOG3038 consensus Histone acetyltransferase SAGA associated factor SGF29 [General function prediction only]
Probab=49.75 E-value=27 Score=35.50 Aligned_cols=39 Identities=13% Similarity=0.152 Sum_probs=30.0
Q ss_pred ccCCCCCCeeEEEeC-CCceeeeEEEeec--cCCceEEEEec
Q 010937 101 DQRYSVGSKCRFRYN-DGRWYDGRIIGLE--ETDSAKVSFLR 139 (497)
Q Consensus 101 ~~~~~vG~kC~A~~~-dG~~Y~A~I~~i~--~~~~vrV~Fl~ 139 (497)
...|.+|..|+|+|. .=+||.|.|.+.- ++..+.|+|.-
T Consensus 196 ~~~fpp~~~VLA~YP~TTcFY~aiVh~tp~d~s~~y~vlffD 237 (264)
T KOG3038|consen 196 TALFPPGTIVLAVYPGTTCFYKAIVHSTPRDGSCDYYVLFFD 237 (264)
T ss_pred ccCCCCCCEEEEEcCCcceeeeeEeecCCCCCCCcceeeeec
Confidence 567999999999996 2259999999873 45567777753
No 86
>PRK04406 hypothetical protein; Provisional
Probab=49.66 E-value=1.2e+02 Score=25.16 Aligned_cols=46 Identities=13% Similarity=0.134 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 010937 435 DLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASH 483 (497)
Q Consensus 435 ~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~ 483 (497)
.+..+|..|+.-++.+. .+++.+...+.+.+++|..++.+.+.+.+
T Consensus 8 ~le~Ri~~LE~~lAfQE---~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~ 53 (75)
T PRK04406 8 QLEERINDLECQLAFQE---QTIEELNDALSQQQLLITKMQDQMKYVVG 53 (75)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444443332 23334444444444444444444444433
No 87
>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]
Probab=47.55 E-value=40 Score=31.52 Aligned_cols=37 Identities=22% Similarity=0.319 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHH
Q 010937 15 QQLNEQRDSLTALNDAVASDPFNPELQEVLKELVQAI 51 (497)
Q Consensus 15 ~~L~~Yk~QLqQVe~aL~~DP~n~ELl~Lk~DL~elI 51 (497)
..|.+|...|.-|+..|..+|+|.+-+.||+-+...|
T Consensus 82 yRlkeY~~s~~yvd~ll~~e~~n~Qa~~Lk~~ied~i 118 (149)
T KOG3364|consen 82 YRLKEYSKSLRYVDALLETEPNNRQALELKETIEDKI 118 (149)
T ss_pred HHHhhHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHH
Confidence 5688999999999999999999999999998887766
No 88
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=46.94 E-value=34 Score=26.90 Aligned_cols=24 Identities=13% Similarity=0.486 Sum_probs=19.6
Q ss_pred CCCCCeeEEEeCCC-ceeeeEEEeec
Q 010937 104 YSVGSKCRFRYNDG-RWYDGRIIGLE 128 (497)
Q Consensus 104 ~~vG~kC~A~~~dG-~~Y~A~I~~i~ 128 (497)
|.+|+.+-|+.. | -|.||+|+.-.
T Consensus 1 f~~GdlVwaK~~-G~p~WPa~V~~~~ 25 (63)
T smart00293 1 FKPGDLVWAKMK-GFPWWPALVVSPK 25 (63)
T ss_pred CCCCCEEEEECC-CCCCCCeEEcCcc
Confidence 568999999985 4 59999998654
No 89
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=46.80 E-value=40 Score=28.29 Aligned_cols=51 Identities=20% Similarity=0.045 Sum_probs=38.4
Q ss_pred cccCCCeEEEeecCCCCceEeeEEeeeeC---CCceEEEEEeCCCCceeecccccc
Q 010937 185 QSLVGSTIWALSDDKVGIWRKAELGSWDD---EHRMGEVVFRDDGSSAKLGIEAMT 237 (497)
Q Consensus 185 ~l~~Gs~~la~~~~~dglW~~a~i~~~d~---~~~~~~V~f~~~g~~~~~~~d~~~ 237 (497)
...+|..||||.+ .--|=+|+|.+... ..+.|.|.|=+....+-|+...|.
T Consensus 2 ~f~~GdlVwaK~k--Gyp~WPa~I~~~~~~~~~~~~~~V~FfGt~~~a~v~~~~l~ 55 (83)
T cd05834 2 QFKAGDLVFAKVK--GYPAWPARVDEPEDWKPPGKKYPVYFFGTHETAFLKPEDLF 55 (83)
T ss_pred CCCCCCEEEEecC--CCCCCCEEEecccccCCCCCEEEEEEeCCCCEeEECHHHce
Confidence 4578999999954 77799999998874 246789999887766666655444
No 90
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=46.34 E-value=7.9 Score=38.87 Aligned_cols=26 Identities=31% Similarity=0.915 Sum_probs=22.6
Q ss_pred ccchhhhhhccccCCCccccCCCccc
Q 010937 145 MLMCKFFLQQRCRFGTNCRLSHGIDV 170 (497)
Q Consensus 145 ~~pC~~fl~g~C~f~~~Cr~sHg~~v 170 (497)
...|..|+.+.|.-|..|.|+||..+
T Consensus 85 ~~vcalF~~~~c~kg~~ckF~h~~ee 110 (299)
T COG5252 85 TVVCALFLNKTCAKGDACKFAHGKEE 110 (299)
T ss_pred hHHHHHhccCccccCchhhhhcchHH
Confidence 35699999999999999999999544
No 91
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=46.00 E-value=4.5 Score=44.52 Aligned_cols=25 Identities=24% Similarity=0.438 Sum_probs=19.3
Q ss_pred hhhhhh-ccccCCCccccCCCcccCc
Q 010937 148 CKFFLQ-QRCRFGTNCRLSHGIDVPL 172 (497)
Q Consensus 148 C~~fl~-g~C~f~~~Cr~sHg~~v~~ 172 (497)
|++|-. |.|.||..|||--++...-
T Consensus 117 Cp~f~s~G~Cp~G~~CRFl~aHld~~ 142 (614)
T KOG2333|consen 117 CPVFESLGFCPYGFKCRFLGAHLDIE 142 (614)
T ss_pred cceeeccccCCccceeehhhcccCcc
Confidence 777776 9999999999965555443
No 92
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=45.27 E-value=47 Score=27.52 Aligned_cols=49 Identities=22% Similarity=0.222 Sum_probs=33.9
Q ss_pred cCCCeEEEeecCCCCceEeeEEeeeeCC---------CceEEEEEeCCCCceeecccccc
Q 010937 187 LVGSTIWALSDDKVGIWRKAELGSWDDE---------HRMGEVVFRDDGSSAKLGIEAMT 237 (497)
Q Consensus 187 ~~Gs~~la~~~~~dglW~~a~i~~~d~~---------~~~~~V~f~~~g~~~~~~~d~~~ 237 (497)
.+|..||||.+ .--|-+|+|.+.+.. .+.|.|.|=+...-+-|..+.|.
T Consensus 2 ~~GdlVwaK~~--g~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg~~~~~wv~~~~l~ 59 (87)
T cd05162 2 RPGDLVWAKMK--GYPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFGDKTFAWVGAERLK 59 (87)
T ss_pred CCCCEEEEeCC--CCCCCCEEEccccccchhhhccCCCCEEEEEEeCCCcEEEeCcccee
Confidence 57999999964 667999999877653 25678888765544445444433
No 93
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=44.90 E-value=1.2e+02 Score=25.85 Aligned_cols=46 Identities=20% Similarity=0.239 Sum_probs=33.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhcc-CCCCHHHHHHHHHHHHHHHHH
Q 010937 8 VLENQLEQQLNEQRDSLTALNDAVAS-DPFNPELQEVLKELVQAIKDA 54 (497)
Q Consensus 8 ~iE~~Le~~L~~Yk~QLqQVe~aL~~-DP~n~ELl~Lk~DL~elI~LT 54 (497)
-|+ -+|..|..|+.+|+.|+.-|.. ..+...=..|.+++.+|-+..
T Consensus 6 eId-~lEekl~~cr~~le~ve~rL~~~eLs~e~R~~lE~E~~~l~~~l 52 (85)
T PF15188_consen 6 EID-GLEEKLAQCRRRLEAVESRLRRRELSPEARRSLEKELNELKEKL 52 (85)
T ss_pred HHh-hHHHHHHHHHHHHHHHHHHHcccCCChHHHHHHHHHHHHHHHHh
Confidence 477 8999999999999999999984 333444556666666655544
No 94
>smart00561 MBT Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. These proteins are involved in transcriptional regulation.
Probab=44.40 E-value=70 Score=27.59 Aligned_cols=54 Identities=15% Similarity=0.046 Sum_probs=40.0
Q ss_pred cCcccccccCCCCcccccCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCC
Q 010937 170 VPLSFLKKYVPTSWEQSLVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDD 225 (497)
Q Consensus 170 v~~~~L~~~~~pd~~~l~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~ 225 (497)
.|.+-.+....+....+++|..+=|....+..+|+-|+|.+|.. ..+.|.|++.
T Consensus 12 aP~~~F~~~~~~~~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g--~~l~v~~dg~ 65 (96)
T smart00561 12 APVELFKQPVDSPPNGFKVGMKLEAVDPRNPSLICVATVVEVKG--YRLLLHFDGW 65 (96)
T ss_pred CCHHHhCCCCCCccCcccCCCEEEEECCCCCceEEEEEEEEEEC--CEEEEEEccC
Confidence 34444444344556778999999998655678999999999995 6789999854
No 95
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=44.03 E-value=8.5 Score=38.31 Aligned_cols=21 Identities=38% Similarity=0.901 Sum_probs=17.5
Q ss_pred chhhhhhccccCCCccccCCCc
Q 010937 147 MCKFFLQQRCRFGTNCRLSHGI 168 (497)
Q Consensus 147 pC~~fl~g~C~f~~~Cr~sHg~ 168 (497)
.|+|||-|+|.- .||||-|-+
T Consensus 263 acryfllgkcnn-pncryvhih 283 (377)
T KOG1492|consen 263 ACRYFLLGKCNN-PNCRYVHIH 283 (377)
T ss_pred hhhhhhhccCCC-CCceEEEEe
Confidence 499999999974 699998843
No 96
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=43.50 E-value=50 Score=27.67 Aligned_cols=36 Identities=17% Similarity=0.262 Sum_probs=27.9
Q ss_pred CCCCCCeeEEEeCCC-ceeeeEEEeecc----CCceEEEEec
Q 010937 103 RYSVGSKCRFRYNDG-RWYDGRIIGLEE----TDSAKVSFLR 139 (497)
Q Consensus 103 ~~~vG~kC~A~~~dG-~~Y~A~I~~i~~----~~~vrV~Fl~ 139 (497)
.|.+|+-|-|+.. | -|.||+|+.... ...+.|.|.+
T Consensus 2 ~f~~GdlVwaK~k-Gyp~WPa~I~~~~~~~~~~~~~~V~FfG 42 (83)
T cd05834 2 QFKAGDLVFAKVK-GYPAWPARVDEPEDWKPPGKKYPVYFFG 42 (83)
T ss_pred CCCCCCEEEEecC-CCCCCCEEEecccccCCCCCEEEEEEeC
Confidence 5889999999984 4 588999997764 3467788754
No 97
>PF14282 FlxA: FlxA-like protein
Probab=43.16 E-value=69 Score=28.08 Aligned_cols=66 Identities=14% Similarity=0.249 Sum_probs=49.1
Q ss_pred hhHHhhhcHHHHHHHHHHHHHHHHHHHhccC-chHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhH
Q 010937 422 SRRDLVAYDDEIKDLRVRVVKLEEMVNRNKN-EKAVFEAAMRKLNETRKALAQAEAAQASASHEVSSR 488 (497)
Q Consensus 422 ~~r~l~~~~e~i~~l~~~i~kL~e~l~Rn~~-~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~~ 488 (497)
+.. +-.+...|..|+.++..|...-.-... -......|+..|..++.+|++++.+...-.....+.
