Query 017524
Match_columns 370
No_of_seqs 343 out of 1383
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 09:21:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017524.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017524hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1546 Metacaspase involved i 100.0 6.8E-79 1.5E-83 574.1 26.2 318 1-366 1-359 (362)
2 PF00656 Peptidase_C14: Caspas 100.0 1.2E-34 2.7E-39 270.4 14.8 218 82-317 1-230 (248)
3 cd00032 CASc Caspase, interleu 99.8 4.2E-18 9.1E-23 160.7 22.1 227 79-364 7-241 (243)
4 smart00115 CASc Caspase, inter 99.8 3.6E-17 7.8E-22 154.3 22.9 226 79-366 6-240 (241)
5 PF01650 Peptidase_C13: Peptid 99.5 5.5E-13 1.2E-17 126.8 15.5 192 82-319 1-235 (256)
6 COG4249 Uncharacterized protei 99.4 3.9E-13 8.5E-18 133.9 11.0 158 136-319 113-285 (380)
7 TIGR01053 LSD1 zinc finger dom 99.0 1.5E-10 3.2E-15 74.3 2.5 31 4-34 1-31 (31)
8 PF06943 zf-LSD1: LSD1 zinc fi 98.8 1.7E-09 3.7E-14 65.6 1.9 25 7-31 1-25 (25)
9 KOG1349 Gpi-anchor transamidas 98.3 8.6E-06 1.9E-10 76.2 12.2 190 79-316 26-263 (309)
10 PF14538 Raptor_N: Raptor N-te 98.3 5E-06 1.1E-10 73.4 9.2 106 102-229 43-151 (154)
11 KOG1348 Asparaginyl peptidases 98.1 5.7E-05 1.2E-09 73.9 13.5 132 76-229 40-213 (477)
12 COG5206 GPI8 Glycosylphosphati 97.8 0.00052 1.1E-08 64.8 13.3 190 78-315 25-262 (382)
13 COG4249 Uncharacterized protei 97.7 6.1E-06 1.3E-10 82.7 -0.1 213 80-339 2-222 (380)
14 PF12770 CHAT: CHAT domain 96.9 0.011 2.4E-07 56.2 11.8 180 85-320 82-270 (287)
15 KOG1517 Guanine nucleotide bin 96.8 0.005 1.1E-07 67.6 8.9 168 100-298 137-312 (1387)
16 PF13719 zinc_ribbon_5: zinc-r 95.2 0.012 2.6E-07 39.3 1.8 31 3-33 1-36 (37)
17 PF13717 zinc_ribbon_4: zinc-r 94.0 0.044 9.6E-07 36.4 2.3 29 3-31 1-34 (36)
18 PF10122 Mu-like_Com: Mu-like 93.0 0.081 1.7E-06 37.8 2.3 36 1-36 1-38 (51)
19 TIGR02098 MJ0042_CXXC MJ0042 f 92.3 0.089 1.9E-06 35.0 1.8 32 3-34 1-37 (38)
20 PRK00398 rpoP DNA-directed RNA 91.0 0.18 4E-06 35.1 2.2 29 3-31 2-30 (46)
21 KOG1985 Vesicle coat complex C 85.8 0.86 1.9E-05 49.6 4.1 34 3-36 217-254 (887)
22 PF04810 zf-Sec23_Sec24: Sec23 84.2 0.73 1.6E-05 31.2 1.8 32 4-35 2-37 (40)
23 COG2051 RPS27A Ribosomal prote 79.5 1.3 2.8E-05 33.4 1.8 30 3-32 18-48 (67)
24 COG1791 Uncharacterized conser 79.2 8 0.00017 34.7 7.0 62 102-171 49-110 (181)
25 PRK00415 rps27e 30S ribosomal 72.2 2.6 5.6E-05 31.2 1.7 29 3-31 10-39 (59)
26 COG4995 Uncharacterized protei 70.7 17 0.00037 37.3 7.8 116 80-227 211-333 (420)
27 PF01667 Ribosomal_S27e: Ribos 70.7 2.8 6.1E-05 30.5 1.6 30 3-32 6-36 (55)
28 PF11331 DUF3133: Protein of u 70.5 2.4 5.3E-05 29.7 1.2 32 4-35 6-44 (46)
29 PF12070 DUF3550: Protein of u 70.4 27 0.00059 36.7 9.3 37 135-171 292-328 (513)
30 COG1996 RPC10 DNA-directed RNA 70.4 2.1 4.6E-05 30.4 0.9 33 3-35 5-37 (49)
31 PF03415 Peptidase_C11: Clostr 67.2 16 0.00035 37.1 6.9 82 136-227 77-160 (397)
32 PF09788 Tmemb_55A: Transmembr 66.0 3.7 8.1E-05 39.0 1.8 33 3-35 156-190 (256)
33 COG1198 PriA Primosomal protei 65.8 35 0.00075 37.6 9.4 28 4-31 444-471 (730)
34 PF09082 DUF1922: Domain of un 65.4 3.3 7.2E-05 31.4 1.1 32 4-37 3-34 (68)
35 COG5028 Vesicle coat complex C 65.2 7 0.00015 42.6 3.9 33 4-36 199-235 (861)
36 KOG1984 Vesicle coat complex C 62.1 3.8 8.2E-05 45.1 1.3 36 3-38 337-376 (1007)
37 PF09297 zf-NADH-PPase: NADH p 61.5 7 0.00015 24.9 2.0 28 4-31 3-30 (32)
38 PF03604 DNA_RNApol_7kD: DNA d 60.6 4.8 0.0001 26.0 1.1 24 6-30 2-25 (32)
39 smart00659 RPOLCX RNA polymera 59.6 7.5 0.00016 26.9 2.0 27 5-32 3-29 (44)
40 KOG1321 Protoheme ferro-lyase 58.9 27 0.00059 34.5 6.3 37 135-171 198-240 (395)
41 PTZ00083 40S ribosomal protein 58.5 6.9 0.00015 31.0 1.8 29 3-31 34-63 (85)
42 PLN00209 ribosomal protein S27 57.1 7.5 0.00016 30.9 1.8 29 3-31 35-64 (86)
43 TIGR00595 priA primosomal prot 54.2 55 0.0012 34.4 8.3 27 4-30 222-248 (505)
44 PF14803 Nudix_N_2: Nudix N-te 52.7 10 0.00022 24.9 1.6 27 6-32 2-32 (34)
45 TIGR01206 lysW lysine biosynth 50.6 13 0.00029 26.9 2.2 32 4-35 2-35 (54)
46 COG2830 Uncharacterized protei 49.6 14 0.0003 33.3 2.5 38 153-191 7-45 (214)
47 smart00661 RPOL9 RNA polymeras 47.9 20 0.00043 25.0 2.7 30 6-35 2-33 (52)
48 COG0648 Nfo Endonuclease IV [D 47.9 43 0.00093 32.5 5.8 62 137-224 118-179 (280)
49 PTZ00377 alanine aminotransfer 45.5 93 0.002 32.1 8.3 52 105-167 121-177 (481)
50 KOG0256 1-aminocyclopropane-1- 43.8 83 0.0018 32.4 7.2 34 196-231 243-276 (471)
51 PF10264 Stork_head: Winged he 43.7 64 0.0014 25.4 5.1 45 105-170 32-76 (80)
52 COG4416 Com Mu-like prophage p 43.2 9.7 0.00021 27.6 0.4 37 1-37 1-39 (60)
53 PF03568 Peptidase_C50: Peptid 42.7 41 0.0009 33.9 5.1 53 94-169 268-320 (383)
54 TIGR02806 clostrip clostripain 41.7 3.1E+02 0.0067 28.7 11.0 83 139-227 96-184 (476)
55 PF02698 DUF218: DUF218 domain 40.5 93 0.002 26.5 6.4 44 101-151 52-95 (155)
56 COG1350 Predicted alternative 40.3 20 0.00044 35.7 2.3 34 138-171 384-419 (432)
57 PLN00162 transport protein sec 40.2 19 0.00041 39.9 2.3 34 3-36 52-89 (761)
58 PF13660 DUF4147: Domain of un 39.4 53 0.0011 31.1 4.9 37 134-170 92-130 (238)
59 TIGR01979 sufS cysteine desulf 39.4 1.3E+02 0.0028 29.8 8.0 56 104-168 63-120 (403)
60 PRK06107 aspartate aminotransf 38.7 1.5E+02 0.0033 29.6 8.4 45 105-161 76-122 (402)
61 PF00130 C1_1: Phorbol esters/ 38.6 30 0.00066 24.1 2.5 32 3-35 10-41 (53)
62 PF06258 Mito_fiss_Elm1: Mitoc 37.5 1.5E+02 0.0032 29.2 7.9 74 78-167 144-218 (311)
63 PF09827 CRISPR_Cas2: CRISPR a 37.4 84 0.0018 23.8 5.0 52 103-164 14-67 (78)
64 PF13248 zf-ribbon_3: zinc-rib 37.4 22 0.00049 21.5 1.4 23 3-29 1-23 (26)
65 PF02150 RNA_POL_M_15KD: RNA p 36.6 8.6 0.00019 25.2 -0.6 30 5-35 2-33 (35)
66 PF03811 Zn_Tnp_IS1: InsA N-te 36.4 33 0.00071 22.7 2.1 26 4-29 5-36 (36)
67 cd00029 C1 Protein kinase C co 36.4 23 0.0005 24.1 1.5 30 4-34 11-40 (50)
68 PTZ00405 cytochrome c; Provisi 36.3 18 0.0004 30.2 1.1 43 100-149 67-112 (114)
69 TIGR03402 FeS_nifS cysteine de 36.0 1.4E+02 0.0031 29.3 7.7 58 102-168 41-98 (379)
70 smart00109 C1 Protein kinase C 35.8 23 0.0005 23.8 1.4 30 3-34 10-39 (49)
71 cd00615 Orn_deC_like Ornithine 35.7 2.3E+02 0.005 26.9 8.9 119 96-232 52-174 (294)
72 PLN02994 1-aminocyclopropane-1 35.6 69 0.0015 28.1 4.8 51 99-161 92-146 (153)
73 PF01364 Peptidase_C25: Peptid 35.3 44 0.00095 33.4 3.9 127 137-319 226-353 (378)
74 COG2379 GckA Putative glycerat 34.3 1.4E+02 0.003 30.5 7.0 81 79-171 35-127 (422)
75 PLN02651 cysteine desulfurase 34.2 1.9E+02 0.004 28.4 8.2 55 105-168 45-100 (364)
76 cd01612 APG12_C Ubiquitin-like 34.1 2.1E+02 0.0046 22.6 6.9 54 105-165 28-82 (87)
77 PRK11827 hypothetical protein; 33.8 33 0.00071 25.5 2.0 34 3-36 7-40 (60)
78 PF13453 zf-TFIIB: Transcripti 33.8 32 0.00069 23.1 1.8 27 6-32 1-29 (41)
79 PRK08361 aspartate aminotransf 33.6 2E+02 0.0044 28.4 8.4 50 106-167 77-128 (391)
80 PLN02450 1-aminocyclopropane-1 33.5 1.7E+02 0.0037 30.2 8.0 50 105-166 92-148 (468)
81 cd02340 ZZ_NBR1_like Zinc fing 32.8 37 0.00079 23.3 2.0 23 5-31 1-23 (43)
82 PF12760 Zn_Tnp_IS1595: Transp 31.9 36 0.00079 23.4 1.9 26 5-30 19-45 (46)
83 PF04135 Nop10p: Nucleolar RNA 31.8 31 0.00067 25.0 1.6 29 1-36 1-31 (53)
84 KOG3425 Uncharacterized conser 31.8 55 0.0012 27.9 3.2 58 142-215 11-68 (128)
85 PRK13130 H/ACA RNA-protein com 31.6 43 0.00094 24.5 2.3 26 4-35 5-30 (56)
86 PRK11088 rrmA 23S rRNA methylt 31.4 32 0.0007 32.6 2.1 29 4-34 2-30 (272)
87 PRK00241 nudC NADH pyrophospha 31.4 36 0.00077 32.5 2.4 32 3-34 98-129 (256)
88 PF07754 DUF1610: Domain of un 30.7 47 0.001 20.1 1.9 22 7-29 1-23 (24)
89 cd06259 YdcF-like YdcF-like. Y 30.4 1.3E+02 0.0029 25.3 5.6 59 81-152 35-93 (150)
90 PRK02948 cysteine desulfurase; 30.3 1.8E+02 0.0039 28.5 7.4 54 105-167 45-99 (381)
91 PRK09814 beta-1,6-galactofuran 30.2 1.1E+02 0.0024 29.7 5.8 54 106-166 22-75 (333)
92 PF13768 VWA_3: von Willebrand 29.8 1.5E+02 0.0033 25.0 5.9 46 122-169 2-47 (155)
93 KOG1924 RhoA GTPase effector D 29.8 89 0.0019 34.7 5.1 8 291-298 865-872 (1102)
94 COG1645 Uncharacterized Zn-fin 29.6 39 0.00085 29.1 2.1 30 5-36 29-59 (131)
95 COG2816 NPY1 NTP pyrophosphohy 29.5 36 0.00077 33.0 2.0 29 4-32 111-139 (279)
96 PRK14873 primosome assembly pr 29.3 33 0.00071 37.4 1.9 27 4-30 392-418 (665)
97 PRK06108 aspartate aminotransf 29.1 4.4E+02 0.0095 25.6 9.9 54 100-165 62-117 (382)
98 PRK13355 bifunctional HTH-doma 29.0 2.8E+02 0.0061 28.9 8.8 43 107-161 193-237 (517)
99 PF06277 EutA: Ethanolamine ut 29.0 75 0.0016 33.2 4.4 71 91-169 45-133 (473)
100 COG5178 PRP8 U5 snRNP spliceos 28.6 48 0.001 38.2 3.0 16 303-318 475-491 (2365)
101 smart00834 CxxC_CXXC_SSSS Puta 28.1 27 0.00058 22.9 0.7 26 5-30 6-34 (41)
102 PRK07324 transaminase; Validat 27.2 2.6E+02 0.0055 27.6 7.8 48 107-166 66-114 (373)
103 KOG4684 Uncharacterized conser 26.8 18 0.00039 33.7 -0.5 34 3-36 169-203 (275)
104 PF10058 DUF2296: Predicted in 26.2 42 0.00091 24.3 1.5 27 5-31 23-53 (54)
105 COG0657 Aes Esterase/lipase [L 26.2 2.9E+02 0.0063 26.3 7.8 48 82-129 109-160 (312)
106 PF12773 DZR: Double zinc ribb 25.9 31 0.00067 23.8 0.7 27 4-31 12-38 (50)
107 PF00266 Aminotran_5: Aminotra 25.9 1.3E+02 0.0029 29.4 5.5 55 107-170 47-102 (371)
108 cd06502 TA_like Low-specificit 25.6 5.7E+02 0.012 24.2 9.8 52 103-168 32-83 (338)
109 PF00155 Aminotran_1_2: Aminot 25.4 2.8E+02 0.0061 26.7 7.7 52 107-169 52-106 (363)
110 PRK05942 aspartate aminotransf 25.3 3.6E+02 0.0078 26.7 8.6 46 106-162 80-127 (394)
111 COG1326 Uncharacterized archae 25.3 37 0.0008 31.2 1.2 29 5-34 7-42 (201)
112 TIGR00100 hypA hydrogenase nic 25.2 37 0.0008 28.3 1.2 28 3-32 69-96 (115)
113 PF01878 EVE: EVE domain; Int 25.2 56 0.0012 27.8 2.3 17 149-165 36-52 (143)
114 PF07282 OrfB_Zn_ribbon: Putat 25.1 53 0.0012 24.3 1.9 26 6-31 30-55 (69)
115 PRK07550 hypothetical protein; 24.9 4.6E+02 0.01 25.7 9.2 45 106-162 74-120 (386)
116 PRK10886 DnaA initiator-associ 24.6 3.1E+02 0.0068 25.0 7.3 70 80-168 40-121 (196)
117 PF14353 CpXC: CpXC protein 24.3 69 0.0015 26.8 2.7 32 4-35 1-51 (128)
118 cd02338 ZZ_PCMF_like Zinc fing 24.2 51 0.0011 23.1 1.6 24 5-32 1-25 (49)
119 PRK14012 cysteine desulfurase; 24.0 3.1E+02 0.0067 27.3 7.8 54 105-167 51-105 (404)
120 PRK00432 30S ribosomal protein 23.8 60 0.0013 23.0 1.9 25 6-31 22-46 (50)
121 PRK08636 aspartate aminotransf 23.8 2.8E+02 0.0061 27.6 7.5 50 100-161 72-124 (403)
122 PRK00420 hypothetical protein; 23.7 65 0.0014 27.0 2.3 30 5-35 24-53 (112)
123 PTZ00433 tyrosine aminotransfe 23.7 3.8E+02 0.0081 26.8 8.4 45 106-162 82-134 (412)
124 PRK09440 avtA valine--pyruvate 23.6 3.6E+02 0.0078 26.8 8.2 51 106-165 81-139 (416)
125 cd02345 ZZ_dah Zinc finger, ZZ 23.6 55 0.0012 23.0 1.6 24 5-32 1-25 (49)
126 PF07859 Abhydrolase_3: alpha/ 23.3 85 0.0018 27.8 3.3 48 82-129 28-79 (211)
127 cd00609 AAT_like Aspartate ami 23.1 4.8E+02 0.01 24.5 8.7 58 99-168 36-95 (350)
128 PRK05580 primosome assembly pr 23.1 52 0.0011 35.9 2.1 27 4-30 390-416 (679)
129 PRK00809 hypothetical protein; 23.0 74 0.0016 27.7 2.7 17 152-168 34-51 (144)
130 cd00613 GDC-P Glycine cleavage 23.0 5.3E+02 0.011 25.2 9.2 62 99-169 60-121 (398)
131 PF08271 TF_Zn_Ribbon: TFIIB z 22.9 64 0.0014 21.7 1.8 28 6-33 2-30 (43)
132 PF01485 IBR: IBR domain; Int 22.8 49 0.0011 23.5 1.3 30 5-34 19-52 (64)
133 KOG2907 RNA polymerase I trans 22.8 33 0.00071 28.7 0.4 33 4-36 7-39 (116)
134 PRK15244 virulence protein Spv 22.7 42 0.00092 35.7 1.3 64 81-154 384-455 (591)
135 PLN00143 tyrosine/nicotianamin 22.5 2.5E+02 0.0054 28.2 6.8 45 105-161 80-126 (409)
136 PRK12380 hydrogenase nickel in 22.4 44 0.00095 27.8 1.1 27 3-31 69-95 (113)
137 PF12172 DUF35_N: Rubredoxin-l 22.2 41 0.00089 21.9 0.7 22 4-29 11-32 (37)
138 PF08357 SEFIR: SEFIR domain; 22.1 1.1E+02 0.0025 25.8 3.7 51 102-164 15-67 (150)
139 TIGR00758 UDG_fam4 uracil-DNA 22.0 4.3E+02 0.0093 23.3 7.5 71 81-153 21-96 (173)
140 TIGR02006 IscS cysteine desulf 22.0 3.6E+02 0.0078 26.8 7.8 57 103-168 47-104 (402)
141 PF11781 RRN7: RNA polymerase 21.9 66 0.0014 21.2 1.6 26 6-32 10-35 (36)
142 PF10923 DUF2791: P-loop Domai 21.7 1.7E+02 0.0036 30.2 5.3 62 106-170 227-293 (416)
143 cd06446 Trp-synth_B Tryptophan 21.6 2.4E+02 0.0052 28.1 6.4 33 138-170 329-361 (365)
144 TIGR01976 am_tr_V_VC1184 cyste 21.3 4.5E+02 0.0097 25.8 8.3 56 104-168 61-116 (397)
145 PRK08960 hypothetical protein; 21.3 6.6E+02 0.014 24.7 9.6 46 106-163 76-123 (387)
146 KOG4044 Mitochondrial associat 21.1 52 0.0011 29.6 1.3 23 210-232 126-148 (201)
147 PRK07681 aspartate aminotransf 20.8 5.7E+02 0.012 25.3 9.0 50 100-161 70-122 (399)
148 PF07799 DUF1643: Protein of u 20.7 5.1E+02 0.011 21.7 8.4 82 79-168 10-99 (136)
149 cd08588 PI-PLCc_At5g67130_like 20.6 2.5E+02 0.0053 27.0 6.0 79 137-224 76-160 (270)
150 PRK06260 threonine synthase; V 20.4 2.6E+02 0.0055 28.3 6.4 35 137-171 335-371 (397)
151 PRK07337 aminotransferase; Val 20.4 4.4E+02 0.0096 25.9 8.1 45 106-162 74-120 (388)
152 PF05991 NYN_YacP: YacP-like N 20.4 5.5E+02 0.012 22.6 7.8 73 139-219 28-101 (166)
153 PRK00950 histidinol-phosphate 20.2 5.4E+02 0.012 24.8 8.6 45 106-161 72-116 (361)
No 1
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.8e-79 Score=574.09 Aligned_cols=318 Identities=46% Similarity=0.829 Sum_probs=276.0
Q ss_pred CCCcccCCCCCCccccCCCCceeeccccCceeeccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCC
Q 017524 1 MLMLVDCSKCRTTLQLPPGAQSIRCAICQAITHIADPRSGPPPPSSSSSSSYQPGHVPPSAVAPSPYNHAPPGQPPHAQG 80 (370)
Q Consensus 1 ~~~~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (370)
+.+.++|+ |++++|+||||+. ||+.||+||.+..++-+|||..+ +++. |+|+ ||.++|...+
T Consensus 1 ~~~~~~~~-~~~p~~~pp~ar~-q~~~~~~~~~~~~~~~~ppP~~~---------~~~~----PpPq---~~~~~~~~~g 62 (362)
T KOG1546|consen 1 PNNLVGCN-CQRPMAPPPGARY-QCAGCHAVTQIAQPRIQPPPQPS---------SYPN----PPPQ---PPYQYPQMAG 62 (362)
T ss_pred CCccccCC-CCCCCCCCCCCcc-cccccceeeeecccCcCCCCCCC---------CCCC----CCCC---CCCCCccccc
Confidence 35689998 9999999999999 99999999999987776555432 1111 1111 4567889999
Q ss_pred ceEEEEEEecCCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEE
Q 017524 81 RKRALIVGVSYRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLL 160 (370)
Q Consensus 81 ~k~ALlIGInY~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~ 160 (370)
||+||||||||.++..+|+||||||++|+++|.++|||++++|++|||+++++.++||++||++||+|||+.+++||+||
T Consensus 63 krrAvLiGINY~gTk~ELrGCINDv~~M~~~Lv~rfGFs~ddI~~LtDt~~s~~~~PT~~Nir~Al~wLV~~aq~gD~Lv 142 (362)
T KOG1546|consen 63 KRRAVLIGINYPGTKNELRGCINDVHRMRKLLVERFGFSEDDILMLTDTDESPVRIPTGKNIRRALRWLVESAQPGDSLV 142 (362)
T ss_pred cceEEEEeecCCCcHHHHhhhHHHHHHHHHHHHHhhCCChhheEEEecCCCcccccCcHHHHHHHHHHHHhcCCCCCEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeccccccCCCCCCCCCCcceeEEcccCCCCCcccHHHHHHhhcCcCCCCCeEEEEEcCCCCCCCCCcccccccc---
Q 017524 161 FHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIVDDEINTTLVRPLPRGARLHAIIDACHSGTVLDLPFLCRMD--- 237 (370)
Q Consensus 161 fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ddeL~~~Lv~~l~~g~~l~~IlD~ChSG~~~~~p~~~~~~--- 237 (370)
|||||||.+.++.+|||.|||||+|+|+|++.+|.|.|||+++.||++|++|+++++|+|+||||+++|+||+++++
T Consensus 143 fHYSGHGtr~~~~~gDe~dG~DE~I~P~D~~t~G~iIdDe~~r~lV~plp~G~~lt~I~DSCHSGgliDlp~i~~~~~~i 222 (362)
T KOG1546|consen 143 FHYSGHGTRQPDTNGDEVDGYDETIVPCDHNTQGPIIDDEIFRILVRPLPKGCKLTAISDSCHSGGLIDLPEIERTKGVI 222 (362)
T ss_pred EEecCCCCcCCCCCCCCCCCCcceeecccccccccccchHHHHHHHhccCCCceEEEEeecccCCCcccchhheeccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred cccccccccCCCCCCCcc-------------------------------------ccCCCCEEEEEecCCCCcccccccc
Q 017524 238 RQGKYIWEDHRPRSGMWK-------------------------------------GTSGGEAISFSGCDDNQTSADTSAL 280 (370)
Q Consensus 238 r~g~~~~~d~~~~~~~~~-------------------------------------~~~~~~~i~~Sac~~~Q~A~d~~~~ 280 (370)
+++.+.||++++....|+ +.+..++|+||+|+++|+|+|+...
T Consensus 223 r~~~l~~e~~~d~l~~~tG~~~ge~~~i~~~l~d~f~~dts~~~~~~~~~~~~~~~~~~d~~illSgcqadqtSad~~~~ 302 (362)
T KOG1546|consen 223 RNRNLPWEDHRDLLKAQTGTDGGEVGKIRGCLDDIFGEDTSPLPNGTIGDLGRQLKDSHDNGILLSGCQADQTSADASTY 302 (362)
T ss_pred ccCccchHHhHHHHHhhcCCCCceeeeeecchhhhhcccCCCCCCcchhhhhhhcccCCCCceEEecccccccccccccC
Confidence 888888887664221111 1123568999999999999999987
Q ss_pred CCCCCCChhHHHHHHHHhcCCC-CCHHHHHHHHHHHHhccCCCCCCCCCCCcchhhhhhhhcCCCCCCCCCCccccccCC
Q 017524 281 SKITSTGAMTYSFIQAIERGHG-ATYGSMLNSMRSTIRNTDSGSELSGAGGLVTSLVTMLLTGGSLSGGFRQEPQLTANE 359 (370)
Q Consensus 281 ~~~~~~G~fT~ali~aL~~~~~-~Ty~~Ll~~vr~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Q~Pqlsss~ 359 (370)
|. ..|+|++|+.+.|.++++ ++..+|.-..|..++.. +|.|+|||++|+
T Consensus 303 G~--~~gAms~Aiq~i~~~n~g~~~~~~lvl~~~~~~~~~----------------------------g~sQ~P~L~csd 352 (362)
T KOG1546|consen 303 GH--LYGAMSNAIQEILTENKGRITNKLLVLRARGALKKQ----------------------------GFSQEPGLYCSD 352 (362)
T ss_pred Cc--chhHHHHHHHHHHhcCcccchhHHHHHHHhhhhhcc----------------------------CcccCccccCCc
Confidence 74 589999999999998765 45556666666666543 378999999999
Q ss_pred ccCCCCC
Q 017524 360 PFDVYTK 366 (370)
Q Consensus 360 ~~d~~~~ 366 (370)
+||++..
T Consensus 353 ~~~~~~~ 359 (362)
T KOG1546|consen 353 PFDVAPF 359 (362)
T ss_pred cccccce
Confidence 9999643
No 2
>PF00656 Peptidase_C14: Caspase domain; InterPro: IPR011600 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of sequences represent the p20 (20kDa) and p10 (10kDa) subunits of caspases, which together form the catalytic domain of the caspase and are derived from the p45 (45 kDa) precursor (IPR002398 from INTERPRO) []. Caspases (Cysteine-dependent ASPartyl-specific proteASE) are cysteine peptidases that belong to the MEROPS peptidase family C14 (caspase family, clan CD) based on the architecture of their catalytic dyad or triad []. Caspases are tightly regulated proteins that require zymogen activation to become active, and once active can be regulated by caspase inhibitors. Activated caspases act as cysteine proteases, using the sulphydryl group of a cysteine side chain for catalysing peptide bond cleavage at aspartyl residues in their substrates. The catalytic cysteine and histidine residues are on the p20 subunit after cleavage of the p45 precursor. Caspases are mainly involved in mediating cell death (apoptosis) [, , ]. They have two main roles within the apoptosis cascade: as initiators that trigger the cell death process, and as effectors of the process itself. Caspase-mediated apoptosis follows two main pathways, one extrinsic and the other intrinsic or mitochondrial-mediated. The extrinsic pathway involves the stimulation of various TNF (tumour necrosis factor) cell surface receptors on cells targeted to die by various TNF cytokines that are produced by cells such as cytotoxic T cells. The activated receptor transmits the signal to the cytoplasm by recruiting FADD, which forms a death-inducing signalling complex (DISC) with caspase-8. The subsequent activation of caspase-8 initiates the apoptosis cascade involving caspases 3, 4, 6, 7, 9 and 10. The intrinsic pathway arises from signals that originate within the cell as a consequence of cellular stress or DNA damage. The stimulation or inhibition of different Bcl-2 family receptors results in the leakage of cytochrome c from the mitochondria, and the formation of an apoptosome composed of cytochrome c, Apaf1 and caspase-9. The subsequent activation of caspase-9 initiates the apoptosis cascade involving caspases 3 and 7, among others. At the end of the cascade, caspases act on a variety of signal transduction proteins, cytoskeletal and nuclear proteins, chromatin-modifying proteins, DNA repair proteins and endonucleases that destroy the cell by disintegrating its contents, including its DNA. The different caspases have different domain architectures depending upon where they fit into the apoptosis cascades, however they all carry the catalytic p10 and p20 subunits. Caspases can have roles other than in apoptosis, such as caspase-1 (interleukin-1 beta convertase) (3.4.22.36 from EC), which is involved in the inflammatory process. The activation of apoptosis can sometimes lead to caspase-1 activation, providing a link between apoptosis and inflammation, such as during the targeting of infected cells. Caspases may also be involved in cell differentiation [].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 1M72_C 2NN3_C 3V4L_A 3IBF_B 2QLF_D 2QLB_C 3IBC_B 2QL9_A 3R5K_B 3H1P_A ....
