Query 024329
Match_columns 269
No_of_seqs 206 out of 1179
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 03:46:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024329.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024329hhsearch_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 2.7E-62 5.8E-67 448.9 20.3 219 3-256 2-220 (362)
2 PF00656 Peptidase_C14: Caspas 99.9 1.3E-26 2.9E-31 204.5 7.0 138 100-251 1-138 (248)
3 cd00032 CASc Caspase, interleu 99.4 4E-12 8.7E-17 114.7 14.0 121 97-245 7-132 (243)
4 smart00115 CASc Caspase, inter 99.3 1.4E-11 3E-16 111.2 13.4 117 97-243 6-129 (241)
5 PF01650 Peptidase_C13: Peptid 99.3 6.3E-11 1.4E-15 108.3 12.3 127 100-248 1-166 (256)
6 COG4249 Uncharacterized protei 99.0 2.3E-09 5E-14 103.0 9.2 85 154-247 113-204 (380)
7 TIGR01053 LSD1 zinc finger dom 98.9 1.4E-09 3E-14 68.5 2.8 31 5-35 1-31 (31)
8 PF14538 Raptor_N: Raptor N-te 98.4 1.4E-06 3.1E-11 74.1 9.3 105 120-247 43-151 (154)
9 PF06943 zf-LSD1: LSD1 zinc fi 98.4 1.4E-07 3E-12 56.5 2.1 25 8-32 1-25 (25)
10 KOG1348 Asparaginyl peptidases 98.1 3.3E-05 7.1E-10 73.6 12.1 131 95-247 41-213 (477)
11 KOG1349 Gpi-anchor transamidas 97.6 0.00044 9.5E-09 63.3 10.1 144 97-262 26-215 (309)
12 PF12770 CHAT: CHAT domain 97.2 0.003 6.5E-08 57.0 10.7 112 103-244 82-202 (287)
13 COG5206 GPI8 Glycosylphosphati 97.1 0.0058 1.3E-07 56.5 10.4 145 96-262 25-215 (382)
14 PF13719 zinc_ribbon_5: zinc-r 96.1 0.0037 8.1E-08 40.7 2.1 31 4-34 1-36 (37)
15 COG4249 Uncharacterized protei 95.7 0.0012 2.5E-08 64.0 -2.8 124 98-247 2-134 (380)
16 KOG1517 Guanine nucleotide bin 95.4 0.05 1.1E-06 58.3 8.0 104 121-248 140-248 (1387)
17 PF13717 zinc_ribbon_4: zinc-r 95.0 0.023 5E-07 36.8 2.5 29 4-32 1-34 (36)
18 TIGR02098 MJ0042_CXXC MJ0042 f 94.0 0.038 8.2E-07 35.7 2.0 31 4-34 1-36 (38)
19 PRK00398 rpoP DNA-directed RNA 93.5 0.064 1.4E-06 36.3 2.4 30 4-33 2-31 (46)
20 COG1996 RPC10 DNA-directed RNA 90.3 0.14 3E-06 35.6 1.1 35 1-35 2-36 (49)
21 PF03415 Peptidase_C11: Clostr 89.5 2.1 4.5E-05 41.7 8.9 83 153-245 76-160 (397)
22 PF09297 zf-NADH-PPase: NADH p 84.4 0.89 1.9E-05 28.3 2.2 27 6-32 4-30 (32)
23 COG1791 Uncharacterized conser 82.9 5.8 0.00013 34.6 7.2 61 121-189 50-110 (181)
24 COG4995 Uncharacterized protei 81.9 3 6.5E-05 41.1 5.8 118 96-245 209-333 (420)
25 PF10122 Mu-like_Com: Mu-like 81.7 0.74 1.6E-05 32.2 1.1 35 4-38 3-39 (51)
26 PF04810 zf-Sec23_Sec24: Sec23 80.5 1.4 3E-05 29.0 2.0 33 5-37 2-38 (40)
27 PF03811 Zn_Tnp_IS1: InsA N-te 75.6 2.7 5.8E-05 27.3 2.3 30 1-30 1-36 (36)
28 KOG1321 Protoheme ferro-lyase 74.3 14 0.0003 35.5 7.5 63 121-191 173-242 (395)
29 COG2379 GckA Putative glycerat 73.8 23 0.00051 34.7 9.1 81 97-189 35-127 (422)
30 smart00659 RPOLCX RNA polymera 73.7 2.9 6.2E-05 28.3 2.1 27 5-32 2-28 (44)
31 PF09082 DUF1922: Domain of un 72.5 2.2 4.8E-05 31.6 1.4 32 5-38 3-34 (68)
32 PF03604 DNA_RNApol_7kD: DNA d 72.0 2.4 5.1E-05 26.8 1.3 24 7-31 2-25 (32)
33 PF13660 DUF4147: Domain of un 71.3 8.6 0.00019 35.1 5.3 37 152-188 92-130 (238)
34 PF11331 DUF3133: Protein of u 71.1 2.2 4.7E-05 29.3 1.0 34 3-36 4-44 (46)
35 PF14803 Nudix_N_2: Nudix N-te 70.5 3.3 7.2E-05 26.5 1.8 27 7-33 2-32 (34)
36 COG2051 RPS27A Ribosomal prote 69.8 3.5 7.6E-05 30.4 2.0 30 4-33 18-48 (67)
37 PRK13130 H/ACA RNA-protein com 69.1 3.7 7.9E-05 29.3 1.9 32 1-38 1-32 (56)
38 PF13248 zf-ribbon_3: zinc-rib 68.5 3.2 7E-05 24.6 1.3 23 4-30 1-23 (26)
39 PF06258 Mito_fiss_Elm1: Mitoc 68.0 32 0.00068 32.4 8.5 75 96-185 144-218 (311)
40 PF09788 Tmemb_55A: Transmembr 66.8 4 8.6E-05 37.6 2.1 34 4-37 156-191 (256)
41 PF01667 Ribosomal_S27e: Ribos 65.5 4.7 0.0001 28.7 1.8 30 4-33 6-36 (55)