T Consensus 18 ~~~-I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~q~~~~~~~~~~~ 84 (106)
T PF14282_consen 18 DSQ-IEQLQKQIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQLQSQQAEQQQQKQSS 84 (106)
T ss_pred HHH-HHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 444 778899999999999999884221112 346678899999999999999999887766554443
No 98
>PRK10884 SH3 domain-containing protein; Provisional
Probab=42.95 E-value=1.4e+02 Score=29.47 Aligned_cols=27 Identities=11% Similarity=0.121 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 010937 460 AMRKLNETRKALAQAEAAQASASHEVS 486 (497)
Q Consensus 460 i~~kL~~~~~~L~~~~a~~~si~~~~~ 486 (497)
+..+..+++++|+.++.+...+..+..
T Consensus 137 L~~~n~~L~~~l~~~~~~~~~l~~~~~ 163 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKKVDAANLQLD 163 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555555555555555444433
No 99
>cd05841 BS69_related The PWWP domain is part of BS69 protein, a nuclear protein that specifically binds adenoviral E1A and Epstein-Barr viral EBNA2 proteins, suppressing their transactivation functions. BS69 is a multi-domain protein, containing bromo, PHD, PWWP, and MYND domains. The specific role of the PWWP domain within BS69 is not clearly identified, but BS69 functions in chromatin remodeling, consistent with other PWWP-containing proteins. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=42.71 E-value=44 Score=28.33 Aligned_cols=47 Identities=15% Similarity=0.087 Sum_probs=35.6
Q ss_pred cCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeC-CCCceeecccccc
Q 010937 187 LVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRD-DGSSAKLGIEAMT 237 (497)
Q Consensus 187 ~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~-~g~~~~~~~d~~~ 237 (497)
++|..||||.+ .=-|-+|+|...+. +.|.|.|=+ ....+-|+...|.
T Consensus 8 ~p~dLVwAK~k--Gyp~WPAkV~~~~~--~~~~V~FFG~t~~~a~v~~~~i~ 55 (83)
T cd05841 8 PPHELVWAKLK--GFPYWPAKVMRVED--NQVDVRFFGGQHDRAWIPSNNIQ 55 (83)
T ss_pred CCCCEEEEeCC--CCCCCCEEEeecCC--CeEEEEEcCCCCCeEEEehHHee
Confidence 57889999953 66688999998775 678999987 6667777655554
No 100
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=41.72 E-value=75 Score=30.52 Aligned_cols=59 Identities=14% Similarity=0.228 Sum_probs=41.6
Q ss_pred hhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHH--HHHHHHHHHHHHHHHHHHHhHHHHH
Q 010937 427 VAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAA--MRKLNETRKALAQAEAAQASASHEV 485 (497)
Q Consensus 427 ~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i--~~kL~~~~~~L~~~~a~~~si~~~~ 485 (497)
-...+....+..++..|++.++.=+.+-+.|.=+ .+.+++.-.+|..|.+..+.+....
T Consensus 88 ~lLe~~~~~l~~ri~eLe~~l~~kad~vvsYqll~hr~e~ee~~~~l~~le~~~~~~e~~~ 148 (175)
T PRK13182 88 EQLEAQLNTITRRLDELERQLQQKADDVVSYQLLQHRREMEEMLERLQKLEARLKKLEPIY 148 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3457888888889999988888776666666544 4567777777777777666655433
No 101
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=41.56 E-value=2.3e+02 Score=24.85 Aligned_cols=59 Identities=17% Similarity=0.240 Sum_probs=45.3
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEV 485 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~ 485 (497)
+-...+.+....+++..++..+. |-....-+..|...|.+++.++..+.++..++.+-+
T Consensus 37 ~~~l~~~~~~~~~Rl~~lE~~l~-~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~ 95 (106)
T PF10805_consen 37 IEKLEERLDEHDRRLQALETKLE-HLPTRDDVHDLQLELAELRGELKELSARLQGVSHQL 95 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 44555666666888888877764 445666778899999999999999999999887644
No 102
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=41.42 E-value=1.6e+02 Score=29.76 Aligned_cols=67 Identities=19% Similarity=0.292 Sum_probs=42.8
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHhhhh
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEVSSREKEKR 493 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~~~~~k~ 493 (497)
.++.+.+|..+..++.+++..+ -+.++..-+.++...+..+++++.+++-....+-+++...+++..
T Consensus 61 v~~~e~ei~~~r~r~~~~e~kl-~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~ 127 (239)
T COG1579 61 VSQLESEIQEIRERIKRAEEKL-SAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIE 127 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-hccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555556666666666666666 555566777777777777777777777666666666665555543
No 103
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=41.20 E-value=98 Score=33.66 Aligned_cols=62 Identities=16% Similarity=0.222 Sum_probs=45.4
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEVSS 487 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~ 487 (497)
.++...++..|+.+..++...+..+.+...-.+.+..+..+++++|..+++++..+..+++.
T Consensus 37 ~r~l~~~~~~lr~~rn~~sk~i~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 98 (425)
T PRK05431 37 RRELQTELEELQAERNALSKEIGQAKRKGEDAEALIAEVKELKEEIKALEAELDELEAELEE 98 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677888888888888888887755433334567777777888888888887777766654
No 104
>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA. This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA.
Probab=40.91 E-value=29 Score=37.24 Aligned_cols=51 Identities=24% Similarity=0.481 Sum_probs=35.2
Q ss_pred CCCCCCeeEEEeC--CCceeeeEEEeeccCCceEEEEecCCCccccchhhhhhccccCCCccccCCC
Q 010937 103 RYSVGSKCRFRYN--DGRWYDGRIIGLEETDSAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLSHG 167 (497)
Q Consensus 103 ~~~vG~kC~A~~~--dG~~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~sHg 167 (497)
.-++|++|.+... ..+|..|.++.|-..+..||. | ||++|- .| .-|.+-|.
T Consensus 20 ~~lpGe~v~~~i~~~~~~~~~~~~~~i~~~S~~Rv~---p------~C~~~~--~C---GGC~~qh~ 72 (431)
T TIGR00479 20 NALPGEKVEVRVTKVKRQYALARVKKIREPSPERTR---P------PCPVFD--QC---GGCQLQHL 72 (431)
T ss_pred CCCCCCEEEEEEEEecCceeEEEeeeecCCCcCcCC---C------CCCCCC--CC---CCCcccCC
Confidence 3579999999975 335889999887655545542 3 799994 34 35666675
No 105
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=40.81 E-value=73 Score=33.07 Aligned_cols=57 Identities=14% Similarity=0.119 Sum_probs=44.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHhccC-chHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 010937 429 YDDEIKDLRVRVVKLEEMVNRNKN-EKAVFEAAMRKLNETRKALAQAEAAQASASHEVSS 487 (497)
Q Consensus 429 ~~e~i~~l~~~i~kL~e~l~Rn~~-~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~ 487 (497)
+.+++.+-+++..|+ +++|.+. .+.-.+.++..+..+.+....|+.+-.++.+||.-
T Consensus 223 ~~~~~~~rkr~qnk~--AAtRYRqKkRae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~y 280 (294)
T KOG4571|consen 223 TPEKKLRRKRQQNKA--AATRYRQKKRAEKEALLGELEGLEKRNEELKDQASELEREIRY 280 (294)
T ss_pred CchHHHHHHHHHhHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555 8888885 88888999999999999999999999999888763
No 106
>PRK11637 AmiB activator; Provisional
Probab=40.74 E-value=1.3e+02 Score=32.44 Aligned_cols=20 Identities=25% Similarity=0.421 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 010937 461 MRKLNETRKALAQAEAAQAS 480 (497)
Q Consensus 461 ~~kL~~~~~~L~~~~a~~~s 480 (497)
..+|..++.+|..++.....
T Consensus 102 ~~ei~~l~~eI~~~q~~l~~ 121 (428)
T PRK11637 102 NKQIDELNASIAKLEQQQAA 121 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444433333
No 107
>cd00677 S15_NS1_EPRS_RNA-bind S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic aminoacyl tRNA synthetases (aaRSs), where it occurs as a single or a repeated unit. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions in the formation of tRNA-synthetases into multienzyme complexes. While this domain lacks significant sequence similarity between the subgroups in which it is found, they share similar electrostatic surface potentials and thus are likely to bind to RNA via the same mechanism.