Probab=100.00 E-value=1.2e-34 Score=270.42 Aligned_cols=218 Identities=33% Similarity=0.499 Sum_probs=161.5
Q ss_pred eEEEEEEecCCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEE
Q 017524 82 KRALIVGVSYRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLF 161 (370)
Q Consensus 82 k~ALlIGInY~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~f 161 (370)
|+|||||||||+...+|+||+|||+.|+++| +++||+..+| |.++ ||+++|+++|++|++.++++|.++|
T Consensus 1 ~~AliIg~~~y~~~~~L~~~~~D~~~~~~~L-~~~gf~~~~~--l~~~-------~t~~~i~~~l~~l~~~~~~~D~~~~ 70 (248)
T PF00656_consen 1 KRALIIGVNYYQNPPPLPGAVNDAEAMAEAL-EKLGFDVENI--LIDN-------ATRANILKALRELLQRAQPGDSVVF 70 (248)
T ss_dssp EEEEEEEESSTSSTCHCTTHHHHHHHHHHHH-HHTTEEEEEE--EEES-------SSHHHHHHHHHHHHTSGGTCSEEEE
T ss_pred CEEEEEEeeCCCCCCCCCCHHHHHHHHHHHH-HHcCCceeec--cccc-------hHHHHHHHHHhhhhccCCCCCeeEE
Confidence 7999999997776799999999999999999 6789998877 4443 8999999999999999999999999
Q ss_pred EEeccccccCCCCCCCCCCcceeEEcccCCCCCcccHHHHHHhhcCcCCCCCeEEEEEcCCCCCCCCCcccccccccccc
Q 017524 162 HFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIVDDEINTTLVRPLPRGARLHAIIDACHSGTVLDLPFLCRMDRQGK 241 (370)
Q Consensus 162 yfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ddeL~~~Lv~~l~~g~~l~~IlD~ChSG~~~~~p~~~~~~r~g~ 241 (370)
||||||.+..+..+++..++|++++|.|.. .+.++++..++.+.++...+ ++||||||||.+.+............
T Consensus 71 yfsGHG~~~~~~~~~~~~~~d~~~~~~d~~---~~~~~~l~~~~~~~~~~~~k-~~ilD~C~sg~~~~~~~~~~~~~~~~ 146 (248)
T PF00656_consen 71 YFSGHGIQVDGEGGDEDSGYDGYLLPLDAN---LILDDELRDLLCKSLPKKPK-LFILDCCRSGGFIDGLSSSSGESSKR 146 (248)
T ss_dssp EEESEEETETTCCSTEEEETSSEEEEHHHH---EEHHHHTSTTTTGGGTTS-E-EEEEESESSSBTBCEEEEEESSSTSS
T ss_pred EEeccccccCCccCcccccccceeeecchh---hhHHHHHhhhhhhhccCCcc-EEeeccccCCccCCcccccccccccc
Confidence 999999987765445566789999999854 56777888777654766667 99999999999987543221110000
Q ss_pred c---ccccCCCC-CCCccccCCCCEEEEEecCCCCccccccccCCCCCCChhHHHHHHHHhcC----C----CCCHHHHH
Q 017524 242 Y---IWEDHRPR-SGMWKGTSGGEAISFSGCDDNQTSADTSALSKITSTGAMTYSFIQAIERG----H----GATYGSML 309 (370)
Q Consensus 242 ~---~~~d~~~~-~~~~~~~~~~~~i~~Sac~~~Q~A~d~~~~~~~~~~G~fT~ali~aL~~~----~----~~Ty~~Ll 309 (370)
. ......+. ........+.++++++||.++|+|+|... ..+|+||++|+++|++. + ..++.+|+
T Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~as~~~~~s~e~~~----~~~g~ft~~L~~~L~~~~~~~~~~~~~~~l~~~~ 222 (248)
T PF00656_consen 147 EERKLSSSIPPEDPNRSDVPSPSGFIVLSASRPGQTSYEDSP----GSGGLFTYALLEALKGNAADDPNQSWDELLEELL 222 (248)
T ss_dssp -EECHCCCCCCSSCCSEEEETTTSEEEEESSSTTBCEEEECT----TTEEHHHHHHHHHHHHHTTTSTTCCTTSBHHHHH
T ss_pred ccccccccccccccccccccCCCCcEEEEeccccceeecccC----ccCHHHHHHHHHHHHhhcccccchhHHHHHHHHH
Confidence 0 00000000 00111233567899999999999999831 47999999999999752 1 26677777
Q ss_pred HHHHHHHh
Q 017524 310 NSMRSTIR 317 (370)
Q Consensus 310 ~~vr~~l~ 317 (370)
..+++.+.
T Consensus 223 ~~v~~~~~ 230 (248)
T PF00656_consen 223 TEVNQKVA 230 (248)
T ss_dssp HHHHHHHH
T ss_pred HHHHhHCC
Confidence 77777665
No 3
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=99.81 E-value=4.2e-18 Score=160.71 Aligned_cols=227 Identities=15% Similarity=0.132 Sum_probs=159.4
Q ss_pred CCceEEEEEEec-CCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHH-hCCCC
Q 017524 79 QGRKRALIVGVS-YRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQ-GCQPG 156 (370)
Q Consensus 79 ~~~k~ALlIGIn-Y~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~-~a~~g 156 (370)
.++++|||||+. |.....++.|+.+|++.|+++|+ ++||. |.+..| +|+++|.++|+.+.+ +.+..
T Consensus 7 ~~~g~aLII~n~~f~~~~~~r~g~~~D~~~l~~~f~-~lgF~---V~~~~n--------lt~~~~~~~l~~f~~~~~~~~ 74 (243)
T cd00032 7 KRRGLALIINNENFDKGLKDRDGTDVDAENLTKLFE-SLGYE---VEVKNN--------LTAEEILEELKEFASPDHSDS 74 (243)
T ss_pred CCCCEEEEEechhcCCCCCCCCChHHHHHHHHHHHH-HCCCE---EEEeCC--------CCHHHHHHHHHHHHhccCCCC
Confidence 378999999998 76546789999999999999997 58996 666666 799999999999985 77889
Q ss_pred CEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCcccHHHHHHhhcC-cCC--CCCeEEEEEcCCCCCCCCCcccc
Q 017524 157 DSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIVDDEINTTLVR-PLP--RGARLHAIIDACHSGTVLDLPFL 233 (370)
Q Consensus 157 D~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ddeL~~~Lv~-~l~--~g~~l~~IlD~ChSG~~~~~p~~ 233 (370)
|.++|||+|||.+ .+|++.|. ..+.-++|.+.+.. ..+ .+.-.++|||||+....... ..
T Consensus 75 d~~v~~~~sHG~~-------------~~l~~~D~---~~v~l~~i~~~f~~~~~~sl~~kPKl~~iqACRg~~~~~~-~~ 137 (243)
T cd00032 75 DSFVCVILSHGEE-------------GGIYGTDG---DVVPIDEITSLFNGDNCPSLAGKPKLFFIQACRGDELDLG-VE 137 (243)
T ss_pred CeeEEEECCCCCC-------------CEEEEecC---cEEEHHHHHHhhccCCCccccCCCcEEEEECCCCCcCCCc-ee
Confidence 9999999999975 27999995 24555677776641 111 12224799999996554321 11
Q ss_pred ccccccccc--ccccCCCCCCCccccCCCCEEEEEecCCCCccccccccCCCCCCChhHHHHHHHHhcC-CCCCHHHHHH
Q 017524 234 CRMDRQGKY--IWEDHRPRSGMWKGTSGGEAISFSGCDDNQTSADTSALSKITSTGAMTYSFIQAIERG-HGATYGSMLN 310 (370)
Q Consensus 234 ~~~~r~g~~--~~~d~~~~~~~~~~~~~~~~i~~Sac~~~Q~A~d~~~~~~~~~~G~fT~ali~aL~~~-~~~Ty~~Ll~ 310 (370)
. ...+.. .-++.....+...-....++++.-|+.++..|++.. ..++.|+.+|++.|.+. +.....+|+.
T Consensus 138 ~--~~~~~~~~~~~~~~~~~~~~~~p~~~d~lv~ysT~pG~~a~r~~-----~~gS~fi~~l~~~l~~~~~~~~l~~il~ 210 (243)
T cd00032 138 V--DSGADEPPDVETEAEDDAVQTIPVEADFLVAYSTVPGYVSWRNT-----KKGSWFIQSLCQVLRKYAHSLDLLDILT 210 (243)
T ss_pred c--cCccccccccccccccccccCCCCcccEEEEecCCCCeEeecCC-----CCCCEeHHHHHHHHHHhCCCCcHHHHHH
Confidence 0 000000 000000000111112245677777888999998865 36799999999999874 3589999999
Q ss_pred HHHHHHhccCCCCCCCCCCCcchhhhhhhhcCCCCCCCCCCccccccCCccCCC
Q 017524 311 SMRSTIRNTDSGSELSGAGGLVTSLVTMLLTGGSLSGGFRQEPQLTANEPFDVY 364 (370)
Q Consensus 311 ~vr~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Q~Pqlsss~~~d~~ 364 (370)
.|++.|.... .. ..+..|.|+..++..-++|
T Consensus 211 ~V~~~V~~~~--~~---------------------~~~~kQ~P~~~stL~k~~y 241 (243)
T cd00032 211 KVNRKVAEKF--ES---------------------VNGKKQMPCFRSTLTKKLY 241 (243)
T ss_pred HHHHHHhhhh--cc---------------------CCCceeCCccccccceeEe
Confidence 9999998765 10 0125799999888776665
No 4
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=99.78 E-value=3.6e-17 Score=154.28 Aligned_cols=226 Identities=14% Similarity=0.112 Sum_probs=157.5
Q ss_pred CCceEEEEEEec-CCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHh--CCC
Q 017524 79 QGRKRALIVGVS-YRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQG--CQP 155 (370)
Q Consensus 79 ~~~k~ALlIGIn-Y~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~--a~~ 155 (370)
.++++|||||+. |. ...++.|+.+||+.|+++|+ ++||. |.+..| +|+++|.++|+++.+. .+.
T Consensus 6 ~p~g~alII~n~~f~-~~~~r~g~~~D~~~l~~~f~-~lgF~---V~~~~d--------lt~~em~~~l~~~~~~~~~~~ 72 (241)
T smart00115 6 KPRGLALIINNENFH-SLPRRNGTDVDAENLTELFQ-SLGYE---VHVKNN--------LTAEEMLEELKEFAERPEHSD 72 (241)
T ss_pred CCCcEEEEEECccCC-CCcCCCCcHHHHHHHHHHHH-HCCCE---EEEecC--------CCHHHHHHHHHHHHhccccCC
Confidence 358999999998 65 46789999999999999997 58996 667666 7999999999999874 557
Q ss_pred CCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCcccHHHHHHhhcC----cCCCCCeEEEEEcCCCCCCCCCcc
Q 017524 156 GDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIVDDEINTTLVR----PLPRGARLHAIIDACHSGTVLDLP 231 (370)
Q Consensus 156 gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ddeL~~~Lv~----~l~~g~~l~~IlD~ChSG~~~~~p 231 (370)
.|.++|||+|||.. .+|++.|.. .+.-++|.+.+.. .|. +.=.++|||||+...... .
T Consensus 73 ~d~~v~~~~sHG~~-------------~~l~~~D~~---~v~l~~i~~~f~~~~c~~L~-~kPKlffiqACRg~~~~~-g 134 (241)
T smart00115 73 SDSFVCVLLSHGEE-------------GGIYGTDHS---PLPLDEIFSLFNGDNCPSLA-GKPKLFFIQACRGDELDG-G 134 (241)
T ss_pred CCEEEEEEcCCCCC-------------CeEEEecCC---EEEHHHHHHhccccCChhhc-CCCcEEEEeCCCCCCCCC-C
Confidence 89999999999953 289999943 4555677776631 122 222479999998543321 1
Q ss_pred cccccccccccccccCCCCCCCccccCCCCEEEEEecCCCCccccccccCCCCCCChhHHHHHHHHhcC-CCCCHHHHHH
Q 017524 232 FLCRMDRQGKYIWEDHRPRSGMWKGTSGGEAISFSGCDDNQTSADTSALSKITSTGAMTYSFIQAIERG-HGATYGSMLN 310 (370)
Q Consensus 232 ~~~~~~r~g~~~~~d~~~~~~~~~~~~~~~~i~~Sac~~~Q~A~d~~~~~~~~~~G~fT~ali~aL~~~-~~~Ty~~Ll~ 310 (370)
... +.....-.......+..+-....+.++..|+.++..|++.. ..++.|+.+|++.|++. +.....+|+.
T Consensus 135 ~~~---~~~~~~~~~~~~~~~~~~~p~~~D~li~ysT~pG~va~r~~-----~~gS~fi~~L~~~l~~~~~~~~l~~ilt 206 (241)
T smart00115 135 VPV---EDDVDDPPTEFEDDAIYKIPVEADFLAAYSTTPGYVSWRNP-----TRGSWFIQSLCQVLKEYARSLDLLDILT 206 (241)
T ss_pred eec---ccccccccccccccccccCCCcCcEEEEEeCCCCeEeecCC-----CCCchHHHHHHHHHHHcCCCCCHHHHHH
Confidence 100 00000000000001111122345677778889999998875 36799999999999983 5689999999
Q ss_pred HHHHHHhccCCCCCCCCCCCcchhhhhhhhcCCCCCCCCCCccccccC-CccCCCCC
Q 017524 311 SMRSTIRNTDSGSELSGAGGLVTSLVTMLLTGGSLSGGFRQEPQLTAN-EPFDVYTK 366 (370)
Q Consensus 311 ~vr~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Q~Pqlsss-~~~d~~~~ 366 (370)
.|++.|.... .. ..+..|.|+..++ ..-++|..
T Consensus 207 ~V~~~V~~~~--~~---------------------~~~~kQ~p~~~st~L~k~~yf~ 240 (241)
T smart00115 207 EVNRKVAVKF--ES---------------------VHAKKQMPTIESMTLTKKLYFF 240 (241)
T ss_pred HHHHHHhhhh--cc---------------------cCCcEeCCccEeecCcceeeCC
Confidence 9999998764 10 0135799988777 77666643
No 5
>PF01650 Peptidase_C13: Peptidase C13 family; InterPro: IPR001096 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C13 (legumain family, clan CD). A type example is legumain from Canavalia ensiformis (Jack bean, Horse bean). The blood fluke parasite Schistosoma mansoni has two cysteine proteases in its digestive tract, one a cathepsin B-like protease, the other termed hemoglobinase [, ]. The latter has been hard to purify, free of cathepsin B, and expressed forms in Escherichia coli prove to be inactive, suggesting that hemoglobinase may act in association with cathepsin B [, ]. Plant vacuolar processing enzyme and legumain from legumes [] have been shown to have sequence and functional similarity to hemoglobinase. The catalytic residues of the family are currently unknown, but sequence alignments reveal one totally conserved cysteine and two totally conserved histidines.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=99.50 E-value=5.5e-13 Score=126.82 Aligned_cols=192 Identities=16% Similarity=0.239 Sum_probs=129.9
Q ss_pred eEEEEEEec-CCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCC-----CCC----------------------
Q 017524 82 KRALIVGVS-YRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEED-----PDP---------------------- 133 (370)
Q Consensus 82 k~ALlIGIn-Y~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~-----~~~---------------------- 133 (370)
+|||||+=+ +.. +.+- ..|+-.|.++|++ .||+.++|+++..++ .+|
T Consensus 1 ~wAvlvagS~~~~---NYRh-~ad~~~~Y~~l~~-~G~~~~~Iil~~~dd~a~~~~Np~~g~i~~~~~~~n~y~~~~iDY 75 (256)
T PF01650_consen 1 NWAVLVAGSNGWF---NYRH-QADVCHAYQLLKR-NGIPDENIILMMYDDIACNPRNPFPGKIFNDPDGTNVYKGVEIDY 75 (256)
T ss_pred CEEEEEeccCCce---eeeE-ehHHHHHHHHHHH-cCCCCceEEEEecCCccchhhCCCCceEEeCCCcccccCCccccc
Confidence 589999876 221 2222 4899999999986 899999988776543 111
Q ss_pred -CCCchHHHHHHHHHHH-------HHhCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCcccHHHHHHhh
Q 017524 134 -LKRPTKYNMRMALYWL-------IQGCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIVDDEINTTL 205 (370)
Q Consensus 134 -~~~pT~~nI~~al~~L-------~~~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ddeL~~~L 205 (370)
...-|.+|+++.|+=- +-...++|.||+||+|||.... .-+| ....|...+|.++|
T Consensus 76 ~g~~v~~~~fl~vL~G~~~~~~~kvl~s~~~D~vfiy~~~HG~~~~------------l~~~----~~~~l~~~~L~~~L 139 (256)
T PF01650_consen 76 RGEDVTPENFLNVLTGDKSVPSGKVLNSTENDNVFIYFTGHGGPGF------------LKFP----DGEELTADDLADAL 139 (256)
T ss_pred cccccCHHHHHHHhcCCCCCCccccccCCCCCeEEEEEeccCCCCc------------ccCC----CcccccHHHHHHHH
Confidence 1134556666665411 1145799999999999999731 1122 23468889999988
Q ss_pred cCcCCCC--CeEEEEEcCCCCCCCCCcccccccccccccccccCCCCCCCccccCCCCEEEEEecCCCCccccccc--cC
Q 017524 206 VRPLPRG--ARLHAIIDACHSGTVLDLPFLCRMDRQGKYIWEDHRPRSGMWKGTSGGEAISFSGCDDNQTSADTSA--LS 281 (370)
Q Consensus 206 v~~l~~g--~~l~~IlD~ChSG~~~~~p~~~~~~r~g~~~~~d~~~~~~~~~~~~~~~~i~~Sac~~~Q~A~d~~~--~~ 281 (370)
.+.-.+. .++++++|+|+||++.+. . ....++++++|+..+|.|+-..- ..
T Consensus 140 ~~m~~~~~y~~lv~~veaC~SGs~~~~-L------------------------~~~~nv~~iTAa~~~e~Sy~~~~~~~~ 194 (256)
T PF01650_consen 140 DKMHEKKRYKKLVFVVEACYSGSFFEG-L------------------------LKSPNVYVITAANADESSYGCYCSDDS 194 (256)
T ss_pred HHHHhhCCcceEEEEEecccccchhhc-c------------------------CCCCCEEEEecCCcccccccccccccc
Confidence 5432222 358999999999999763 0 00135889999999999986621 11
Q ss_pred C-CCCCChhHHHHHHHHhcCC--CCCHHHHHHHHHHHHhcc
Q 017524 282 K-ITSTGAMTYSFIQAIERGH--GATYGSMLNSMRSTIRNT 319 (370)
Q Consensus 282 ~-~~~~G~fT~ali~aL~~~~--~~Ty~~Ll~~vr~~l~~~ 319 (370)
. .--..+|++.+++-+...+ ..|+.++|+.+++.+...
T Consensus 195 ~~~~l~d~fs~~~m~~~~~~~~~~~Tl~~~f~~v~~~~~~s 235 (256)
T PF01650_consen 195 IGTYLGDAFSYNWMEDSDSHPLSEETLDDQFEYVKRKTTGS 235 (256)
T ss_pred cccEeHHHHHHHhhhhhccCCccccCHHHHHHHHHHhcccc
Confidence 0 1112478888888887754 489999999999998654
No 6
>COG4249 Uncharacterized protein containing caspase domain [General function prediction only]
Probab=99.45 E-value=3.9e-13 Score=133.94 Aligned_cols=158 Identities=22% Similarity=0.309 Sum_probs=110.1
Q ss_pred CchHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCC-------CCcccHHHHHHhhcCc
Q 017524 136 RPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFET-------QGMIVDDEINTTLVRP 208 (370)
Q Consensus 136 ~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~-------~g~I~ddeL~~~Lv~~ 208 (370)
.|++.+|...|..+.+.+.+.|.++|||||||.... .+ |- .+|||.|..+ ++.+....+..++.
T Consensus 113 ~p~~~~V~~~~lD~~~~~~~~d~~~~~fsG~g~~~~-~d-----~~-~~lia~~t~p~~~a~~~~~~~s~~~~~~~~~-- 183 (380)
T COG4249 113 LPARTKVRRVLLDAARDNPPADTILFFFSGHGATPG-AD-----GR-AYLIAFDTRPGAVAYDGEGGISPYSVAQALH-- 183 (380)
T ss_pred CCchhHHHHHHHHHhhcCchhhhhhheeeccccccC-CC-----Cc-eeEEeecCChhhhcccCCCcccHHHHHHHHH--
Confidence 688999999999999999999999999999999863 22 22 2999998764 34566666665542
Q ss_pred CCCCCeEEEEEcCCCCCCCCCcccccccccccccccccCCCCCCCccccCCCCEEEEEecCCCCccccccccCCCCCCCh
Q 017524 209 LPRGARLHAIIDACHSGTVLDLPFLCRMDRQGKYIWEDHRPRSGMWKGTSGGEAISFSGCDDNQTSADTSALSKITSTGA 288 (370)
Q Consensus 209 l~~g~~l~~IlD~ChSG~~~~~p~~~~~~r~g~~~~~d~~~~~~~~~~~~~~~~i~~Sac~~~Q~A~d~~~~~~~~~~G~ 288 (370)
+....+.+.++|+||+|.+..--- ....-|.... ...+-....+.+|.++|.++|..++ .+|+
T Consensus 184 ~~~~~~ql~~~d~~~~~~~~~~~~------~~~~p~l~~s-------~~~~~~~~~~~~~ap~~~~~e~~~~----g~gv 246 (380)
T COG4249 184 LSEPGNQLVDLDACVRGDVFKATA------GQQRPWLAQS-------LAREFGFGILDSCAPDQQSAEAPEL----GHGV 246 (380)
T ss_pred hccCCceeehhhhhcchhhhcccc------cccchHhhhh-------hhcceeeeeccCCCCCccccccccc----cCce
Confidence 223345689999999998865210 0111232111 1112346778899999999999876 5899
Q ss_pred hHHHHHHHHhcC---C-----CCCHHHHHHHHHHHHhcc
Q 017524 289 MTYSFIQAIERG---H-----GATYGSMLNSMRSTIRNT 319 (370)
Q Consensus 289 fT~ali~aL~~~---~-----~~Ty~~Ll~~vr~~l~~~ 319 (370)
||++++++++.. . .++...++.+...++.+.
T Consensus 247 ~t~al~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~q~ 285 (380)
T COG4249 247 FTDALLEGLRGGRAAAEDLDGLRSKDGLLAYDYAETAQL 285 (380)
T ss_pred eehhhhhcccccchhcccccchhhhhhhhhhhhhHHhhc
Confidence 999999999983 1 145555555555555543
No 7
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=99.02 E-value=1.5e-10 Score=74.30 Aligned_cols=31 Identities=48% Similarity=0.992 Sum_probs=29.3
Q ss_pred cccCCCCCCccccCCCCceeeccccCceeec
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQAITHI 34 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v 34 (370)
+++|++|++.|+||+||++|||++|+.||.|
T Consensus 1 q~~C~~C~t~L~yP~gA~~vrCs~C~~vt~v 31 (31)
T TIGR01053 1 QVVCGGCRTLLMYPRGASSVRCALCQTVNLV 31 (31)
T ss_pred CcCcCCCCcEeecCCCCCeEECCCCCeEecC
Confidence 5799999999999999999999999999975
No 8
>PF06943 zf-LSD1: LSD1 zinc finger; InterPro: IPR005735 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 model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC []. This domain may play a role in the regulation of transcription, via either repression of a prodeath pathway or activation of an antideath pathway, in response to signals emanating from cells undergoing pathogen-induced hypersensitive cell death. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=98.83 E-value=1.7e-09 Score=65.58 Aligned_cols=25 Identities=52% Similarity=1.144 Sum_probs=24.1
Q ss_pred CCCCCCccccCCCCceeeccccCce
Q 017524 7 CSKCRTTLQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 7 C~~C~~~l~~p~~a~~~~C~~C~~v 31 (370)
|++|++.|+||+||++|||+.|+.|
T Consensus 1 C~~Cr~~L~yp~GA~sVrCa~C~~V 25 (25)
T PF06943_consen 1 CGGCRTLLMYPRGAPSVRCACCHTV 25 (25)
T ss_pred CCCCCceEEcCCCCCCeECCccCcC
Confidence 8999999999999999999999976
No 9
>KOG1349 consensus Gpi-anchor transamidase [Posttranslational modification, protein turnover, chaperones]
Probab=98.31 E-value=8.6e-06 Score=76.20 Aligned_cols=190 Identities=18% Similarity=0.263 Sum_probs=120.9
Q ss_pred CCceEEEEEEec--CCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCC-----CCC------------------
Q 017524 79 QGRKRALIVGVS--YRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEED-----PDP------------------ 133 (370)
Q Consensus 79 ~~~k~ALlIGIn--Y~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~-----~~~------------------ 133 (370)
+.+.||+||.-+ +++. + -+..+-.|.+.++ +.|+|.++|+++.-++ ++|
T Consensus 26 htnNwAVLv~tSRfwfNY----R-H~aNvl~~YrsvK-rlGipDsqIilmladd~acn~RN~~pg~Vy~n~~~~~nlygd 99 (309)
T KOG1349|consen 26 HTNNWAVLVCTSRFWFNY----R-HVANVLSVYRSVK-RLGIPDSQIILMLADDMACNSRNPRPGTVYNNENHALNLYGD 99 (309)
T ss_pred ccCceEEEEecchhhhhH----H-HHHHHHHHHHHHH-HcCCCcccEEEEeccccccccCCCCCcceeccccccccccCC
Confidence 578999999987 3332 1 2555667778886 6899999986654432 111
Q ss_pred -------CCCchHHHHHHHHHHHHH---------hCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCccc
Q 017524 134 -------LKRPTKYNMRMALYWLIQ---------GCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIV 197 (370)
Q Consensus 134 -------~~~pT~~nI~~al~~L~~---------~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ 197 (370)
...-|-+|+++.|.-=.. ....+..+++|..|||.- .+|=-.|++ .|+
T Consensus 100 ~vevdyrgyevtvEnflr~LTgR~~~~tprSKrlltDe~SNIlIYmtGHGgd-------------~FlKFqd~e---elt 163 (309)
T KOG1349|consen 100 DVEVDYRGYEVTVENFLRVLTGRHPNNTPRSKRLLTDEGSNILIYLTGHGGD-------------GFLKFQDAE---ELT 163 (309)
T ss_pred cceeecccchhHHHHHHHHHcCCCCCCCchhhhhcccCCCcEEEEEccCCCc-------------cceecccHH---Hhh
Confidence 123567777776642111 123677899999999974 244344443 477
Q ss_pred HHHHHHhhcCcCC-CC-CeEEEEEcCCCCCCCCCcccccccccccccccccCCCCCCCccccCCCCEEEEEecCCCCccc
Q 017524 198 DDEINTTLVRPLP-RG-ARLHAIIDACHSGTVLDLPFLCRMDRQGKYIWEDHRPRSGMWKGTSGGEAISFSGCDDNQTSA 275 (370)
Q Consensus 198 ddeL~~~Lv~~l~-~g-~~l~~IlD~ChSG~~~~~p~~~~~~r~g~~~~~d~~~~~~~~~~~~~~~~i~~Sac~~~Q~A~ 275 (370)
.+||...+.+.-. +. ..+++++|+|.+.++.+- -.+| +++.++++.-+|.|+
T Consensus 164 s~dLadai~qm~e~~Ryneil~miDTCQaasly~~-------------------------~~sP-NVLav~SS~~ge~Sy 217 (309)
T KOG1349|consen 164 SDDLADAIQQMWEKKRYNEILFMIDTCQAASLYER-------------------------FYSP-NVLAVASSLVGEPSY 217 (309)
T ss_pred hHHHHHHHHHHHHhhhhceEEEEeeccchHHHHHh-------------------------hcCC-CeEEEeecccCCccc
Confidence 7788877754322 22 348999999987665431 1234 688888888888886
Q ss_pred cccccCCC--CCCChhHHHHHHHHhcCC---CCCHHHHHHHHHHHH
Q 017524 276 DTSALSKI--TSTGAMTYSFIQAIERGH---GATYGSMLNSMRSTI 316 (370)
Q Consensus 276 d~~~~~~~--~~~G~fT~ali~aL~~~~---~~Ty~~Ll~~vr~~l 316 (370)
........ .----|||+.++-|++.- ..|..+|++..-...