42 KOG1984 Vesicle coat complex C 65.4 3 6.4E-05 44.5 1.2 35 4-38 337-375 (1007)
43 PRK00415 rps27e 30S ribosomal 65.0 4.8 0.0001 29.1 1.8 29 4-32 10-39 (59)
44 PLN02450 1-aminocyclopropane-1 62.7 37 0.0008 33.5 8.3 36 210-247 203-239 (468)
45 PF10264 Stork_head: Winged he 60.7 26 0.00057 26.8 5.3 46 122-188 31-76 (80)
46 TIGR02806 clostrip clostripain 59.7 1.2E+02 0.0026 30.5 11.0 84 155-245 94-184 (476)
47 COG0648 Nfo Endonuclease IV [D 59.1 28 0.0006 32.6 6.3 63 156-244 119-181 (280)
48 PF00130 C1_1: Phorbol esters/ 58.0 12 0.00026 25.3 2.8 32 4-36 10-41 (53)
49 smart00834 CxxC_CXXC_SSSS Puta 57.4 6 0.00013 25.3 1.1 31 1-31 1-34 (41)
50 PF12070 DUF3550: Protein of u 57.3 34 0.00074 34.7 6.9 106 153-265 292-420 (513)
51 TIGR01206 lysW lysine biosynth 57.0 14 0.0003 26.1 3.0 34 5-38 2-37 (54)
52 smart00661 RPOL9 RNA polymeras 56.6 14 0.0003 24.9 2.9 30 7-36 2-33 (52)
53 PF12156 ATPase-cat_bd: Putati 56.4 3.9 8.5E-05 31.5 0.2 32 6-37 1-40 (88)
54 PF02698 DUF218: DUF218 domain 56.0 41 0.0009 27.4 6.3 61 119-187 52-112 (155)
55 PRK10886 DnaA initiator-associ 53.6 70 0.0015 28.1 7.7 76 98-186 40-121 (196)
56 PRK01688 histidinol-phosphate 53.5 78 0.0017 29.5 8.5 50 123-184 59-109 (351)
57 PF07754 DUF1610: Domain of un 53.3 12 0.00025 22.3 1.8 22 8-30 1-23 (24)
58 PRK08361 aspartate aminotransf 52.9 1.2E+02 0.0026 28.5 9.8 49 124-184 77-127 (391)
59 PTZ00083 40S ribosomal protein 52.4 11 0.00024 29.2 2.0 29 4-32 34-63 (85)
60 TIGR01979 sufS cysteine desulf 52.1 80 0.0017 29.7 8.4 55 123-186 64-120 (403)
61 cd06451 AGAT_like Alanine-glyo 51.4 1.4E+02 0.003 27.5 9.7 52 123-185 34-85 (356)
62 PF13453 zf-TFIIB: Transcripti 50.6 12 0.00027 24.3 1.8 27 7-33 1-29 (41)
63 PF12773 DZR: Double zinc ribb 50.6 8.9 0.00019 25.7 1.2 28 4-32 11-38 (50)
64 PLN00209 ribosomal protein S27 50.5 12 0.00026 29.0 2.0 29 4-32 35-64 (86)
65 PRK00241 nudC NADH pyrophospha 50.5 12 0.00026 34.3 2.3 30 6-35 100-129 (256)
66 TIGR03402 FeS_nifS cysteine de 50.2 89 0.0019 29.2 8.3 56 121-185 42-97 (379)
67 COG1198 PriA Primosomal protei 48.6 65 0.0014 34.2 7.6 26 5-30 444-469 (730)
68 PLN02651 cysteine desulfurase 48.1 1E+02 0.0022 28.8 8.3 55 123-186 45-100 (364)
69 smart00109 C1 Protein kinase C 47.7 9.5 0.00021 24.8 1.0 29 4-34 10-38 (49)
70 COG2816 NPY1 NTP pyrophosphohy 47.6 13 0.00027 34.9 2.0 27 7-33 113-139 (279)
71 PRK11088 rrmA 23S rRNA methylt 47.4 13 0.00028 33.7 2.1 28 5-34 2-29 (272)
72 cd00615 Orn_deC_like Ornithine 47.4 1.4E+02 0.0031 27.0 9.0 59 115-186 53-111 (294)
73 PLN02994 1-aminocyclopropane-1 46.9 53 0.0012 27.7 5.6 51 117-179 92-146 (153)
74 PF12172 DUF35_N: Rubredoxin-l 46.4 9.6 0.00021 24.2 0.8 23 5-31 11-33 (37)
75 COG2260 Predicted Zn-ribbon RN 45.1 15 0.00034 26.4 1.7 32 1-38 1-32 (59)
76 cd00029 C1 Protein kinase C co 44.8 13 0.00028 24.4 1.3 30 4-34 10-39 (50)
77 PRK05387 histidinol-phosphate 44.1 1.3E+02 0.0029 27.6 8.3 103 124-242 63-185 (353)
78 KOG3507 DNA-directed RNA polym 44.0 13 0.00029 26.8 1.2 26 4-30 19-44 (62)
79 KOG1924 RhoA GTPase effector D 43.9 32 0.0007 36.8 4.5 8 247-254 844-851 (1102)
80 PRK06107 aspartate aminotransf 43.2 1.2E+02 0.0026 28.9 8.1 52 117-180 70-123 (402)
81 PF09827 CRISPR_Cas2: CRISPR a 42.7 73 0.0016 23.2 5.2 51 121-181 14-66 (78)
82 KOG1985 Vesicle coat complex C 42.6 11 0.00025 40.0 1.0 35 4-38 217-255 (887)
83 PF00266 Aminotran_5: Aminotra 42.0 48 0.001 31.0 5.1 56 124-188 46-102 (371)
84 PF08541 ACP_syn_III_C: 3-Oxoa 41.9 50 0.0011 24.5 4.3 59 126-188 23-83 (90)
85 PRK02948 cysteine desulfurase; 41.9 1.1E+02 0.0024 28.5 7.6 53 123-184 45-98 (381)