Probab=40.54 E-value=1e+02 Score=22.74 Aligned_cols=43 Identities=21% Similarity=0.192 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHH
Q 010937 431 DEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQ 473 (497)
Q Consensus 431 e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~ 473 (497)
.+|..+-..|..|++-+..|.+|...-..+...+...++-+.-
T Consensus 2 vqia~lt~~i~~L~~hl~~~~kD~~~kr~L~~~v~kr~rLl~y 44 (46)
T cd00677 2 VQIALLTERIRNLKEHLAKNKKDKHSKRGLDLLVSKRLRLLKY 44 (46)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHHHHH
Confidence 5688899999999999999999999888888777776665543
No 108
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=39.52 E-value=18 Score=36.37 Aligned_cols=42 Identities=26% Similarity=0.525 Sum_probs=31.3
Q ss_pred CCCccccchhhhhh----c------cccCC-CccccCC----CcccCcccccccCCC
Q 010937 140 PTSENMLMCKFFLQ----Q------RCRFG-TNCRLSH----GIDVPLSFLKKYVPT 181 (497)
Q Consensus 140 pt~~~~~pC~~fl~----g------~C~f~-~~Cr~sH----g~~v~~~~L~~~~~p 181 (497)
|-.-....|.||++ | .|.+| .+|-|-| |++++-+.+++-..|
T Consensus 136 P~intd~VCkffieA~e~GkYgw~W~CPng~~~C~y~H~Lp~GyVLsrdk~Kd~tq~ 192 (299)
T COG5252 136 PWINTDRVCKFFIEAMESGKYGWGWTCPNGNMRCSYIHKLPDGYVLSRDKIKDSTQV 192 (299)
T ss_pred CCCChhHHHHHHHHHHhcCCccceeeCCCCCceeeeeeccCccceeccccccccccc
Confidence 66667788999998 2 59998 6999999 666666666654433
No 109
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=39.37 E-value=1.4e+02 Score=25.36 Aligned_cols=53 Identities=19% Similarity=0.206 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHhhhhhhHH
Q 010937 12 QLEQQLNEQRDSLTALNDAVASDPFNPELQEVLKELVQAIKDAEEGLFHLKRA 64 (497)
Q Consensus 12 ~Le~~L~~Yk~QLqQVe~aL~~DP~n~ELl~Lk~DL~elI~LTee~L~~lk~s 64 (497)
+....|...+.-++.=.......+.+.|+..++.||...|.-.+..|..|..+
T Consensus 9 ev~~sl~~l~~~~~~~~~~~~~~~~~~e~~~~~~eL~~~l~~ie~~L~DL~~a 61 (97)
T PF09177_consen 9 EVQSSLDRLESLYRRWQRLRSDTSSSEELKWLKRELRNALQSIEWDLEDLEEA 61 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTHCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhcccCCCcHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444555567899999999999999999999887765
No 110
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=39.04 E-value=1.4e+02 Score=32.40 Aligned_cols=64 Identities=17% Similarity=0.297 Sum_probs=45.2
Q ss_pred HhhhcHHHHHHHHHHHHHHHHHHHhccC----------chHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhH
Q 010937 425 DLVAYDDEIKDLRVRVVKLEEMVNRNKN----------EKAVFEAAMRKLNETRKALAQAEAAQASASHEVSSR 488 (497)
Q Consensus 425 ~l~~~~e~i~~l~~~i~kL~e~l~Rn~~----------~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~~ 488 (497)
.+..+.++++.++.++.+|+..+..... ....+..+...+..+.+++..++..+..+.+.+...
T Consensus 335 ~~~~l~~~~~~~~~~l~~l~~~l~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~l~~~ 408 (451)
T PF03961_consen 335 KLEELEEELEELKEELEKLKKNLKKLKKLKKQGKLPPEKKEQLKKLKEKKKELKEELKELKEELKELKEELERS 408 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3555666666666666666666655443 346677788888888888888888888888777665
No 111
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=38.72 E-value=35 Score=28.73 Aligned_cols=26 Identities=19% Similarity=0.523 Sum_probs=19.7
Q ss_pred CCCCCeeEEEeCCCceeeeEEEeecc
Q 010937 104 YSVGSKCRFRYNDGRWYDGRIIGLEE 129 (497)
Q Consensus 104 ~~vG~kC~A~~~dG~~Y~A~I~~i~~ 129 (497)
|.+||-|-|+-.-=.|.||+|+....
T Consensus 1 f~vGDlVWaK~kg~pwWP~~V~~~~~ 26 (87)
T cd05835 1 FNVGDLVWGKIKGFPWWPGRVVSITV 26 (87)
T ss_pred CCCCCEEEEecCCCCCCCeEEechhh
Confidence 57899999887421588999998754
No 112
>PRK04098 sec-independent translocase; Provisional
Probab=38.46 E-value=86 Score=29.78 Aligned_cols=58 Identities=14% Similarity=0.183 Sum_probs=44.2
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHhhhhhhH
Q 010937 5 EERVLENQLEQQLNEQRDSLTALNDAVASDPFNPELQEVLKELVQAIKDAEEGLFHLKR 63 (497)
Q Consensus 5 e~~~iE~~Le~~L~~Yk~QLqQVe~aL~~DP~n~ELl~Lk~DL~elI~LTee~L~~lk~ 63 (497)
++..++ +|..++..|+.+|++....|...-+=.||-.+..++...++-..+++.+++.
T Consensus 52 ~Ei~~~-elk~e~~k~k~~l~~~~~~l~~~~~~eel~~~~~~~~~~~~~~~~~~~~~~~ 109 (158)
T PRK04098 52 KEINIE-EIKEEALKYKKEFESAVESLKKKLKFEELDDLKITAENEIKSIQDLLQDYKK 109 (158)
T ss_pred HHHhhH-HHHHHHHHHHHHHHHHHHHHHhccChHHHHHHhhhhhhcchhHHHHHhhhhh
Confidence 455566 7888889999999999999987544457888888888877777776666543
No 113
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=38.36 E-value=1.8e+02 Score=26.83 Aligned_cols=59 Identities=15% Similarity=0.245 Sum_probs=41.3
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHE 484 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~ 484 (497)
+-.++.+|..++..+..++..+.-.......++++.++|.-+..+|......+..+..-
T Consensus 44 ~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq~LEeele~ae~~L~e~~ek 102 (143)
T PF12718_consen 44 NQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQLLEEELEEAEKKLKETTEK 102 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 56666777777777777777766666666677788888888887777777766655543
No 114
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=37.77 E-value=2.2e+02 Score=27.47 Aligned_cols=57 Identities=26% Similarity=0.366 Sum_probs=40.2
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhcc---CchHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNK---NEKAVFEAAMRKLNETRKALAQAEAAQASAS 482 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~---~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~ 482 (497)
+-.+..+|..++.++..|+..+..-+ .+..--..+..+|.++++++..+++++....
T Consensus 71 ~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~ 130 (188)
T PF03962_consen 71 LEKLQKEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKYS 130 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56667777777777777777665444 2444556678888888888888888877543
No 115
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=37.76 E-value=39 Score=36.64 Aligned_cols=51 Identities=18% Similarity=0.457 Sum_probs=34.1
Q ss_pred CCCCCCeeEEEeC--CCceeeeEEEeeccCCceEEEEecCCCccccchhhhhhccccCCCccccCCC
Q 010937 103 RYSVGSKCRFRYN--DGRWYDGRIIGLEETDSAKVSFLRPTSENMLMCKFFLQQRCRFGTNCRLSHG 167 (497)
Q Consensus 103 ~~~vG~kC~A~~~--dG~~Y~A~I~~i~~~~~vrV~Fl~pt~~~~~pC~~fl~g~C~f~~~Cr~sHg 167 (497)
.-.+|++|.+... -.+|..|.++.+-..+..|| .| ||++|- .| .-|.+-|.
T Consensus 42 ~~lPGe~v~v~i~~~~~~~~~~~~~~vl~~sp~Rv---~p------~C~~~~--~C---GGC~~qh~ 94 (443)
T PRK13168 42 GALPGERVEVQVTEDKKQYARAKVVRILKPSPERV---TP------RCPHFG--VC---GGCQLQHL 94 (443)
T ss_pred CCCCCCEEEEEEEEecCcEEEEEEEEEecCCcccC---CC------CCCcCC--cC---cCchhcCC
Confidence 3578999998875 23577899888765554555 23 799994 34 35666673
No 116
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=36.34 E-value=88 Score=24.55 Aligned_cols=49 Identities=20% Similarity=0.222 Sum_probs=33.6
Q ss_pred cCCCeEEEeecCCCCceEeeEEeeeeCC----------CceEEEEEeCCCCceeecccccc
Q 010937 187 LVGSTIWALSDDKVGIWRKAELGSWDDE----------HRMGEVVFRDDGSSAKLGIEAMT 237 (497)
Q Consensus 187 ~~Gs~~la~~~~~dglW~~a~i~~~d~~----------~~~~~V~f~~~g~~~~~~~d~~~ 237 (497)
++|..||||.+ .--|-+|+|...+.. .+.|-|.|=+....+-+..+.|.
T Consensus 2 ~~GdlVwaK~~--G~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg~~~~awv~~~~l~ 60 (63)
T smart00293 2 KPGDLVWAKMK--GFPWWPALVVSPKETPDNIRKRKRFENLYPVLFFGDKDTAWISSSKLF 60 (63)
T ss_pred CCCCEEEEECC--CCCCCCeEEcCcccCChhHhhccCCCCEEEEEEeCCCCEEEECcccee
Confidence 57999999954 557999999765421 35677888776666655544443
No 117
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=36.07 E-value=1.1e+02 Score=33.60 Aligned_cols=46 Identities=9% Similarity=-0.077 Sum_probs=34.3
Q ss_pred CcccccCCCeEEEeecCCCCceEeeEEeeeeCCC------ceEEEEEeCCCCc
Q 010937 182 SWEQSLVGSTIWALSDDKVGIWRKAELGSWDDEH------RMGEVVFRDDGSS 228 (497)
Q Consensus 182 d~~~l~~Gs~~la~~~~~dglW~~a~i~~~d~~~------~~~~V~f~~~g~~ 228 (497)
.-..+.+|..|+|.. ..||.||.|+|.++.... ..|-|.|....+.
T Consensus 50 ~~~~~~VGekVla~~-~~Dg~~~~A~VI~~R~~~~~~~~~~~YYVHY~g~nrR 101 (450)
T PLN00104 50 VMLPLEVGTRVMCRW-RFDGKYHPVKVIERRRGGSGGPNDYEYYVHYTEFNRR 101 (450)
T ss_pred ccceeccCCEEEEEE-CCCCCEEEEEEEEEeccCCCCCCCceEEEEEecCCcc
Confidence 345678999999983 248999999999887522 3477999875544
No 118
>PRK14011 prefoldin subunit alpha; Provisional
Probab=35.87 E-value=3.7e+02 Score=25.06 Aligned_cols=36 Identities=19% Similarity=0.299 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHH
Q 010937 9 LENQLEQQLNEQRDSLTALNDAVASDPFNPELQEVLKELVQAI 51 (497)
Q Consensus 9 iE~~Le~~L~~Yk~QLqQVe~aL~~DP~n~ELl~Lk~DL~elI 51 (497)
|+ ++-..|+.|+.|++.+...|.. |...+.++.+.|
T Consensus 5 lq-~~~~~l~~~~~qie~L~~si~~------L~~a~~e~~~~i 40 (144)
T PRK14011 5 LQ-NQFMALEVYNQQVQKLQEELSS------IDMMKMELLKSI 40 (144)
T ss_pred HH-HHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHH
Confidence 67 7888899999998888777654 555555555544
No 119
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=35.73 E-value=1.5e+02 Score=26.83 Aligned_cols=56 Identities=16% Similarity=0.246 Sum_probs=38.6
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASA 481 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si 481 (497)
+...++++.+|......+.+.|.+-.............+..++.++..++....++
T Consensus 32 ~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~ 87 (120)
T PF12325_consen 32 LASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTL 87 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56667777777777777777777766666666666667777777777777665554
No 120
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=34.75 E-value=1.1e+02 Score=32.82 Aligned_cols=50 Identities=24% Similarity=0.399 Sum_probs=34.5
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAE 475 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~ 475 (497)
+-.+++++.+++.++.+|++.+..+.+.....+.+..+|+...+++..++
T Consensus 244 ~~~l~~~~~~~~~~i~~l~~~l~~~~k~~~k~~~~~~q~~~~~k~~~~~~ 293 (406)
T PF02388_consen 244 LESLQEKLEKLEKEIEKLEEKLEKNPKKKNKLKELEEQLASLEKRIEEAE 293 (406)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH-THHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHHHHHHH
Confidence 67789999999999999999999988444444444555555555444443
No 121
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=33.56 E-value=1.7e+02 Score=25.18 Aligned_cols=61 Identities=15% Similarity=0.228 Sum_probs=41.4
Q ss_pred hhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 010937 427 VAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEVSS 487 (497)
Q Consensus 427 ~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~ 487 (497)
+...-++..|+.+...+...+..-.+...-.+.+......+..++..+..++..+..+++.