T Consensus 218 Sh~~d~~Igv~vIDrftyy~l~flek~~~~~~~~l~dl~~s~~~~~ 263 (309)
T KOG1349|consen 218 SHHSDSDIGVYVIDRFTYYTLEFLEKGIGAKNRTLQDLFDSCPKRL 263 (309)
T ss_pred ccCCCcccceeeeccchHHHHHHHHhcccchhhhHHHHHHhCChhh
Confidence 54322211 112349999999999742 246888887765543
No 10
>PF14538 Raptor_N: Raptor N-terminal CASPase like domain
Probab=98.26 E-value=5e-06 Score=73.37 Aligned_cols=106 Identities=19% Similarity=0.282 Sum_probs=73.2
Q ss_pred HHHHHHHHHHHHhcc-CCCCC-ceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCC
Q 017524 102 INDARCMKYMLTNRF-KFPES-SIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQRNYNGEEVD 179 (370)
Q Consensus 102 ~nDa~~m~~~L~~~~-Gf~~~-~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~d~~gde~d 179 (370)
.+-.+.+.+.|..+| .+... ....+.| ||.+++.+.+..+.+.++. +.++|||-|||...+..+|
T Consensus 43 ~~~~~~I~~~l~~qY~~~~~~~~~~~~~d--------pt~e~~~~~~~~~R~~a~~-~RvLFHYnGhGvP~Pt~~G---- 109 (154)
T PF14538_consen 43 SKASEEIGKNLQSQYESWQPRARYKQSLD--------PTVEDLKRLCQSLRRNAKD-ERVLFHYNGHGVPRPTENG---- 109 (154)
T ss_pred hhHHHHHHHHHHHHHHHhCccCcEEEecC--------CCHHHHHHHHHHHHhhCCC-ceEEEEECCCCCCCCCCCC----
Confidence 455666777777543 34322 3444444 8999999999999998865 9999999999999865554
Q ss_pred CcceeEEcccCCCC-CcccHHHHHHhhcCcCCCCCeEEEEEcCCCCCCCCC
Q 017524 180 GYDETLCPVDFETQ-GMIVDDEINTTLVRPLPRGARLHAIIDACHSGTVLD 229 (370)
Q Consensus 180 G~de~L~p~D~~~~-g~I~ddeL~~~Lv~~l~~g~~l~~IlD~ChSG~~~~ 229 (370)
|-++--+-.++ -.++-.||.+++ |.-.++|+||..+|.+++
T Consensus 110 ---eIw~f~~~~tqyip~si~dL~~~l------g~Psi~V~DC~~AG~il~ 151 (154)
T PF14538_consen 110 ---EIWVFNKNYTQYIPLSIYDLQSWL------GSPSIYVFDCSNAGSILN 151 (154)
T ss_pred ---eEEEEcCCCCcceEEEHHHHHHhc------CCCEEEEEECCcHHHHHH
Confidence 23433221111 136677888887 345689999999998764
No 11
>KOG1348 consensus Asparaginyl peptidases [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=5.7e-05 Score=73.95 Aligned_cols=132 Identities=20% Similarity=0.324 Sum_probs=89.2
Q ss_pred CCcCCceEEEEEEe-c-CCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCC-----CCC---------------
Q 017524 76 PHAQGRKRALIVGV-S-YRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEED-----PDP--------------- 133 (370)
Q Consensus 76 ~~~~~~k~ALlIGI-n-Y~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~-----~~~--------------- 133 (370)
+...|+|||+||.= | |++.++ ..|+---.++|+ +-|.+++||+++.-++ .+|
T Consensus 40 ~ddggt~waVLVAGSngyyNYRH-----QADvcHAYqiLr-kgGikeEnIvv~MYDDIA~~~~NPrpG~iiN~P~G~DvY 113 (477)
T KOG1348|consen 40 DDDGGTRWAVLVAGSNGYYNYRH-----QADVCHAYQILR-KGGIKEENIVVMMYDDIANNEENPRPGVIINRPNGKDVY 113 (477)
T ss_pred CccCceeEEEEEecCCcccchhh-----hhhHHHHHHHHH-hcCCCchhEEEEEehhhhcCCCCCCCceeecCCCchhhh
Confidence 34447999999954 4 776543 457766778887 5699999987765432 121
Q ss_pred --------CCCchHHHHHHHHH---HHHH-------hCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCc
Q 017524 134 --------LKRPTKYNMRMALY---WLIQ-------GCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGM 195 (370)
Q Consensus 134 --------~~~pT~~nI~~al~---~L~~-------~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~ 195 (370)
....|-+|+++.|. .-++ ...|+|.+|+||+-||..- .|..-+ .+.
T Consensus 114 ~GvpkDYtg~~Vt~~Nf~aVllGd~savkGGsGKV~~SgpnDhiFiYytDHG~pG-------------vl~mP~---~~~ 177 (477)
T KOG1348|consen 114 QGVPKDYTGEDVTPQNFLAVLLGDASAVKGGSGKVLKSGPNDHIFIYYTDHGGPG-------------VLGMPT---SPD 177 (477)
T ss_pred cCCCCcccCCcCCHHHHHHHHhcccccccCCCceeeccCCCceEEEEEecCCCCc-------------eEecCC---Ccc
Confidence 12357788888773 2222 3469999999999999872 222111 234
Q ss_pred ccHHHHHHhhcCcCCCC--CeEEEEEcCCCCCCCCC
Q 017524 196 IVDDEINTTLVRPLPRG--ARLHAIIDACHSGTVLD 229 (370)
Q Consensus 196 I~ddeL~~~Lv~~l~~g--~~l~~IlD~ChSG~~~~ 229 (370)
+...+|++.|.+.-..+ .++++-+.||-||++.+
T Consensus 178 l~akdlnevL~kmhk~k~Y~~mvfYlEACESGSmfe 213 (477)
T KOG1348|consen 178 LYAKDLNEVLKKMHKSKTYKKMVFYLEACESGSMFE 213 (477)
T ss_pred hhHHHHHHHHHHHHhccchheEEEEeeeccCcchhh
Confidence 66678888887543322 46889999999999976
No 12
>COG5206 GPI8 Glycosylphosphatidylinositol transamidase (GPIT), subunit GPI8 [Posttranslational modification, protein turnover, chaperones]
Probab=97.78 E-value=0.00052 Score=64.81 Aligned_cols=190 Identities=17% Similarity=0.266 Sum_probs=119.5
Q ss_pred cCCceEEEEEEec--CCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCC--------------C---------
Q 017524 78 AQGRKRALIVGVS--YRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDP--------------D--------- 132 (370)
Q Consensus 78 ~~~~k~ALlIGIn--Y~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~--------------~--------- 132 (370)
...+.||++|--+ +++. +- ...+--|.+.++ +.||+..+|.++.-++. +
T Consensus 25 t~tnNwAvLlstSRfwfNY----RH-mANVl~~Yr~vk-rlGipDsQIilm~~dd~acnsRnlfpgsvf~N~Dra~dlyg 98 (382)
T COG5206 25 TNTNNWAVLLSTSRFWFNY----RH-MANVLVFYRVVK-RLGIPDSQIILMSYDDQACNSRNLFPGSVFNNSDRAGDLYG 98 (382)
T ss_pred ccCCceEEEEecccceeeh----hh-hhhHHHHHHHHH-HcCCCcceEEEEechhhhhhhcccCCcccccCcccccceeC
Confidence 4567899999877 3332 22 334666888886 68999998866543321 0
Q ss_pred -------CCCCchHHHHHHHHHHHHH---------hCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCcc
Q 017524 133 -------PLKRPTKYNMRMALYWLIQ---------GCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMI 196 (370)
Q Consensus 133 -------~~~~pT~~nI~~al~~L~~---------~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I 196 (370)
....+|-+++++-|....- ...+...+|+|..|||.-. +|=-.|++ .+
T Consensus 99 e~~eidY~gyevTve~firLLt~r~~en~p~sKrlltdE~SNIfIYmtGHGgd~-------------FlKFqdae---em 162 (382)
T COG5206 99 EDSEIDYSGYEVTVEVFIRLLTARSGENHPKSKRLLTDESSNIFIYMTGHGGDA-------------FLKFQDAE---EM 162 (382)
T ss_pred cccccccccccchHHHHHHHHHhhccCCChhhhhhcccccCcEEEEEccCCCcc-------------ceecccHH---Hh
Confidence 1235888888887754332 1235568999999999742 33333433 35
Q ss_pred cHHHHHHhhcCcCC--CCCeEEEEEcCCCCCCCCCcccccccccccccccccCCCCCCCccccCCCCEEEEEecCCCCcc
Q 017524 197 VDDEINTTLVRPLP--RGARLHAIIDACHSGTVLDLPFLCRMDRQGKYIWEDHRPRSGMWKGTSGGEAISFSGCDDNQTS 274 (370)
Q Consensus 197 ~ddeL~~~Lv~~l~--~g~~l~~IlD~ChSG~~~~~p~~~~~~r~g~~~~~d~~~~~~~~~~~~~~~~i~~Sac~~~Q~A 274 (370)
+.++|...+.+.-. +-.++++++|+|.+.+..+-- .++ +++.+.+++-+|.|
T Consensus 163 tseDladai~ql~~~kRyNeIlfmiDTCQAnaly~k~-------------------------ysP-NvLavgsSeig~ss 216 (382)
T COG5206 163 TSEDLADAISQLAAKKRYNEILFMIDTCQANALYDKS-------------------------YSP-NVLAVGSSEIGQSS 216 (382)
T ss_pred hhHHHHHHHHHHHHhhhhceEEEEeeccccchhhhhc-------------------------cCC-ceEEEeccccCCcc
Confidence 66677766654322 123488999999876654421 123 57777778888877
Q ss_pred ccccccCC--CCCCChhHHHHHHHHhc---CCCCCHHHHHHHHHHH
Q 017524 275 ADTSALSK--ITSTGAMTYSFIQAIER---GHGATYGSMLNSMRST 315 (370)
Q Consensus 275 ~d~~~~~~--~~~~G~fT~ali~aL~~---~~~~Ty~~Ll~~vr~~ 315 (370)
+..-.... ..--.-|||++++-|++ +..+|.++|+......
T Consensus 217 yShhsd~~IgvaVIDrFty~~l~fle~id~~skltlqDL~~s~n~e 262 (382)
T COG5206 217 YSHHSDSLIGVAVIDRFTYFFLKFLEKIDIGSKLTLQDLLASLNKE 262 (382)
T ss_pred ccccchhhhhHHHhhcchHHHHHHHhhcCcCCeeEHHHHHHhcCcc
Confidence 65432110 01223599999999997 3358999999876543
No 13
>COG4249 Uncharacterized protein containing caspase domain [General function prediction only]
Probab=97.74 E-value=6.1e-06 Score=82.74 Aligned_cols=213 Identities=21% Similarity=0.248 Sum_probs=142.6
Q ss_pred CceEEEEEEec-CCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCE
Q 017524 80 GRKRALIVGVS-YRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDS 158 (370)
Q Consensus 80 ~~k~ALlIGIn-Y~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~ 158 (370)
.||-||+||++ |+. ...|.++.||+..|+.+|+ ..||+. ..-+|. .++.+...|+.++++++-=|.
T Consensus 2 ~~r~alvigns~~~~-aa~l~np~~da~~~a~~L~-~iGfdv---y~~~d~--------~~~~~~~~L~~f~~da~ga~~ 68 (380)
T COG4249 2 ERRVALVIGNSTYYV-AAPLANPANDAGAMALWLT-AIGFDV---YLDTDL--------PKSGLRRALRYFAEDAEGADV 68 (380)
T ss_pred CcceEEEeecCcccc-cccCCCchhhHHHHHHHHH-HcCcee---eccccc--------chHHHHhHHHHHHHHHHHHhH
Confidence 58999999999 654 6799999999999999998 489973 222332 467899999999999998899
Q ss_pred EEEEEeccccccCCCCCCCCCCcceeEEcccCCCC-------CcccHHHHHHhhcCcCCCCCeEEEEEcCCCCCCCCCcc
Q 017524 159 LLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQ-------GMIVDDEINTTLVRPLPRGARLHAIIDACHSGTVLDLP 231 (370)
Q Consensus 159 l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~-------g~I~ddeL~~~Lv~~l~~g~~l~~IlD~ChSG~~~~~p 231 (370)
.||||||||.|.... +||+|+|.... -...+|++... .+...+++ .+|+|.|+.-...|..
T Consensus 69 al~~~aGhg~Q~~~~---------~~~~pv~~~~~~~~~~~~~~v~~~~~~~~--~p~~~~V~-~~~lD~~~~~~~~d~~ 136 (380)
T COG4249 69 ALIYYAGHGLQVDGT---------NYLLPVDADDVSPTFAVTEAVLIDCRLIP--LPARTKVR-RVLLDAARDNPPADTI 136 (380)
T ss_pred HHhhhccccccccCc---------cccccchhhhccccchhhhhhhhhhhccc--CCchhHHH-HHHHHHhhcCchhhhh
Confidence 999999999997542 59999987531 12223333221 12222333 5899999977764433
Q ss_pred cccccccccccccccCCCCCCCccccCCCCEEEEEecCCCCccccccccCCCCCCChhHHHHHHHHhcCCCCCHHHHHHH
Q 017524 232 FLCRMDRQGKYIWEDHRPRSGMWKGTSGGEAISFSGCDDNQTSADTSALSKITSTGAMTYSFIQAIERGHGATYGSMLNS 311 (370)
Q Consensus 232 ~~~~~~r~g~~~~~d~~~~~~~~~~~~~~~~i~~Sac~~~Q~A~d~~~~~~~~~~G~fT~ali~aL~~~~~~Ty~~Ll~~ 311 (370)
..+- .|. +...+..+..+++-...+.++.+.|.. ...++++-++...|.+.. .....+...
T Consensus 137 ~~~f---sG~----------g~~~~~d~~~~lia~~t~p~~~a~~~~-----~~~s~~~~~~~~~~~~~~-~ql~~~d~~ 197 (380)
T COG4249 137 LFFF---SGH----------GATPGADGRAYLIAFDTRPGAVAYDGE-----GGISPYSVAQALHLSEPG-NQLVDLDAC 197 (380)
T ss_pred hhee---ecc----------ccccCCCCceeEEeecCChhhhcccCC-----CcccHHHHHHHHHhccCC-ceeehhhhh
Confidence 2210 111 000012233366666777888877665 367899999999888753 456667777
Q ss_pred HHHHHhccCCCCCCCCCCCcchhhhhhh
Q 017524 312 MRSTIRNTDSGSELSGAGGLVTSLVTML 339 (370)
Q Consensus 312 vr~~l~~~~~~~~~~~~~~~~~~~~~~~ 339 (370)
++..+.....+ .+.+|..+++.+.+
T Consensus 198 ~~~~~~~~~~~---~~~p~l~~s~~~~~ 222 (380)
T COG4249 198 VRGDVFKATAG---QQRPWLAQSLAREF 222 (380)
T ss_pred cchhhhccccc---ccchHhhhhhhcce
Confidence 77776655421 24677777777754
No 14
>PF12770 CHAT: CHAT domain
Probab=96.91 E-value=0.011 Score=56.19 Aligned_cols=180 Identities=19% Similarity=0.242 Sum_probs=108.4
Q ss_pred EEEEecCCCC-------CCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCC
Q 017524 85 LIVGVSYRHT-------NHELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGD 157 (370)
Q Consensus 85 LlIGInY~~~-------~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD 157 (370)
|+|+...... ..+|.+....++.+++.+... +. .++..++ +|++++++.+ ...+
T Consensus 82 l~i~~p~~~~~~~~~~~~~~l~~~~~e~~~l~~~~~~~-~~-----~~~~~~~------at~~~l~~~l-------~~~~ 142 (287)
T PF12770_consen 82 LVIGNPDFGGSLIRGAALSPLPGAQREADALAELLGAG-GL-----RVLVGPE------ATKDALLEAL-------ERRG 142 (287)
T ss_pred EEEecCCCcccccccccccCchHHHHHHHHHHHHhccc-ce-----eEeeccC------CCHHHHHhhh-------ccCC
Confidence 7787763322 268899999999999888642 11 3344444 8999999987 2345
Q ss_pred EEEEEEeccccccCCCCCCCCCCcceeEEcccCCC--CCcccHHHHHHhhcCcCCCCCeEEEEEcCCCCCCCCCcccccc
Q 017524 158 SLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFET--QGMIVDDEINTTLVRPLPRGARLHAIIDACHSGTVLDLPFLCR 235 (370)
Q Consensus 158 ~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~--~g~I~ddeL~~~Lv~~l~~g~~l~~IlD~ChSG~~~~~p~~~~ 235 (370)
.=+|||+|||....+.. .+..|+..|... .+.++..+|.+ + .++. .+ ++||=+|+|+......
T Consensus 143 ~~ilH~a~Hg~~~~~~~------~~~~l~l~~~~~~~~~~l~~~~l~~-l--~l~~-~~-lVvLsaC~s~~~~~~~---- 207 (287)
T PF12770_consen 143 PDILHFAGHGTFDPDPP------DQSGLVLSDESGQEDGLLSAEELAQ-L--DLRG-PR-LVVLSACESASGDPSD---- 207 (287)
T ss_pred CCEEEEEcccccCCCCC------CCCEEEEeccCCCCCcccCHHHHHh-h--cCCC-CC-EEEecCcCCcCCCCCC----
Confidence 55999999999873211 123566654332 45788888887 2 1222 33 6999999999542110
Q ss_pred cccccccccccCCCCCCCccccCCCCEEEEEecCCCCccccccccCCCCCCChhHHHHHHHHhcCCCCCHHHHHHHHHHH
Q 017524 236 MDRQGKYIWEDHRPRSGMWKGTSGGEAISFSGCDDNQTSADTSALSKITSTGAMTYSFIQAIERGHGATYGSMLNSMRST 315 (370)
Q Consensus 236 ~~r~g~~~~~d~~~~~~~~~~~~~~~~i~~Sac~~~Q~A~d~~~~~~~~~~G~fT~ali~aL~~~~~~Ty~~Ll~~vr~~ 315 (370)
.++...+. ..+ -..+...++-+- ++... .....|+..|.+.|..+ .+..+.+...|..
T Consensus 208 --~~~~~~l~------~~~-l~aG~~~Vi~~~-------w~V~d----~~a~~f~~~fY~~L~~g--~~~~~Al~~Ar~~ 265 (287)
T PF12770_consen 208 --GDEVLGLA------RAF-LQAGAPAVIGML-------WPVPD----QAAARFMRRFYRALLQG--QSVAEALRQARRA 265 (287)
T ss_pred --chHHHHHH------HHH-HHcCCCEEEecc-------cCcch----HHHHHHHHHHHHhhhcC--CCHHHHHHHHHHH
Confidence 00000000 000 012233333221 12211 13457999999999984 6899999999999
Q ss_pred HhccC
Q 017524 316 IRNTD 320 (370)
Q Consensus 316 l~~~~ 320 (370)
+++..
T Consensus 266 l~~~~ 270 (287)
T PF12770_consen 266 LRRDS 270 (287)
T ss_pred HHhcC
Confidence 98764
No 15
>KOG1517 consensus Guanine nucleotide binding protein MIP1 [Cell cycle control, cell division, chromosome partitioning]
Probab=96.78 E-value=0.005 Score=67.61 Aligned_cols=168 Identities=20% Similarity=0.287 Sum_probs=97.0
Q ss_pred chHHHHHHHHHHHHhccC-CCC-CceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCC
Q 017524 100 GCINDARCMKYMLTNRFK-FPE-SSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQRNYNGEE 177 (370)
Q Consensus 100 g~~nDa~~m~~~L~~~~G-f~~-~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~d~~gde 177 (370)
++-+-++.+-+-|..+|- +.+ ..-.+-+| ||.+++++--..|-+.+ .+|.++|||-|||...+..+|+-
T Consensus 137 ~~~KA~e~IG~nlq~qYE~wqprtRYK~~lD--------P~vddVrKlc~slRr~a-k~eRvLFHYNGHGVPkPT~nGEI 207 (1387)
T KOG1517|consen 137 GPPKALEAIGKNLQRQYERWQPRTRYKVCLD--------PTVDDVRKLCTSLRRNA-KEERVLFHYNGHGVPKPTANGEI 207 (1387)
T ss_pred CChHHHHHHHHHHHHHHHhhChhhhhhhccC--------CcHHHHHHHHHHHhhhc-CCceEEEEecCCCCCCCCCCCcE
Confidence 344666666666654432 221 12223333 99999999767776655 58999999999999999887742
Q ss_pred ---CCCcceeEEcccCCCCCcccHHHHHHhhcCcCCCCCeEEEEEcCCCCCCCCCc--ccccccccccccccccCCCCCC
Q 017524 178 ---VDGYDETLCPVDFETQGMIVDDEINTTLVRPLPRGARLHAIIDACHSGTVLDL--PFLCRMDRQGKYIWEDHRPRSG 252 (370)
Q Consensus 178 ---~dG~de~L~p~D~~~~g~I~ddeL~~~Lv~~l~~g~~l~~IlD~ChSG~~~~~--p~~~~~~r~g~~~~~d~~~~~~ 252 (370)
.-+|.+|| | ++--||..||. .--+.|.||-.++.++-. +|.. .+++... ++......
T Consensus 208 WVFNK~fTQYI-P--------lsi~dLqsWl~------aP~IyVydcssA~~Il~nf~~fae--~~~~~~~-~~~~~~~~ 269 (1387)
T KOG1517|consen 208 WVFNKSFTQYI-P--------LSIFDLQSWLG------APTIYVYDCSSAENILVNFNRFAE--QRDKMTD-ADQANALA 269 (1387)
T ss_pred EEEecCcceee-c--------ccHHHHHhhhc------CCeEEEEeccchHHHHHHHHHHHH--hhhcccc-cccccccc
Confidence 12343343 2 33457888884 224789998877766532 2221 1111100 01000011
Q ss_pred CccccC-CCCEEEEEecCCCCccccccccCCCCCCChhHHHHHHHHh
Q 017524 253 MWKGTS-GGEAISFSGCDDNQTSADTSALSKITSTGAMTYSFIQAIE 298 (370)
Q Consensus 253 ~~~~~~-~~~~i~~Sac~~~Q~A~d~~~~~~~~~~G~fT~ali~aL~ 298 (370)
...+++ -.+.|.++||..+|+=--...+ .--+||.+|..=|+
T Consensus 270 ~ps~~~~y~dCi~LAaC~~~e~LPms~~l----PADlFTsCLTTPI~ 312 (1387)
T KOG1517|consen 270 FPSGTSRYKDCIHLAACDAHETLPMSPEL----PADLFTSCLTTPIE 312 (1387)
T ss_pred CCCCCcchhhhheeccCCcccccCCCCCc----cHHHHhhhhcCchh
Confidence 111121 2468999999999875444332 35689998866554
No 16
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=95.23 E-value=0.012 Score=39.32 Aligned_cols=31 Identities=29% Similarity=0.943 Sum_probs=25.5
Q ss_pred CcccCCCCCCccccCC-----CCceeeccccCceee
Q 017524 3 MLVDCSKCRTTLQLPP-----GAQSIRCAICQAITH 33 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~-----~a~~~~C~~C~~vt~ 33 (370)
|.+.|++|.+.+.+|. +.+.+||+.|+.+=.
T Consensus 1 M~i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 1 MIITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred CEEECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 6789999999887665 567899999997643
No 17
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=94.02 E-value=0.044 Score=36.38 Aligned_cols=29 Identities=28% Similarity=1.015 Sum_probs=24.1
Q ss_pred CcccCCCCCCccc-----cCCCCceeeccccCce
Q 017524 3 MLVDCSKCRTTLQ-----LPPGAQSIRCAICQAI 31 (370)
Q Consensus 3 ~~~~C~~C~~~l~-----~p~~a~~~~C~~C~~v 31 (370)
|.+.|.+|.+... +|++...+||..|+.+
T Consensus 1 M~i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~ 34 (36)
T PF13717_consen 1 MIITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHV 34 (36)
T ss_pred CEEECCCCCCEEeCCHHHCCCCCcEEECCCCCCE
Confidence 6789999999754 5567789999999865
No 18
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=92.99 E-value=0.081 Score=37.76 Aligned_cols=36 Identities=28% Similarity=0.652 Sum_probs=29.6
Q ss_pred CCCcccCCCCCCccccCCCCc--eeeccccCceeeccC
Q 017524 1 MLMLVDCSKCRTTLQLPPGAQ--SIRCAICQAITHIAD 36 (370)
Q Consensus 1 ~~~~~~C~~C~~~l~~p~~a~--~~~C~~C~~vt~v~~ 36 (370)
|+..++|++|..-|.-.-.+. .|+|.-|++++.+..
T Consensus 1 m~~eiRC~~CnklLa~~g~~~~leIKCpRC~tiN~~~a 38 (51)
T PF10122_consen 1 MLKEIRCGHCNKLLAKAGEVIELEIKCPRCKTINHVRA 38 (51)
T ss_pred CCcceeccchhHHHhhhcCccEEEEECCCCCccceEec
Confidence 778899999999776543444 799999999999985
No 19
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=92.31 E-value=0.089 Score=34.96 Aligned_cols=32 Identities=22% Similarity=0.665 Sum_probs=25.2
Q ss_pred CcccCCCCCCccccCC-----CCceeeccccCceeec
Q 017524 3 MLVDCSKCRTTLQLPP-----GAQSIRCAICQAITHI 34 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~-----~a~~~~C~~C~~vt~v 34 (370)
|.+.|++|++...++. ....++|..|+.+-.+
T Consensus 1 M~~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~~ 37 (38)
T TIGR02098 1 MRIQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWYA 37 (38)
T ss_pred CEEECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEEe
Confidence 5689999999888874 2347999999976543
No 20
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=90.96 E-value=0.18 Score=35.07 Aligned_cols=29 Identities=21% Similarity=0.568 Sum_probs=25.7
Q ss_pred CcccCCCCCCccccCCCCceeeccccCce
Q 017524 3 MLVDCSKCRTTLQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~~a~~~~C~~C~~v 31 (370)
+...|++|++.+.+.+....++|..|+.-
T Consensus 2 ~~y~C~~CG~~~~~~~~~~~~~Cp~CG~~ 30 (46)
T PRK00398 2 AEYKCARCGREVELDEYGTGVRCPYCGYR 30 (46)
T ss_pred CEEECCCCCCEEEECCCCCceECCCCCCe
Confidence 56789999999999999889999999853
No 21
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.83 E-value=0.86 Score=49.60 Aligned_cols=34 Identities=26% Similarity=0.808 Sum_probs=28.0
Q ss_pred CcccCCCCCCcc----ccCCCCceeeccccCceeeccC
Q 017524 3 MLVDCSKCRTTL----QLPPGAQSIRCAICQAITHIAD 36 (370)
Q Consensus 3 ~~~~C~~C~~~l----~~p~~a~~~~C~~C~~vt~v~~ 36 (370)
-.|+|.+||+++ .+...-+..||.+|..|+-|..
T Consensus 217 ~IvRCr~CRtYiNPFV~fid~gr~WrCNlC~~~NdvP~ 254 (887)
T KOG1985|consen 217 LIVRCRRCRTYINPFVEFIDQGRRWRCNLCGRVNDVPD 254 (887)
T ss_pred ceeeehhhhhhcCCeEEecCCCceeeechhhhhcCCcH
Confidence 368999999975 5555668999999999998875
No 22
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=84.17 E-value=0.73 Score=31.19 Aligned_cols=32 Identities=28% Similarity=0.694 Sum_probs=20.0
Q ss_pred cccCCCCCCcc----ccCCCCceeeccccCceeecc
Q 017524 4 LVDCSKCRTTL----QLPPGAQSIRCAICQAITHIA 35 (370)
Q Consensus 4 ~~~C~~C~~~l----~~p~~a~~~~C~~C~~vt~v~ 35 (370)
.++|.+|++.| .+-.+.++..|.+|...+.+.
T Consensus 2 p~rC~~C~aylNp~~~~~~~~~~w~C~~C~~~N~lp 37 (40)
T PF04810_consen 2 PVRCRRCRAYLNPFCQFDDGGKTWICNFCGTKNPLP 37 (40)
T ss_dssp S-B-TTT--BS-TTSEEETTTTEEEETTT--EEE--
T ss_pred ccccCCCCCEECCcceEcCCCCEEECcCCCCcCCCC
Confidence 57999999975 556678899999999988775
No 23
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=79.51 E-value=1.3 Score=33.44 Aligned_cols=30 Identities=20% Similarity=0.627 Sum_probs=25.2
Q ss_pred CcccCCCCCCc-cccCCCCceeeccccCcee
Q 017524 3 MLVDCSKCRTT-LQLPPGAQSIRCAICQAIT 32 (370)
Q Consensus 3 ~~~~C~~C~~~-l~~p~~a~~~~C~~C~~vt 32 (370)
+.|.|+.|+.. ..+..-++.|+|.+|..+-
T Consensus 18 l~VkCpdC~N~q~vFshast~V~C~~CG~~l 48 (67)
T COG2051 18 LRVKCPDCGNEQVVFSHASTVVTCLICGTTL 48 (67)
T ss_pred EEEECCCCCCEEEEeccCceEEEecccccEE
Confidence 46889999984 7888888999999998654
No 24
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=79.23 E-value=8 Score=34.71 Aligned_cols=62 Identities=13% Similarity=0.213 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEeccccccC
Q 017524 102 INDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQR 171 (370)
Q Consensus 102 ~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~ 171 (370)
+++-+...+.|.++.||...+++.+..+. |.++++++.+.. +-.-.+|.+-|+.+|||...-
T Consensus 49 ~~a~~~eid~l~~e~Gyk~~Dvvsv~~~~------pk~del~akF~~--EH~H~d~EvRy~vaG~GiF~v 110 (181)
T COG1791 49 IDAYETEIDRLIRERGYKNRDVVSVSPSN------PKLDELRAKFLQ--EHLHTDDEVRYFVAGEGIFDV 110 (181)
T ss_pred HhhHHHHHHHHHHhhCCceeeEEEeCCCC------ccHHHHHHHHHH--HhccCCceEEEEEecceEEEE
Confidence 34444566777777899988998888877 899999887643 234477999999999998743
No 25
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=72.19 E-value=2.6 Score=31.19 Aligned_cols=29 Identities=21% Similarity=0.699 Sum_probs=24.3
Q ss_pred CcccCCCCCCc-cccCCCCceeeccccCce
Q 017524 3 MLVDCSKCRTT-LQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 3 ~~~~C~~C~~~-l~~p~~a~~~~C~~C~~v 31 (370)
+.|.|+.|... ..+..-.+.|+|..|..+
T Consensus 10 ~~VkCp~C~n~q~vFsha~t~V~C~~Cg~~ 39 (59)
T PRK00415 10 LKVKCPDCGNEQVVFSHASTVVRCLVCGKT 39 (59)
T ss_pred EEEECCCCCCeEEEEecCCcEEECcccCCC
Confidence 56899999984 678888899999999843
No 26
>COG4995 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=70.71 E-value=17 Score=37.30 Aligned_cols=116 Identities=16% Similarity=0.123 Sum_probs=66.6
Q ss_pred CceEEEEEEecC-----CCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCC
Q 017524 80 GRKRALIVGVSY-----RHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQ 154 (370)
Q Consensus 80 ~~k~ALlIGInY-----~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~ 154 (370)
.+-+++.-|..- .....+|++....|+.+++.+... .+|.+++ =|.++....++..