86 COG1350 Predicted alternative 41.5 20 0.00042 34.8 2.3 33 156-188 384-418 (432)
87 KOG3425 Uncharacterized conser 41.2 32 0.0007 28.5 3.3 24 160-183 11-34 (128)
88 COG0279 GmhA Phosphoheptose is 41.2 61 0.0013 28.4 5.1 30 98-136 40-69 (176)
89 COG1645 Uncharacterized Zn-fin 41.1 17 0.00036 30.4 1.6 31 6-38 29-60 (131)
90 PF13768 VWA_3: von Willebrand 40.6 85 0.0018 25.3 5.8 46 140-187 2-47 (155)
91 PRK05942 aspartate aminotransf 40.5 1.8E+02 0.0039 27.5 8.8 31 211-243 183-214 (394)
92 PF03568 Peptidase_C50: Peptid 40.5 44 0.00096 32.2 4.7 53 112-187 268-320 (383)
93 COG0079 HisC Histidinol-phosph 40.0 3E+02 0.0066 26.3 10.3 106 121-241 57-186 (356)
94 PTZ00377 alanine aminotransfer 39.9 1.2E+02 0.0025 29.9 7.6 46 123-179 121-168 (481)
95 PF01364 Peptidase_C25: Peptid 39.9 54 0.0012 31.2 5.2 26 155-188 226-251 (378)
96 PRK00420 hypothetical protein; 39.6 25 0.00054 28.5 2.4 33 5-38 23-55 (112)
97 PRK01642 cls cardiolipin synth 39.5 2.6E+02 0.0056 27.8 10.0 84 124-245 98-184 (483)
98 cd00609 AAT_like Aspartate ami 39.0 2.5E+02 0.0055 25.0 9.2 58 117-186 36-95 (350)
99 PF14369 zf-RING_3: zinc-finge 38.2 23 0.00051 22.6 1.6 26 6-31 3-29 (35)
100 cd06259 YdcF-like YdcF-like. Y 38.1 92 0.002 25.1 5.6 75 99-187 35-109 (150)
101 PRK08056 threonine-phosphate d 37.9 1.1E+02 0.0023 28.6 6.7 21 123-143 57-77 (356)
102 PLN03026 histidinol-phosphate 37.8 96 0.0021 29.4 6.5 46 123-180 88-133 (380)
103 PRK06108 aspartate aminotransf 37.7 3.2E+02 0.0069 25.3 9.9 54 118-183 62-117 (382)
104 COG5028 Vesicle coat complex C 37.5 13 0.00029 39.3 0.6 34 5-38 199-236 (861)
105 PRK09440 avtA valine--pyruvate 37.4 2.8E+02 0.006 26.3 9.6 31 210-242 191-222 (416)
106 PLN02368 alanine transaminase 37.1 1.3E+02 0.0028 29.1 7.4 35 210-246 222-257 (407)
107 PF01485 IBR: IBR domain; Int 36.6 25 0.00054 24.1 1.7 31 6-36 19-53 (64)
108 TIGR01976 am_tr_V_VC1184 cyste 36.4 2E+02 0.0044 26.8 8.5 56 122-186 61-116 (397)
109 PF07282 OrfB_Zn_ribbon: Putat 36.1 28 0.0006 24.9 1.9 27 6-32 29-55 (69)
110 PF08792 A2L_zn_ribbon: A2L zi 35.9 39 0.00085 21.3 2.4 30 4-33 2-31 (33)
111 PF08271 TF_Zn_Ribbon: TFIIB z 35.1 35 0.00076 22.4 2.2 29 6-34 1-30 (43)
112 PF02591 DUF164: Putative zinc 35.1 28 0.0006 24.2 1.8 24 7-32 24-55 (56)
113 PF01878 EVE: EVE domain; Int 34.1 31 0.00068 28.2 2.2 17 167-183 36-52 (143)
114 TIGR02006 IscS cysteine desulf 32.8 2.6E+02 0.0057 26.5 8.6 56 122-186 48-104 (402)
115 PRK09814 beta-1,6-galactofuran 32.7 1.1E+02 0.0024 28.3 6.0 54 124-184 22-75 (333)
116 PLN00162 transport protein sec 31.8 33 0.00071 36.4 2.4 35 4-38 52-90 (761)
117 PRK13772 formimidoylglutamase; 31.7 1.3E+02 0.0028 28.2 6.2 53 159-224 223-276 (314)
118 PRK12452 cardiolipin synthetas 31.7 4.7E+02 0.01 26.3 10.5 85 121-243 119-206 (509)
119 PF14353 CpXC: CpXC protein 31.6 50 0.0011 26.5 3.0 33 6-38 2-53 (128)
120 PF03119 DNA_ligase_ZBD: NAD-d 31.4 34 0.00074 20.7 1.5 21 7-27 1-21 (28)
121 PRK00809 hypothetical protein; 31.4 44 0.00096 28.0 2.7 20 167-186 31-51 (144)
122 cd02340 ZZ_NBR1_like Zinc fing 31.3 43 0.00093 22.3 2.1 22 6-31 1-22 (43)
123 PRK14873 primosome assembly pr 31.0 31 0.00068 36.0 2.1 28 5-32 392-419 (665)
124 PRK05957 aspartate aminotransf 31.0 4.2E+02 0.0091 24.9 9.7 51 117-179 65-118 (389)
125 PRK01722 formimidoylglutamase; 30.9 86 0.0019 29.4 4.8 66 160-240 223-289 (320)
126 PRK14890 putative Zn-ribbon RN 30.9 55 0.0012 23.6 2.7 29 4-32 6-34 (59)
127 PRK06959 putative threonine-ph 30.9 2.2E+02 0.0048 26.4 7.6 105 124-244 56-175 (339)
128 PF09862 DUF2089: Protein of u 30.7 39 0.00085 27.5 2.2 20 8-31 1-20 (113)
129 PRK00564 hypA hydrogenase nick 30.7 24 0.00051 28.5 0.9 29 4-33 70-98 (117)