T Consensus 39 r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~ 99 (108)
T PF02403_consen 39 RELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQLKELEEELNE 99 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566666666666666666555544556677777888888888888888877776654
No 122
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=33.51 E-value=65 Score=25.70 Aligned_cols=36 Identities=19% Similarity=0.349 Sum_probs=29.1
Q ss_pred HhhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHH
Q 010937 425 DLVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAA 460 (497)
Q Consensus 425 ~l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i 460 (497)
++-.+++.|..|+.+|.+++..+++-..+...++.+
T Consensus 22 Sv~EL~~RIa~L~aEI~R~~~~~~~K~a~r~AAeal 57 (59)
T PF06698_consen 22 SVEELEERIALLEAEIARLEAAIAKKSASRAAAEAL 57 (59)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355678999999999999999998877777666554
No 123
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=33.45 E-value=1.8e+02 Score=25.87 Aligned_cols=52 Identities=23% Similarity=0.316 Sum_probs=40.9
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHhc--cCCCCHHHHHHHHHHHHHHHHHHHhhhhh
Q 010937 6 ERVLENQLEQQLNEQRDSLTALNDAVA--SDPFNPELQEVLKELVQAIKDAEEGLFHL 61 (497)
Q Consensus 6 ~~~iE~~Le~~L~~Yk~QLqQVe~aL~--~DP~n~ELl~Lk~DL~elI~LTee~L~~l 61 (497)
...|+ +|.++|++. +..+|+.|. .++...|+..||.-+..+.+-+.+-+-..
T Consensus 7 ~~~~~-~l~~el~~L---~d~lEevL~ssg~~a~~e~~~lR~r~~~~Lk~~r~rl~~~ 60 (104)
T COG4575 7 DDAID-QLLAELQEL---LDTLEEVLKSSGSLAGDEAEELRSKAESALKEARDRLGDT 60 (104)
T ss_pred hhhHH-HHHHHHHHH---HHHHHHHHHhcccchhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34455 888888887 777788887 56778899999999999998888766553
No 124
>KOG0245 consensus Kinesin-like protein [Cytoskeleton]
Probab=33.35 E-value=1.2e+02 Score=36.67 Aligned_cols=47 Identities=23% Similarity=0.366 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHHhccCchHH-------------HHHHHHHHHHHHHHHHHHHHH
Q 010937 431 DEIKDLRVRVVKLEEMVNRNKNEKAV-------------FEAAMRKLNETRKALAQAEAA 477 (497)
Q Consensus 431 e~i~~l~~~i~kL~e~l~Rn~~~~~~-------------~~~i~~kL~~~~~~L~~~~a~ 477 (497)
.-|+.|+.+|.||+..+.-....... ++.+.++|.+.+++++.++.+
T Consensus 361 KLIRELreEv~rLksll~~~~~~~~~~~~~p~~~~~~~~~e~~~~~L~E~Ek~mael~et 420 (1221)
T KOG0245|consen 361 KLIRELREEVARLKSLLRAQGLGDIAVEGSPSALLSQPEIEELRERLQETEKIMAELNET 420 (1221)
T ss_pred HHHHHHHHHHHHHHHHHhccccccccccCCcccccccccHHHHHHHHHHHHHHHHHHHHH
Confidence 45889999999999988777654444 788999999999999988876
No 125
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=32.99 E-value=1.2e+02 Score=33.66 Aligned_cols=54 Identities=6% Similarity=0.155 Sum_probs=37.9
Q ss_pred hhhhhHHhhhcHHHHHHHHHHHHHHHHHHH---hccCchHHHHHHHHHHHHHHHHHHHHHHHH
Q 010937 419 KKISRRDLVAYDDEIKDLRVRVVKLEEMVN---RNKNEKAVFEAAMRKLNETRKALAQAEAAQ 478 (497)
Q Consensus 419 ~k~~~r~l~~~~e~i~~l~~~i~kL~e~l~---Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~ 478 (497)
.+.+..+|-+.+.++.+|++++.+|+..+. ++.. ..+.+|++++.++..|+++.
T Consensus 64 dkVnqSALteqQ~kasELEKqLaaLrqElq~~saq~~------dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 64 DKVRQHATTEMQVTAAQMQKQYEEIRRELDVLNKQRG------DDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh------hHHHHHHHHHHHHHHHHHHH
Confidence 455666688888899999999999976655 4443 23566666666666666665
No 126
>PRK11020 hypothetical protein; Provisional
Probab=32.55 E-value=2.1e+02 Score=25.84 Aligned_cols=51 Identities=14% Similarity=0.199 Sum_probs=39.2
Q ss_pred cHHHHHHHHHHHHHHHHHH--HhccCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010937 429 YDDEIKDLRVRVVKLEEMV--NRNKNEKAVFEAAMRKLNETRKALAQAEAAQA 479 (497)
Q Consensus 429 ~~e~i~~l~~~i~kL~e~l--~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~ 479 (497)
+..+|.+|..++.+++.-+ +..++|..++.+....++.+.++|++++.+..
T Consensus 3 ~K~Eiq~L~drLD~~~~Klaaa~~rgd~~~i~qf~~E~~~l~k~I~~lk~~~~ 55 (118)
T PRK11020 3 EKNEIKRLSDRLDAIRHKLAAASLRGDAEKYAQFEKEKATLEAEIARLKEVQS 55 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567777777777776544 45567999999999999999999998887654
No 127
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=32.03 E-value=1.9e+02 Score=31.47 Aligned_cols=62 Identities=21% Similarity=0.299 Sum_probs=43.7
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHH-HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAV-FEAAMRKLNETRKALAQAEAAQASASHEVSS 487 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~-~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~ 487 (497)
.++...++..|+.+..++...+..+.+...- .+.+..++.++..+|..+.+++..+..+++.
T Consensus 39 ~r~~~~~~~~l~~erN~~sk~i~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 101 (418)
T TIGR00414 39 RKKLLSEIEELQAKRNELSKQIGKAKGQKKDKIEEIKKELKELKEELTELSAALKALEAELQD 101 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566777888888888888888775443333 5667777777777888887777777666554
No 128
>PRK02119 hypothetical protein; Provisional
Probab=31.51 E-value=2.9e+02 Score=22.65 Aligned_cols=26 Identities=8% Similarity=0.078 Sum_probs=12.3
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhcc
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNK 451 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~ 451 (497)
+...+.++.=.+.-|+.|++.++++.
T Consensus 11 i~~LE~rla~QE~tie~LN~~v~~Qq 36 (73)
T PRK02119 11 IAELEMKIAFQENLLEELNQALIEQQ 36 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444555555444443
No 129
>PF11926 DUF3444: Domain of unknown function (DUF3444); InterPro: IPR024593 This entry represents an uncharacterised domain. This domain is found in DnaJ, cytosine-specific methyltransferases, and members from the zinc finger, C3HC4 type family.
Probab=31.11 E-value=99 Score=30.77 Aligned_cols=92 Identities=22% Similarity=0.423 Sum_probs=56.3
Q ss_pred ccCCCCCCeeEEEeC--CCc-eeeeEEEeeccCC--ceEEEEecCCCcc-----------ccch-hhhhhccccCCCccc
Q 010937 101 DQRYSVGSKCRFRYN--DGR-WYDGRIIGLEETD--SAKVSFLRPTSEN-----------MLMC-KFFLQQRCRFGTNCR 163 (497)
Q Consensus 101 ~~~~~vG~kC~A~~~--dG~-~Y~A~I~~i~~~~--~vrV~Fl~pt~~~-----------~~pC-~~fl~g~C~f~~~Cr 163 (497)
...|.+|+ +=|.|. ||- -|-|+|..|.... .++|.+|.|.... ...| .|-+.....+.....
T Consensus 25 ~~~F~~gQ-IWAlYd~~D~mPR~Ya~I~kV~~~~~Fkl~i~wLe~~~~~e~~~~w~~~~~pvsCG~Fk~~~~~~~~~~~~ 103 (217)
T PF11926_consen 25 EEKFQVGQ-IWALYDDDDGMPRYYARIKKVDSSNPFKLHITWLEPCPDSEEEIRWEDEGLPVSCGTFKVGKTEEIDDPNM 103 (217)
T ss_pred HHhCCCCC-EEEEeeCCCCCeeeEEEEEEEecCCCeEEEEEEccccCCcccceeeeecCCceEEEEEEeCCEEEeccCCc
Confidence 45677776 456775 564 4669999887653 7999999998743 2238 555544466777777
Q ss_pred cCCCcccCcccccccCCCCcccc-cCCCeEEEeecC
Q 010937 164 LSHGIDVPLSFLKKYVPTSWEQS-LVGSTIWALSDD 198 (497)
Q Consensus 164 ~sHg~~v~~~~L~~~~~pd~~~l-~~Gs~~la~~~~ 198 (497)
|||-.......-+ -.|.-. +.|. |||.++.
T Consensus 104 FSH~v~~~~~~~~----~~y~IyPrkGE-vWAlYkn 134 (217)
T PF11926_consen 104 FSHQVVPWTSGKR----NEYEIYPRKGE-VWALYKN 134 (217)
T ss_pred EEEEEEEeecCCC----ceEEEeCCccc-EeEEecC
Confidence 9995422211111 112222 3444 9999763
No 130
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways. DNA damage induces Rad9 phosphorylation, and Rad53 specifically associates with this region of Rad9, when phosphorylated, via the Rad53 IPR000253 from INTERPRO domain []. There is no clear higher eukaryotic ortholog to Rad9.
Probab=30.77 E-value=89 Score=28.72 Aligned_cols=48 Identities=15% Similarity=0.108 Sum_probs=34.5
Q ss_pred cccCCCeEEEeecCCCCceEeeEEeeeeCCCceEEEEEeCCCCceeecccccc
Q 010937 185 QSLVGSTIWALSDDKVGIWRKAELGSWDDEHRMGEVVFRDDGSSAKLGIEAMT 237 (497)
Q Consensus 185 ~l~~Gs~~la~~~~~dglW~~a~i~~~d~~~~~~~V~f~~~g~~~~~~~d~~~ 237 (497)
.|.-..++|+-+ +.-+|+|++...+.+...+.|.|+++. ..+..+.|.