T Consensus 211 ~~l~vl~~g~s~~~~~~~~~~~~Lp~~~~Ev~~Ia~~~~~~--------~~ll~q~------Ft~~~~~~~~~~~----- 271 (420)
T COG4995 211 QNLKVLAAGLSEPSGPARTGFDALPFAALEVETIAAIFPPQ--------KLLLNQA------FTAANLAQEIDTK----- 271 (420)
T ss_pred cchhHHHhccCcccccccccccccchHHHHHHHHHHhhhhH--------Hhhhccc------chhhHHhhhhhcC-----
Confidence 344555555542 122478999999999999887421 1233332 2444444444422
Q ss_pred CCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCcccHHHHHHhhcC--cCCCCCeEEEEEcCCCCCCC
Q 017524 155 PGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIVDDEINTTLVR--PLPRGARLHAIIDACHSGTV 227 (370)
Q Consensus 155 ~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ddeL~~~Lv~--~l~~g~~l~~IlD~ChSG~~ 227 (370)
+.=++||+.||..... +..+.+|+-.|-..+.. ++..++.. .....++ ++||-||-.|..
T Consensus 272 --~~~vvHlATHg~f~s~------~p~~S~l~~~~~~~~~~----~~~~~~~~~~~~~~~vd-LvVLSACqTa~g 333 (420)
T COG4995 272 --PYSVVHLATHGQFSSG------NPEDSFLLLWDGPINVT----ELDILLRNRNNNLLPVE-LVVLSACQTALG 333 (420)
T ss_pred --CCceEEEeccccccCC------CcccceeeecCCCCccc----HHHHHHHhcccCCCCee-eEEEecchhccC
Confidence 4458999999998652 12355788887554422 22222221 1122355 589999988774
No 27
>PF01667 Ribosomal_S27e: Ribosomal protein S27; InterPro: IPR000592 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families include mammalian, yeast, Chlamydomonas reinhardtii and Entamoeba histolytica S27, and Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0250 []. These proteins have from 62 to 87 amino acids. They contain, in their central section, a putative zinc-finger region of the type C-x(2)-C-x(14)-C-x(2)-C.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1QXF_A 3IZ6_X 2XZN_6 2XZM_6 3U5G_b 3IZB_X 3U5C_b.
Probab=70.66 E-value=2.8 Score=30.55 Aligned_cols=30 Identities=20% Similarity=0.620 Sum_probs=20.5
Q ss_pred CcccCCCCCCc-cccCCCCceeeccccCcee
Q 017524 3 MLVDCSKCRTT-LQLPPGAQSIRCAICQAIT 32 (370)
Q Consensus 3 ~~~~C~~C~~~-l~~p~~a~~~~C~~C~~vt 32 (370)
|.|.|+.|... ..+..-.+.|.|..|..+-
T Consensus 6 m~VkCp~C~~~q~vFSha~t~V~C~~Cg~~L 36 (55)
T PF01667_consen 6 MDVKCPGCYNIQTVFSHAQTVVKCVVCGTVL 36 (55)
T ss_dssp EEEE-TTT-SEEEEETT-SS-EE-SSSTSEE
T ss_pred EEEECCCCCCeeEEEecCCeEEEcccCCCEe
Confidence 67899999984 6788888999999998654
No 28
>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function.
Probab=70.52 E-value=2.4 Score=29.73 Aligned_cols=32 Identities=38% Similarity=0.784 Sum_probs=26.3
Q ss_pred cccCCCCCCccccCCCC-------ceeeccccCceeecc
Q 017524 4 LVDCSKCRTTLQLPPGA-------QSIRCAICQAITHIA 35 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a-------~~~~C~~C~~vt~v~ 35 (370)
-|.|++|-..|++|.+. +.+||.-|..|-.+.
T Consensus 6 Fv~C~~C~~lLqlP~~~~~~~k~~~klrCGaCs~vl~~s 44 (46)
T PF11331_consen 6 FVVCSSCFELLQLPAKFSLSKKNQQKLRCGACSEVLSFS 44 (46)
T ss_pred EeECccHHHHHcCCCccCCCccceeEEeCCCCceeEEEe
Confidence 47899999999999754 479999999887654
No 29
>PF12070 DUF3550: Protein of unknown function (DUF3550/UPF0682); InterPro: IPR022709 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 249 to 606 amino acids in length.
Probab=70.45 E-value=27 Score=36.68 Aligned_cols=37 Identities=24% Similarity=0.264 Sum_probs=33.2
Q ss_pred CCchHHHHHHHHHHHHHhCCCCCEEEEEEeccccccC
Q 017524 135 KRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQR 171 (370)
Q Consensus 135 ~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~ 171 (370)
..||-..++.-|..-.++.-++-.+++|-|.+|....
T Consensus 292 YrPT~sqll~~LAt~~kELP~n~~lLlYlSA~G~~~~ 328 (513)
T PF12070_consen 292 YRPTFSQLLAFLATAFKELPPNGALLLYLSADGCFST 328 (513)
T ss_pred ecCCHHHHHHHHHHHHHhcCCCceEEEEEeccCcccC
Confidence 4799999999999999999999999999999997654
No 30
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=70.36 E-value=2.1 Score=30.45 Aligned_cols=33 Identities=24% Similarity=0.646 Sum_probs=27.2
Q ss_pred CcccCCCCCCccccCCCCceeeccccCceeecc
Q 017524 3 MLVDCSKCRTTLQLPPGAQSIRCAICQAITHIA 35 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v~ 35 (370)
+.-.|..|++.+.+......+||..|..--.+-
T Consensus 5 ~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~rIl~K 37 (49)
T COG1996 5 MEYKCARCGREVELDQETRGIRCPYCGSRILVK 37 (49)
T ss_pred EEEEhhhcCCeeehhhccCceeCCCCCcEEEEe
Confidence 344699999999888899999999998765554
No 31
>PF03415 Peptidase_C11: Clostripain family This family belongs to family C11 of the peptidase classification.; InterPro: IPR005077 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C11 (clostripain family, clan CD). ; PDB: 3UWS_A.
Probab=67.21 E-value=16 Score=37.15 Aligned_cols=82 Identities=17% Similarity=0.237 Sum_probs=44.3
Q ss_pred CchHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCC-CCcccHHHHHHhhcCcCCCCCe
Q 017524 136 RPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFET-QGMIVDDEINTTLVRPLPRGAR 214 (370)
Q Consensus 136 ~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~-~g~I~ddeL~~~Lv~~l~~g~~ 214 (370)
..+.+.+..-|+|..+.. |-|.-.+-+.+||.-......... ..+ ..|-.. ...+.-.||.+.|. .+.+
T Consensus 77 m~dp~tL~~fi~~~~~~y-PA~~y~LIlw~HG~Gw~~~~~~~~----rg~-~~D~~~~~~~l~i~el~~aL~----~~~~ 146 (397)
T PF03415_consen 77 MGDPDTLSDFINWAKENY-PADRYGLILWDHGGGWLPASDSST----RGI-GFDETSGGDYLSIPELAEALE----GGPK 146 (397)
T ss_dssp TTSHHHHHHHHHHHHHHS--ECEEEEEEES-B-TT--TTGGG-------E-EEETTE---EE-HHHHHHHS------TT-
T ss_pred CCCHHHHHHHHHHHHHhC-CcccEEEEEEECCCCCCcCCCCCc----ceE-ecCCCChhhcccHHHHHHHHc----CCCC
Confidence 345667777778887765 678889999999987632211000 112 222221 23566688988874 3456
Q ss_pred E-EEEEcCCCCCCC
Q 017524 215 L-HAIIDACHSGTV 227 (370)
Q Consensus 215 l-~~IlD~ChSG~~ 227 (370)
+ ++.||+|..|++
T Consensus 147 ~d~I~FDaClM~~v 160 (397)
T PF03415_consen 147 FDFIGFDACLMGSV 160 (397)
T ss_dssp EEEEEEESTT--BH
T ss_pred CcEEEECcccchhH
Confidence 5 689999998876
No 32
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=65.98 E-value=3.7 Score=39.01 Aligned_cols=33 Identities=21% Similarity=0.537 Sum_probs=24.5
Q ss_pred CcccCCCCCCccccCCCC--ceeeccccCceeecc
Q 017524 3 MLVDCSKCRTTLQLPPGA--QSIRCAICQAITHIA 35 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~~a--~~~~C~~C~~vt~v~ 35 (370)
..+.|++|...++++.=. +--||..|++|+-|.
T Consensus 156 ~rv~CghC~~~Fl~~~~~~~tlARCPHCrKvSSVG 190 (256)
T PF09788_consen 156 CRVICGHCSNTFLFNTLTSNTLARCPHCRKVSSVG 190 (256)
T ss_pred eeEECCCCCCcEeccCCCCCccccCCCCceecccc
Confidence 357899999887776433 446999999888775
No 33
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=65.76 E-value=35 Score=37.60 Aligned_cols=28 Identities=25% Similarity=0.733 Sum_probs=24.1
Q ss_pred cccCCCCCCccccCCCCceeeccccCce
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~v 31 (370)
...|.+|...|.+.......+|..|.+.
T Consensus 444 v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~ 471 (730)
T COG1198 444 IAECPNCDSPLTLHKATGQLRCHYCGYQ 471 (730)
T ss_pred cccCCCCCcceEEecCCCeeEeCCCCCC
Confidence 3569999999999999999999999843
No 34
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=65.36 E-value=3.3 Score=31.45 Aligned_cols=32 Identities=22% Similarity=0.662 Sum_probs=24.3
Q ss_pred cccCCCCCCccccCCCCceeeccccCceeeccCC
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQAITHIADP 37 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v~~~ 37 (370)
..+| .|++.|-..-++..-+| +|.+..+|...
T Consensus 3 ifrC-~Cgr~lya~e~~kTkkC-~CG~~l~vk~~ 34 (68)
T PF09082_consen 3 IFRC-DCGRYLYAKEGAKTKKC-VCGKTLKVKER 34 (68)
T ss_dssp EEEE-TTS--EEEETT-SEEEE-TTTEEEE--SS
T ss_pred EEEe-cCCCEEEecCCcceeEe-cCCCeeeeeeE
Confidence 4689 79999999999999999 99999999863
No 35
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=65.20 E-value=7 Score=42.59 Aligned_cols=33 Identities=27% Similarity=0.791 Sum_probs=28.1
Q ss_pred cccCCCCCCcc----ccCCCCceeeccccCceeeccC
Q 017524 4 LVDCSKCRTTL----QLPPGAQSIRCAICQAITHIAD 36 (370)
Q Consensus 4 ~~~C~~C~~~l----~~p~~a~~~~C~~C~~vt~v~~ 36 (370)
.++|.+||.++ ++-.+-+..||.+|+.++.|+.
T Consensus 199 ivRCrrCrsYiNPfv~fi~~g~kw~CNiC~~kN~vp~ 235 (861)
T COG5028 199 IVRCRRCRSYINPFVQFIEQGRKWRCNICRSKNDVPE 235 (861)
T ss_pred chhhhhhHhhcCceEEEecCCcEEEEeeccccccCcc
Confidence 48999999974 5666778999999999999986
No 36
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=62.14 E-value=3.8 Score=45.13 Aligned_cols=36 Identities=22% Similarity=0.610 Sum_probs=30.5
Q ss_pred CcccCCCCCCc----cccCCCCceeeccccCceeeccCCC
Q 017524 3 MLVDCSKCRTT----LQLPPGAQSIRCAICQAITHIADPR 38 (370)
Q Consensus 3 ~~~~C~~C~~~----l~~p~~a~~~~C~~C~~vt~v~~~~ 38 (370)
.-|+|++|+.+ .++--+-++++|.+|+.++.|.+-+
T Consensus 337 gPvRC~RCkaYinPFmqF~~~gr~f~Cn~C~~~n~vp~~y 376 (1007)
T KOG1984|consen 337 GPVRCNRCKAYINPFMQFIDGGRKFICNFCGSKNQVPDDY 376 (1007)
T ss_pred CCcchhhhhhhcCcceEEecCCceEEecCCCccccCChhh
Confidence 46899999997 3777888999999999999998633
No 37
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=61.53 E-value=7 Score=24.87 Aligned_cols=28 Identities=25% Similarity=0.572 Sum_probs=18.9
Q ss_pred cccCCCCCCccccCCCCceeeccccCce
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~v 31 (370)
+-.|+.|+.....-.+-.+-+|..|...
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-E
T ss_pred CcccCcCCccccCCCCcCEeECCCCcCE
Confidence 4579999999988888899999999864
No 38
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=60.62 E-value=4.8 Score=26.03 Aligned_cols=24 Identities=38% Similarity=0.958 Sum_probs=18.7
Q ss_pred cCCCCCCccccCCCCceeeccccCc
Q 017524 6 DCSKCRTTLQLPPGAQSIRCAICQA 30 (370)
Q Consensus 6 ~C~~C~~~l~~p~~a~~~~C~~C~~ 30 (370)
.|+.|++...+.++. .|||..|..
T Consensus 2 ~C~~Cg~~~~~~~~~-~irC~~CG~ 25 (32)
T PF03604_consen 2 ICGECGAEVELKPGD-PIRCPECGH 25 (32)
T ss_dssp BESSSSSSE-BSTSS-TSSBSSSS-
T ss_pred CCCcCCCeeEcCCCC-cEECCcCCC
Confidence 599999998888765 689999974
No 39
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=59.62 E-value=7.5 Score=26.93 Aligned_cols=27 Identities=19% Similarity=0.501 Sum_probs=21.5
Q ss_pred ccCCCCCCccccCCCCceeeccccCcee
Q 017524 5 VDCSKCRTTLQLPPGAQSIRCAICQAIT 32 (370)
Q Consensus 5 ~~C~~C~~~l~~p~~a~~~~C~~C~~vt 32 (370)
-.|+.|++.+.+. ....|||..|..-.
T Consensus 3 Y~C~~Cg~~~~~~-~~~~irC~~CG~rI 29 (44)
T smart00659 3 YICGECGRENEIK-SKDVVRCRECGYRI 29 (44)
T ss_pred EECCCCCCEeecC-CCCceECCCCCceE
Confidence 4799999988877 44679999998544
No 40
>KOG1321 consensus Protoheme ferro-lyase (ferrochelatase) [Coenzyme transport and metabolism]
Probab=58.89 E-value=27 Score=34.52 Aligned_cols=37 Identities=22% Similarity=0.254 Sum_probs=27.2
Q ss_pred CCchHHHHHHHHHHHHHh-C----C-CCCEEEEEEeccccccC
Q 017524 135 KRPTKYNMRMALYWLIQG-C----Q-PGDSLLFHFSGHGSQQR 171 (370)
Q Consensus 135 ~~pT~~nI~~al~~L~~~-a----~-~gD~l~fyfSGHG~~~~ 171 (370)
+|||++-++++|.++++. . . .-|.|+++||.||....
T Consensus 198 rW~t~~glIkafA~~I~keL~~F~~~~r~~VVIlFSAHslPms 240 (395)
T KOG1321|consen 198 RWPTREGLIKAFAENIEKELQTFPEPVRDDVVILFSAHSLPMS 240 (395)
T ss_pred cccccchHHHHHHHHHHHHHHhcCCcccccEEEEEecCCCcHH
Confidence 579998888888766542 1 1 23789999999998764
No 41
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=58.53 E-value=6.9 Score=31.03 Aligned_cols=29 Identities=21% Similarity=0.493 Sum_probs=23.2
Q ss_pred CcccCCCCCCc-cccCCCCceeeccccCce
Q 017524 3 MLVDCSKCRTT-LQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 3 ~~~~C~~C~~~-l~~p~~a~~~~C~~C~~v 31 (370)
+.|.|++|... ..+..-.+.|.|..|..+
T Consensus 34 m~VkCp~C~n~q~VFShA~t~V~C~~Cg~~ 63 (85)
T PTZ00083 34 MDVKCPGCSQITTVFSHAQTVVLCGGCSSQ 63 (85)
T ss_pred EEEECCCCCCeeEEEecCceEEEccccCCE
Confidence 56889999884 677788888999999854
No 42
>PLN00209 ribosomal protein S27; Provisional
Probab=57.05 E-value=7.5 Score=30.89 Aligned_cols=29 Identities=24% Similarity=0.574 Sum_probs=23.4
Q ss_pred CcccCCCCCCc-cccCCCCceeeccccCce
Q 017524 3 MLVDCSKCRTT-LQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 3 ~~~~C~~C~~~-l~~p~~a~~~~C~~C~~v 31 (370)
+-|.|++|... ..+..-.+.|.|..|..+
T Consensus 35 m~VkCp~C~n~q~VFShA~t~V~C~~Cg~~ 64 (86)
T PLN00209 35 MDVKCQGCFNITTVFSHSQTVVVCGSCQTV 64 (86)
T ss_pred EEEECCCCCCeeEEEecCceEEEccccCCE
Confidence 56889999884 677888888999999854
No 43
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=54.21 E-value=55 Score=34.41 Aligned_cols=27 Identities=22% Similarity=0.653 Sum_probs=22.3
Q ss_pred cccCCCCCCccccCCCCceeeccccCc
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQA 30 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~ 30 (370)
.+.|.+|...|.+.......+|..|..
T Consensus 222 ~~~C~~C~~~l~~h~~~~~l~Ch~Cg~ 248 (505)
T TIGR00595 222 ILCCPNCDVSLTYHKKEGKLRCHYCGY 248 (505)
T ss_pred ccCCCCCCCceEEecCCCeEEcCCCcC
Confidence 356888888888888888899999973
No 44
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=52.69 E-value=10 Score=24.88 Aligned_cols=27 Identities=30% Similarity=0.796 Sum_probs=15.2
Q ss_pred cCCCCCCcc--ccCCCCc--eeeccccCcee
Q 017524 6 DCSKCRTTL--QLPPGAQ--SIRCAICQAIT 32 (370)
Q Consensus 6 ~C~~C~~~l--~~p~~a~--~~~C~~C~~vt 32 (370)
.|++|+..| .+|.|.. ..-|..|+.|-
T Consensus 2 fC~~CG~~l~~~ip~gd~r~R~vC~~Cg~Ih 32 (34)
T PF14803_consen 2 FCPQCGGPLERRIPEGDDRERLVCPACGFIH 32 (34)
T ss_dssp B-TTT--B-EEE--TT-SS-EEEETTTTEEE
T ss_pred ccccccChhhhhcCCCCCccceECCCCCCEE
Confidence 599999986 5576664 57799998774
No 45
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=50.65 E-value=13 Score=26.91 Aligned_cols=32 Identities=19% Similarity=0.502 Sum_probs=26.2
Q ss_pred cccCCCCCCccccCCCCc--eeeccccCceeecc
Q 017524 4 LVDCSKCRTTLQLPPGAQ--SIRCAICQAITHIA 35 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~--~~~C~~C~~vt~v~ 35 (370)
...|+.|+..+.+|.... -+.|..|.+.-.|.
T Consensus 2 ~~~CP~CG~~iev~~~~~GeiV~Cp~CGaeleVv 35 (54)
T TIGR01206 2 QFECPDCGAEIELENPELGELVICDECGAELEVV 35 (54)
T ss_pred ccCCCCCCCEEecCCCccCCEEeCCCCCCEEEEE
Confidence 458999999999987653 58999999877665
No 46
>COG2830 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.60 E-value=14 Score=33.26 Aligned_cols=38 Identities=26% Similarity=0.522 Sum_probs=23.9
Q ss_pred CCCCCEEEEEEeccccccCCCCCCCC-CCcceeEEcccCC
Q 017524 153 CQPGDSLLFHFSGHGSQQRNYNGEEV-DGYDETLCPVDFE 191 (370)
Q Consensus 153 a~~gD~l~fyfSGHG~~~~d~~gde~-dG~de~L~p~D~~ 191 (370)
++.||.|++||+|-|+.....+.--. ..+ ..++.+|++
T Consensus 7 ~~qgd~LIvyFaGwgtpps~v~HLilpeN~-dl~lcYDY~ 45 (214)
T COG2830 7 CKQGDHLIVYFAGWGTPPSAVNHLILPENH-DLLLCYDYQ 45 (214)
T ss_pred ecCCCEEEEEEecCCCCHHHHhhccCCCCC-cEEEEeehh
Confidence 45799999999999987543221000 112 256777775
No 47
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=47.88 E-value=20 Score=24.96 Aligned_cols=30 Identities=27% Similarity=0.483 Sum_probs=22.2
Q ss_pred cCCCCCCccccCCCC--ceeeccccCceeecc
Q 017524 6 DCSKCRTTLQLPPGA--QSIRCAICQAITHIA 35 (370)
Q Consensus 6 ~C~~C~~~l~~p~~a--~~~~C~~C~~vt~v~ 35 (370)
-|+.|+..|..+... ....|..|...-++.
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCCeEECC
Confidence 499999966555443 378899999877665
No 48
>COG0648 Nfo Endonuclease IV [DNA replication, recombination, and repair]
Probab=47.85 E-value=43 Score=32.53 Aligned_cols=62 Identities=23% Similarity=0.264 Sum_probs=38.7
Q ss_pred chHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCcccHHHHHHhhcCcCCCCCeEE
Q 017524 137 PTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIVDDEINTTLVRPLPRGARLH 216 (370)
Q Consensus 137 pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ddeL~~~Lv~~l~~g~~l~ 216 (370)
-..++|.++|..+... +....++.+.+|-|.-... . -.+|.++|. ....-.++-
T Consensus 118 ~~l~~i~~~Ln~~~~~-~~v~i~~e~~agegs~~g~----------------~--------F~~L~eii~-~~~~~~~ig 171 (280)
T COG0648 118 EGLNRIAEALNELLEE-EGVIILLENTAGEGSGKGT----------------Q--------FGELAEIID-LIEEKERIG 171 (280)
T ss_pred HHHHHHHHHHHHHhhc-cCCeEEEEEeccccCcccc----------------c--------hhhHHHHHH-hhcccCceE
Confidence 3567777888777765 4456677788887765421 1 135555442 233334688
Q ss_pred EEEcCCCC
Q 017524 217 AIIDACHS 224 (370)
Q Consensus 217 ~IlD~ChS 224 (370)
+.||+||.
T Consensus 172 vCiDtcH~ 179 (280)
T COG0648 172 VCIDTCHA 179 (280)
T ss_pred EEEEchhh
Confidence 99999996
No 49
>PTZ00377 alanine aminotransferase; Provisional
Probab=45.50 E-value=93 Score=32.10 Aligned_cols=52 Identities=17% Similarity=0.319 Sum_probs=31.5
Q ss_pred HHHHHHHHHhccC--CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEE---EEeccc
Q 017524 105 ARCMKYMLTNRFK--FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLF---HFSGHG 167 (370)
Q Consensus 105 a~~m~~~L~~~~G--f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~f---yfSGHG 167 (370)
-+.++++|.++.| +++++|.+ |.- +.+.|...+..|+. .+||.|++ +|.++-
T Consensus 121 R~aia~~~~~~~g~~~~~~~I~i-t~G--------a~~al~~~~~~l~~--~~gD~Vlv~~P~y~~y~ 177 (481)
T PTZ00377 121 RKAVAAFIERRDGVPKDPSDIFL-TDG--------ASSGIKLLLQLLIG--DPSDGVMIPIPQYPLYS 177 (481)
T ss_pred HHHHHHHHHHhcCCCCChhhEEE-cCC--------HHHHHHHHHHHhcc--CCCCEEEECCCCchhHH
Confidence 3456777765556 45667754 432 45666666666642 48998876 455543
No 50
>KOG0256 consensus 1-aminocyclopropane-1-carboxylate synthase, and related proteins [Signal transduction mechanisms]
Probab=43.81 E-value=83 Score=32.37 Aligned_cols=34 Identities=24% Similarity=0.398 Sum_probs=25.0
Q ss_pred ccHHHHHHhhcCcCCCCCeEEEEEcCCCCCCCCCcc
Q 017524 196 IVDDEINTTLVRPLPRGARLHAIIDACHSGTVLDLP 231 (370)
Q Consensus 196 I~ddeL~~~Lv~~l~~g~~l~~IlD~ChSG~~~~~p 231 (370)
.+.++|..++. .....++++|+|==|+|++.+.+
T Consensus 243 ~~~e~L~~ll~--Fa~~kniHvI~DEIya~sVF~~~ 276 (471)
T KOG0256|consen 243 LSPEELISLLN--FASRKNIHVISDEIYAGSVFDKS 276 (471)
T ss_pred cCHHHHHHHHH--HHhhcceEEEeehhhcccccCcc
Confidence 34567776653 23346799999999999998865
No 51
>PF10264 Stork_head: Winged helix Storkhead-box1 domain; InterPro: IPR019391 In humans the Storkhead-box protein controls polyploidization of extravillus trophoblast and is implicated in pre-eclampsia []. This entry represents the conserved N-terminal winged-helix domain, which is likely to bind DNA.
Probab=43.71 E-value=64 Score=25.39 Aligned_cols=45 Identities=20% Similarity=0.245 Sum_probs=33.3
Q ss_pred HHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEecccccc
Q 017524 105 ARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQ 170 (370)
Q Consensus 105 a~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~ 170 (370)
.+.+.+.|.++ |+. | ..|+.+-+..+|..|++.- -+|+.|+|...
T Consensus 32 ~E~l~~~L~~~--yp~--i-----------~~Ps~e~l~~~L~~Li~er------kIY~tg~GYfi 76 (80)
T PF10264_consen 32 QETLREHLRKH--YPG--I-----------AIPSQEVLYNTLGTLIKER------KIYHTGEGYFI 76 (80)
T ss_pred HHHHHHHHHHh--CCC--C-----------CCCCHHHHHHHHHHHHHcC------ceeeCCCceEe
Confidence 45667777654 553 2 1299999999999999864 48999999764
No 52
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=43.23 E-value=9.7 Score=27.60 Aligned_cols=37 Identities=22% Similarity=0.552 Sum_probs=27.1
Q ss_pred CCCcccCCCCCCccccCCCC--ceeeccccCceeeccCC
Q 017524 1 MLMLVDCSKCRTTLQLPPGA--QSIRCAICQAITHIADP 37 (370)
Q Consensus 1 ~~~~~~C~~C~~~l~~p~~a--~~~~C~~C~~vt~v~~~ 37 (370)
|+..++|..|..-|.=.-+. -.++|.-|+.|+.+..+
T Consensus 1 ~~~tiRC~~CnKlLa~a~~~~yle~KCPrCK~vN~~~~~ 39 (60)
T COG4416 1 MMQTIRCAKCNKLLAEAEGQAYLEKKCPRCKEVNEFYIK 39 (60)
T ss_pred CceeeehHHHhHHHHhcccceeeeecCCccceeeeeecc
Confidence 78889999998854332222 25899999999987653
No 53
>PF03568 Peptidase_C50: Peptidase family C50; InterPro: IPR005314 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C50 (separase family, clan CD). The active site residues for members of this family and family C14 occur in the same order in the sequence: H,C. The separases are caspase-like proteases, which plays a central role in the chromosome segregation. In yeast they cleave the rad21 subunit of the cohesin complex at the onset of anaphase. During most of the cell cycle, separase is inactivated by the securin/cut2 protein, which probably covers its active site. ; GO: 0008233 peptidase activity, 0006508 proteolysis, 0005634 nucleus
Probab=42.71 E-value=41 Score=33.94 Aligned_cols=53 Identities=25% Similarity=0.352 Sum_probs=33.6
Q ss_pred CCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEeccccc
Q 017524 94 TNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQ 169 (370)
Q Consensus 94 ~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~ 169 (370)
+..+|..+.+ .|..+|.+..++. -+++.. ||.++|..+|. ..| +|.|.|||.-
T Consensus 268 P~gDL~~T~~---~~~~~~~~~~~w~-----g~~g~~------P~~~e~~~~l~-------~~d--lf~Y~GHG~G 320 (383)
T PF03568_consen 268 PSGDLKRTEK---RFEPFFKSWKGWK-----GIIGRA------PTEEEFLQALT-------SSD--LFLYCGHGSG 320 (383)
T ss_pred CCCCHHHHHH---HHHHHHhcccCCC-----ceECCC------CCHHHHHHHHH-------hCC--eEEEecCCcH
Confidence 3456666553 6777776544444 123443 99999988874 224 5668899985
No 54
>TIGR02806 clostrip clostripain. Clostripain is a cysteine protease characterized from Clostridium histolyticum, and also known from Clostridium perfringens. It is a heterodimer processed from a single precursor polypeptide, specific for Arg-|-Xaa peptide bonds. The older term alpha-clostripain refers to the most active, most reduced form, rather than to the product of one of several different genes. Clostripain belongs to the peptidase family C11, or clostripain family (see pfam03415).