130 COG2830 Uncharacterized protei 30.6 42 0.0009 29.5 2.4 38 171-209 7-45 (214)
131 cd06446 Trp-synth_B Tryptophan 30.4 1.6E+02 0.0034 28.2 6.6 32 157-188 330-361 (365)
132 PRK07337 aminotransferase; Val 30.4 2.6E+02 0.0056 26.2 8.1 46 124-181 74-121 (388)
133 cd02338 ZZ_PCMF_like Zinc fing 30.2 40 0.00086 23.0 1.8 23 6-32 1-24 (49)
134 PRK09428 pssA phosphatidylseri 30.1 3.2E+02 0.0069 27.2 8.9 75 127-239 11-89 (451)
135 cd01612 APG12_C Ubiquitin-like 30.1 2.5E+02 0.0054 21.4 7.0 54 123-183 28-82 (87)
136 KOG2907 RNA polymerase I trans 29.5 19 0.00041 29.3 0.2 33 5-37 7-39 (116)
137 PRK13355 bifunctional HTH-doma 29.4 3E+02 0.0065 27.3 8.7 31 211-243 294-325 (517)
138 PRK09257 aromatic amino acid a 29.1 3.4E+02 0.0074 25.6 8.7 54 117-179 69-125 (396)
139 PRK07550 hypothetical protein; 29.0 4.5E+02 0.0097 24.6 9.4 45 124-180 74-120 (386)
140 PF06827 zf-FPG_IleRS: Zinc fi 28.8 36 0.00077 20.5 1.3 26 7-32 3-30 (30)
141 TIGR00100 hypA hydrogenase nic 28.7 29 0.00064 27.9 1.1 27 5-33 70-96 (115)
142 PF04690 YABBY: YABBY protein; 28.6 30 0.00066 30.1 1.3 31 6-36 13-49 (170)
143 PRK06207 aspartate aminotransf 28.5 3.5E+02 0.0076 25.7 8.7 56 117-184 78-136 (405)
144 PRK14012 cysteine desulfurase; 28.4 3.1E+02 0.0066 26.0 8.3 53 123-184 51-104 (404)
145 PRK09265 aminotransferase AlaT 28.4 3.9E+02 0.0086 25.2 9.0 32 211-244 181-213 (404)
146 COG3809 Uncharacterized protei 28.0 44 0.00096 25.6 1.9 31 6-36 2-34 (88)
147 TIGR01229 rocF_arginase argina 27.5 1.5E+02 0.0033 27.4 5.8 68 157-239 199-268 (300)
148 PF11781 RRN7: RNA polymerase 27.4 54 0.0012 21.1 2.0 26 7-33 10-35 (36)
149 PF07521 RMMBL: RNA-metabolisi 27.2 46 0.00099 21.9 1.7 12 176-187 9-20 (43)
150 PF06677 Auto_anti-p27: Sjogre 27.2 49 0.0011 22.0 1.8 25 5-30 17-41 (41)
151 PRK12495 hypothetical protein; 27.2 42 0.00091 30.4 1.9 27 5-33 42-68 (226)
152 PRK07324 transaminase; Validat 27.2 2.3E+02 0.005 26.7 7.1 48 125-184 66-114 (373)
153 PRK00415 rps27e 30S ribosomal 27.1 37 0.0008 24.5 1.3 22 2-23 27-48 (59)
154 PF01155 HypA: Hydrogenase exp 26.8 17 0.00038 29.0 -0.5 27 5-33 70-96 (113)
155 cd02345 ZZ_dah Zinc finger, ZZ 26.8 51 0.0011 22.5 1.9 23 6-32 1-24 (49)
156 cd01791 Ubl5 UBL5 ubiquitin-li 26.6 93 0.002 22.8 3.4 49 123-181 24-72 (73)
157 PF12760 Zn_Tnp_IS1595: Transp 26.6 60 0.0013 21.6 2.2 25 6-31 19-45 (46)
158 COG2194 Predicted membrane-ass 26.4 80 0.0017 32.4 4.0 15 175-189 445-459 (555)
159 PF13240 zinc_ribbon_2: zinc-r 26.3 33 0.00072 19.8 0.8 20 7-30 1-20 (23)
160 PRK08960 hypothetical protein; 26.2 5.5E+02 0.012 24.0 10.2 46 124-181 76-123 (387)
161 PTZ00433 tyrosine aminotransfe 26.2 3.1E+02 0.0067 26.1 7.9 33 211-245 190-223 (412)
162 PLN00143 tyrosine/nicotianamin 26.1 2.4E+02 0.0053 26.9 7.2 35 210-246 182-217 (409)
163 PRK09295 bifunctional cysteine 26.0 3.6E+02 0.0078 25.5 8.3 56 121-185 67-124 (406)
164 PRK00432 30S ribosomal protein 26.0 47 0.001 22.9 1.6 24 7-31 22-45 (50)
165 cd06452 SepCysS Sep-tRNA:Cys-t 25.9 4E+02 0.0088 24.6 8.5 51 122-186 45-95 (361)
166 PF08357 SEFIR: SEFIR domain; 25.9 94 0.002 25.2 3.7 51 120-182 15-67 (150)
167 TIGR00263 trpB tryptophan synt 25.9 1.6E+02 0.0035 28.4 5.9 33 156-188 345-377 (385)
168 PF04502 DUF572: Family of unk 25.8 57 0.0012 30.9 2.7 34 1-36 36-90 (324)
169 PF06277 EutA: Ethanolamine ut 25.6 1.2E+02 0.0026 30.6 5.0 73 108-188 44-134 (473)
170 PRK12380 hydrogenase nickel in 25.5 35 0.00077 27.3 1.1 27 4-32 69-95 (113)
171 PF00884 Sulfatase: Sulfatase; 25.5 87 0.0019 27.5 3.7 24 165-188 229-252 (308)
172 KOG1553 Predicted alpha/beta h 25.4 84 0.0018 30.9 3.7 33 113-145 282-317 (517)