T Consensus 9 dI~~~~avW~~~---~~~yYPa~~~~~~~~~~~~~V~Fedg~--~~i~~~dv~ 56 (131)
T PF08605_consen 9 DIIFENAVWAGY---NLKYYPATCVGSGVDRDRSLVRFEDGT--YEIKNEDVK 56 (131)
T ss_pred HEecccceeecC---CCeEeeEEEEeecCCCCeEEEEEecCc--eEeCcccEe
Confidence 444456789863 577999999999776667999999876 455444443
No 131
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=29.97 E-value=3.6e+02 Score=24.58 Aligned_cols=10 Identities=40% Similarity=0.441 Sum_probs=6.3
Q ss_pred eeeccccccc
Q 010937 388 FSLINNQLRV 397 (497)
Q Consensus 388 FdfiN~~L~~ 397 (497)
++|||.+|.+
T Consensus 4 ~~yiN~~L~s 13 (151)
T PF11559_consen 4 IEYINQQLLS 13 (151)
T ss_pred HHHHHHHHHH
Confidence 4567776664
No 132
>PF08169 RBB1NT: RBB1NT (NUC162) domain; InterPro: IPR012603 This domain is found N-terminal to the ARID/BRIGHT domain in DNA-binding proteins of the Retinoblastoma-binding protein 1 family [].; PDB: 2YRV_A.
Probab=29.43 E-value=76 Score=27.75 Aligned_cols=30 Identities=10% Similarity=0.281 Sum_probs=17.2
Q ss_pred CCCCeeEEEeC--CCceeeeEEEeeccCCceE
Q 010937 105 SVGSKCRFRYN--DGRWYDGRIIGLEETDSAK 134 (497)
Q Consensus 105 ~vG~kC~A~~~--dG~~Y~A~I~~i~~~~~vr 134 (497)
++|--|..--. -+.||||.|++-+...+++
T Consensus 7 llGkVV~V~~~~~k~~W~PALVVsPsc~ddv~ 38 (96)
T PF08169_consen 7 LLGKVVCVESTKKKTSWFPALVVSPSCNDDVT 38 (96)
T ss_dssp STTSEEEEE-SS-SS-EEEEEEE--SS-SS--
T ss_pred hcCcEEEEEcCCCCCceeeEEEEcCCccceee
Confidence 68888887544 3469999999866555443
No 133
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=29.32 E-value=61 Score=38.23 Aligned_cols=40 Identities=25% Similarity=0.727 Sum_probs=32.2
Q ss_pred ccCCCCCCeeEEEeC-----CCceeeeEEEeecc-------C--CceEEEEecC
Q 010937 101 DQRYSVGSKCRFRYN-----DGRWYDGRIIGLEE-------T--DSAKVSFLRP 140 (497)
Q Consensus 101 ~~~~~vG~kC~A~~~-----dG~~Y~A~I~~i~~-------~--~~vrV~Fl~p 140 (497)
..+|..+++|+.-|. ||.|+.++|.++.. + ..++|.|.+-
T Consensus 976 QrnW~~~d~crvwwrda~~e~g~WWeG~ils~~pksp~fpdSpwery~v~~~~~ 1029 (1113)
T KOG0644|consen 976 QRNWTCRDKCRVWWRDAGEEDGAWWEGRILSVKPKSPDFPDSPWERYIVRYDNT 1029 (1113)
T ss_pred hhccccccceeEEEccCCCcCCceeeeeeeeccCCCCCCCCCcceeEEEEecCC
Confidence 458999999999995 67899999999854 1 2688888763
No 134
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=29.01 E-value=88 Score=26.32 Aligned_cols=49 Identities=16% Similarity=0.262 Sum_probs=34.5
Q ss_pred cCCCeEEEeecCCCCceEeeEEeeeeCC------CceEEEEEeCCCCceeecccccc
Q 010937 187 LVGSTIWALSDDKVGIWRKAELGSWDDE------HRMGEVVFRDDGSSAKLGIEAMT 237 (497)
Q Consensus 187 ~~Gs~~la~~~~~dglW~~a~i~~~d~~------~~~~~V~f~~~g~~~~~~~d~~~ 237 (497)
.+|..||||-+ .--|=+|+|.+.+.. .+.+.|.|=++...+-+..+.|.
T Consensus 2 ~vGDlVWaK~k--g~pwWP~~V~~~~~~~~~~~~~~~~~V~fFGs~~~a~v~~~~l~ 56 (87)
T cd05835 2 NVGDLVWGKIK--GFPWWPGRVVSITVTSKRPPVVGMRWVTWFGSGTFSEVSVDKLS 56 (87)
T ss_pred CCCCEEEEecC--CCCCCCeEEechhhcccccCCCCeEEEEEeCCCCEeEECHHHCc
Confidence 47999999954 666999999887542 25588888776666556544443
No 135
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=28.73 E-value=29 Score=36.08 Aligned_cols=27 Identities=37% Similarity=0.907 Sum_probs=20.9
Q ss_pred CCCccccchhhhhh-------c---cccCC-CccccCC
Q 010937 140 PTSENMLMCKFFLQ-------Q---RCRFG-TNCRLSH 166 (497)
Q Consensus 140 pt~~~~~pC~~fl~-------g---~C~f~-~~Cr~sH 166 (497)
|-...-+.|.|||+ | .|.+| ..|.|.|
T Consensus 151 ~k~~tdiVCKfFLeAvE~~kYGWfW~CPnGg~~C~YrH 188 (343)
T KOG1763|consen 151 PKPTTDIVCKFFLEAVENGKYGWFWECPNGGDKCIYRH 188 (343)
T ss_pred CCCchhHHHHHHHHHHhcCCccceeECCCCCCeeeeee
Confidence 44445678999998 2 49998 4899999
No 136
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.71 E-value=3.4e+02 Score=22.56 Aligned_cols=51 Identities=16% Similarity=0.226 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhH
Q 010937 435 DLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEVSSR 488 (497)
Q Consensus 435 ~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~~ 488 (497)
.++.+|..|+.-++.+ -.+++.|...|.+.+..+..++++++-+++.+.+.
T Consensus 5 ~lE~Ri~eLE~r~AfQ---E~tieeLn~~laEq~~~i~k~q~qlr~L~~kl~~~ 55 (72)
T COG2900 5 ELEARIIELEIRLAFQ---EQTIEELNDALAEQQLVIDKLQAQLRLLTEKLKDL 55 (72)
T ss_pred hHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4566666666666554 46788888999999999999999999999888664
No 137
>PF14085 DUF4265: Domain of unknown function (DUF4265)
Probab=28.69 E-value=1.2e+02 Score=26.91 Aligned_cols=42 Identities=17% Similarity=0.301 Sum_probs=33.9
Q ss_pred ccCCCCCCeeEEEeCCCceeeeEEEeeccCCceEEEEecCCC
Q 010937 101 DQRYSVGSKCRFRYNDGRWYDGRIIGLEETDSAKVSFLRPTS 142 (497)
Q Consensus 101 ~~~~~vG~kC~A~~~dG~~Y~A~I~~i~~~~~vrV~Fl~pt~ 142 (497)
......||.+.+...+|.++-..++.-.|+.++||+|..+..
T Consensus 23 a~glA~gDvV~~~~~~g~~~~~~~v~~sGnsTiRv~~~~~~~ 64 (117)
T PF14085_consen 23 AYGLALGDVVRAEPDDGELWFQKVVESSGNSTIRVIFDDPGP 64 (117)
T ss_pred cCCCCCCCEEEEEeCCCeEEEEEEEecCCCEEEEEEEcCCcc
Confidence 346788999999998888666666666778899999999865
No 138
>PRK04325 hypothetical protein; Provisional
Probab=28.62 E-value=3.3e+02 Score=22.41 Aligned_cols=27 Identities=11% Similarity=0.115 Sum_probs=13.3
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccC
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKN 452 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~ 452 (497)
+..++.++.-.+.-|+.|++.++++.+
T Consensus 11 i~~LE~klAfQE~tIe~LN~vv~~Qq~ 37 (74)
T PRK04325 11 ITELEIQLAFQEDLIDGLNATVARQQQ 37 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555555555555554443
No 139
>PHA02562 46 endonuclease subunit; Provisional
Probab=28.56 E-value=2e+02 Score=31.71 Aligned_cols=50 Identities=18% Similarity=0.321 Sum_probs=23.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHH
Q 010937 429 YDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQ 478 (497)
Q Consensus 429 ~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~ 478 (497)
+.+.|..++.++..|..++.........+..+..++.+.+..+...+.+.
T Consensus 304 l~d~i~~l~~~l~~l~~~i~~~~~~~~~~~~~~~~i~el~~~i~~~~~~i 353 (562)
T PHA02562 304 IKDKLKELQHSLEKLDTAIDELEEIMDEFNEQSKKLLELKNKISTNKQSL 353 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555555333333334444444444444444444443
No 140
>PLN02678 seryl-tRNA synthetase
Probab=28.22 E-value=2.2e+02 Score=31.46 Aligned_cols=62 Identities=21% Similarity=0.199 Sum_probs=40.4
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHh
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEVSS 487 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~ 487 (497)
.++...++..|+.+...+...+...+....-.+.+..++..+.+++..++.++..+..++..
T Consensus 42 ~r~l~~~~e~lr~erN~~sk~I~~~k~~~~~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~~ 103 (448)
T PLN02678 42 WRQRQFELDSLRKEFNKLNKEVAKLKIAKEDATELIAETKELKKEITEKEAEVQEAKAALDA 103 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35556677777777777777776533333334566667777777777777777777666553
No 141
>PRK10884 SH3 domain-containing protein; Provisional
Probab=28.13 E-value=2.7e+02 Score=27.43 Aligned_cols=18 Identities=6% Similarity=0.028 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHhHHHH
Q 010937 467 TRKALAQAEAAQASASHE 484 (497)
Q Consensus 467 ~~~~L~~~~a~~~si~~~ 484 (497)
++.+..+|+.++..+.++
T Consensus 137 L~~~n~~L~~~l~~~~~~ 154 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKK 154 (206)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 142
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=27.43 E-value=1e+02 Score=24.76 Aligned_cols=36 Identities=19% Similarity=0.366 Sum_probs=28.8
Q ss_pred hhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHH
Q 010937 427 VAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMR 462 (497)
Q Consensus 427 ~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~ 462 (497)
-.++++|.-|+.+|++|+-.+.+-......++.+-+
T Consensus 28 ~El~eRIalLq~EIeRlkAe~~kK~~srsAAeaLFr 63 (65)
T COG5509 28 AELEERIALLQAEIERLKAELAKKKASRSAAEALFR 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhccHHHHHHHHh
Confidence 456889999999999999888887777777776644
No 143
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=27.29 E-value=2.4e+02 Score=31.94 Aligned_cols=59 Identities=14% Similarity=0.249 Sum_probs=37.7
Q ss_pred hcHHHHHHHHHHHHHHHHHHHhccCchHH----HHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 010937 428 AYDDEIKDLRVRVVKLEEMVNRNKNEKAV----FEAAMRKLNETRKALAQAEAAQASASHEVS 486 (497)
Q Consensus 428 ~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~----~~~i~~kL~~~~~~L~~~~a~~~si~~~~~ 486 (497)
-++++.++|++++.|++..+.-+...+.. ++.+...++++..++..++...++|.+.+.