Probab=41.67 E-value=3.1e+02 Score=28.66 Aligned_cols=83 Identities=14% Similarity=0.280 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCC--C---CcccHHHHHHhhcCcCCCCC
Q 017524 139 KYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFET--Q---GMIVDDEINTTLVRPLPRGA 213 (370)
Q Consensus 139 ~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~--~---g~I~ddeL~~~Lv~~l~~g~ 213 (370)
.+.|..-|.|..+.. |-|.-.+-+..||.-....... .......++--|... . ..+...||.+.|.. +.
T Consensus 96 p~tLt~FL~~~~~~y-PAd~Y~LIiwnHG~GW~p~~~~-~~~~~r~i~wDdt~~~~~g~~D~L~~~EI~daL~~----~~ 169 (476)
T TIGR02806 96 AETLKKFIDFCKKNY-EADKYMLIMANHGGGAKDDKDR-APRLNKAICWDDSNLDKNGEADCLYMGEISDHLTE----DE 169 (476)
T ss_pred HHHHHHHHHHHHhhC-cccceeEEEEeCCCCCcCCCcc-cccccccceeccCCCCcCccccccchHHHHHHhcc----CC
Confidence 344555556666654 5677777788899876532110 000000111111111 1 12333578777632 34
Q ss_pred eE-EEEEcCCCCCCC
Q 017524 214 RL-HAIIDACHSGTV 227 (370)
Q Consensus 214 ~l-~~IlD~ChSG~~ 227 (370)
++ ++.||+|..+++
T Consensus 170 k~D~I~FDAClM~sV 184 (476)
T TIGR02806 170 SVDLLAFDACLMGNA 184 (476)
T ss_pred ceeEEEEchhcccHH
Confidence 44 688999998887
No 55
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=40.53 E-value=93 Score=26.45 Aligned_cols=44 Identities=23% Similarity=0.257 Sum_probs=30.0
Q ss_pred hHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHH
Q 017524 101 CINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQ 151 (370)
Q Consensus 101 ~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~ 151 (370)
....++.|+++|.++ |++.+.|.+..... =|.+|+....+++.+
T Consensus 52 ~~~ea~~~~~~l~~~-gvp~~~I~~e~~s~------~T~ena~~~~~~~~~ 95 (155)
T PF02698_consen 52 GRSEAEAMRDYLIEL-GVPEERIILEPKST------NTYENARFSKRLLKE 95 (155)
T ss_dssp TS-HHHHHHHHHHHT----GGGEEEE----------SHHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHHhc-ccchheeEccCCCC------CHHHHHHHHHHHHHh
Confidence 678999999999976 99988876643332 499999998888764
No 56
>COG1350 Predicted alternative tryptophan synthase beta-subunit (paralog of TrpB) [General function prediction only]
Probab=40.29 E-value=20 Score=35.69 Aligned_cols=34 Identities=21% Similarity=0.353 Sum_probs=23.1
Q ss_pred hHHHHHHHHHHHHHhCCC--CCEEEEEEeccccccC
Q 017524 138 TKYNMRMALYWLIQGCQP--GDSLLFHFSGHGSQQR 171 (370)
Q Consensus 138 T~~nI~~al~~L~~~a~~--gD~l~fyfSGHG~~~~ 171 (370)
|...|..+++.-.+.-+. .-+++|-|||||...-
T Consensus 384 saHAi~~aid~A~~a~~~geekvI~fnlSGHGllDL 419 (432)
T COG1350 384 SAHAIKAAIDEALKAREEGEEKVILFNLSGHGLLDL 419 (432)
T ss_pred chhhHHHHHHHHHhccccCceeEEEEeccCccccch
Confidence 556777777655543222 2499999999999854
No 57
>PLN00162 transport protein sec23; Provisional
Probab=40.15 E-value=19 Score=39.90 Aligned_cols=34 Identities=24% Similarity=0.494 Sum_probs=28.2
Q ss_pred CcccCCCCCCcc----ccCCCCceeeccccCceeeccC
Q 017524 3 MLVDCSKCRTTL----QLPPGAQSIRCAICQAITHIAD 36 (370)
Q Consensus 3 ~~~~C~~C~~~l----~~p~~a~~~~C~~C~~vt~v~~ 36 (370)
..++|.+|++.| .+-.+.+..+|.+|+..+.+..
T Consensus 52 ~pvRC~~CraylNPf~~~d~~~~~W~C~~C~~~N~~P~ 89 (761)
T PLN00162 52 DPLRCRTCRAVLNPYCRVDFQAKIWICPFCFQRNHFPP 89 (761)
T ss_pred CCCccCCCcCEECCceEEecCCCEEEccCCCCCCCCch
Confidence 468999999975 5556788999999999888764
No 58
>PF13660 DUF4147: Domain of unknown function (DUF4147); PDB: 1X3L_A 2B8N_A.
Probab=39.44 E-value=53 Score=31.13 Aligned_cols=37 Identities=24% Similarity=0.282 Sum_probs=25.3
Q ss_pred CCCchHHHHHH--HHHHHHHhCCCCCEEEEEEecccccc
Q 017524 134 LKRPTKYNMRM--ALYWLIQGCQPGDSLLFHFSGHGSQQ 170 (370)
Q Consensus 134 ~~~pT~~nI~~--al~~L~~~a~~gD~l~fyfSGHG~~~ 170 (370)
+..|+...+.. ++..+++.+.++|.|+|..||=|+-.
T Consensus 92 HP~Pd~~s~~aa~~il~~~~~~~~~dlvl~LiSGGgSAL 130 (238)
T PF13660_consen 92 HPLPDENSVRAARRILELARELTEDDLVLVLISGGGSAL 130 (238)
T ss_dssp SSS--HHHHHHHHHHHHHHCC--TTSEEEEEE-TTHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHhcCCCCCeEEEEecCChHHh
Confidence 35688877765 45678889999999999999988764
No 59
>TIGR01979 sufS cysteine desulfurases, SufS subfamily. This model represents a subfamily of NifS-related cysteine desulfurases involved in FeS cluster formation needed for nitrogen fixation among other vital functions. Many cysteine desulfurases are also active as selenocysteine lyase and/or cysteine sulfinate desulfinase. This subfamily is associated with the six-gene SUF system described in E. coli and Erwinia as an FeS cluster formation system during oxidative stress. The active site Cys is this subfamily resembles GHHC with one or both His conserved.
Probab=39.42 E-value=1.3e+02 Score=29.84 Aligned_cols=56 Identities=14% Similarity=0.214 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhccCCC-CCceEEeccCCCCCCCCchHHHHHHHHHHHHH-hCCCCCEEEEEEecccc
Q 017524 104 DARCMKYMLTNRFKFP-ESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQ-GCQPGDSLLFHFSGHGS 168 (370)
Q Consensus 104 Da~~m~~~L~~~~Gf~-~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~-~a~~gD~l~fyfSGHG~ 168 (370)
-.+.+++.|.+.+|.+ +++|. ++.. +.+.+...+.++.. ..++||.|++.-..|..
T Consensus 63 ~~~~~r~~ia~~~~~~~~~~v~-~~~g--------~t~~l~~~~~~~~~~~~~~g~~vl~~~~~~~s 120 (403)
T TIGR01979 63 AYEAVREKVAKFINAASDEEIV-FTRG--------TTESINLVAYSWGDSNLKAGDEIVISEMEHHA 120 (403)
T ss_pred HHHHHHHHHHHHhCcCCCCeEE-EeCC--------HHHHHHHHHHHhhhhcCCCCCEEEECcchhhH
Confidence 3556677777777877 45654 4432 44555555565532 35789999887777664
No 60
>PRK06107 aspartate aminotransferase; Provisional
Probab=38.71 E-value=1.5e+02 Score=29.57 Aligned_cols=45 Identities=18% Similarity=0.268 Sum_probs=27.6
Q ss_pred HHHHHHHHHhccCC--CCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEE
Q 017524 105 ARCMKYMLTNRFKF--PESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLF 161 (370)
Q Consensus 105 a~~m~~~L~~~~Gf--~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~f 161 (370)
-+.++++|.+.+|. .+++|.+ +.- +...|...+..+ +++||.+++
T Consensus 76 r~~ia~~l~~~~g~~~~~~~i~~-t~G--------~~~al~~~~~~~---~~~gd~vl~ 122 (402)
T PRK06107 76 RKAIIAKLERRNGLHYADNEITV-GGG--------AKQAIFLALMAT---LEAGDEVII 122 (402)
T ss_pred HHHHHHHHHHhcCCCCChhhEEE-eCC--------HHHHHHHHHHHh---cCCCCEEEE
Confidence 35677888766675 5667654 332 445555555433 568998877
No 61
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=38.59 E-value=30 Score=24.09 Aligned_cols=32 Identities=25% Similarity=0.471 Sum_probs=23.9
Q ss_pred CcccCCCCCCccccCCCCceeeccccCceeecc
Q 017524 3 MLVDCSKCRTTLQLPPGAQSIRCAICQAITHIA 35 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v~ 35 (370)
....|..|+..++- .+.+.++|..|+.+-.-.
T Consensus 10 ~~~~C~~C~~~i~g-~~~~g~~C~~C~~~~H~~ 41 (53)
T PF00130_consen 10 KPTYCDVCGKFIWG-LGKQGYRCSWCGLVCHKK 41 (53)
T ss_dssp STEB-TTSSSBECS-SSSCEEEETTTT-EEETT
T ss_pred CCCCCcccCcccCC-CCCCeEEECCCCChHhhh
Confidence 45679999998865 788899999999776543
No 62
>PF06258 Mito_fiss_Elm1: Mitochondrial fission ELM1; InterPro: IPR009367 This family consists of several hypothetical eukaryotic and prokaryotic proteins. The function of this family is unknown.
Probab=37.47 E-value=1.5e+02 Score=29.19 Aligned_cols=74 Identities=18% Similarity=0.202 Sum_probs=42.6
Q ss_pred cCCceEEEEEEecCCCCCCCCcchHHHHHHHHHHHHhccC-CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCC
Q 017524 78 AQGRKRALIVGVSYRHTNHELKGCINDARCMKYMLTNRFK-FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPG 156 (370)
Q Consensus 78 ~~~~k~ALlIGInY~~~~~~L~g~~nDa~~m~~~L~~~~G-f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~g 156 (370)
....+.||+||=+ ...-+....|++.|.+.|.+... .. ..+.+.+... |-.++.++|+.+.+ ..
T Consensus 144 l~~p~~avLIGG~----s~~~~~~~~~~~~l~~~l~~~~~~~~-~~~~vttSRR-------Tp~~~~~~L~~~~~---~~ 208 (311)
T PF06258_consen 144 LPRPRVAVLIGGD----SKHYRWDEEDAERLLDQLAALAAAYG-GSLLVTTSRR-------TPPEAEAALRELLK---DN 208 (311)
T ss_pred CCCCeEEEEECcC----CCCcccCHHHHHHHHHHHHHHHHhCC-CeEEEEcCCC-------CcHHHHHHHHHhhc---CC
Confidence 3467899999843 12223456677777666654211 12 2355544443 77788888877765 44
Q ss_pred CEEEEEEeccc
Q 017524 157 DSLLFHFSGHG 167 (370)
Q Consensus 157 D~l~fyfSGHG 167 (370)
+.+.|| ++.|
T Consensus 209 ~~~~~~-~~~~ 218 (311)
T PF06258_consen 209 PGVYIW-DGTG 218 (311)
T ss_pred CceEEe-cCCC
Confidence 555455 6555
No 63
>PF09827 CRISPR_Cas2: CRISPR associated protein Cas2; InterPro: IPR019199 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages. ; PDB: 3EXC_X 2I0X_A 3OQ2_B 3UI3_A 1ZPW_X 2I8E_A 2IVY_A.
Probab=37.44 E-value=84 Score=23.78 Aligned_cols=52 Identities=15% Similarity=0.054 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHhccCCCCC-ceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCC-CEEEEEEe
Q 017524 103 NDARCMKYMLTNRFKFPES-SIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPG-DSLLFHFS 164 (370)
Q Consensus 103 nDa~~m~~~L~~~~Gf~~~-~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~g-D~l~fyfS 164 (370)
+....+++.|++ +|...+ .|... + -|.+++...++.|.+-..++ |.|++|--
T Consensus 14 k~~~kv~k~L~~-~g~~iQ~SVf~~-~--------~~~~~~~~l~~~l~~~i~~~~d~i~i~~l 67 (78)
T PF09827_consen 14 KRRNKVRKILKS-YGTRIQYSVFEG-N--------LTNAELRKLRRELEKLIDPDEDSIRIYPL 67 (78)
T ss_dssp HHHHHHHHHHHH-TTEEEETTEEEE-E--------E-HHHHHHHHHHHHHHSCTTTCEEEEEEE
T ss_pred HHHHHHHHHHHH-hCccccceEEEE-E--------cCHHHHHHHHHHHHhhCCCCCCEEEEEEe
Confidence 667889999974 674322 34333 2 24455555445555555677 88887743
No 64
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=37.43 E-value=22 Score=21.48 Aligned_cols=23 Identities=30% Similarity=0.784 Sum_probs=14.7
Q ss_pred CcccCCCCCCccccCCCCceeeccccC
Q 017524 3 MLVDCSKCRTTLQLPPGAQSIRCAICQ 29 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~~a~~~~C~~C~ 29 (370)
|.+.|++|++ .++.+++ -|..|.
T Consensus 1 m~~~Cp~Cg~--~~~~~~~--fC~~CG 23 (26)
T PF13248_consen 1 MEMFCPNCGA--EIDPDAK--FCPNCG 23 (26)
T ss_pred CcCCCcccCC--cCCcccc--cChhhC
Confidence 4578999998 3455543 366664
No 65
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=36.57 E-value=8.6 Score=25.23 Aligned_cols=30 Identities=23% Similarity=0.551 Sum_probs=18.6
Q ss_pred ccCCCCCCccccCCCCc--eeeccccCceeecc
Q 017524 5 VDCSKCRTTLQLPPGAQ--SIRCAICQAITHIA 35 (370)
Q Consensus 5 ~~C~~C~~~l~~p~~a~--~~~C~~C~~vt~v~ 35 (370)
.-|+.|+. |++|.... .+.|..|.++..+.
T Consensus 2 ~FCp~C~n-lL~p~~~~~~~~~C~~C~Y~~~~~ 33 (35)
T PF02150_consen 2 RFCPECGN-LLYPKEDKEKRVACRTCGYEEPIS 33 (35)
T ss_dssp -BETTTTS-BEEEEEETTTTEEESSSS-EEE-S
T ss_pred eeCCCCCc-cceEcCCCccCcCCCCCCCccCCC
Confidence 35899998 44555432 24799999887665
No 66
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=36.44 E-value=33 Score=22.74 Aligned_cols=26 Identities=38% Similarity=0.841 Sum_probs=19.0
Q ss_pred cccCCCCCCcc-cc-----CCCCceeeccccC
Q 017524 4 LVDCSKCRTTL-QL-----PPGAQSIRCAICQ 29 (370)
Q Consensus 4 ~~~C~~C~~~l-~~-----p~~a~~~~C~~C~ 29 (370)
.|.|+.|.... .+ +.|.+.+||-.|+
T Consensus 5 ~v~CP~C~s~~~v~k~G~~~~G~qryrC~~C~ 36 (36)
T PF03811_consen 5 DVHCPRCQSTEGVKKNGKSPSGHQRYRCKDCR 36 (36)
T ss_pred eeeCCCCCCCCcceeCCCCCCCCEeEecCcCC
Confidence 46799998877 44 3466778888885
No 67
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=36.40 E-value=23 Score=24.06 Aligned_cols=30 Identities=27% Similarity=0.500 Sum_probs=23.3
Q ss_pred cccCCCCCCccccCCCCceeeccccCceeec
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQAITHI 34 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v 34 (370)
...|..|+..++-. .....+|..|+.+...
T Consensus 11 ~~~C~~C~~~i~~~-~~~~~~C~~C~~~~H~ 40 (50)
T cd00029 11 PTFCDVCRKSIWGL-FKQGLRCSWCKVKCHK 40 (50)
T ss_pred CCChhhcchhhhcc-ccceeEcCCCCCchhh
Confidence 45699999988864 6789999999866543
No 68
>PTZ00405 cytochrome c; Provisional
Probab=36.30 E-value=18 Score=30.16 Aligned_cols=43 Identities=19% Similarity=0.231 Sum_probs=25.1
Q ss_pred chHHHHHHHHHHHHhccCCCCCc-eEE--eccCCCCCCCCchHHHHHHHHHHH
Q 017524 100 GCINDARCMKYMLTNRFKFPESS-IVM--LTEEDPDPLKRPTKYNMRMALYWL 149 (370)
Q Consensus 100 g~~nDa~~m~~~L~~~~Gf~~~~-I~~--Ltd~~~~~~~~pT~~nI~~al~~L 149 (370)
+-+.|.+.|..+|.+--.|-+.. +.. |.++ -.+++|+..|+.|
T Consensus 67 g~~wd~~~L~~~l~~P~~~~pgt~M~f~gl~~~-------~dr~~liaYL~sl 112 (114)
T PTZ00405 67 GVIWTPEVLDVYLENPKKFMPGTKMSFAGIKKP-------QERADVIAYLETL 112 (114)
T ss_pred cCcCCHHHHHHHHHCHHhhCCCCCCCCCCCCCH-------HHHHHHHHHHHHh
Confidence 45789999999998744444321 110 1122 2466777776655
No 69
>TIGR03402 FeS_nifS cysteine desulfurase NifS. Members of this protein family are NifS, one of several related families of cysteine desulfurase involved in iron-sulfur (FeS) cluster biosynthesis. NifS is part of the NIF system, usually associated with other nif genes involved in nitrogenase expression and nitrogen fixation. The protein family is given a fairly broad interpretation here. It includes a clade nearly always found in extended nitrogen fixation genomic regions, plus a second clade more closely related to the first than to IscS and also part of NifS-like/NifU-like systems. This model does not extend to a more distantly clade found in the epsilon proteobacteria such as Helicobacter pylori, also named NifS in the literature, built instead in TIGR03403.
Probab=35.99 E-value=1.4e+02 Score=29.29 Aligned_cols=58 Identities=7% Similarity=-0.014 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Q 017524 102 INDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGS 168 (370)
Q Consensus 102 ~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~ 168 (370)
..-.+.+++.|.+.+|.++++|.+ +.. +.+.+..++..+.....++|.|++.-..|..
T Consensus 41 ~~~~~~~r~~la~~~g~~~~~i~~-t~~--------~t~a~~~al~~~~~~~~~~~~vv~~~~~~~s 98 (379)
T TIGR03402 41 GKAVEEAREQVAKLLGAEPDEIIF-TSG--------GTESDNTAIKSALAAQPEKRHIITTAVEHPA 98 (379)
T ss_pred HHHHHHHHHHHHHHhCCCCCeEEE-eCc--------HHHHHHHHHHHHHHhcCCCCeEEEcccccHH
Confidence 344566777777777877766654 432 3455555555554333456888877666643
No 70
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=35.83 E-value=23 Score=23.81 Aligned_cols=30 Identities=27% Similarity=0.585 Sum_probs=22.5
Q ss_pred CcccCCCCCCccccCCCCceeeccccCceeec
Q 017524 3 MLVDCSKCRTTLQLPPGAQSIRCAICQAITHI 34 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v 34 (370)
....|..|+..++... +.++|..|+.+...
T Consensus 10 ~~~~C~~C~~~i~~~~--~~~~C~~C~~~~H~ 39 (49)
T smart00109 10 KPTKCCVCRKSIWGSF--QGLRCSWCKVKCHK 39 (49)
T ss_pred CCCCccccccccCcCC--CCcCCCCCCchHHH
Confidence 3457999999888644 68999999866543
No 71
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=35.66 E-value=2.3e+02 Score=26.94 Aligned_cols=119 Identities=16% Similarity=0.209 Sum_probs=62.0
Q ss_pred CCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCC
Q 017524 96 HELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQRNYNG 175 (370)
Q Consensus 96 ~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~d~~g 175 (370)
.+|..+..-.+..++.+.+-+|- ++..++++. +...+..++..+ +++||.|++---.|.......
T Consensus 52 d~l~~~~g~i~~~~~~~A~~~ga--~~~~~~~~G--------st~a~~~~l~al---~~~gd~Vlv~~~~h~s~~~~~-- 116 (294)
T cd00615 52 DDLLDPTGPIKEAQELAARAFGA--KHTFFLVNG--------TSSSNKAVILAV---CGPGDKILIDRNCHKSVINGL-- 116 (294)
T ss_pred CCCCCCChHHHHHHHHHHHHhCC--CCEEEEcCc--------HHHHHHHHHHHc---CCCCCEEEEeCCchHHHHHHH--
Confidence 45544444444444444444453 346666653 334444444444 569999999888886543211
Q ss_pred CCCCCcceeEEcccCCC----CCcccHHHHHHhhcCcCCCCCeEEEEEcCCCCCCCCCccc
Q 017524 176 EEVDGYDETLCPVDFET----QGMIVDDEINTTLVRPLPRGARLHAIIDACHSGTVLDLPF 232 (370)
Q Consensus 176 de~dG~de~L~p~D~~~----~g~I~ddeL~~~Lv~~l~~g~~l~~IlD~ChSG~~~~~p~ 232 (370)
..-|..-.+++.+... .+.+..++|.+.|.+ - +..++++|.-.-+.|...++..
T Consensus 117 -~~~g~~~~~v~~~~~~~~~~~~~i~~~~l~~~l~~-~-~~~k~v~l~~p~~~G~~~dl~~ 174 (294)
T cd00615 117 -VLSGAVPVYLKPERNPYYGIAGGIPPETFKKALIE-H-PDAKAAVITNPTYYGICYNLRK 174 (294)
T ss_pred -HHCCCEEEEecCccCcccCcCCCCCHHHHHHHHHh-C-CCceEEEEECCCCCCEecCHHH
Confidence 1112223444444332 235777788777742 1 2356656554445666666543
No 72
>PLN02994 1-aminocyclopropane-1-carboxylate synthase
Probab=35.65 E-value=69 Score=28.06 Aligned_cols=51 Identities=18% Similarity=0.374 Sum_probs=30.7
Q ss_pred cchHHHHHHHHHHHHhccC----CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEE
Q 017524 99 KGCINDARCMKYMLTNRFK----FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLF 161 (370)
Q Consensus 99 ~g~~nDa~~m~~~L~~~~G----f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~f 161 (370)
.|-..=-+.++++|.+++| +++++|++... ....|...+.-| +.|||.+++
T Consensus 92 ~G~~~lR~AiA~~l~~~~g~~v~~~pd~Ivvt~G---------a~~al~~l~~~l---~dpGD~VlV 146 (153)
T PLN02994 92 HGLANFRKAIANFMAEARGGRVKFDADMIVLSAG---------ATAANEIIMFCI---ADPGDAFLV 146 (153)
T ss_pred CCcHHHHHHHHHHHHHHhCCCCccchhheEEcCC---------HHHHHHHHHHHH---cCCCCEEEE
Confidence 3445555678888887766 56777755433 333444444444 458998876
No 73
>PF01364 Peptidase_C25: Peptidase family C25 This family belongs to family C25 of the peptidase classification.; InterPro: IPR001769 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C25 (gingipain, clan CD). The protein fold of the peptidase domain for members of this entry resembles that of caspase 1, the type example for clan CD. This is a protein family found only in the bacteria. Porphyromonas gingivalis (Bacteroides gingivalis) a Gram-negative anaerobic bacterial species strongly associated with adult periodontitis. One of its distinguishing characteristics and putative virulence properties is the ability to agglutinate erythrocytes []. It is a highly proteolytic organism which metabolises small peptides and amino acids. Indirect evidence suggests that the proteases produced by this microorganism constitute an important virulence factor []. Protease-encoding genes have been shown to contain multiple copies of repeated nucleotide sequences. These conserved sequences have also been found in haemagglutinin genes [].; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 1CVR_A.
Probab=35.28 E-value=44 Score=33.37 Aligned_cols=127 Identities=20% Similarity=0.233 Sum_probs=57.2
Q ss_pred chHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCcccHHHHHHhhcCcCCCCCe-E
Q 017524 137 PTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIVDDEINTTLVRPLPRGAR-L 215 (370)
Q Consensus 137 pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ddeL~~~Lv~~l~~g~~-l 215 (370)
.++++|.++|.. ...++.|.|||....= . ++-| ..+++.. +....+ -
T Consensus 226 ~~~~~i~~~ln~--------G~~~v~y~GHG~~~~w--~------~~~~-----------~~~d~~~-----l~N~~~~p 273 (378)
T PF01364_consen 226 GTRDNIINALNQ--------GAGFVNYFGHGSPTSW--A------DEDF-----------TSSDISN-----LNNKNKLP 273 (378)
T ss_dssp --HHHHHHHHHH----------SEEEEES-B-SSBB--T------TT-------------BTTTGGG--------TT---
T ss_pred chHHHHHHHHhC--------CCeEEEEecCCchhhc--c------cCcc-----------cHhHHHH-----hcCCCCce
Confidence 578888888774 3346677899998530 0 0111 1112222 221123 3
Q ss_pred EEEEcCCCCCCCCCcccccccccccccccccCCCCCCCccccCCCCEEEEEecCCCCccccccccCCCCCCChhHHHHHH
Q 017524 216 HAIIDACHSGTVLDLPFLCRMDRQGKYIWEDHRPRSGMWKGTSGGEAISFSGCDDNQTSADTSALSKITSTGAMTYSFIQ 295 (370)
Q Consensus 216 ~~IlD~ChSG~~~~~p~~~~~~r~g~~~~~d~~~~~~~~~~~~~~~~i~~Sac~~~Q~A~d~~~~~~~~~~G~fT~ali~ 295 (370)
+++.-+|..|.+...-..+ -+ ..|- ....+|-+.+|++++..- .. .+-.|...|.+
T Consensus 274 ~~~s~~C~~g~fd~~~~~s----l~-E~~v---------~~~~gGAia~ig~s~~~~---~~-------~~~~~~~~~~~ 329 (378)
T PF01364_consen 274 VVISAACYTGNFDDPDNPS----LG-EALV---------LNPNGGAIAFIGSSRVSY---AS-------PNDRLNRGFYE 329 (378)
T ss_dssp EEEEESSSTT-TTSSS-------HH-HHHH---------TTEE-S-SEEEEESS--S---SH-------HHHHHHHHHTT
T ss_pred EEEEeECCCcCCCCCCCCc----HH-HHhe---------ECCCCcEEEEEecceeEe---cc-------hHHHHHHHHHH
Confidence 7888899999984321000 00 0110 011233355555554322 11 13467778888
Q ss_pred HHhcCCCCCHHHHHHHHHHHHhcc
Q 017524 296 AIERGHGATYGSMLNSMRSTIRNT 319 (370)
Q Consensus 296 aL~~~~~~Ty~~Ll~~vr~~l~~~ 319 (370)
.|-.....+.++++...+..+...
T Consensus 330 ~l~~~~~~~lG~a~~~a~~~~~~~ 353 (378)
T PF01364_consen 330 ALFNSNMDTLGEALRQAKNYYLSN 353 (378)
T ss_dssp -STT----BHHHHHHHHHHHHHHH
T ss_pred HHhccCCCCHHHHHHHHHHHHHHh
Confidence 777654458999988888876654
No 74
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=34.30 E-value=1.4e+02 Score=30.54 Aligned_cols=81 Identities=17% Similarity=0.306 Sum_probs=46.2
Q ss_pred CCceEEEEEEecCCCCCCCCcchHHHHHHHHHHHH--------hccCCC--CCceEEeccCCCCCCCCchHHHHHHH--H
Q 017524 79 QGRKRALIVGVSYRHTNHELKGCINDARCMKYMLT--------NRFKFP--ESSIVMLTEEDPDPLKRPTKYNMRMA--L 146 (370)
Q Consensus 79 ~~~k~ALlIGInY~~~~~~L~g~~nDa~~m~~~L~--------~~~Gf~--~~~I~~Ltd~~~~~~~~pT~~nI~~a--l 146 (370)
..+.|+++||..- ++..=|+.+.+.+. .++|+. -++|.++.-.. ..|...-+..+ |
T Consensus 35 ~p~gr~~Vig~GK--------As~~MA~a~~~~~~~~~~GvVVt~~g~~~~~~~ieViea~H----PvPDe~s~~asrrl 102 (422)
T COG2379 35 PPKGRTIVIGAGK--------ASAEMARAFEEHWKGPLAGVVVTPYGYGGPCPRIEVIEAGH----PVPDEASLKASRRL 102 (422)
T ss_pred CCCCceEEEecch--------hHHHHHHHHHHHhccccCceEeccCccCCCCCceeEEeCCC----CCCCchhHHHHHHH
Confidence 4567889998542 22333333333331 122322 23455554332 34555444433 3
Q ss_pred HHHHHhCCCCCEEEEEEeccccccC
Q 017524 147 YWLIQGCQPGDSLLFHFSGHGSQQR 171 (370)
Q Consensus 147 ~~L~~~a~~gD~l~fyfSGHG~~~~ 171 (370)
-++++..+++|.|+|..||-|+-.-
T Consensus 103 L~~v~~l~e~D~Vi~LISGGGSaL~ 127 (422)
T COG2379 103 LELVSGLTEDDLVIVLISGGGSALL 127 (422)
T ss_pred HHHhcCCCCCcEEEEEEeCCchhhc
Confidence 4556788899999999999998754
No 75
>PLN02651 cysteine desulfurase
Probab=34.16 E-value=1.9e+02 Score=28.38 Aligned_cols=55 Identities=7% Similarity=0.041 Sum_probs=32.5
Q ss_pred HHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHH-hCCCCCEEEEEEecccc
Q 017524 105 ARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQ-GCQPGDSLLFHFSGHGS 168 (370)
Q Consensus 105 a~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~-~a~~gD~l~fyfSGHG~ 168 (370)
.+.+++.|.+.+|.++++|. ++.. +-+.+..++..+.. -.++||.+++--..|..