173 PRK05166 histidinol-phosphate 25.1 1.8E+02 0.0038 27.3 5.9 47 125-183 75-121 (371)
174 COG4416 Com Mu-like prophage p 25.1 21 0.00045 25.5 -0.3 35 3-38 2-39 (60)
175 cd02152 OAT Ornithine acetyltr 24.9 3.2E+02 0.0069 26.9 7.6 69 98-173 56-128 (390)
176 KOG0256 1-aminocyclopropane-1- 24.8 2.3E+02 0.005 28.3 6.6 34 214-249 243-276 (471)
177 cd06404 PB1_aPKC PB1 domain is 24.6 3.3E+02 0.0072 21.0 6.4 54 125-180 24-79 (83)
178 PRK05764 aspartate aminotransf 24.6 5.6E+02 0.012 23.8 9.2 51 124-186 75-127 (393)
179 TIGR01977 am_tr_V_EF2568 cyste 24.6 5.5E+02 0.012 23.6 9.4 54 121-186 44-98 (376)
180 PRK07309 aromatic amino acid a 24.4 5.3E+02 0.011 24.3 9.1 33 211-245 179-212 (391)
181 TIGR03235 DNA_S_dndA cysteine 24.4 4.6E+02 0.01 24.0 8.5 54 122-184 43-98 (353)
182 TIGR00595 priA primosomal prot 24.4 59 0.0013 32.7 2.6 32 5-36 222-253 (505)
183 PF05991 NYN_YacP: YacP-like N 24.2 4.4E+02 0.0095 22.3 8.1 59 172-236 41-100 (166)
184 PRK08636 aspartate aminotransf 24.2 4.3E+02 0.0093 25.0 8.4 115 117-245 71-221 (403)
185 COG0657 Aes Esterase/lipase [L 24.1 4.4E+02 0.0096 23.8 8.2 48 100-147 109-160 (312)
186 PLN02376 1-aminocyclopropane-1 24.1 3.8E+02 0.0082 26.7 8.3 35 211-247 212-247 (496)
187 PRK15244 virulence protein Spv 23.9 32 0.00069 35.4 0.6 33 98-133 383-416 (591)
188 COG2888 Predicted Zn-ribbon RN 23.8 63 0.0014 23.5 1.9 29 6-34 10-38 (61)
189 KOG1552 Predicted alpha/beta h 23.6 1.3E+02 0.0028 27.9 4.5 44 101-145 88-136 (258)
190 COG2179 Predicted hydrolase of 23.6 95 0.0021 27.2 3.4 59 199-262 35-98 (175)
191 PRK13776 formimidoylglutamase; 23.5 1.6E+02 0.0035 27.6 5.3 64 161-239 226-290 (318)
192 PF07859 Abhydrolase_3: alpha/ 23.5 98 0.0021 26.0 3.5 47 101-147 29-79 (211)
193 cd08588 PI-PLCc_At5g67130_like 23.4 4.2E+02 0.0091 24.4 7.9 80 155-242 76-160 (270)
194 PF09822 ABC_transp_aux: ABC-t 23.3 2.5E+02 0.0053 25.3 6.3 29 212-241 208-236 (271)
195 TIGR03576 pyridox_MJ0158 pyrid 23.2 1.8E+02 0.0039 27.4 5.6 50 119-180 52-101 (346)
196 PLN02618 tryptophan synthase, 23.2 2.4E+02 0.0051 27.8 6.5 26 162-187 372-397 (410)
197 PF04135 Nop10p: Nucleolar RNA 23.2 40 0.00086 23.8 0.8 31 2-38 2-32 (53)
198 PF06750 DiS_P_DiS: Bacterial 22.9 55 0.0012 25.3 1.6 28 4-31 32-66 (92)
199 TIGR01573 cas2 CRISPR-associat 22.8 3.2E+02 0.0069 20.9 6.0 54 120-183 15-71 (95)
200 PF01960 ArgJ: ArgJ family; I 22.7 2E+02 0.0043 28.3 5.8 75 96-173 52-126 (388)
201 PRK13912 nuclease NucT; Provis 22.7 3.6E+02 0.0078 22.8 6.9 26 217-242 59-84 (177)
202 PLN02672 methionine S-methyltr 22.6 4.4E+02 0.0095 29.5 8.9 37 209-247 840-877 (1082)
203 PRK06260 threonine synthase; V 22.5 2.5E+02 0.0054 27.1 6.5 34 155-188 335-370 (397)
204 PRK11827 hypothetical protein; 22.3 96 0.0021 22.4 2.7 33 5-37 8-40 (60)
205 cd03071 PDI_b'_NRX PDIb' famil 22.3 3.3E+02 0.0072 22.2 6.0 46 140-185 17-65 (116)
206 TIGR03812 tyr_de_CO2_Arch tyro 22.1 5.1E+02 0.011 23.8 8.3 61 118-187 56-119 (373)
207 PRK05638 threonine synthase; V 22.0 3E+02 0.0066 26.9 7.0 39 155-193 323-363 (442)
208 TIGR03538 DapC_gpp succinyldia 22.0 6.1E+02 0.013 23.8 9.0 33 211-245 178-211 (393)
209 PRK07591 threonine synthase; V 21.9 2.4E+02 0.0052 27.6 6.3 35 155-189 358-394 (421)
210 PRK05580 primosome assembly pr 21.8 68 0.0015 33.5 2.6 31 5-35 390-420 (679)
211 cd00613 GDC-P Glycine cleavage 21.7 2.9E+02 0.0062 25.8 6.6 62 117-187 60-121 (398)
212 PF00155 Aminotran_1_2: Aminot 21.5 3.5E+02 0.0076 24.7 7.1 36 211-248 161-197 (363)
213 PRK10717 cysteine synthase A; 21.3 2.9E+02 0.0062 25.7 6.5 35 155-189 278-312 (330)
214 PTZ00376 aspartate aminotransf 21.3 5.7E+02 0.012 24.2 8.6 56 117-180 72-130 (404)