T Consensus 263 slre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie 325 (581)
T KOG0995|consen 263 SLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIE 325 (581)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566777777777777776666654443 345555666677777777777766666554
No 144
>PTZ00464 SNF-7-like protein; Provisional
Probab=27.22 E-value=6.2e+02 Score=25.04 Aligned_cols=23 Identities=22% Similarity=0.382 Sum_probs=18.2
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVN 448 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~ 448 (497)
+-.++.+|+++..++.+.++.+.
T Consensus 27 ~~~l~kKi~~ld~E~~~ak~~~k 49 (211)
T PTZ00464 27 SEVVDARINKIDAELMKLKEQIQ 49 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 67778888888888888877774
No 145
>COG2451 Ribosomal protein L35AE/L33A [Translation, ribosomal structure and biogenesis]
Probab=27.21 E-value=1e+02 Score=26.95 Aligned_cols=41 Identities=17% Similarity=0.537 Sum_probs=33.5
Q ss_pred ccCCCCCCeeEEEeC-CCceeeeEEEeecc-CCceEEEEecCC
Q 010937 101 DQRYSVGSKCRFRYN-DGRWYDGRIIGLEE-TDSAKVSFLRPT 141 (497)
Q Consensus 101 ~~~~~vG~kC~A~~~-dG~~Y~A~I~~i~~-~~~vrV~Fl~pt 141 (497)
+..+.+|-.+..+|. .|.-|.++|+-+.| ++.||+.|.+++
T Consensus 40 eA~~y~gk~v~yk~~~~G~Vi~G~V~R~HGnsGaVrarF~~~L 82 (100)
T COG2451 40 EAQFYLGKRVCYKYRSSGRVIKGKVVRTHGNSGAVRARFERNL 82 (100)
T ss_pred HHHhhhccEEEEEeCCCCcEEEEEEEEecCCcceEEEEecCCC
Confidence 456788888888886 59999999999987 457899999873
No 146
>KOG2991 consensus Splicing regulator [RNA processing and modification]
Probab=27.16 E-value=1.3e+02 Score=30.96 Aligned_cols=40 Identities=18% Similarity=0.110 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhc---cCCC-CHHHHHHHHHHHHHH
Q 010937 12 QLEQQLNEQRDSLTALNDAVA---SDPF-NPELQEVLKELVQAI 51 (497)
Q Consensus 12 ~Le~~L~~Yk~QLqQVe~aL~---~DP~-n~ELl~Lk~DL~elI 51 (497)
++-.+++.|+.|++---.+|. +||. |-.++.||.+|++--
T Consensus 147 e~~sqi~~lK~qq~Ps~~qlR~~llDPAinl~F~rlK~ele~tk 190 (330)
T KOG2991|consen 147 ECTSQIQYLKQQQQPSVAQLRSTLLDPAINLFFLRLKGELEQTK 190 (330)
T ss_pred HHHHHHHHHHHhhCcHHHHHHHHhhChHHHHHHHHHHHHHHHHH
Confidence 445677777777766555554 7898 888999999887643
No 147
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.61 E-value=26 Score=36.34 Aligned_cols=21 Identities=29% Similarity=0.918 Sum_probs=17.6
Q ss_pred chhhhhh-ccccCCCccccCCC
Q 010937 147 MCKFFLQ-QRCRFGTNCRLSHG 167 (497)
Q Consensus 147 pC~~fl~-g~C~f~~~Cr~sHg 167 (497)
.|+-|-+ |.|-||..|.|.|.
T Consensus 188 icKdykeTgycg~gdSckFlh~ 209 (313)
T KOG1813|consen 188 ICKDYKETGYCGYGDSCKFLHD 209 (313)
T ss_pred hhhhhHhhCcccccchhhhhhh
Confidence 4966655 99999999999994
No 148
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=26.59 E-value=2.8e+02 Score=26.45 Aligned_cols=60 Identities=15% Similarity=0.270 Sum_probs=36.6
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHH-----hccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVN-----RNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEV 485 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~-----Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~ 485 (497)
+...+++++.+.++.....+... .+++...-++.+..+|..++.++..++.|-.++.++.
T Consensus 127 l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~ey 191 (192)
T PF05529_consen 127 LIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQKEY 191 (192)
T ss_pred HHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 55556666666555544443332 3344566667777777777777777777777666553
No 149
>PRK02793 phi X174 lysis protein; Provisional
Probab=26.42 E-value=3.6e+02 Score=22.04 Aligned_cols=27 Identities=11% Similarity=0.194 Sum_probs=13.9
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccC
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKN 452 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~ 452 (497)
+...+.+|.=.+.-|+.|++.++++.+
T Consensus 10 i~~LE~~lafQe~tIe~Ln~~v~~Qq~ 36 (72)
T PRK02793 10 LAELESRLAFQEITIEELNVTVTAHEM 36 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555555555555555443
No 150
>PHA03395 p10 fibrous body protein; Provisional
Probab=26.10 E-value=2.2e+02 Score=24.46 Aligned_cols=60 Identities=17% Similarity=0.199 Sum_probs=48.6
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHEV 485 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~ 485 (497)
|..+...|+.+-.++--|+..+..=+....-+..|..+|.+.-.+|+.+..+...|....
T Consensus 6 Ll~Ir~dIkavd~KVdalQ~~V~~l~~nlpdv~~l~~kLdaq~~~Ltti~tkv~~I~diL 65 (87)
T PHA03395 6 LLLIRQDIKAVSDKVDALQAAVDDVRANLPDVTEINEKLDAQSASLDTISSAVDNITDIL 65 (87)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHhcCCcHHHHHHHHHhHHHHHHHHHHHHHHHHHcc
Confidence 677788888888888888888887777777788899999999888888887777776543
No 151
>PRK01203 prefoldin subunit alpha; Provisional
Probab=26.08 E-value=1e+02 Score=28.39 Aligned_cols=21 Identities=19% Similarity=0.208 Sum_probs=15.3
Q ss_pred CCeeEEEeCCCceeeeEEEee
Q 010937 107 GSKCRFRYNDGRWYDGRIIGL 127 (497)
Q Consensus 107 G~kC~A~~~dG~~Y~A~I~~i 127 (497)
|...+.|-+.|-|-+|.|...
T Consensus 48 ~~eiLVPLg~slYV~gki~d~ 68 (130)
T PRK01203 48 SKELLISIGSGIFADGNIKKD 68 (130)
T ss_pred CCeEEEEccCCceEeEEecCC
Confidence 456777887777888888643
No 152
>smart00536 AXH domain in Ataxins and HMG containing proteins. unknown function
Probab=26.06 E-value=74 Score=28.74 Aligned_cols=35 Identities=17% Similarity=0.178 Sum_probs=21.7
Q ss_pred hhhhh--ccccCCCccccCCCcccCcccccccCCCCcccccCCCeEEEe
Q 010937 149 KFFLQ--QRCRFGTNCRLSHGIDVPLSFLKKYVPTSWEQSLVGSTIWAL 195 (497)
Q Consensus 149 ~~fl~--g~C~f~~~Cr~sHg~~v~~~~L~~~~~pd~~~l~~Gs~~la~ 195 (497)
|||.. |+|.|... -.++.|. .+=.+|++|..||..
T Consensus 77 PfFV~gqGWsSc~P~-----------lT~~~yg-L~C~~L~vGDVCl~l 113 (116)
T smart00536 77 PFFVKGKGWSSCYPS-----------LTVQLYG-LPCCELQVGDVCLSL 113 (116)
T ss_pred CeEEcCccccccChh-----------hhhhhcC-CcceecccCCEEecc
Confidence 48887 77766532 1222232 224689999999975
No 153
>PF11623 DUF3252: Protein of unknown function (DUF3252); InterPro: IPR021659 This family of proteins has no known function. Some members are annotated as Ssl0352 however this cannot be confirmed. Currently there is no known function. ; PDB: 3C4S_B 2JZ2_A.
Probab=25.39 E-value=1.7e+02 Score=22.90 Aligned_cols=35 Identities=23% Similarity=0.264 Sum_probs=24.3
Q ss_pred ccCCCeEEEeecCCCCce--EeeEEeeeeCCCceEEEEEeC
Q 010937 186 SLVGSTIWALSDDKVGIW--RKAELGSWDDEHRMGEVVFRD 224 (497)
Q Consensus 186 l~~Gs~~la~~~~~dglW--~~a~i~~~d~~~~~~~V~f~~ 224 (497)
|.+|+.|.+++ ++.+| |.+.|..|.+ +...|.|+.
T Consensus 2 ilPG~~V~V~n--~~~~Y~~y~G~VQRvsd--gkaaVLFEG 38 (53)
T PF11623_consen 2 ILPGSTVRVKN--PNDIYYGYEGFVQRVSD--GKAAVLFEG 38 (53)
T ss_dssp --TT-EEEE----TTSTTTT-EEEEEEEET--TEEEEEEEE
T ss_pred ccCCCEEEEeC--CCCccchheEEEEEeeC--CeEEEEecC
Confidence 57899999985 46666 5788999998 678999997
No 154
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=25.37 E-value=3.5e+02 Score=29.00 Aligned_cols=27 Identities=19% Similarity=0.297 Sum_probs=21.2
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccC
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKN 452 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~ 452 (497)
+.++.++|..+++.|..|+.++.-..+
T Consensus 267 l~~~~~ei~~~e~~i~~L~~ai~~k~~ 293 (384)
T PF03148_consen 267 LKKTLQEIAEMEKNIEDLEKAIRDKEG 293 (384)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 677888888888888888888765444
No 155
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways. DNA damage induces Rad9 phosphorylation, and Rad53 specifically associates with this region of Rad9, when phosphorylated, via the Rad53 IPR000253 from INTERPRO domain []. There is no clear higher eukaryotic ortholog to Rad9.