T Consensus 45 ~~~~r~~la~~~g~~~~~v~-~t~~--------~t~a~~~~l~~~~~~~~~~g~~vl~~~~~h~s 100 (364)
T PLN02651 45 VEKARAQVAALIGADPKEII-FTSG--------ATESNNLAIKGVMHFYKDKKKHVITTQTEHKC 100 (364)
T ss_pred HHHHHHHHHHHhCCCCCeEE-EeCC--------HHHHHHHHHHHHHHhccCCCCEEEEcccccHH
Confidence 45566777666787766664 4442 23444444444433 23689988887777764
No 76
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=34.12 E-value=2.1e+02 Score=22.61 Aligned_cols=54 Identities=17% Similarity=0.253 Sum_probs=34.4
Q ss_pred HHHHHHHHHhccCCCCC-ceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEec
Q 017524 105 ARCMKYMLTNRFKFPES-SIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSG 165 (370)
Q Consensus 105 a~~m~~~L~~~~Gf~~~-~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSG 165 (370)
+..+..+|+++.+.+++ .+.+..+.. ..|+.+..+..|-+-. ..+..|++.||+
T Consensus 28 v~~~~~~lrk~L~l~~~~slflyvnn~----f~p~~d~~~g~LY~~~---~~dGfLyi~Ys~ 82 (87)
T cd01612 28 FQAVIDFLRKRLKLKASDSLFLYINNS----FAPSPDENVGNLYRCF---GTNGELIVSYCK 82 (87)
T ss_pred HHHHHHHHHHHhCCCccCeEEEEECCc----cCCCchhHHHHHHHhc---CCCCEEEEEEeC
Confidence 34567778887776544 477777653 2366555555443332 478899999995
No 77
>PRK11827 hypothetical protein; Provisional
Probab=33.85 E-value=33 Score=25.48 Aligned_cols=34 Identities=18% Similarity=0.392 Sum_probs=28.4
Q ss_pred CcccCCCCCCccccCCCCceeeccccCceeeccC
Q 017524 3 MLVDCSKCRTTLQLPPGAQSIRCAICQAITHIAD 36 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v~~ 36 (370)
..+.|+.|+..|.+-......-|..|+-.-.|..
T Consensus 7 eILaCP~ckg~L~~~~~~~~Lic~~~~laYPI~d 40 (60)
T PRK11827 7 EIIACPVCNGKLWYNQEKQELICKLDNLAFPLRD 40 (60)
T ss_pred hheECCCCCCcCeEcCCCCeEECCccCeeccccC
Confidence 4678999999999988888888999987766653
No 78
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=33.78 E-value=32 Score=23.06 Aligned_cols=27 Identities=26% Similarity=0.542 Sum_probs=18.2
Q ss_pred cCCCCCCccccC--CCCceeeccccCcee
Q 017524 6 DCSKCRTTLQLP--PGAQSIRCAICQAIT 32 (370)
Q Consensus 6 ~C~~C~~~l~~p--~~a~~~~C~~C~~vt 32 (370)
+|+.|++.|..- .+...-+|..|+.+=
T Consensus 1 ~CP~C~~~l~~~~~~~~~id~C~~C~G~W 29 (41)
T PF13453_consen 1 KCPRCGTELEPVRLGDVEIDVCPSCGGIW 29 (41)
T ss_pred CcCCCCcccceEEECCEEEEECCCCCeEE
Confidence 599999964211 345667899998763
No 79
>PRK08361 aspartate aminotransferase; Provisional
Probab=33.59 E-value=2e+02 Score=28.40 Aligned_cols=50 Identities=8% Similarity=0.095 Sum_probs=28.8
Q ss_pred HHHHHHHHhccC--CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEeccc
Q 017524 106 RCMKYMLTNRFK--FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHG 167 (370)
Q Consensus 106 ~~m~~~L~~~~G--f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG 167 (370)
+.+++++.+.+| +++++|.+... +.+.|...+..| +++||.|++---+|.
T Consensus 77 ~~ia~~~~~~~g~~~~~~~i~~t~G---------~~~al~~~~~~l---~~~g~~Vlv~~p~y~ 128 (391)
T PRK08361 77 EAIAEYYKKFYGVDVDVDNVIVTAG---------AYEATYLAFESL---LEEGDEVIIPDPAFV 128 (391)
T ss_pred HHHHHHHHHHhCCCCCcccEEEeCC---------hHHHHHHHHHHh---cCCCCEEEEcCCCCc
Confidence 356666655444 66677755432 344555555555 468998887444443
No 80
>PLN02450 1-aminocyclopropane-1-carboxylate synthase
Probab=33.51 E-value=1.7e+02 Score=30.22 Aligned_cols=50 Identities=18% Similarity=0.424 Sum_probs=30.2
Q ss_pred HHHHHHHHHhccC----CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEE---EEecc
Q 017524 105 ARCMKYMLTNRFK----FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLF---HFSGH 166 (370)
Q Consensus 105 a~~m~~~L~~~~G----f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~f---yfSGH 166 (370)
-+.++++|.+++| +++++|.+ +.- +.+.|...+..| +.|||.|++ +|.++
T Consensus 92 R~aiA~~l~~~~~~~~~v~~~~Iii-t~G--------a~~al~~l~~~l---~~pGd~Vlv~~P~Y~~~ 148 (468)
T PLN02450 92 KNALAEFMSEIRGNKVTFDPNKLVL-TAG--------ATSANETLMFCL---AEPGDAFLLPTPYYPGF 148 (468)
T ss_pred HHHHHHHHHHhhCCCCCcChHHeEE-ccC--------hHHHHHHHHHHh---CCCCCEEEECCCCCCch
Confidence 3457788866555 46777754 432 344454444444 469999888 56554
No 81
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=32.80 E-value=37 Score=23.26 Aligned_cols=23 Identities=26% Similarity=0.704 Sum_probs=16.9
Q ss_pred ccCCCCCCccccCCCCceeeccccCce
Q 017524 5 VDCSKCRTTLQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 5 ~~C~~C~~~l~~p~~a~~~~C~~C~~v 31 (370)
|.|+.|++ |..-..++|..|..+
T Consensus 1 v~Cd~C~~----~i~G~ry~C~~C~d~ 23 (43)
T cd02340 1 VICDGCQG----PIVGVRYKCLVCPDY 23 (43)
T ss_pred CCCCCCCC----cCcCCeEECCCCCCc
Confidence 57999998 323368999999743
No 82
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=31.89 E-value=36 Score=23.40 Aligned_cols=26 Identities=23% Similarity=0.581 Sum_probs=18.6
Q ss_pred ccCCCCCCccccCCCC-ceeeccccCc
Q 017524 5 VDCSKCRTTLQLPPGA-QSIRCAICQA 30 (370)
Q Consensus 5 ~~C~~C~~~l~~p~~a-~~~~C~~C~~ 30 (370)
+.|+.|+..-.+.... ...+|..|++
T Consensus 19 ~~CP~Cg~~~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGSTKHYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCeeeEEeCCCCeEECCCCCC
Confidence 4599999865444444 7899999874
No 83
>PF04135 Nop10p: Nucleolar RNA-binding protein, Nop10p family; InterPro: IPR007264 H/ACA ribonucleoprotein particles (RNPs) are a family of RNA pseudouridine synthases that specify modification sites through guide RNAs. More than 100 mammalian H/ACA RNAs form an equal number of ribonucleoproteins (RNPs) by associating with the same four core proteins: Cbf5, Gar1, Nhp2 and Nop10. The function of these H/ACA RNPs is essential for biogenesis of the ribosome, splicing of precursor mRNAs (pre-mRNAs), maintenance of telomeres and probably for additional cellular processes []. Recent crystal structures of archaeal H/ACA protein complexes show how the same four proteins accommodate >100 distinct but related H/ACA RNAs []. The complex contains a stable core composed of Cbf5 and Nop10, to which Gar1 and Nhp2 subsequently bind, the complex interacts with snoRNAs []. In eukaryotes Nop10 is a nucleolar protein that is specifically associated with H/ACA snoRNAs. It is essential for normal 18S rRNA production and rRNA pseudouridylation by the ribonucleoprotein particles containing H/ACA snoRNAs (H/ACA snoRNPs). Nop10 is probably necessary for the stability of these RNPs [].; PDB: 2RFK_B 3LWR_B 2HVY_C 3HAX_C 3MQK_B 3LWO_B 3LWV_B 3HAY_C 3HJY_B 2EY4_E ....
Probab=31.83 E-value=31 Score=24.97 Aligned_cols=29 Identities=31% Similarity=0.650 Sum_probs=20.9
Q ss_pred CCCcc-cCCCCCCc-cccCCCCceeeccccCceeeccC
Q 017524 1 MLMLV-DCSKCRTT-LQLPPGAQSIRCAICQAITHIAD 36 (370)
Q Consensus 1 ~~~~~-~C~~C~~~-l~~p~~a~~~~C~~C~~vt~v~~ 36 (370)
|...+ .|.+|+.+ |. -.|..|...|.+..
T Consensus 1 m~~~~r~c~~~~~YTLk-------~~cp~cG~~T~~ah 31 (53)
T PF04135_consen 1 MRYYIRKCPGCRVYTLK-------DKCPPCGGPTESAH 31 (53)
T ss_dssp -EEEEEECTTTCEEESS-------SBBTTTSSBSEESS
T ss_pred CCcccccCCCCCcEeCC-------CccCCCCCCCcCCc
Confidence 34455 89999974 32 26999999998874
No 84
>KOG3425 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.80 E-value=55 Score=27.90 Aligned_cols=58 Identities=17% Similarity=0.325 Sum_probs=34.5
Q ss_pred HHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCcccHHHHHHhhcCcCCCCCeE
Q 017524 142 MRMALYWLIQGCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIVDDEINTTLVRPLPRGARL 215 (370)
Q Consensus 142 I~~al~~L~~~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ddeL~~~Lv~~l~~g~~l 215 (370)
...+|++++++...|+.+|+||.|-=. +. +| +.|||.=. -..-.|++.|. ..+.++++
T Consensus 11 g~e~~~~~~~~~~n~~~ifvlF~gskd---~~-----tG--qSWCPdCV-----~AEPvi~~alk-~ap~~~~~ 68 (128)
T KOG3425|consen 11 GYESFEETLKNVENGKTIFVLFLGSKD---DT-----TG--QSWCPDCV-----AAEPVINEALK-HAPEDVHF 68 (128)
T ss_pred hHHHHHHHHHHHhCCceEEEEEecccC---CC-----CC--CcCCchHH-----HhhHHHHHHHH-hCCCceEE
Confidence 345677788888889999999997211 11 23 47888311 11234566663 34555553
No 85
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=31.55 E-value=43 Score=24.50 Aligned_cols=26 Identities=23% Similarity=0.533 Sum_probs=19.5
Q ss_pred cccCCCCCCccccCCCCceeeccccCceeecc
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQAITHIA 35 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v~ 35 (370)
...|..|+++=+ ..+|..|...|.+.
T Consensus 5 mr~C~~CgvYTL------k~~CP~CG~~t~~~ 30 (56)
T PRK13130 5 IRKCPKCGVYTL------KEICPVCGGKTKNP 30 (56)
T ss_pred ceECCCCCCEEc------cccCcCCCCCCCCC
Confidence 446999998633 56799999887776
No 86
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=31.45 E-value=32 Score=32.65 Aligned_cols=29 Identities=21% Similarity=0.387 Sum_probs=22.8
Q ss_pred cccCCCCCCccccCCCCceeeccccCceeec
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQAITHI 34 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v 34 (370)
+..|+-|+..|.+ ..++.+|..+|..-..
T Consensus 2 ~~~CP~C~~~l~~--~~~~~~C~~~h~fd~a 30 (272)
T PRK11088 2 SYQCPLCHQPLTL--EENSWICPQNHQFDCA 30 (272)
T ss_pred cccCCCCCcchhc--CCCEEEcCCCCCCccc
Confidence 4689999999866 4578999999876433
No 87
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=31.44 E-value=36 Score=32.49 Aligned_cols=32 Identities=13% Similarity=0.240 Sum_probs=25.1
Q ss_pred CcccCCCCCCccccCCCCceeeccccCceeec
Q 017524 3 MLVDCSKCRTTLQLPPGAQSIRCAICQAITHI 34 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v 34 (370)
.+-.|+.|+..+..-.+-..-+|..|..+-..
T Consensus 98 ~~~fC~~CG~~~~~~~~~~~~~C~~c~~~~yp 129 (256)
T PRK00241 98 SHRFCGYCGHPMHPSKTEWAMLCPHCRERYYP 129 (256)
T ss_pred cCccccccCCCCeecCCceeEECCCCCCEECC
Confidence 35679999999888777788899999854443
No 88
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=30.65 E-value=47 Score=20.09 Aligned_cols=22 Identities=27% Similarity=0.801 Sum_probs=16.7
Q ss_pred CCCCCCccccCCC-CceeeccccC
Q 017524 7 CSKCRTTLQLPPG-AQSIRCAICQ 29 (370)
Q Consensus 7 C~~C~~~l~~p~~-a~~~~C~~C~ 29 (370)
|..|+..|. |.+ +..+.|..|.
T Consensus 1 C~sC~~~i~-~r~~~v~f~CPnCG 23 (24)
T PF07754_consen 1 CTSCGRPIA-PREQAVPFPCPNCG 23 (24)
T ss_pred CccCCCccc-CcccCceEeCCCCC
Confidence 677877555 666 7889999885
No 89
>cd06259 YdcF-like YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX, which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.
Probab=30.35 E-value=1.3e+02 Score=25.34 Aligned_cols=59 Identities=17% Similarity=0.190 Sum_probs=40.4
Q ss_pred ceEEEEEEecCCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHh
Q 017524 81 RKRALIVGVSYRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQG 152 (370)
Q Consensus 81 ~k~ALlIGInY~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~ 152 (370)
..+.++-|-.-.+ .....++.|+++|.+ .|.+.+.|.+-.... =|.+|+..+.+++.+.
T Consensus 35 ~~~ii~sGg~~~~------~~~~ea~~m~~~l~~-~gv~~~~I~~e~~s~------~T~ena~~~~~~~~~~ 93 (150)
T cd06259 35 APKLIVSGGQGPG------EGYSEAEAMARYLIE-LGVPAEAILLEDRST------NTYENARFSAELLRER 93 (150)
T ss_pred CCEEEEcCCCCCC------CCCCHHHHHHHHHHH-cCCCHHHeeecCCCC------CHHHHHHHHHHHHHhc
Confidence 3455555544211 346789999999986 588877775543322 4999999999988764
No 90
>PRK02948 cysteine desulfurase; Provisional
Probab=30.33 E-value=1.8e+02 Score=28.53 Aligned_cols=54 Identities=13% Similarity=0.074 Sum_probs=31.5
Q ss_pred HHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHh-CCCCCEEEEEEeccc
Q 017524 105 ARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQG-CQPGDSLLFHFSGHG 167 (370)
Q Consensus 105 a~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~-a~~gD~l~fyfSGHG 167 (370)
.+.+++.|.+.+|.++++|.+ +.. +.+.+..++..+... .++||.+++--..|.
T Consensus 45 ~~~~r~~la~~~g~~~~~i~~-~~g--------~t~a~~~~~~~~~~~~~~~g~~vv~~~~~h~ 99 (381)
T PRK02948 45 LQVCRKTFAEMIGGEEQGIYF-TSG--------GTESNYLAIQSLLNALPQNKKHIITTPMEHA 99 (381)
T ss_pred HHHHHHHHHHHhCCCCCeEEE-eCc--------HHHHHHHHHHHHHHhccCCCCEEEECCcccH
Confidence 445667777667877777654 432 234444555555442 357888876544554
No 91
>PRK09814 beta-1,6-galactofuranosyltransferase; Provisional
Probab=30.22 E-value=1.1e+02 Score=29.72 Aligned_cols=54 Identities=17% Similarity=0.275 Sum_probs=33.8
Q ss_pred HHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEecc
Q 017524 106 RCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGH 166 (370)
Q Consensus 106 ~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGH 166 (370)
..|.+.|. +.||..-.+..-.+.. =...++...+..++...++||.|+|+|...
T Consensus 22 ~d~~~~~~-~~g~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~Dvv~~~~P~~ 75 (333)
T PRK09814 22 NDVTKIAK-QLGFEELGIYFYNIKR------DSLSERSKRLDGILASLKPGDIVIFQFPTW 75 (333)
T ss_pred HHHHHHHH-HCCCeEeEEEeccccc------chHHHHHHHHHHHHhcCCCCCEEEEECCCC
Confidence 34566775 4799854443221110 124556666777788899999999988654
No 92
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=29.79 E-value=1.5e+02 Score=24.97 Aligned_cols=46 Identities=20% Similarity=0.247 Sum_probs=34.3
Q ss_pred ceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEeccccc
Q 017524 122 SIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQ 169 (370)
Q Consensus 122 ~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~ 169 (370)
+|++|.|-.. .+...++.++++|+.+++...++|.+-++..|+...
T Consensus 2 ~vvilvD~S~--Sm~g~~~~~k~al~~~l~~L~~~d~fnii~f~~~~~ 47 (155)
T PF13768_consen 2 DVVILVDTSG--SMSGEKELVKDALRAILRSLPPGDRFNIIAFGSSVR 47 (155)
T ss_pred eEEEEEeCCC--CCCCcHHHHHHHHHHHHHhCCCCCEEEEEEeCCEee
Confidence 5777777542 122223788889999999999999999999888655
No 93
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=29.75 E-value=89 Score=34.68 Aligned_cols=8 Identities=13% Similarity=-0.014 Sum_probs=3.2
Q ss_pred HHHHHHHh
Q 017524 291 YSFIQAIE 298 (370)
Q Consensus 291 ~ali~aL~ 298 (370)
++|++-.+
T Consensus 865 HfLae~~e 872 (1102)
T KOG1924|consen 865 HFLAEICE 872 (1102)
T ss_pred HHHHHHHH
Confidence 34444333
No 94
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=29.58 E-value=39 Score=29.06 Aligned_cols=30 Identities=23% Similarity=0.553 Sum_probs=23.8
Q ss_pred ccCCCCCCccccCCCCceeeccccC-ceeeccC
Q 017524 5 VDCSKCRTTLQLPPGAQSIRCAICQ-AITHIAD 36 (370)
Q Consensus 5 ~~C~~C~~~l~~p~~a~~~~C~~C~-~vt~v~~ 36 (370)
..|+-|+++|.= ..-.|-|++|. .++.+..
T Consensus 29 ~hCp~Cg~PLF~--KdG~v~CPvC~~~~~~v~~ 59 (131)
T COG1645 29 KHCPKCGTPLFR--KDGEVFCPVCGYREVVVEE 59 (131)
T ss_pred hhCcccCCccee--eCCeEECCCCCceEEEeec
Confidence 369999999755 77789999999 6666654
No 95
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=29.54 E-value=36 Score=33.05 Aligned_cols=29 Identities=21% Similarity=0.347 Sum_probs=24.7
Q ss_pred cccCCCCCCccccCCCCceeeccccCcee
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQAIT 32 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~vt 32 (370)
+--|++|++....-.+-...+|..|....
T Consensus 111 ~RFCg~CG~~~~~~~~g~~~~C~~cg~~~ 139 (279)
T COG2816 111 HRFCGRCGTKTYPREGGWARVCPKCGHEH 139 (279)
T ss_pred CcCCCCCCCcCccccCceeeeCCCCCCcc
Confidence 34599999999888899999999998554
No 96
>PRK14873 primosome assembly protein PriA; Provisional
Probab=29.33 E-value=33 Score=37.44 Aligned_cols=27 Identities=30% Similarity=0.707 Sum_probs=23.4
Q ss_pred cccCCCCCCccccCCCCceeeccccCc
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQA 30 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~ 30 (370)
.+.|.+|...|.+..+....+|..|..
T Consensus 392 ~~~C~~C~~~L~~h~~~~~l~Ch~CG~ 418 (665)
T PRK14873 392 PARCRHCTGPLGLPSAGGTPRCRWCGR 418 (665)
T ss_pred eeECCCCCCceeEecCCCeeECCCCcC
Confidence 467999999999988888899999984
No 97
>PRK06108 aspartate aminotransferase; Provisional
Probab=29.15 E-value=4.4e+02 Score=25.64 Aligned_cols=54 Identities=17% Similarity=0.153 Sum_probs=31.5
Q ss_pred chHHHHHHHHHHHHhccC--CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEec
Q 017524 100 GCINDARCMKYMLTNRFK--FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSG 165 (370)
Q Consensus 100 g~~nDa~~m~~~L~~~~G--f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSG 165 (370)
|...=-+.++++|.+.+| .++++|.+ +.. +.+.|..++..+ +++||.+++---.
T Consensus 62 G~~~lr~~la~~~~~~~~~~~~~~~i~~-t~g--------~~~al~~~~~~l---~~~gd~vl~~~p~ 117 (382)
T PRK06108 62 GIPELREALARYVSRLHGVATPPERIAV-TSS--------GVQALMLAAQAL---VGPGDEVVAVTPL 117 (382)
T ss_pred CCHHHHHHHHHHHHHHhCCCcCcceEEE-eCC--------hHHHHHHHHHHh---cCCCCEEEEeCCC
Confidence 333333556777766567 67777754 332 345555555555 4589988774333
No 98
>PRK13355 bifunctional HTH-domain containing protein/aminotransferase; Provisional
Probab=29.00 E-value=2.8e+02 Score=28.88 Aligned_cols=43 Identities=12% Similarity=0.074 Sum_probs=26.3
Q ss_pred HHHHHHHhcc--CCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEE
Q 017524 107 CMKYMLTNRF--KFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLF 161 (370)
Q Consensus 107 ~m~~~L~~~~--Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~f 161 (370)
.+++++..+. ++.+++|.+-.. +.+.|..++..| +.+||.|++
T Consensus 193 aia~~~~~~~~~~~~~~~I~it~G---------~~eal~~~~~~l---~~~Gd~Vli 237 (517)
T PRK13355 193 AIMQYAQLKGLPNVDVDDIYTGNG---------VSELINLSMSAL---LDDGDEVLI 237 (517)
T ss_pred HHHHHHHhcCCCCCChhHEEEeCc---------HHHHHHHHHHHh---CCCCCEEEE
Confidence 4455554433 366778755432 456676667666 468998886
No 99
>PF06277 EutA: Ethanolamine utilisation protein EutA; InterPro: IPR009377 Proteins in this entry are EutA ethanolamine utilization proteins, reactivating factors for ethanolamine ammonia lyase, encoded by the ethanolamine utilization eut operon. The holoenzyme of adenosylcobalamin-dependent ethanolamine ammonia-lyase (EutBC, IPR0092462 from INTERPRO, IPR010628 from INTERPRO), which is part of the ethanolamine utilization pathway [, , ], undergoes suicidal inactivation during catalysis as well as inactivation in the absence of substrate. The inactivation involves the irreversible cleavage of the Co-C bond of the coenzyme. The inactivated holoenzyme undergoes rapid and continuous reactivation in the presence of ATP, Mg2+, and free adenosylcobalamin in permeabilised cells (in situ), homogenate, and cell extracts of Escherichia coli. The EutA protein is essential for reactivation. It was demonstrated with purified recombinant EutA that both the suicidally inactivated and O2-inactivated holoethanolamine ammonia lyase underwent rapid reactivation in vitro by EutA in the presence of adenosylcobalamin, ATP, and Mg2+ []. The inactive enzyme-cyanocobalamin complex was also activated in situ and in vitro by EutA under the same conditions. Thus EutA is believed to be the only component of the reactivating factor for ethanolamine ammonia lyase. Reactivation and activation occur through the exchange of modified coenzyme for free intact adenosylcobalamin []. Bacteria that harbor the ethanolamine utilization pathway can use ethanolamine as a source of carbon and nitrogen. For more information on the ethanolamine utilization pathway, please see IPR009194 from INTERPRO, IPR012408 from INTERPRO.
Probab=28.98 E-value=75 Score=33.17 Aligned_cols=71 Identities=28% Similarity=0.293 Sum_probs=52.3
Q ss_pred CCCCC--CCCc-chHHHHHHHHHHHHhc---cCCCCCce----EEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEE
Q 017524 91 YRHTN--HELK-GCINDARCMKYMLTNR---FKFPESSI----VMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLL 160 (370)
Q Consensus 91 Y~~~~--~~L~-g~~nDa~~m~~~L~~~---~Gf~~~~I----~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~ 160 (370)
|.... .+|. ...=|++.++++..+. -|+.+++| +++|.|. +.|+|-...++.|... .||.|+
T Consensus 45 YrS~I~fTPl~~~~~ID~~al~~iv~~eY~~Agi~p~~I~TGAVIITGET------ArKeNA~~v~~~Ls~~--aGDFVV 116 (473)
T PF06277_consen 45 YRSPIYFTPLLSQTEIDAEALKEIVEEEYRKAGITPEDIDTGAVIITGET------ARKENAREVLHALSGF--AGDFVV 116 (473)
T ss_pred ecCCccccCCCCCCccCHHHHHHHHHHHHHHcCCCHHHCccccEEEecch------hhhhhHHHHHHHHHHh--cCCEEE
Confidence 66542 4665 5788999999999874 47888876 6888887 8999999888888776 457655
Q ss_pred E--------EEeccccc
Q 017524 161 F--------HFSGHGSQ 169 (370)
Q Consensus 161 f--------yfSGHG~~ 169 (370)
= -.+|||.-
T Consensus 117 ATAGPdLEsiiAgkGsG 133 (473)
T PF06277_consen 117 ATAGPDLESIIAGKGSG 133 (473)
T ss_pred EccCCCHHHHHhccCcc
Confidence 3 35666653
No 100
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=28.55 E-value=48 Score=38.24 Aligned_cols=16 Identities=19% Similarity=0.522 Sum_probs=8.2
Q ss_pred CCHHHHHH-HHHHHHhc
Q 017524 303 ATYGSMLN-SMRSTIRN 318 (370)
Q Consensus 303 ~Ty~~Ll~-~vr~~l~~ 318 (370)
++|+.|+. +++..+..
T Consensus 475 vsyqkLLknyv~N~lh~ 491 (2365)
T COG5178 475 VSYQKLLKNYVRNMLHK 491 (2365)
T ss_pred hhHHHHHHHHHHhhhcc
Confidence 56666553 35554443
No 101
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=28.06 E-value=27 Score=22.92 Aligned_cols=26 Identities=19% Similarity=0.538 Sum_probs=19.0
Q ss_pred ccCCCCCCccccCCC---CceeeccccCc
Q 017524 5 VDCSKCRTTLQLPPG---AQSIRCAICQA 30 (370)
Q Consensus 5 ~~C~~C~~~l~~p~~---a~~~~C~~C~~ 30 (370)
..|..|+..+.+..+ ...++|..|+.
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 369999997654443 45788999986
No 102
>PRK07324 transaminase; Validated
Probab=27.15 E-value=2.6e+02 Score=27.65 Aligned_cols=48 Identities=17% Similarity=0.260 Sum_probs=27.7
Q ss_pred HHHHHHHhcc-CCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEecc
Q 017524 107 CMKYMLTNRF-KFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGH 166 (370)
Q Consensus 107 ~m~~~L~~~~-Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGH 166 (370)
.+++.+.+.+ ++++++|.+... ..+.+..++..+ +.+||.|++-.-+|
T Consensus 66 ~lr~~ia~~~~~~~~~~vi~t~G---------~~~al~~~~~~l---~~~gd~Vl~~~P~y 114 (373)
T PRK07324 66 EFKEAVASLYQNVKPENILQTNG---------ATGANFLVLYAL---VEPGDHVISVYPTY 114 (373)
T ss_pred HHHHHHHHHhcCCChhhEEEcCC---------hHHHHHHHHHHh---CCCCCEEEEcCCCc
Confidence 3555555433 477778754433 344555555555 46899988844443
No 103
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=26.85 E-value=18 Score=33.70 Aligned_cols=34 Identities=21% Similarity=0.565 Sum_probs=25.5
Q ss_pred CcccCCCCCCccccC-CCCceeeccccCceeeccC
Q 017524 3 MLVDCSKCRTTLQLP-PGAQSIRCAICQAITHIAD 36 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p-~~a~~~~C~~C~~vt~v~~ 36 (370)
-.|.|++|...+.+- --..--||..|++|.-|.+
T Consensus 169 cRV~CgHC~~tFLfnt~tnaLArCPHCrKvSsvGs 203 (275)
T KOG4684|consen 169 CRVKCGHCNETFLFNTLTNALARCPHCRKVSSVGS 203 (275)
T ss_pred eEEEecCccceeehhhHHHHHhcCCcccchhhhhh
Confidence 467899999875443 3446689999999988764
No 104
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=26.23 E-value=42 Score=24.27 Aligned_cols=27 Identities=33% Similarity=0.648 Sum_probs=18.5
Q ss_pred ccCCCCCCc-cccCCCC---ceeeccccCce
Q 017524 5 VDCSKCRTT-LQLPPGA---QSIRCAICQAI 31 (370)
Q Consensus 5 ~~C~~C~~~-l~~p~~a---~~~~C~~C~~v 31 (370)
+.|++|+.. =++|... -.++|+.|+..