215 PRK00950 histidinol-phosphate 21.3 5.1E+02 0.011 23.7 8.2 45 124-179 72-116 (361)
216 PLN00175 aminotransferase fami 21.0 5.4E+02 0.012 24.6 8.5 35 211-247 200-235 (413)
217 TIGR02605 CxxC_CxxC_SSSS putat 21.0 60 0.0013 21.8 1.4 30 2-31 2-34 (52)
218 PF04110 APG12: Ubiquitin-like 20.9 2.2E+02 0.0047 22.0 4.6 53 124-183 29-82 (87)
219 PF01690 PLRV_ORF5: Potato lea 20.9 1.2E+02 0.0025 30.5 3.8 36 175-210 99-134 (465)
220 PRK09105 putative aminotransfe 20.9 2.4E+02 0.0051 26.6 5.9 47 123-181 80-126 (370)
221 PRK04870 histidinol-phosphate 20.8 4E+02 0.0087 24.5 7.3 45 124-180 66-111 (356)
222 TIGR03540 DapC_direct LL-diami 20.7 6.4E+02 0.014 23.4 8.8 33 210-244 176-209 (383)
223 smart00647 IBR In Between Ring 20.7 96 0.0021 21.1 2.4 30 4-33 17-50 (64)
224 PRK07414 cob(I)yrinic acid a,c 20.6 2E+02 0.0044 25.1 4.9 54 156-233 96-151 (178)
225 COG1105 FruK Fructose-1-phosph 20.4 4.8E+02 0.01 24.9 7.7 54 125-179 66-135 (310)
226 PF14319 Zn_Tnp_IS91: Transpos 20.3 68 0.0015 25.6 1.8 31 3-33 40-70 (111)
227 KOG4044 Mitochondrial associat 20.3 78 0.0017 27.8 2.2 25 229-253 127-151 (201)
228 PRK07682 hypothetical protein; 20.3 6.3E+02 0.014 23.4 8.6 35 211-247 167-202 (378)
229 PRK11598 putative metal depend 20.1 1.5E+02 0.0033 30.3 4.6 17 174-190 445-461 (545)
230 cd00378 SHMT Serine-glycine hy 20.0 7.2E+02 0.016 23.2 10.8 45 126-183 70-114 (402)
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=2.7e-62 Score=448.92 Aligned_cols=219 Identities=47% Similarity=0.846 Sum_probs=198.4
Q ss_pred cccccCCCCCCceecCCCCceeecccccceeeccCCCcccccccCCcCCCCccccccCCCCCCCCCCCCCCCCCCCCCCC
Q 024329 3 SRVERCSGCGRQLWLPPQAVAARCYACRSVTSFPSSSQRWAQVYGSVSQPHHNVVTIVPSNYVAAGPGNGKYPRQGCNNY 82 (269)
Q Consensus 3 ~~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (269)
.++++|+ |++++++||||+. ||+.||+||+++.+ +-.+||...++++ |
T Consensus 2 ~~~~~~~-~~~p~~~pp~ar~-q~~~~~~~~~~~~~------------------~~~ppP~~~~~~~----P-------- 49 (362)
T KOG1546|consen 2 NNLVGCN-CQRPMAPPPGARY-QCAGCHAVTQIAQP------------------RIQPPPQPSSYPN----P-------- 49 (362)
T ss_pred CccccCC-CCCCCCCCCCCcc-cccccceeeeeccc------------------CcCCCCCCCCCCC----C--------
Confidence 3689998 9999999999999 99999999999954 1112332222111 1
Q ss_pred CCCCCCCCCCCCCCCCceEEEEEeeCCCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHH
Q 024329 83 YIDQPRPAWSPPPVYGRKKALLCGVTYNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRT 162 (269)
Q Consensus 83 ~~~~~~~~~~~p~~~~~k~ALlIGInY~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~ 162 (269)
+|.|+.++|...+||+||||||||.++..+|+||+|||.+|+++|+++|||++++|++|||++.++.++||++||++
T Consensus 50 ---pPq~~~~~~~~~gkrrAvLiGINY~gTk~ELrGCINDv~~M~~~Lv~rfGFs~ddI~~LtDt~~s~~~~PT~~Nir~ 126 (362)
T KOG1546|consen 50 ---PPQPPYQYPQMAGKRRAVLIGINYPGTKNELRGCINDVHRMRKLLVERFGFSEDDILMLTDTDESPVRIPTGKNIRR 126 (362)
T ss_pred ---CCCCCCCCccccccceEEEEeecCCCcHHHHhhhHHHHHHHHHHHHHhhCCChhheEEEecCCCcccccCcHHHHHH
Confidence 12345577888999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCChHHHHHHHHhccCCCCCeEEEEEeCCCC
Q 024329 163 AMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPIIDDEINATIVRPLPRGAKLHAIIDSCYS 242 (269)
Q Consensus 163 aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~~deL~~~L~~~l~~g~~l~vIlD~C~S 242 (269)
||+||++.+++||+|||||||||.+.++.+|||.|||||+|+|.|++.+|.|.+||+++.|++++|+|+++++|+|+|||
T Consensus 127 Al~wLV~~aq~gD~LvfHYSGHGtr~~~~~gDe~dG~DE~I~P~D~~t~G~iIdDe~~r~lV~plp~G~~lt~I~DSCHS 206 (362)
T KOG1546|consen 127 ALRWLVESAQPGDSLVFHYSGHGTRQPDTNGDEVDGYDETIVPCDHNTQGPIIDDEIFRILVRPLPKGCKLTAISDSCHS 206 (362)
T ss_pred HHHHHHhcCCCCCEEEEEecCCCCcCCCCCCCCCCCCcceeecccccccccccchHHHHHHHhccCCCceEEEEeecccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccccccc
Q 024329 243 GTVLDLPFVCKING 256 (269)
Q Consensus 243 G~~~dlp~~~~~~~ 256 (269)
|+++|+||+|++++
T Consensus 207 GgliDlp~i~~~~~ 220 (362)
T KOG1546|consen 207 GGLIDLPEIERTKG 220 (362)
T ss_pred CCcccchhheeccc
Confidence 99999999999994
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=99.93 E-value=1.3e-26 Score=204.54 Aligned_cols=138 Identities=38% Similarity=0.615 Sum_probs=114.2
Q ss_pred eEEEEEeeCCCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEE
Q 024329 100 KKALLCGVTYNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVF 179 (269)
Q Consensus 100 k~ALlIGInY~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvf 179 (269)
|+||||||++|+...+|+|+++|++.|+++| +++||+.++| +..+ ||+++|+++|+++++..+++|.++|
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 6999999997766699999999999999999 7899998887 3333 8999999999999999889999999
Q ss_pred EEeccccccCCCCCCCCCCCcceeeccCCCCCCCChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCCCCccc
Q 024329 180 HYSGHGSRQKDYNKDELDGFDETICPLDHETEGPIIDDEINATIVRPLPRGAKLHAIIDSCYSGTVLDLPFV 251 (269)
Q Consensus 180 YFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~dlp~~ 251 (269)
||||||.+..+..+++..++|++++|.|.. .+.+++|.+++.+.++...+ ++||||||||.+.+....
T Consensus 71 yfsGHG~~~~~~~~~~~~~~d~~~~~~d~~---~~~~~~l~~~~~~~~~~~~k-~~ilD~C~sg~~~~~~~~ 138 (248)
T PF00656_consen 71 YFSGHGIQVDGEGGDEDSGYDGYLLPLDAN---LILDDELRDLLCKSLPKKPK-LFILDCCRSGGFIDGLSS 138 (248)
T ss_dssp EEESEEETETTCCSTEEEETSSEEEEHHHH---EEHHHHTSTTTTGGGTTS-E-EEEEESESSSBTBCEEEE
T ss_pred EEeccccccCCccCcccccccceeeecchh---hhHHHHHhhhhhhhccCCcc-EEeeccccCCccCCcccc
Confidence 999999887665445566788899988753 56777887776554665567 899999999998875443
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=99.41 E-value=4e-12 Score=114.65 Aligned_cols=121 Identities=22% Similarity=0.254 Sum_probs=93.6
Q ss_pred CCceEEEEEeeC-CCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHH-hCCCC
Q 024329 97 YGRKKALLCGVT-YNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQ-DCQPG 174 (269)
Q Consensus 97 ~~~k~ALlIGIn-Y~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~-~~~~g 174 (269)
.++++|||||+. |......++|+.+|++.|+++|+ .+||. |.+..| +|+++|+++|+++.+ ..+..
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 477899999998 65435689999999999999996 58995 566666 699999999999985 67889
Q ss_pred CEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCChHHHHHHHHhc-cCC--CCCeEEEEEeCCCCCCC
Q 024329 175 DSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPIIDDEINATIVR-PLP--RGAKLHAIIDSCYSGTV 245 (269)
Q Consensus 175 D~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~~deL~~~L~~-~l~--~g~~l~vIlD~C~SG~~ 245 (269)
|.++|||+|||.. .+|++.|. ..+.-++|.+.+.. ..+ .++--++|||||+...+
T Consensus 75 d~~v~~~~sHG~~-------------~~l~~~D~---~~v~l~~i~~~f~~~~~~sl~~kPKl~~iqACRg~~~ 132 (243)
T cd00032 75 DSFVCVILSHGEE-------------GGIYGTDG---DVVPIDEITSLFNGDNCPSLAGKPKLFFIQACRGDEL 132 (243)
T ss_pred CeeEEEECCCCCC-------------CEEEEecC---cEEEHHHHHHhhccCCCccccCCCcEEEEECCCCCcC
Confidence 9999999999975 26888885 25566677776631 111 12323699999996654
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=99.35 E-value=1.4e-11 Score=111.20 Aligned_cols=117 Identities=23% Similarity=0.285 Sum_probs=90.4
Q ss_pred CCceEEEEEeeC-CCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHh--CCC
Q 024329 97 YGRKKALLCGVT-YNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQD--CQP 173 (269)
Q Consensus 97 ~~~k~ALlIGIn-Y~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~--~~~ 173 (269)
.++.+|||||+. |. ...+++|+.+|++.|+++|+ ++||. |.+..| .|+++|+++|+++.+. .+.