Probab=25.27 E-value=73 Score=29.26 Aligned_cols=29 Identities=14% Similarity=0.224 Sum_probs=21.1
Q ss_pred EEeC--CCceeeeEEEeeccCC-ceEEEEecC
Q 010937 112 FRYN--DGRWYDGRIIGLEETD-SAKVSFLRP 140 (497)
Q Consensus 112 A~~~--dG~~Y~A~I~~i~~~~-~vrV~Fl~p 140 (497)
|.|. +-.||||+|++...+. ++.|.|..-
T Consensus 15 avW~~~~~~yYPa~~~~~~~~~~~~~V~Fedg 46 (131)
T PF08605_consen 15 AVWAGYNLKYYPATCVGSGVDRDRSLVRFEDG 46 (131)
T ss_pred ceeecCCCeEeeEEEEeecCCCCeEEEEEecC
Confidence 4564 3469999999985433 699999874
No 156
>KOG4053 consensus Ataxin-1, involved in Ca2+ homeostasis [Function unknown]
Probab=25.19 E-value=1e+02 Score=30.30 Aligned_cols=66 Identities=14% Similarity=0.146 Sum_probs=44.9
Q ss_pred eeeeEEEeeccC---CceEEEEecCCCccccc--h----hhhhh--ccccCCCccccCCCcccCcccccccCCCCccccc
Q 010937 119 WYDGRIIGLEET---DSAKVSFLRPTSENMLM--C----KFFLQ--QRCRFGTNCRLSHGIDVPLSFLKKYVPTSWEQSL 187 (497)
Q Consensus 119 ~Y~A~I~~i~~~---~~vrV~Fl~pt~~~~~p--C----~~fl~--g~C~f~~~Cr~sHg~~v~~~~L~~~~~pd~~~l~ 187 (497)
--.++|+.|+.+ +-|.+.|.+-+|+++.+ | +||.- |+|.+... ..++-|. .+-+.|+
T Consensus 72 idsstVvrI~~S~~pg~vti~F~~g~h~akv~levq~ehPfFVyGqGWsSC~P~-----------rs~qly~-L~C~~Lq 139 (224)
T KOG4053|consen 72 IDSSTVVRIKSSGCPGSVTIIFEVGEHKAKVSLEVQVEHPFFVYGQGWSSCNPR-----------RSGQLYG-LPCEILQ 139 (224)
T ss_pred eecceEEEeeccCCCceEEEEEEeccccccceeeccCCCceEEecccccccCcc-----------ccccccC-Ccceeee
Confidence 346778888765 36899999999998877 3 67764 77765432 2333333 3367889
Q ss_pred CCCeEEEee
Q 010937 188 VGSTIWALS 196 (497)
Q Consensus 188 ~Gs~~la~~ 196 (497)
+|..|+...
T Consensus 140 VgDVCisLt 148 (224)
T KOG4053|consen 140 VGDVCISLT 148 (224)
T ss_pred ecCEEEEee
Confidence 999999763
No 157
>PF09740 DUF2043: Uncharacterized conserved protein (DUF2043); InterPro: IPR018610 This entry consists of uncharacterised proteins of unknown function. They contain three conserved cysteines and a {CP}{y/l}{HG} motif.
Probab=25.09 E-value=54 Score=29.35 Aligned_cols=54 Identities=19% Similarity=0.240 Sum_probs=39.2
Q ss_pred eeEEEeec---cCCceEEEEecCCCccccchhhhhh--ccccCC--CccccCCCcccCcccc
Q 010937 121 DGRIIGLE---ETDSAKVSFLRPTSENMLMCKFFLQ--QRCRFG--TNCRLSHGIDVPLSFL 175 (497)
Q Consensus 121 ~A~I~~i~---~~~~vrV~Fl~pt~~~~~pC~~fl~--g~C~f~--~~Cr~sHg~~v~~~~L 175 (497)
.+.|.+.. -.....|+|..+.......|+.-|. +-|... ..|-| ||..|+=++.
T Consensus 42 d~~v~~~~~~~~~~~r~i~f~g~~e~v~~~CrAPL~~G~LC~RrD~~kCPf-HG~IIpRD~~ 102 (110)
T PF09740_consen 42 DEEVPSADIAELLRSRTITFEGEFEPVPHACRAPLPNGGLCPRRDRKKCPF-HGKIIPRDDE 102 (110)
T ss_pred cccccHHHHHHHhheeeEeecCccCcCchhhcCCCCCCCcCCccCcccCCC-CCcccCCCCC
Confidence 45554432 1235679999988887777999988 678765 57877 9999987765
No 158
>PF10283 zf-CCHH: Zinc-finger (CX5CX6HX5H) motif; InterPro: IPR019406 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 Znf motif that in humans is part of the APLF (aprataxin- and PNK-like) forkead association domain-containing protein []. The Znf is highly conserved both in primary sequence and in the spacing between the putative zinc coordinating residues, and is configured CX5CX6HX5H. Many of the proteins containing this Znf are involved in DNA strand break repair and/or contain domains implicated in DNA metabolism. This Znf motif appears to be specialised for the non-covalent binding of poly ADP-ribose; Aprataxin also appears to covalently bind poly ADP-ribose, but not through its Znf motif [].; PDB: 2KQC_A 2KUO_A 2KQE_A 2KQD_A 2KQB_A.
Probab=24.91 E-value=28 Score=23.31 Aligned_cols=9 Identities=33% Similarity=1.335 Sum_probs=5.8
Q ss_pred cccCCCccc
Q 010937 155 RCRFGTNCR 163 (497)
Q Consensus 155 ~C~f~~~Cr 163 (497)
.|.||.+|-
T Consensus 2 ~C~YG~~CY 10 (26)
T PF10283_consen 2 PCKYGAKCY 10 (26)
T ss_dssp E-TTGGG-S
T ss_pred CCCcchhhh
Confidence 489999996
No 159
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=24.22 E-value=5.3e+02 Score=23.35 Aligned_cols=57 Identities=16% Similarity=0.231 Sum_probs=33.8
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccC--chHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKN--EKAVFEAAMRKLNETRKALAQAEAAQASAS 482 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~--~~~~~~~i~~kL~~~~~~L~~~~a~~~si~ 482 (497)
...++..+.+|+.++.++...+....+ +...+..+.+++..+++++..+......|.
T Consensus 10 ~~~L~~~~~~le~~i~~~~~~~k~~~~~~~~~~A~~~lk~~k~~~k~~~~~~~~~~~l~ 68 (171)
T PF03357_consen 10 IRRLEKQIKRLEKKIKKLEKKAKKAIKKGNKERAKIYLKRKKRLEKQLEKLLNQLSNLE 68 (171)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHHHHHHCTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566666777777666665555443 556666666666666666666555544443
No 160
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=24.21 E-value=2.2e+02 Score=22.56 Aligned_cols=39 Identities=26% Similarity=0.437 Sum_probs=28.6
Q ss_pred HHhhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHH
Q 010937 424 RDLVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMR 462 (497)
Q Consensus 424 r~l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~ 462 (497)
+.+-+.+.+|.+++.+...|+..+.+-+.+...++.+.+
T Consensus 24 ~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~AR 62 (80)
T PF04977_consen 24 QEIAELQKEIEELKKENEELKEEIERLKNDPDYIEKVAR 62 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 346677788888888888888888887667766666654
No 161
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=24.06 E-value=60 Score=36.06 Aligned_cols=24 Identities=25% Similarity=0.369 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHH
Q 010937 463 KLNETRKALAQAEAAQASASHEVS 486 (497)
Q Consensus 463 kL~~~~~~L~~~~a~~~si~~~~~ 486 (497)
+|+++++||++|+++...+.+.|.
T Consensus 32 kie~L~kql~~Lk~q~~~l~~~v~ 55 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDLNDRVD 55 (489)
T ss_pred HHHHHHHHHHHHHHhhcccccccc
Confidence 666666666666666665555553
No 162
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=23.59 E-value=39 Score=38.60 Aligned_cols=16 Identities=56% Similarity=1.383 Sum_probs=9.7
Q ss_pred hhhhhhccccCCCccc
Q 010937 148 CKFFLQQRCRFGTNCR 163 (497)
Q Consensus 148 C~~fl~g~C~f~~~Cr 163 (497)
|+|+-.-.|||+.+|.
T Consensus 639 C~F~HPk~cRf~~~c~ 654 (681)
T KOG3702|consen 639 CKFYHPKTCRFNTNCP 654 (681)
T ss_pred ccccCCccccccccCC
Confidence 5555556666666665
No 163
>PF11623 DUF3252: Protein of unknown function (DUF3252); InterPro: IPR021659 This family of proteins has no known function. Some members are annotated as Ssl0352 however this cannot be confirmed. Currently there is no known function. ; PDB: 3C4S_B 2JZ2_A.
Probab=23.44 E-value=1.4e+02 Score=23.30 Aligned_cols=35 Identities=23% Similarity=0.361 Sum_probs=24.0
Q ss_pred CCCCCeeEEEeCCCce--eeeEEEeeccCCceEEEEec
Q 010937 104 YSVGSKCRFRYNDGRW--YDGRIIGLEETDSAKVSFLR 139 (497)
Q Consensus 104 ~~vG~kC~A~~~dG~~--Y~A~I~~i~~~~~vrV~Fl~ 139 (497)
.++|+.+...-.+..| |.+.|.-|+++ ++.|+|.+
T Consensus 2 ilPG~~V~V~n~~~~Y~~y~G~VQRvsdg-kaaVLFEG 38 (53)
T PF11623_consen 2 ILPGSTVRVKNPNDIYYGYEGFVQRVSDG-KAAVLFEG 38 (53)
T ss_dssp --TT-EEEE--TTSTTTT-EEEEEEEETT-EEEEEEEE
T ss_pred ccCCCEEEEeCCCCccchheEEEEEeeCC-eEEEEecC
Confidence 4789999988766576 58888888876 68999987
No 164
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=23.37 E-value=4e+02 Score=22.27 Aligned_cols=58 Identities=9% Similarity=0.111 Sum_probs=44.3
Q ss_pred hhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 010937 427 VAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASASHE 484 (497)
Q Consensus 427 ~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~ 484 (497)
......+..++.++.+.+..+....+=...++.-..+|..++.++...++-+..+.+.
T Consensus 24 kd~~~~~~~lk~Klq~ar~~i~~lpgi~~s~eeq~~~i~~Le~~i~~k~~~L~~~~~~ 81 (83)
T PF07544_consen 24 KDLDTATGSLKHKLQKARAAIRELPGIDRSVEEQEEEIEELEEQIRKKREVLQKFKER 81 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4456778888899999999999988866666677778888888887777776665543
No 165
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=22.21 E-value=4.6e+02 Score=27.04 Aligned_cols=62 Identities=18% Similarity=0.208 Sum_probs=49.0
Q ss_pred HhhhcHHHHHHHHHHHHHHHHHHHhccC-chHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 010937 425 DLVAYDDEIKDLRVRVVKLEEMVNRNKN-EKAVFEAAMRKLNETRKALAQAEAAQASASHEVS 486 (497)
Q Consensus 425 ~l~~~~e~i~~l~~~i~kL~e~l~Rn~~-~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~ 486 (497)
.|.+++-..+.|+.+.++|...+.||+. .-.-+.+.-+++..++..|+++.+.-.++.+++.
T Consensus 53 qL~q~etrnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsqt~aikeql~kyiR 115 (333)
T KOG1853|consen 53 QLDQLETRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQTHAIKEQLRKYIR 115 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3788888888888889999988888885 6666677777788888888888888777776664
No 166
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=22.08 E-value=5e+02 Score=25.73 Aligned_cols=61 Identities=15% Similarity=0.289 Sum_probs=29.5
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchH----HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKA----VFEAAMRKLNETRKALAQAEAAQASASHEVS 486 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~----~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~ 486 (497)
+-+...+|.+.+.++.++++.+..-..... ..+.....+...+..+...+..+..+...+.