T Consensus 23 LIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~ 53 (54)
T PF10058_consen 23 LICSKCFSHNGLAPKEEFEEIQYRCPYCGAL 53 (54)
T ss_pred EECcccchhhcccccccCCceEEEcCCCCCc
Confidence 459999985 3444322 36999999864
No 105
>COG0657 Aes Esterase/lipase [Lipid metabolism]
Probab=26.18 E-value=2.9e+02 Score=26.31 Aligned_cols=48 Identities=23% Similarity=0.347 Sum_probs=37.2
Q ss_pred eEEEEEEecCCC-CCCCCcchHHHHHHHHHHHHhc---cCCCCCceEEeccC
Q 017524 82 KRALIVGVSYRH-TNHELKGCINDARCMKYMLTNR---FKFPESSIVMLTEE 129 (370)
Q Consensus 82 k~ALlIGInY~~-~~~~L~g~~nDa~~m~~~L~~~---~Gf~~~~I~~Ltd~ 129 (370)
.-+.+|-|+|.- ........+.|+...-.+|.++ +|+++++|.+.-|.
T Consensus 109 ~g~~vv~vdYrlaPe~~~p~~~~d~~~a~~~l~~~~~~~g~dp~~i~v~GdS 160 (312)
T COG0657 109 AGAVVVSVDYRLAPEHPFPAALEDAYAAYRWLRANAAELGIDPSRIAVAGDS 160 (312)
T ss_pred cCCEEEecCCCCCCCCCCCchHHHHHHHHHHHHhhhHhhCCCccceEEEecC
Confidence 456778888874 4567888899998888888764 67888888888775
No 106
>PF12773 DZR: Double zinc ribbon
Probab=25.95 E-value=31 Score=23.85 Aligned_cols=27 Identities=33% Similarity=0.643 Sum_probs=20.5
Q ss_pred cccCCCCCCccccCCCCceeeccccCce
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~v 31 (370)
...|.+|++.|. ......+.|..|.+.
T Consensus 12 ~~fC~~CG~~l~-~~~~~~~~C~~Cg~~ 38 (50)
T PF12773_consen 12 AKFCPHCGTPLP-PPDQSKKICPNCGAE 38 (50)
T ss_pred ccCChhhcCChh-hccCCCCCCcCCcCC
Confidence 356899999887 555667889999865
No 107
>PF00266 Aminotran_5: Aminotransferase class-V; InterPro: IPR000192 Aminotransferases share certain mechanistic features with other pyridoxal- phosphate dependent enzymes, such as the covalent binding of the pyridoxal- phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into subfamilies. This entry represents the class V aminotransferases and the related, though functionally distinct, cysteine desulfurases.; GO: 0008152 metabolic process; PDB: 3FFR_A 1N2T_B 1ELQ_A 1N31_A 1ELU_B 1QZ9_A 1VJO_A 3ISL_B 1BJO_B 1BJN_B ....
Probab=25.93 E-value=1.3e+02 Score=29.45 Aligned_cols=55 Identities=20% Similarity=0.279 Sum_probs=38.1
Q ss_pred HHHHHHHhccCCCC-CceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEecccccc
Q 017524 107 CMKYMLTNRFKFPE-SSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQ 170 (370)
Q Consensus 107 ~m~~~L~~~~Gf~~-~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~ 170 (370)
..++.|.+-+|.+. ++|. ++.. +-..+...+..+....++||.+++.-.+|....
T Consensus 47 ~~r~~la~~lg~~~~~~v~-~~~~--------~t~a~~~~~~~l~~~~~~g~~vl~~~~~~~s~~ 102 (371)
T PF00266_consen 47 EAREALAKLLGAPPDEEVV-FTSN--------GTEALNAVASSLLNPLKPGDEVLVTSNEHPSNR 102 (371)
T ss_dssp HHHHHHHHHHTSSTTEEEE-EESS--------HHHHHHHHHHHHHHHGTTTCEEEEEESSHHHHH
T ss_pred HHHHHHHHhcCCccccccc-cccc--------cchhhhhhhhccccccccccccccccccccccc
Confidence 45555655668887 6664 4432 333666666766555789999999999998876
No 108
>cd06502 TA_like Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a secondary glycine biosynthetic pathway.
Probab=25.56 E-value=5.7e+02 Score=24.22 Aligned_cols=52 Identities=19% Similarity=0.213 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Q 017524 103 NDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGS 168 (370)
Q Consensus 103 nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~ 168 (370)
...+.+++.+.+.+| .+++.+..+ .| +.+..++..+ +++||.+++-=.+|..
T Consensus 32 ~~~~~l~~~~a~~~g--~~~~~~~~~--------gt-~a~~~~~~~l---~~~gd~v~~~~~~~~~ 83 (338)
T cd06502 32 PTTAKLEARAAELFG--KEAALFVPS--------GT-AANQLALAAH---TQPGGSVICHETAHIY 83 (338)
T ss_pred HHHHHHHHHHHHHhC--CCeEEEecC--------ch-HHHHHHHHHh---cCCCCeEEEecCccee
Confidence 356777888877778 345544433 35 5566666655 4689999976666654
No 109
>PF00155 Aminotran_1_2: Aminotransferase class I and II 1-aminocyclopropane-1-carboxylate synthase signature aspartate aminotransferase signature; InterPro: IPR004839 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into class I and class II. This entry includes proteins from both subfamilies.; GO: 0016769 transferase activity, transferring nitrogenous groups, 0030170 pyridoxal phosphate binding, 0009058 biosynthetic process; PDB: 3NRA_B 3P6K_B 3OP7_A 3ASB_A 3ASA_A 1W7M_A 3FVX_A 1W7N_A 3FVU_B 3FVS_A ....
Probab=25.37 E-value=2.8e+02 Score=26.72 Aligned_cols=52 Identities=19% Similarity=0.243 Sum_probs=28.6
Q ss_pred HHHHHHHhccC--CCCC-ceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEeccccc
Q 017524 107 CMKYMLTNRFK--FPES-SIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQ 169 (370)
Q Consensus 107 ~m~~~L~~~~G--f~~~-~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~ 169 (370)
.+++++....| ...+ +|.+- . -+.+.+...+..+. ..+||.+++-.-+|...
T Consensus 52 ~ia~~~~~~~~~~~~~~~~i~~~-~--------G~~~~~~~~~~~~~--~~~~~~vlv~~P~y~~~ 106 (363)
T PF00155_consen 52 AIADFLGRRYGVPVDPEANILVT-S--------GAQAALFLLLRLLK--INPGDTVLVPDPCYPSY 106 (363)
T ss_dssp HHHHHHHHHHTHHTTGGEGEEEE-S--------HHHHHHHHHHHHHH--SSTTSEEEEEESSSTHH
T ss_pred HHHHHhhhccCcccccceEEEEe-c--------ccccchhhhhhccc--ccccccceecCCccccc
Confidence 35555553344 4455 55443 2 24455544444442 56899999977777754
No 110
>PRK05942 aspartate aminotransferase; Provisional
Probab=25.32 E-value=3.6e+02 Score=26.68 Aligned_cols=46 Identities=15% Similarity=0.198 Sum_probs=26.7
Q ss_pred HHHHHHHHhccC--CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEE
Q 017524 106 RCMKYMLTNRFK--FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFH 162 (370)
Q Consensus 106 ~~m~~~L~~~~G--f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fy 162 (370)
+.+++++.+++| +.+++..+++.- +.+.|...+..+ +++||.|++-
T Consensus 80 ~aia~~~~~~~~~~~~~~~~i~vt~G--------~~~al~~~~~~~---~~~gd~Vlv~ 127 (394)
T PRK05942 80 QAITDWYHRRYGVELDPDSEALPLLG--------SKEGLTHLALAY---VNPGDVVLVP 127 (394)
T ss_pred HHHHHHHHHHHCCCcCCCCeEEEccC--------hHHHHHHHHHHh---CCCCCEEEEc
Confidence 456777766556 455554444442 345555555544 5689988764
No 111
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=25.29 E-value=37 Score=31.16 Aligned_cols=29 Identities=17% Similarity=0.634 Sum_probs=20.8
Q ss_pred ccCCCCCCccccCC-------CCceeeccccCceeec
Q 017524 5 VDCSKCRTTLQLPP-------GAQSIRCAICQAITHI 34 (370)
Q Consensus 5 ~~C~~C~~~l~~p~-------~a~~~~C~~C~~vt~v 34 (370)
+.|.+|+ ...++. ....+||.-|..|...
T Consensus 7 ~~Cp~Cg-~eev~hEVik~~g~~~lvrC~eCG~V~~~ 42 (201)
T COG1326 7 IECPSCG-SEEVSHEVIKERGREPLVRCEECGTVHPA 42 (201)
T ss_pred EECCCCC-cchhhHHHHHhcCCceEEEccCCCcEeec
Confidence 4599999 555532 2258999999988754
No 112
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=25.23 E-value=37 Score=28.31 Aligned_cols=28 Identities=25% Similarity=0.739 Sum_probs=19.6
Q ss_pred CcccCCCCCCccccCCCCceeeccccCcee
Q 017524 3 MLVDCSKCRTTLQLPPGAQSIRCAICQAIT 32 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~~a~~~~C~~C~~vt 32 (370)
...+|.+|+... +......+|+.|+...
T Consensus 69 ~~~~C~~Cg~~~--~~~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 69 VECECEDCSEEV--SPEIDLYRCPKCHGIM 96 (115)
T ss_pred cEEEcccCCCEE--ecCCcCccCcCCcCCC
Confidence 457899999644 4444568899998654
No 113
>PF01878 EVE: EVE domain; InterPro: IPR002740 The EVE domain is part of the wider PUA domain superfamily. The function of this domain is not known but, given the structural similarities to PUA, is likely to involve RNA binding []. ; PDB: 2G2X_B 2AR1_A 3EOP_A 2EVE_A 2HD9_A 2ZBN_A 1WMM_A 2P5D_A 2GBS_A 1ZCE_A.
Probab=25.20 E-value=56 Score=27.84 Aligned_cols=17 Identities=35% Similarity=0.745 Sum_probs=12.0
Q ss_pred HHHhCCCCCEEEEEEec
Q 017524 149 LIQGCQPGDSLLFHFSG 165 (370)
Q Consensus 149 L~~~a~~gD~l~fyfSG 165 (370)
.+++.++||.++||=||
T Consensus 36 ~l~~mk~GD~vifY~s~ 52 (143)
T PF01878_consen 36 NLKRMKPGDKVIFYHSG 52 (143)
T ss_dssp HHHC--TT-EEEEEETS
T ss_pred hhhcCCCCCEEEEEEcC
Confidence 44578899999999999
No 114
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=25.10 E-value=53 Score=24.27 Aligned_cols=26 Identities=15% Similarity=0.461 Sum_probs=16.4
Q ss_pred cCCCCCCccccCCCCceeeccccCce
Q 017524 6 DCSKCRTTLQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 6 ~C~~C~~~l~~p~~a~~~~C~~C~~v 31 (370)
.|+.|+....-+...+.+.|..|...
T Consensus 30 ~C~~CG~~~~~~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 30 TCPRCGHRNKKRRSGRVFTCPNCGFE 55 (69)
T ss_pred CccCcccccccccccceEEcCCCCCE
Confidence 46777765555556666777777644
No 115
>PRK07550 hypothetical protein; Provisional
Probab=24.88 E-value=4.6e+02 Score=25.75 Aligned_cols=45 Identities=11% Similarity=0.196 Sum_probs=26.5
Q ss_pred HHHHHHHHhccC--CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEE
Q 017524 106 RCMKYMLTNRFK--FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFH 162 (370)
Q Consensus 106 ~~m~~~L~~~~G--f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fy 162 (370)
+.+++++.+.+| .++++|.+ +.. +.+.|...+.-| +++||.|++-
T Consensus 74 ~~ia~~~~~~~g~~~~~~~i~~-t~G--------~~~al~~~~~~l---~~~gd~Vlv~ 120 (386)
T PRK07550 74 EAYAAHYSRLYGAAISPEQVHI-TSG--------CNQAFWAAMVTL---AGAGDEVILP 120 (386)
T ss_pred HHHHHHHHHHhCCCCCcceEEE-ecC--------cHHHHHHHHHHh---cCCCCEEEEc
Confidence 456667765555 56677754 332 334455555544 3589988764
No 116
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=24.59 E-value=3.1e+02 Score=24.95 Aligned_cols=70 Identities=19% Similarity=0.197 Sum_probs=38.7
Q ss_pred CceEEEEEEecCCCCCCCCcchHHHHHHHHHHHHh-----ccCCCCCceEEeccCCCCCCCCchHH------HHHHHH-H
Q 017524 80 GRKRALIVGVSYRHTNHELKGCINDARCMKYMLTN-----RFKFPESSIVMLTEEDPDPLKRPTKY------NMRMAL-Y 147 (370)
Q Consensus 80 ~~k~ALlIGInY~~~~~~L~g~~nDa~~m~~~L~~-----~~Gf~~~~I~~Ltd~~~~~~~~pT~~------nI~~al-~ 147 (370)
..++.+++|+. +..-+|..+..-|.. +.|++ ...+.++. .... .....+ +
T Consensus 40 ~~~rI~~~G~G---------gSa~~A~~~a~~l~~~~~~~r~gl~---a~~l~~d~------~~~ta~and~~~~~~f~~ 101 (196)
T PRK10886 40 NGNKILCCGNG---------TSAANAQHFAASMINRFETERPSLP---AIALNTDN------VVLTAIANDRLHDEVYAK 101 (196)
T ss_pred cCCEEEEEECc---------HHHHHHHHHHHHHhccccccCCCcc---eEEecCcH------HHHHHHhccccHHHHHHH
Confidence 45788999964 335577777766643 45565 33444432 1111 111222 4
Q ss_pred HHHHhCCCCCEEEEEEecccc
Q 017524 148 WLIQGCQPGDSLLFHFSGHGS 168 (370)
Q Consensus 148 ~L~~~a~~gD~l~fyfSGHG~ 168 (370)
+|...+++||.+++ +|+-|.
T Consensus 102 ql~~~~~~gDvli~-iS~SG~ 121 (196)
T PRK10886 102 QVRALGHAGDVLLA-ISTRGN 121 (196)
T ss_pred HHHHcCCCCCEEEE-EeCCCC
Confidence 55566789997775 665444
No 117
>PF14353 CpXC: CpXC protein
Probab=24.32 E-value=69 Score=26.80 Aligned_cols=32 Identities=16% Similarity=0.467 Sum_probs=22.7
Q ss_pred cccCCCCCCccccCC-------------------CCceeeccccCceeecc
Q 017524 4 LVDCSKCRTTLQLPP-------------------GAQSIRCAICQAITHIA 35 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~-------------------~a~~~~C~~C~~vt~v~ 35 (370)
++.|++|+....+.. .--++.|..|++..++.
T Consensus 1 ~itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 1 EITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLE 51 (128)
T ss_pred CcCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecC
Confidence 478999998765441 11379999999777665
No 118
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=24.25 E-value=51 Score=23.13 Aligned_cols=24 Identities=29% Similarity=0.845 Sum_probs=17.5
Q ss_pred ccCCCCCC-ccccCCCCceeeccccCcee
Q 017524 5 VDCSKCRT-TLQLPPGAQSIRCAICQAIT 32 (370)
Q Consensus 5 ~~C~~C~~-~l~~p~~a~~~~C~~C~~vt 32 (370)
|.|..|+. .+. | ..++|..|..+.
T Consensus 1 i~C~~C~~~~i~---g-~R~~C~~C~d~d 25 (49)
T cd02338 1 VSCDGCGKSNFT---G-RRYKCLICYDYD 25 (49)
T ss_pred CCCCCCcCCCcE---E-eeEEeCCCCCCc
Confidence 57999994 454 3 779999996443
No 119
>PRK14012 cysteine desulfurase; Provisional
Probab=23.96 E-value=3.1e+02 Score=27.30 Aligned_cols=54 Identities=13% Similarity=0.097 Sum_probs=30.6
Q ss_pred HHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHH-hCCCCCEEEEEEeccc
Q 017524 105 ARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQ-GCQPGDSLLFHFSGHG 167 (370)
Q Consensus 105 a~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~-~a~~gD~l~fyfSGHG 167 (370)
.+.+++.|.+.+|.+.++|.+ +.. .| +.+..++.-+.. ..++||.|++--..|.
T Consensus 51 ~~~~r~~ia~~~g~~~~~v~~-~~g-------~t-~al~~~l~~l~~~~~~~gd~Vi~~~~~~~ 105 (404)
T PRK14012 51 VDIARNQIADLIGADPREIVF-TSG-------AT-ESDNLAIKGAAHFYQKKGKHIITSKTEHK 105 (404)
T ss_pred HHHHHHHHHHHcCcCcCeEEE-eCC-------HH-HHHHHHHHHHHHhhcCCCCEEEEecCccH
Confidence 455667777677877666654 432 23 333333433332 1358998888655553
No 120
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=23.84 E-value=60 Score=23.05 Aligned_cols=25 Identities=16% Similarity=0.426 Sum_probs=19.0
Q ss_pred cCCCCCCccccCCCCceeeccccCce
Q 017524 6 DCSKCRTTLQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 6 ~C~~C~~~l~~p~~a~~~~C~~C~~v 31 (370)
.|++|+..++.+.. ....|..|+..
T Consensus 22 fCP~Cg~~~m~~~~-~r~~C~~Cgyt 46 (50)
T PRK00432 22 FCPRCGSGFMAEHL-DRWHCGKCGYT 46 (50)
T ss_pred cCcCCCcchheccC-CcEECCCcCCE
Confidence 59999987555544 68899999864
No 121
>PRK08636 aspartate aminotransferase; Provisional
Probab=23.80 E-value=2.8e+02 Score=27.62 Aligned_cols=50 Identities=14% Similarity=0.193 Sum_probs=30.9
Q ss_pred chHHHHHHHHHHHHhccC--CCCC-ceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEE
Q 017524 100 GCINDARCMKYMLTNRFK--FPES-SIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLF 161 (370)
Q Consensus 100 g~~nDa~~m~~~L~~~~G--f~~~-~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~f 161 (370)
|...=-+.++++|.+++| +.++ +|. +|.- +.+.|...++-| +.+||.|++
T Consensus 72 G~~~lR~~ia~~l~~~~~~~~~~~~~I~-it~G--------~~~al~~~~~~l---~~~gd~Vlv 124 (403)
T PRK08636 72 GIYKLRLAICNWYKRKYNVDLDPETEVV-ATMG--------SKEGYVHLVQAI---TNPGDVAIV 124 (403)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCCCCeEE-ECCC--------hHHHHHHHHHHh---CCCCCEEEE
Confidence 433334567888876667 4455 564 4542 456666666655 358999886
No 122
>PRK00420 hypothetical protein; Validated
Probab=23.66 E-value=65 Score=26.96 Aligned_cols=30 Identities=13% Similarity=0.305 Sum_probs=22.7
Q ss_pred ccCCCCCCccccCCCCceeeccccCceeecc
Q 017524 5 VDCSKCRTTLQLPPGAQSIRCAICQAITHIA 35 (370)
Q Consensus 5 ~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v~ 35 (370)
-.|+-|+++|.=- ....+.|..|..+-.|.
T Consensus 24 ~~CP~Cg~pLf~l-k~g~~~Cp~Cg~~~~v~ 53 (112)
T PRK00420 24 KHCPVCGLPLFEL-KDGEVVCPVHGKVYIVK 53 (112)
T ss_pred CCCCCCCCcceec-CCCceECCCCCCeeeec
Confidence 4699999986532 44578999999877665
No 123
>PTZ00433 tyrosine aminotransferase; Provisional
Probab=23.65 E-value=3.8e+02 Score=26.83 Aligned_cols=45 Identities=24% Similarity=0.417 Sum_probs=26.1
Q ss_pred HHHHHHHHhccC--------CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEE
Q 017524 106 RCMKYMLTNRFK--------FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFH 162 (370)
Q Consensus 106 ~~m~~~L~~~~G--------f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fy 162 (370)
+.+++++.++++ +++++|.+ |.- +.+.|..++..| +++||.+++-
T Consensus 82 ~aia~~~~~~~~~~~~~~~~~~~~~i~i-t~G--------~~~al~~~~~~~---~~~gd~vlv~ 134 (412)
T PTZ00433 82 EAVATYWRNSFVHKESLKSTIKKDNVVL-CSG--------VSHAILMALTAL---CDEGDNILVP 134 (412)
T ss_pred HHHHHHHHhhccccccccCCCChhhEEE-eCC--------hHHHHHHHHHHh---cCCCCEEEEc
Confidence 346667765443 55667754 432 345555555555 4589987764
No 124
>PRK09440 avtA valine--pyruvate transaminase; Provisional
Probab=23.62 E-value=3.6e+02 Score=26.84 Aligned_cols=51 Identities=14% Similarity=0.288 Sum_probs=30.4
Q ss_pred HHHHHHHHhccC--CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhC--CCCCEEEE----EEec
Q 017524 106 RCMKYMLTNRFK--FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGC--QPGDSLLF----HFSG 165 (370)
Q Consensus 106 ~~m~~~L~~~~G--f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a--~~gD~l~f----yfSG 165 (370)
+.+++++.+++| .++++|.+ +.- +.+.|...+..|.... .+||.+++ .|.|
T Consensus 81 ~aia~~~~~~~g~~v~~~~I~i-t~G--------a~~al~~~~~~l~~~~~~~~gd~v~i~~~P~y~~ 139 (416)
T PRK09440 81 EALAALLNERYGWNISPQNIAL-TNG--------SQSAFFYLFNLFAGRRADGSLKKILFPLAPEYIG 139 (416)
T ss_pred HHHHHHHHHHhCCCCChhhEEE-ccC--------hHHHHHHHHHHHhccccCCCCCeEEEecCCCchh
Confidence 446677765555 56778754 432 4556666666665421 36888887 6655
No 125
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=23.56 E-value=55 Score=22.98 Aligned_cols=24 Identities=29% Similarity=0.935 Sum_probs=17.6
Q ss_pred ccCCCCCC-ccccCCCCceeeccccCcee
Q 017524 5 VDCSKCRT-TLQLPPGAQSIRCAICQAIT 32 (370)
Q Consensus 5 ~~C~~C~~-~l~~p~~a~~~~C~~C~~vt 32 (370)
+.|+.|+. .+. | ..++|+.|..+.
T Consensus 1 ~~C~~C~~~~i~---g-~R~~C~~C~dyd 25 (49)
T cd02345 1 LSCSACRKQDIS---G-IRFPCQVCRDYS 25 (49)
T ss_pred CcCCCCCCCCce---E-eeEECCCCCCcC
Confidence 46999988 444 4 567999997544
No 126
>PF07859 Abhydrolase_3: alpha/beta hydrolase fold A web page of Esterases and alpha/beta hydrolases.; InterPro: IPR013094 The alpha/beta hydrolase fold [] is common to a number of hydrolytic enzymes of widely differing phylogenetic origin and catalytic function. The core of each enzyme is an alpha/beta-sheet (rather than a barrel), containing 8 strands connected by helices []. The enzymes are believed to have diverged from a common ancestor, preserving the arrangement of the catalytic residues. All have a catalytic triad, the elements of which are borne on loops, which are the best conserved structural features of the fold. Esterase (EST) from Pseudomonas putida is a member of the alpha/beta hydrolase fold superfamily of enzymes []. In most of the family members the beta-strands are parallels, but some have an inversion of the first strands, which gives it an antiparallel orientation. The catalytic triad residues are presented on loops. One of these is the nucleophile elbow and is the most conserved feature of the fold. Some other members lack one or all of the catalytic residues. Some members are therefore inactive but others are involved in surface recognition. The ESTHER database [] gathers and annotates all the published information related to gene and protein sequences of this superfamily []. This entry represents the catalytic domain fold-3 of alpha/beta hydrolase. ; GO: 0016787 hydrolase activity, 0008152 metabolic process; PDB: 3D7R_B 2C7B_B 3ZWQ_B 2YH2_B 3BXP_A 3D3N_A 1LZK_A 1LZL_A 2O7V_A 2O7R_A ....
Probab=23.33 E-value=85 Score=27.75 Aligned_cols=48 Identities=15% Similarity=0.347 Sum_probs=36.8
Q ss_pred eEEEEEEecCCC-CCCCCcchHHHHHHHHHHHHhc---cCCCCCceEEeccC
Q 017524 82 KRALIVGVSYRH-TNHELKGCINDARCMKYMLTNR---FKFPESSIVMLTEE 129 (370)
Q Consensus 82 k~ALlIGInY~~-~~~~L~g~~nDa~~m~~~L~~~---~Gf~~~~I~~Ltd~ 129 (370)
+-+.+|.++|.- .....+.++.|+...-++|.++ +|++.++|.+.-+.
T Consensus 28 ~g~~v~~~~Yrl~p~~~~p~~~~D~~~a~~~l~~~~~~~~~d~~~i~l~G~S 79 (211)
T PF07859_consen 28 RGFVVVSIDYRLAPEAPFPAALEDVKAAYRWLLKNADKLGIDPERIVLIGDS 79 (211)
T ss_dssp HTSEEEEEE---TTTSSTTHHHHHHHHHHHHHHHTHHHHTEEEEEEEEEEET
T ss_pred ccEEEEEeeccccccccccccccccccceeeeccccccccccccceEEeecc
Confidence 345788899875 3568899999999999998876 78998899888775
No 127
>cd00609 AAT_like Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary hi
Probab=23.12 E-value=4.8e+02 Score=24.46 Aligned_cols=58 Identities=21% Similarity=0.202 Sum_probs=33.8
Q ss_pred cchHHHHHHHHHHHHhccCCC--CCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Q 017524 99 KGCINDARCMKYMLTNRFKFP--ESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGS 168 (370)
Q Consensus 99 ~g~~nDa~~m~~~L~~~~Gf~--~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~ 168 (370)
.+...=.+.++++|...+|++ .+++. +++. +.+.+..++.-+. ++||.+++-=.+|+.
T Consensus 36 ~~~~~l~~~l~~~l~~~~~~~~~~~~~~-~~~~--------~t~a~~~~~~~~~---~~g~~vl~~~~~~~~ 95 (350)
T cd00609 36 PGLPELREAIAEWLGRRGGVDVPPEEIV-VTNG--------AQEALSLLLRALL---NPGDEVLVPDPTYPG 95 (350)
T ss_pred CCcHHHHHHHHHHHHHHhCCCCCcceEE-EecC--------cHHHHHHHHHHhC---CCCCEEEEcCCCchh
Confidence 343333356777777665643 33444 3432 4566666666663 478988877667663
No 128
>PRK05580 primosome assembly protein PriA; Validated
Probab=23.10 E-value=52 Score=35.92 Aligned_cols=27 Identities=26% Similarity=0.699 Sum_probs=22.4
Q ss_pred cccCCCCCCccccCCCCceeeccccCc
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQA 30 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~ 30 (370)
.+.|.+|...|.+.......+|..|..
T Consensus 390 ~~~C~~C~~~l~~h~~~~~l~Ch~Cg~ 416 (679)
T PRK05580 390 VAECPHCDASLTLHRFQRRLRCHHCGY 416 (679)
T ss_pred ccCCCCCCCceeEECCCCeEECCCCcC
Confidence 356888888888888888899999973
No 129
>PRK00809 hypothetical protein; Provisional
Probab=23.03 E-value=74 Score=27.69 Aligned_cols=17 Identities=35% Similarity=0.624 Sum_probs=13.7
Q ss_pred hCCCCCEEEEEEec-ccc
Q 017524 152 GCQPGDSLLFHFSG-HGS 168 (370)
Q Consensus 152 ~a~~gD~l~fyfSG-HG~ 168 (370)
+.++||.+|||=|+ +|.
T Consensus 34 ~Mk~GD~v~fYhs~~~~~ 51 (144)
T PRK00809 34 KVKPGDKLIIYVSQEYGA 51 (144)
T ss_pred hCCCCCEEEEEECCccCC
Confidence 47799999999997 443
No 130
>cd00613 GDC-P Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1.2.10 (GDC) also annotated as glycine cleavage system or glycine synthase. GDC consists of four proteins P, H, L and T. The reaction catalysed by this protein is: Glycine + lipoylprotein <= S-aminomethyldihydrolipoylprotein + CO2. Alpha-beta-type dimers associate to form an alpha(2)beta(2) tetramer, where the alpha- and beta-subunits are structurally similar and appear to have arisen by gene duplication and subsequent divergence with a loss of one active site. The members of this CD are widely dispersed among all three forms of cellular life.
Probab=23.02 E-value=5.3e+02 Score=25.23 Aligned_cols=62 Identities=16% Similarity=0.116 Sum_probs=38.3
Q ss_pred cchHHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEeccccc
Q 017524 99 KGCINDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQ 169 (370)
Q Consensus 99 ~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~ 169 (370)
.|...-.+.+++.|.+.+|.+.+++.++.. .+.+. ..++..+...-.+||.|++.=..||..