T Consensus 79 i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~ 143 (302)
T PF10186_consen 79 IERLRKRIEQKRERLEELRESLEQRRSRLSASQDLVESRQEQLEELQNELEERKQRLSQLQSQLA 143 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555554443222 3334444455555555555555444444443
No 167
>PRK00736 hypothetical protein; Provisional
Probab=21.56 E-value=4.4e+02 Score=21.29 Aligned_cols=29 Identities=7% Similarity=0.140 Sum_probs=18.8
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCch
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEK 454 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~ 454 (497)
+-.++.+|.-...-|+.|++.++++.+..
T Consensus 7 i~~LE~klafqe~tie~Ln~~v~~Qq~~i 35 (68)
T PRK00736 7 LTELEIRVAEQEKTIEELSDQLAEQWKTV 35 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666667777777776665543
No 168
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=21.33 E-value=2.3e+02 Score=34.23 Aligned_cols=56 Identities=18% Similarity=0.256 Sum_probs=37.3
Q ss_pred hhcHHHHHHHHHHHHHHHHHHHhccC-----------chHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 010937 427 VAYDDEIKDLRVRVVKLEEMVNRNKN-----------EKAVFEAAMRKLNETRKALAQAEAAQASAS 482 (497)
Q Consensus 427 ~~~~e~i~~l~~~i~kL~e~l~Rn~~-----------~~~~~~~i~~kL~~~~~~L~~~~a~~~si~ 482 (497)
+..+.++.+|++++.+|+..+++-.+ -..+++.-..||.+.+.+|..++..++.+.
T Consensus 925 id~~~E~~rL~K~l~kl~~ei~~~~~kL~N~~F~~kAp~~vve~e~~kl~~~~~~l~~l~~~l~~l~ 991 (995)
T PTZ00419 925 IDLKKELAKLEKKLAKLQKSLESYLKKISIPNYEDKVPEDVRKLNDEKIDELNEEIKQLEQAIEELK 991 (995)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567777777777777777765443 335666667777777777777777666653
No 169
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=21.23 E-value=5.3e+02 Score=25.57 Aligned_cols=7 Identities=43% Similarity=0.672 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 010937 437 RVRVVKL 443 (497)
Q Consensus 437 ~~~i~kL 443 (497)
+.++..|
T Consensus 69 ~~r~~~l 75 (302)
T PF10186_consen 69 RERLERL 75 (302)
T ss_pred HHHHHHH
Confidence 3333333
No 170
>PF14915 CCDC144C: CCDC144C protein coiled-coil region
Probab=21.17 E-value=4.2e+02 Score=27.77 Aligned_cols=65 Identities=12% Similarity=0.206 Sum_probs=50.0
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccC----chHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHh
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKN----EKAVFEAAMRKLNETRKALAQAEAAQASASHEVSSREK 490 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~----~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~~~~ 490 (497)
|-..+-.+.|++..+..++.|.....+ ...-.+.++++|..++.+..-|+.++..+.+....++|
T Consensus 181 lE~~QrdL~Qtq~q~KE~e~m~qne~~kv~k~~~Kqes~eERL~QlqsEN~LLrQQLddA~~K~~~kek 249 (305)
T PF14915_consen 181 LESVQRDLSQTQCQIKEIEHMYQNEQDKVNKYIGKQESLEERLSQLQSENMLLRQQLDDAHNKADNKEK 249 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566777888888888888665443 23334778999999999999999999999888887775
No 171
>PF10819 DUF2564: Protein of unknown function (DUF2564) ; InterPro: IPR020314 This entry contains proteins with no known function.
Probab=21.06 E-value=5.2e+02 Score=21.91 Aligned_cols=57 Identities=18% Similarity=0.320 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHHHhccC--chHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhH
Q 010937 432 EIKDLRVRVVKLEEMVNRNKN--EKAVFEAAMRKLNETRKALAQAEAAQASASHEVSSR 488 (497)
Q Consensus 432 ~i~~l~~~i~kL~e~l~Rn~~--~~~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~~~ 488 (497)
++++++--|+-.+.++---+. ++...+.+...|+.+|.+|.+.+.....+-..|-..
T Consensus 4 d~kQve~aVetAqkmvG~AT~smdp~~Le~A~qAve~Ar~ql~~a~~~at~lD~~Fl~~ 62 (79)
T PF10819_consen 4 DLKQVEMAVETAQKMVGQATMSMDPDQLEHATQAVEDAREQLSQAKSHATGLDEPFLQQ 62 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence 467777777777777655553 889999999999999999999887766666665443
No 172
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=20.67 E-value=4.6e+02 Score=24.38 Aligned_cols=56 Identities=16% Similarity=0.226 Sum_probs=35.7
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEKAVFEAAMRKLNETRKALAQAEAAQASAS 482 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~~~~~~i~~kL~~~~~~L~~~~a~~~si~ 482 (497)
+....+++..|+.++..|+..|+.=.... ..+.|...+.+++.++..+...+..+.
T Consensus 81 i~~L~~el~~l~~~~k~l~~eL~~L~~~~-t~~el~~~i~~l~~e~~~l~~kL~~l~ 136 (169)
T PF07106_consen 81 IKELREELAELKKEVKSLEAELASLSSEP-TNEELREEIEELEEEIEELEEKLEKLR 136 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66677788888888888877766544433 234466666666666666666655544
No 173
>PF07730 HisKA_3: Histidine kinase; InterPro: IPR011712 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represetns the dimerisation and phosphoacceptor domain of a sub-family of histidine kinases. It shares sequence similarity with IPR003661 from INTERPRO and IPR011102 from INTERPRO.; GO: 0000155 two-component sensor activity, 0046983 protein dimerization activity, 0000160 two-component signal transduction system (phosphorelay), 0016021 integral to membrane; PDB: 3GIE_B 3GIG_A 3EHJ_B 3EHH_B 3GIF_B 3EHF_B 3EHG_A.
Probab=20.61 E-value=3.9e+02 Score=20.34 Aligned_cols=51 Identities=27% Similarity=0.378 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCC--CHHHHHHHHHHHHHHHHHHHhhhhh
Q 010937 11 NQLEQQLNEQRDSLTALNDAVASDPF--NPELQEVLKELVQAIKDAEEGLFHL 61 (497)
Q Consensus 11 ~~Le~~L~~Yk~QLqQVe~aL~~DP~--n~ELl~Lk~DL~elI~LTee~L~~l 61 (497)
..+-..|..-..+|+.+...+..+|. ...|..+++-+.+.+.-....+..+
T Consensus 11 D~v~q~L~~i~~~l~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~R~~~~~L 63 (68)
T PF07730_consen 11 DGVGQSLTAIKMQLEALRRRLADDPEEAREELEEIRELLREALQELRRIIHEL 63 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred hHHHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566777888888888888865554 2335555555555555554444443
No 174
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=20.61 E-value=3.8e+02 Score=26.42 Aligned_cols=49 Identities=22% Similarity=0.286 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhcc--CCCCHHHHHHHHHHHHHHHHHHHhhhh
Q 010937 12 QLEQQLNEQRDSLTALNDAVAS--DPFNPELQEVLKELVQAIKDAEEGLFH 60 (497)
Q Consensus 12 ~Le~~L~~Yk~QLqQVe~aL~~--DP~n~ELl~Lk~DL~elI~LTee~L~~ 60 (497)
.|.-+|+++...|..|+.+-.. .+.+....-+|.+|++|..--+..|..
T Consensus 100 rLkrELa~Le~~l~~~~~~~~~~~~~~~~~~~lvk~e~EqLL~YK~~ql~~ 150 (195)
T PF12761_consen 100 RLKRELAELEEKLSKVEQAAESRRSDTDSKPALVKREFEQLLDYKERQLRE 150 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccCCcchHHHHHHHHHHHHHHHHHHHHh
Confidence 5788999999999999999986 444677888899999888765554443
No 175
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=20.49 E-value=6.1e+02 Score=25.80 Aligned_cols=61 Identities=13% Similarity=0.185 Sum_probs=43.4
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccCch---------HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKNEK---------AVFEAAMRKLNETRKALAQAEAAQASASHEVS 486 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~~~---------~~~~~i~~kL~~~~~~L~~~~a~~~si~~~~~ 486 (497)
+-..+.++.+++.++.++...+....... ..+.....+++.++.+|+.++++........+
T Consensus 144 i~~l~~~~~~~~~~~~~~~~~~~~E~~g~~~tg~~G~Gp~~~~~~~~~~~~~~~l~~l~~~~~~~~~~l~ 213 (301)
T PF14362_consen 144 IAALQAEIDQLEKEIDRAQQEAQCEIFGTGGTGVPGKGPRYKEKRAQLDAAQAELDTLQAQIDAAIAALD 213 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 45566777777777777777776655432 67788888888888888888887666655554
No 176
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=20.42 E-value=4.5e+02 Score=21.93 Aligned_cols=48 Identities=23% Similarity=0.356 Sum_probs=36.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhc-cCCC--CHHHHHHHHHHHHHHHHHH
Q 010937 7 RVLENQLEQQLNEQRDSLTALNDAVA-SDPF--NPELQEVLKELVQAIKDAE 55 (497)
Q Consensus 7 ~~iE~~Le~~L~~Yk~QLqQVe~aL~-~DP~--n~ELl~Lk~DL~elI~LTe 55 (497)
.-|- .|+.++..++.+++.+.+.+. .||+ ...=..|..+|..||..-|
T Consensus 17 ~vl~-~LqDE~~hm~~e~~~L~~~~~~~d~s~~~~~R~~L~~~l~~lv~~mE 67 (79)
T PF06657_consen 17 EVLK-ALQDEFGHMKMEHQELQDEYKQMDPSLGRRKRRDLEQELEELVKRME 67 (79)
T ss_pred HHHH-HHHHHHHHHHHHHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHHH
Confidence 3455 788999999999999988776 6777 3557778888888887654
No 177
>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12).
Probab=20.01 E-value=6.3e+02 Score=26.49 Aligned_cols=52 Identities=19% Similarity=0.302 Sum_probs=25.9
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHhccC--chHHH------HHHHHHHHHHHHHHHHHHHH
Q 010937 426 LVAYDDEIKDLRVRVVKLEEMVNRNKN--EKAVF------EAAMRKLNETRKALAQAEAA 477 (497)
Q Consensus 426 l~~~~e~i~~l~~~i~kL~e~l~Rn~~--~~~~~------~~i~~kL~~~~~~L~~~~a~ 477 (497)
+-..+.+|+.|+..|.+++..+..... +...+ +.++++|.++..+|+..+..
T Consensus 90 i~~l~~~i~~l~~~i~~y~~~~~~~~~~~~~~~~n~~~~~~~~t~~la~~t~~L~~~~~~ 149 (301)
T PF06120_consen 90 IEDLQKKIDSLKDQIKNYQQQLAEKGITENGYIINHLMSQADATRKLAEATRELAVAQER 149 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444555555555544444344322 22222 35677777777776655443
Done!