T Consensus 60 ~g~~~~~~~~~~~la~~~g~~~~~v~~~~~--------g~~~~-~~~~~~~~~~~~~gd~Vl~~~~~h~~~ 121 (398)
T cd00613 60 QGRLQALFELQTMLCELTGMDVANASLQDE--------ATAAA-EAAGLAAIRAYHKRNKVLVPDSAHPTN 121 (398)
T ss_pred hhHHHHHHHHHHHHHHHHCCCccceeccCc--------hHHHH-HHHHHHHHhcccCCCEEEEcCccCcch
Confidence 455666678888898878887666655533 23333 333333332223599999877788764
No 131
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=22.87 E-value=64 Score=21.75 Aligned_cols=28 Identities=18% Similarity=0.650 Sum_probs=21.5
Q ss_pred cCCCCCCc-cccCCCCceeeccccCceee
Q 017524 6 DCSKCRTT-LQLPPGAQSIRCAICQAITH 33 (370)
Q Consensus 6 ~C~~C~~~-l~~p~~a~~~~C~~C~~vt~ 33 (370)
.|+.|+.. +..-.....+-|..|..|-.
T Consensus 2 ~Cp~Cg~~~~~~D~~~g~~vC~~CG~Vl~ 30 (43)
T PF08271_consen 2 KCPNCGSKEIVFDPERGELVCPNCGLVLE 30 (43)
T ss_dssp SBTTTSSSEEEEETTTTEEEETTT-BBEE
T ss_pred CCcCCcCCceEEcCCCCeEECCCCCCEee
Confidence 69999996 46667777889999987763
No 132
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=22.85 E-value=49 Score=23.53 Aligned_cols=30 Identities=20% Similarity=0.498 Sum_probs=19.5
Q ss_pred ccCCC--CCCccccCCCCce--eeccccCceeec
Q 017524 5 VDCSK--CRTTLQLPPGAQS--IRCAICQAITHI 34 (370)
Q Consensus 5 ~~C~~--C~~~l~~p~~a~~--~~C~~C~~vt~v 34 (370)
..|++ |...+....+... ++|..|+...=.
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~ 52 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCF 52 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECS
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCcc
Confidence 47977 9999999988887 999999976633
No 133
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=22.84 E-value=33 Score=28.71 Aligned_cols=33 Identities=24% Similarity=0.558 Sum_probs=27.9
Q ss_pred cccCCCCCCccccCCCCceeeccccCceeeccC
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQAITHIAD 36 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~~vt~v~~ 36 (370)
+.-|+-|+.-|+.|.-...+-|..|+..-.|..
T Consensus 7 ~~FC~~CG~ll~~~~~~~~~~C~~Ck~~~~v~~ 39 (116)
T KOG2907|consen 7 LDFCSDCGSLLEEPSAQSTVLCIRCKIEYPVSQ 39 (116)
T ss_pred cchhhhhhhhcccccccCceEeccccccCCHHH
Confidence 567999999999998888899999997766653
No 134
>PRK15244 virulence protein SpvB; Provisional
Probab=22.72 E-value=42 Score=35.70 Aligned_cols=64 Identities=16% Similarity=0.271 Sum_probs=34.0
Q ss_pred ceEEEEEEecCCCCCCCCc-chHHHHHHHHHHHHhccCCCC-Cce-EEe-----ccCCCCCCCCchHHHHHHHHHHHHHh
Q 017524 81 RKRALIVGVSYRHTNHELK-GCINDARCMKYMLTNRFKFPE-SSI-VML-----TEEDPDPLKRPTKYNMRMALYWLIQG 152 (370)
Q Consensus 81 ~k~ALlIGInY~~~~~~L~-g~~nDa~~m~~~L~~~~Gf~~-~~I-~~L-----td~~~~~~~~pT~~nI~~al~~L~~~ 152 (370)
+|||..+.-+ +...|+ +.+.+=+.+-++|+.. +++. +-+ ++| .+.+ ++-++|..+|+..+++
T Consensus 384 ~kw~~~~~~~---q~~Al~~ys~~gY~~iN~YLR~~-~~~~~~a~~~~~~~~~~~~~~------~~~~~~~~~~~~~i~~ 453 (591)
T PRK15244 384 SKWAIVEESK---QIQALRYYSAQGYSVINKYLRGD-DYPETQAKETLLSRDYLSTNE------PSDEEFKNAMSVYIND 453 (591)
T ss_pred hhhhhhcchh---HHHHHhhhhhccHHHHHHHHhcC-CcccchhhhhhhcccccCCcc------cchhhhhhhhhHHHHH
Confidence 5666655422 223443 5577777888888753 3321 112 122 2222 5667777777766665
Q ss_pred CC
Q 017524 153 CQ 154 (370)
Q Consensus 153 a~ 154 (370)
++
T Consensus 454 i~ 455 (591)
T PRK15244 454 IA 455 (591)
T ss_pred HH
Confidence 43
No 135
>PLN00143 tyrosine/nicotianamine aminotransferase; Provisional
Probab=22.50 E-value=2.5e+02 Score=28.19 Aligned_cols=45 Identities=18% Similarity=0.317 Sum_probs=27.6
Q ss_pred HHHHHHHHHhccC--CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEE
Q 017524 105 ARCMKYMLTNRFK--FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLF 161 (370)
Q Consensus 105 a~~m~~~L~~~~G--f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~f 161 (370)
-+.+++++.+++| +++++|.+ +.- ..+.|..+++.| +.+||.|++
T Consensus 80 r~aia~~~~~~~g~~~~~~~I~i-t~G--------~~~al~~~~~~l---~~~gd~v~v 126 (409)
T PLN00143 80 RRAIADYLSNDLPYQLSPDDVYL-TLG--------CKHAAEIIIKVL---ARPEANILL 126 (409)
T ss_pred HHHHHHHHHhhcCCCCCHhhEEE-ecC--------hHHHHHHHHHHH---cCCCCEEEE
Confidence 3557778876555 56677754 331 445555555555 358998876
No 136
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=22.43 E-value=44 Score=27.79 Aligned_cols=27 Identities=15% Similarity=0.426 Sum_probs=18.7
Q ss_pred CcccCCCCCCccccCCCCceeeccccCce
Q 017524 3 MLVDCSKCRTTLQLPPGAQSIRCAICQAI 31 (370)
Q Consensus 3 ~~~~C~~C~~~l~~p~~a~~~~C~~C~~v 31 (370)
...+|..|+.... ......+|+.|+..
T Consensus 69 ~~~~C~~Cg~~~~--~~~~~~~CP~Cgs~ 95 (113)
T PRK12380 69 AQAWCWDCSQVVE--IHQHDAQCPHCHGE 95 (113)
T ss_pred cEEEcccCCCEEe--cCCcCccCcCCCCC
Confidence 4678999986443 33456679999854
No 137
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=22.19 E-value=41 Score=21.89 Aligned_cols=22 Identities=32% Similarity=0.789 Sum_probs=11.0
Q ss_pred cccCCCCCCccccCCCCceeeccccC
Q 017524 4 LVDCSKCRTTLQLPPGAQSIRCAICQ 29 (370)
Q Consensus 4 ~~~C~~C~~~l~~p~~a~~~~C~~C~ 29 (370)
.-+|..|++ +.+||. ..|..|+
T Consensus 11 ~~rC~~Cg~-~~~pPr---~~Cp~C~ 32 (37)
T PF12172_consen 11 GQRCRDCGR-VQFPPR---PVCPHCG 32 (37)
T ss_dssp EEE-TTT---EEES-----SEETTTT
T ss_pred EEEcCCCCC-EecCCC---cCCCCcC
Confidence 346999988 556654 4577775
No 138
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=22.10 E-value=1.1e+02 Score=25.82 Aligned_cols=51 Identities=10% Similarity=0.104 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHH--HHHHHHHHHhCCCCCEEEEEEe
Q 017524 102 INDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNM--RMALYWLIQGCQPGDSLLFHFS 164 (370)
Q Consensus 102 ~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI--~~al~~L~~~a~~gD~l~fyfS 164 (370)
.+=|.+++++|++.+|+.. ..|.- ...+| ....+|+.+..+..|.|++-.|
T Consensus 15 ~~~V~~la~~L~~~~g~~V-----~lD~~-------~~~~i~~~g~~~W~~~~~~~ad~Vliv~S 67 (150)
T PF08357_consen 15 KEWVLALAEFLRQNCGIDV-----ILDQW-------ELNEIARQGPPRWMERQIREADKVLIVCS 67 (150)
T ss_pred HHHHHHHHHHHHhccCCce-----eecHH-------hhcccccCCHHHHHHHHHhcCCEEEEEec
Confidence 4567889999998779872 22321 11121 2367888888889999999999
No 139
>TIGR00758 UDG_fam4 uracil-DNA glycosylase, family 4. This well-conserved family of proteins is about 200 residues in length and homologous to the N-terminus of the DNA polymerase of phage SPO1 of Bacillus subtilis. The member from Thermus thermophilus HB8 is known to act as uracil-DNA glycosylase, an enzyme of DNA base excision repair. Its appearance as a domain of phage DNA polymerases could be consistent with uracil-DNA glycosylase activity.
Probab=22.04 E-value=4.3e+02 Score=23.28 Aligned_cols=71 Identities=13% Similarity=0.166 Sum_probs=44.1
Q ss_pred ceEEEEEEec-C-CCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccCC---CCCCCCchHHHHHHHHHHHHHhC
Q 017524 81 RKRALIVGVS-Y-RHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEED---PDPLKRPTKYNMRMALYWLIQGC 153 (370)
Q Consensus 81 ~k~ALlIGIn-Y-~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~---~~~~~~pT~~nI~~al~~L~~~a 153 (370)
+-+.++||-. - ..........-...+.+.++|. ..|++.+++.+ |+-- +...+.||.++|.....||.+.+
T Consensus 21 ~A~im~VgeaPg~~e~~~g~pf~g~sG~~L~~~l~-~~gl~~~~vy~-t~~~kc~P~~~r~P~~~Ei~~c~~~l~~eI 96 (173)
T TIGR00758 21 DANIMFVGEAPGREEDRKGRPFVGRAGKLLDEMLA-AIGLSRENVYI-TNVVKCRPPNNRDPTPEEVEACAPYLVKQI 96 (173)
T ss_pred CCCEEEEeCCCCccccccCCCCcChHHHHHHHHHH-HcCCCcccEEE-eccccccCCCCCCcCHHHHHHHHHHHHHHH
Confidence 4567888865 2 1112222233356777888886 68999888755 3321 11245699999998888877643
No 140
>TIGR02006 IscS cysteine desulfurase IscS. This model represents IscS, one of several cysteine desulfurases from a larger protein family designated (misleadingly, in this case) class V aminotransferases. IscS is one of at least 6 enzymes characteristic of the IscSUA-hscAB-fsx system of iron-sulfur cluster assembly. Scoring almost as well as proteobacterial sequences included in the model are mitochondrial cysteine desulfurases, apparently from an analogous system in eukaryotes. The sulfur, taken from cysteine, may be used in other systems as well, such as tRNA base modification and biosynthesis of other cofactors.
Probab=21.99 E-value=3.6e+02 Score=26.82 Aligned_cols=57 Identities=12% Similarity=0.123 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHH-hCCCCCEEEEEEecccc
Q 017524 103 NDARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQ-GCQPGDSLLFHFSGHGS 168 (370)
Q Consensus 103 nDa~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~-~a~~gD~l~fyfSGHG~ 168 (370)
.-.+.+++.|.+.+|.++++|. ++.. .| +.+..++.-+.. ..++||.+++--..|..
T Consensus 47 ~~~~~~r~~la~~~g~~~~~v~-~~~g-------~t-~a~~~~l~~l~~~~~~~g~~Vi~~~~~h~s 104 (402)
T TIGR02006 47 EAVENARNQVAELIGADSREIV-FTSG-------AT-ESNNLAIKGIAHFYKSKGNHIITSKTEHKA 104 (402)
T ss_pred HHHHHHHHHHHHHhCCCCCeEE-EeCC-------HH-HHHHHHHHHHHHhhcCCCCEEEECCCccHH
Confidence 3455667777777787776664 4443 23 333333333322 23588988876666764
No 141
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=21.94 E-value=66 Score=21.21 Aligned_cols=26 Identities=15% Similarity=0.379 Sum_probs=20.1
Q ss_pred cCCCCCCccccCCCCceeeccccCcee
Q 017524 6 DCSKCRTTLQLPPGAQSIRCAICQAIT 32 (370)
Q Consensus 6 ~C~~C~~~l~~p~~a~~~~C~~C~~vt 32 (370)
.|..|+.. ++-..+-..-|..|+.+.
T Consensus 10 ~C~~C~~~-~~~~~dG~~yC~~cG~~~ 35 (36)
T PF11781_consen 10 PCPVCGSR-WFYSDDGFYYCDRCGHQS 35 (36)
T ss_pred cCCCCCCe-EeEccCCEEEhhhCceEc
Confidence 49999998 777777777788888653
No 142
>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria. Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.
Probab=21.70 E-value=1.7e+02 Score=30.17 Aligned_cols=62 Identities=21% Similarity=0.258 Sum_probs=39.9
Q ss_pred HHHHHHHHhccCCCCCceEEeccCCCCCCCCc---hHHHHHHHHHHHHHhCCCCC--EEEEEEecccccc
Q 017524 106 RCMKYMLTNRFKFPESSIVMLTEEDPDPLKRP---TKYNMRMALYWLIQGCQPGD--SLLFHFSGHGSQQ 170 (370)
Q Consensus 106 ~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~p---T~~nI~~al~~L~~~a~~gD--~l~fyfSGHG~~~ 170 (370)
+.|..+|+ ..||+- ..++.||-.+-.+.+ +|++..+.|+.|+.++..|. -++|.|+|=-...
T Consensus 227 k~L~~~lr-~aGy~G--LlI~lDE~e~l~kl~~~~~R~~~ye~lr~lidd~~~G~~~gL~~~~~gTPef~ 293 (416)
T PF10923_consen 227 KGLARFLR-DAGYKG--LLILLDELENLYKLRNDQAREKNYEALRQLIDDIDQGRAPGLYFVFAGTPEFF 293 (416)
T ss_pred HHHHHHHH-HcCCCc--eEEEEechHHHHhcCChHHHHHHHHHHHHHHHHHhcCCCCceEEEEeeCHHHh
Confidence 34566665 478874 566667654433333 37788888888887766553 6999999744443
No 143
>cd06446 Trp-synth_B Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to glyceraldehyde 3-phosphate and indole at the active site of the alpha subunit. In the beta reaction, indole undergoes a PLP-dependent reaction with L-serine to form L-tryptophan at the active site of the beta subunit. Members of this CD, Trp-synth_B, are found in all three major phylogenetic divisions.
Probab=21.63 E-value=2.4e+02 Score=28.10 Aligned_cols=33 Identities=12% Similarity=0.142 Sum_probs=21.9
Q ss_pred hHHHHHHHHHHHHHhCCCCCEEEEEEecccccc
Q 017524 138 TKYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQ 170 (370)
Q Consensus 138 T~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~ 170 (370)
+-..-+.++..+.+...+++.+++.++|||...
T Consensus 329 ssgaalAa~~~~~~~~~~~~~Vv~i~~g~G~k~ 361 (365)
T cd06446 329 ESSHAIAYAIKLAKKLGKEKVIVVNLSGRGDKD 361 (365)
T ss_pred cchHHHHHHHHHHHhcCCCCeEEEEeCCCCccc
Confidence 333334444445554456889999999999764
No 144
>TIGR01976 am_tr_V_VC1184 cysteine desulfurase family protein, VC1184 subfamily. This model describes a subfamily of probable pyridoxal phosphate-dependent enzymes in the aminotransferase class V family (pfam00266). The most closely related characterized proteins are active as cysteine desulfurases, selenocysteine lyases, or both; some are involved in FeS cofactor biosynthesis and are designated NifS. An active site Cys residue present in those sequences, in motifs resembling GHHC or GSAC, is not found in this family. The function of members of this family is unknown, but seems unlike to be as an aminotransferase.
Probab=21.35 E-value=4.5e+02 Score=25.80 Aligned_cols=56 Identities=9% Similarity=0.080 Sum_probs=32.5
Q ss_pred HHHHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Q 017524 104 DARCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHFSGHGS 168 (370)
Q Consensus 104 Da~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyfSGHG~ 168 (370)
-.+.+++.|.+.+|.+.++|. ++.. +.+.+...+..+....++||.+++.-.+|..
T Consensus 61 ~~~~l~~~ia~~~~~~~~~v~-~~~~--------~t~~l~~~~~~~~~~~~~gd~vl~~~~~~~s 116 (397)
T TIGR01976 61 VVDDAREAVADLLNADPPEVV-FGAN--------ATSLTFLLSRAISRRWGPGDEVIVTRLDHEA 116 (397)
T ss_pred HHHHHHHHHHHHcCCCCCeEE-EeCC--------HHHHHHHHHHHHHhcCCCCCEEEEcCCchHh
Confidence 356777777777787666654 4432 2233333334443446799988886656643
No 145
>PRK08960 hypothetical protein; Provisional
Probab=21.30 E-value=6.6e+02 Score=24.65 Aligned_cols=46 Identities=17% Similarity=0.243 Sum_probs=27.5
Q ss_pred HHHHHHHHhccC--CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEEE
Q 017524 106 RCMKYMLTNRFK--FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFHF 163 (370)
Q Consensus 106 ~~m~~~L~~~~G--f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fyf 163 (370)
+.+++++..++| .++++|.+ |.. +.+.|...+.-+ +.+||.+++.=
T Consensus 76 ~~ia~~~~~~~g~~~~~~~i~i-t~G--------~~~al~~~~~~~---~~~gd~vlv~~ 123 (387)
T PRK08960 76 EAIAGFYAQRYGVDVDPERILV-TPG--------GSGALLLASSLL---VDPGKHWLLAD 123 (387)
T ss_pred HHHHHHHHHHhCCCCChhhEEE-ccC--------cHHHHHHHHHHh---cCCCCEEEEcC
Confidence 446667665545 56777754 432 455555555444 46899888743
No 146
>KOG4044 consensus Mitochondrial associated endoribonuclease MAR1 (isochorismatase superfamily) [General function prediction only]
Probab=21.10 E-value=52 Score=29.64 Aligned_cols=23 Identities=35% Similarity=0.598 Sum_probs=18.3
Q ss_pred CCCCeEEEEEcCCCCCCCCCccc
Q 017524 210 PRGARLHAIIDACHSGTVLDLPF 232 (370)
Q Consensus 210 ~~g~~l~~IlD~ChSG~~~~~p~ 232 (370)
..|.+++++.|||.|-+..|-.+
T Consensus 126 ~rgl~VhvVaDacSSRs~~DR~~ 148 (201)
T KOG4044|consen 126 ERGLNVHVVADACSSRSNQDRDL 148 (201)
T ss_pred hCCceEEEEeehhccccchhHHH
Confidence 45789999999999988776433
No 147
>PRK07681 aspartate aminotransferase; Provisional
Probab=20.79 E-value=5.7e+02 Score=25.31 Aligned_cols=50 Identities=12% Similarity=0.174 Sum_probs=29.5
Q ss_pred chHHHHHHHHHHHHhccCC--CC-CceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEE
Q 017524 100 GCINDARCMKYMLTNRFKF--PE-SSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLF 161 (370)
Q Consensus 100 g~~nDa~~m~~~L~~~~Gf--~~-~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~f 161 (370)
|...=-+.+++++.+++|. ++ ++|.+ +.- +.+.|...+..+ +++||.|++
T Consensus 70 G~~~lr~aia~~~~~~~g~~~~~~~~I~i-t~G--------~~~al~~~~~~~---~~~Gd~Vlv 122 (399)
T PRK07681 70 GIQEFHEAVTEYYNNTHNVILNADKEVLL-LMG--------SQDGLVHLPMVY---ANPGDIILV 122 (399)
T ss_pred CcHHHHHHHHHHHHHHhCCCCCCCCeEEE-CCC--------cHHHHHHHHHHh---CCCCCEEEE
Confidence 4333345678888766664 55 56644 432 445555555544 468998876
No 148
>PF07799 DUF1643: Protein of unknown function (DUF1643); InterPro: IPR012441 This entry is represented by Bacteriophage D3, Orf41.6. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The members of this family are all sequences found within hypothetical proteins expressed by various bacteria, archaea and phage. The region concerned is approximately 150 residues long.
Probab=20.71 E-value=5.1e+02 Score=21.67 Aligned_cols=82 Identities=18% Similarity=0.298 Sum_probs=40.7
Q ss_pred CCceEEEEEEec-CCCCCCCCcchHHHHHHHHHHHHhccCCCCCceEEeccC-CCCCCCC-----c-hHHHHHHHHHHHH
Q 017524 79 QGRKRALIVGVS-YRHTNHELKGCINDARCMKYMLTNRFKFPESSIVMLTEE-DPDPLKR-----P-TKYNMRMALYWLI 150 (370)
Q Consensus 79 ~~~k~ALlIGIn-Y~~~~~~L~g~~nDa~~m~~~L~~~~Gf~~~~I~~Ltd~-~~~~~~~-----p-T~~nI~~al~~L~ 150 (370)
.+++.+++||+| -........-+++=+..+ . +..||..-.|.=|-.. ..+|... | ..+|.. .|..++
T Consensus 10 ~~~~~~~~I~lNPS~A~~~~~D~T~~~~~~~---a-~~~gyg~~~i~NLf~~~~t~p~~l~~~~~~~~~~N~~-~i~~~~ 84 (136)
T PF07799_consen 10 SGKPPLLFIGLNPSTADAEKDDPTIRRCINF---A-RRWGYGGVIIVNLFPQRSTDPKDLKKAPDPIGPENDE-HIREAL 84 (136)
T ss_pred CCCCEEEEEEeCCCCCCCcCCCHHHHHHHHH---H-hhcCCCeEEEEEecccccCCHHHHHhccCcccHhHHH-HHHHHH
Confidence 467899999999 443334444555444333 3 3457764333323221 1112110 1 112222 233333
Q ss_pred HhCCCCCEEEEEEecccc
Q 017524 151 QGCQPGDSLLFHFSGHGS 168 (370)
Q Consensus 151 ~~a~~gD~l~fyfSGHG~ 168 (370)
+ .-|.|++=+-.||.
T Consensus 85 ~---~~~~vv~AWG~~~~ 99 (136)
T PF07799_consen 85 K---EADDVVLAWGNHGK 99 (136)
T ss_pred h---ccCcEEEEeCCCcc
Confidence 3 33888888877776
No 149
>cd08588 PI-PLCc_At5g67130_like Catalytic domain of Arabidopsis thaliana PI-PLC X domain-containing protein At5g67130 and its uncharacterized homologs. This subfamily corresponds to the catalytic domain present in Arabidopsis thaliana PI-PLC X domain-containing protein At5g67130 and its uncharacterized homologs. Members in this family show high sequence similarity to bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13), which participates in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to produce phosphorylated myo-inositol and diacylglycerol (DAG).
Probab=20.58 E-value=2.5e+02 Score=27.01 Aligned_cols=79 Identities=11% Similarity=0.064 Sum_probs=44.4
Q ss_pred chHHHHHHHHH-HHHHhCCCCCEEEEEEeccccccCC-CC-CCCCCCcceeEEcccCCC---CCcccHHHHHHhhcCcCC
Q 017524 137 PTKYNMRMALY-WLIQGCQPGDSLLFHFSGHGSQQRN-YN-GEEVDGYDETLCPVDFET---QGMIVDDEINTTLVRPLP 210 (370)
Q Consensus 137 pT~~nI~~al~-~L~~~a~~gD~l~fyfSGHG~~~~d-~~-gde~dG~de~L~p~D~~~---~g~I~ddeL~~~Lv~~l~ 210 (370)
-+.+++++.++ ||-+ .|+++|++.|-=+.....+ .. --+..|+..++++.+... ...- .|.+++ .
T Consensus 76 ~~~~d~L~~i~~fL~~--nP~EvV~l~l~~~~~~~~~~~~~~~~~~gl~~~~y~p~~~~~~~~~WP---TL~emi----~ 146 (270)
T cd08588 76 GPLSDVLREVVDFLDA--NPNEVVTLFLEDYVSPGPLLRSKLFRVAGLTDLVYVPDAMPWAGSDWP---TLGEMI----D 146 (270)
T ss_pred ccHHHHHHHHHHHHHh--CCCcEEEEEEEeCCCcchHHHHHHhhhcCccceEEcCCCCcCCCCCCC---CHHHHH----h
Confidence 46677888785 5543 5888888888644333221 00 012347777777554322 1111 344444 3
Q ss_pred CCCeEEEEEcCCCC
Q 017524 211 RGARLHAIIDACHS 224 (370)
Q Consensus 211 ~g~~l~~IlD~ChS 224 (370)
+|.||+++.|-...
T Consensus 147 ~gkRlvvf~~~~~~ 160 (270)
T cd08588 147 ANKRLLVFTDNEDV 160 (270)
T ss_pred cCCEEEEEEecCCC
Confidence 57899999888654
No 150
>PRK06260 threonine synthase; Validated
Probab=20.42 E-value=2.6e+02 Score=28.26 Aligned_cols=35 Identities=14% Similarity=0.186 Sum_probs=26.9
Q ss_pred chHHHHHHHHHHHHHh--CCCCCEEEEEEeccccccC
Q 017524 137 PTKYNMRMALYWLIQG--CQPGDSLLFHFSGHGSQQR 171 (370)
Q Consensus 137 pT~~nI~~al~~L~~~--a~~gD~l~fyfSGHG~~~~ 171 (370)
|+-..-+.++.++.+. ..+++.+++..+|||....
T Consensus 335 pssaaalAa~~~l~~~g~i~~~~~VV~i~tG~glK~~ 371 (397)
T PRK06260 335 PASAASVAGLIKLVEEGVIDKDERVVCITTGHLLKDP 371 (397)
T ss_pred chHHHHHHHHHHHHHcCCCCCCCeEEEEeCCCccCch
Confidence 6666667777777764 4678999999999998643
No 151
>PRK07337 aminotransferase; Validated
Probab=20.42 E-value=4.4e+02 Score=25.89 Aligned_cols=45 Identities=22% Similarity=0.323 Sum_probs=27.3
Q ss_pred HHHHHHHHhccC--CCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEEE
Q 017524 106 RCMKYMLTNRFK--FPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLFH 162 (370)
Q Consensus 106 ~~m~~~L~~~~G--f~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~fy 162 (370)
+.++++|..++| +++++|.+ +.. +.+.|...+.-| +++||.|++-
T Consensus 74 ~~ia~~~~~~~~~~~~~~~i~~-t~G--------~~~al~~~~~~l---~~~gd~Vlv~ 120 (388)
T PRK07337 74 EAIAAWYARRFGLDVAPERIVV-TAG--------ASAALLLACLAL---VERGDEVLMP 120 (388)
T ss_pred HHHHHHHHHHhCCCCChHhEEE-ecC--------cHHHHHHHHHHh---cCCCCEEEEe
Confidence 456777765555 56777654 432 344555555544 4689988874
No 152
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=20.39 E-value=5.5e+02 Score=22.56 Aligned_cols=73 Identities=16% Similarity=0.189 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCcceeEEcccCCCCCcccHHHHHHhhcCcCCC-CCeEEE
Q 017524 139 KYNMRMALYWLIQGCQPGDSLLFHFSGHGSQQRNYNGEEVDGYDETLCPVDFETQGMIVDDEINTTLVRPLPR-GARLHA 217 (370)
Q Consensus 139 ~~nI~~al~~L~~~a~~gD~l~fyfSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ddeL~~~Lv~~l~~-g~~l~~ 217 (370)
++.++..|..+.. ..|-.+++.|=||+.........+..|.. .+.. ..|.--|+.|.+.+.+ +.. +.+++|
T Consensus 28 R~~Li~~L~~y~~--~~~~~v~VVFDa~~~~~~~~~~~~~~gi~-Vvft----~~~~tAD~~Ie~~v~~-~~~~~~~v~V 99 (166)
T PF05991_consen 28 RERLIEMLSEYAQ--FSGYEVIVVFDAYKVPGGSEEREEYGGIE-VVFT----KEGETADDYIERLVRE-LKNRPRQVTV 99 (166)
T ss_pred HHHHHHHHHHHhc--ccCCEEEEEEeCCcCCCCCceeeeeCceE-EEEC----CCCCCHHHHHHHHHHH-hccCCCeEEE
Confidence 3344444443332 36688999999998876543222223432 2222 2345556667665543 443 456655
Q ss_pred EE
Q 017524 218 II 219 (370)
Q Consensus 218 Il 219 (370)
|-
T Consensus 100 VT 101 (166)
T PF05991_consen 100 VT 101 (166)
T ss_pred Ee
Confidence 53
No 153
>PRK00950 histidinol-phosphate aminotransferase; Validated
Probab=20.21 E-value=5.4e+02 Score=24.79 Aligned_cols=45 Identities=13% Similarity=0.230 Sum_probs=27.9
Q ss_pred HHHHHHHHhccCCCCCceEEeccCCCCCCCCchHHHHHHHHHHHHHhCCCCCEEEE
Q 017524 106 RCMKYMLTNRFKFPESSIVMLTEEDPDPLKRPTKYNMRMALYWLIQGCQPGDSLLF 161 (370)
Q Consensus 106 ~~m~~~L~~~~Gf~~~~I~~Ltd~~~~~~~~pT~~nI~~al~~L~~~a~~gD~l~f 161 (370)
..+++.+.+.+|.++++|.+.+.- +.+.|..++..+ +++||.+++
T Consensus 72 ~~lr~~ia~~~~~~~~~i~~~~~G--------a~~~i~~~~~~~---~~~gd~vlv 116 (361)
T PRK00950 72 PELREALSKYTGVPVENIIVGGDG--------MDEVIDTLMRTF---IDPGDEVII 116 (361)
T ss_pred HHHHHHHHHHhCCCHHHEEEeCCC--------HHHHHHHHHHHh---cCCCCEEEE
Confidence 667777777778888777553432 334444444433 468998775
Done!