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 357899999998 54 36689999999999999996 59996 666666 6999999999999875 457
Q ss_pred CCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCChHHHHHHHHhc----cCCCCCeEEEEEeCCCCC
Q 024329 174 GDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPIIDDEINATIVR----PLPRGAKLHAIIDSCYSG 243 (269)
Q Consensus 174 gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~~deL~~~L~~----~l~~g~~l~vIlD~C~SG 243 (269)
.|.++|||.|||.. .+|++.|.. .+.-++|.+.+.. .+. ++--++|||||+..
T Consensus 73 ~d~~v~~~~sHG~~-------------~~l~~~D~~---~v~l~~i~~~f~~~~c~~L~-~kPKlffiqACRg~ 129 (241)
T smart00115 73 SDSFVCVLLSHGEE-------------GGIYGTDHS---PLPLDEIFSLFNGDNCPSLA-GKPKLFFIQACRGD 129 (241)
T ss_pred CCEEEEEEcCCCCC-------------CeEEEecCC---EEEHHHHHHhccccCChhhc-CCCcEEEEeCCCCC
Confidence 89999999999963 268898853 4566777776621 121 22235999999854
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=99.25 E-value=6.3e-11 Score=108.29 Aligned_cols=127 Identities=20% Similarity=0.343 Sum_probs=87.9
Q ss_pred eEEEEEeeC--CCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCC-----CC---------------------
Q 024329 100 KKALLCGVT--YNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEK-----NP--------------------- 151 (269)
Q Consensus 100 k~ALlIGIn--Y~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~-----~~--------------------- 151 (269)
+|||||+-+ |.+-++ ..|+-.|..+|++ +|++.+||+++..++. +|
T Consensus 1 ~wAvlvagS~~~~NYRh-----~ad~~~~Y~~l~~-~G~~~~~Iil~~~dd~a~~~~Np~~g~i~~~~~~~n~y~~~~iD 74 (256)
T PF01650_consen 1 NWAVLVAGSNGWFNYRH-----QADVCHAYQLLKR-NGIPDENIILMMYDDIACNPRNPFPGKIFNDPDGTNVYKGVEID 74 (256)
T ss_pred CEEEEEeccCCceeeeE-----ehHHHHHHHHHHH-cCCCCceEEEEecCCccchhhCCCCceEEeCCCcccccCCcccc
Confidence 599999876 333222 2799999999986 9999999987764431 10
Q ss_pred --CCCccHHHHHHHHHHHH-------HhCCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCChHHHHHHH
Q 024329 152 --YRIPTKQNIRTAMRWLA-------QDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPIIDDEINAT 222 (269)
Q Consensus 152 --~~~pTk~nI~~aL~~L~-------~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~~deL~~~ 222 (269)
-...|.+++++.|.--. -...++|.|||||+|||.... .-+| ....|+.++|.++
T Consensus 75 Y~g~~v~~~~fl~vL~G~~~~~~~kvl~s~~~D~vfiy~~~HG~~~~------------l~~~----~~~~l~~~~L~~~ 138 (256)
T PF01650_consen 75 YRGEDVTPENFLNVLTGDKSVPSGKVLNSTENDNVFIYFTGHGGPGF------------LKFP----DGEELTADDLADA 138 (256)
T ss_pred ccccccCHHHHHHHhcCCCCCCccccccCCCCCeEEEEEeccCCCCc------------ccCC----CcccccHHHHHHH
Confidence 12456677777665111 145789999999999999631 0112 2346889999999
Q ss_pred HhccCCCC--CeEEEEEeCCCCCCCCCC
Q 024329 223 IVRPLPRG--AKLHAIIDSCYSGTVLDL 248 (269)
Q Consensus 223 L~~~l~~g--~~l~vIlD~C~SG~~~dl 248 (269)
|...-.+. +++++++|||+||++++.
T Consensus 139 L~~m~~~~~y~~lv~~veaC~SGs~~~~ 166 (256)
T PF01650_consen 139 LDKMHEKKRYKKLVFVVEACYSGSFFEG 166 (256)
T ss_pred HHHHHhhCCcceEEEEEecccccchhhc
Confidence 85432222 358999999999999876
No 6
>COG4249 Uncharacterized protein containing caspase domain [General function prediction only]
Probab=98.96 E-value=2.3e-09 Score=102.99 Aligned_cols=85 Identities=24% Similarity=0.468 Sum_probs=65.4
Q ss_pred CccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCC-------CCCChHHHHHHHHhcc
Q 024329 154 IPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHET-------EGPIIDDEINATIVRP 226 (269)
Q Consensus 154 ~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~-------~g~I~~deL~~~L~~~ 226 (269)
.|++..|+..|..+.+.+...|+.+|||||||.... .+ |- .+|++.|.++ ++.+...++.+++ ..
T Consensus 113 ~p~~~~V~~~~lD~~~~~~~~d~~~~~fsG~g~~~~-~d-----~~-~~lia~~t~p~~~a~~~~~~~s~~~~~~~~-~~ 184 (380)
T COG4249 113 LPARTKVRRVLLDAARDNPPADTILFFFSGHGATPG-AD-----GR-AYLIAFDTRPGAVAYDGEGGISPYSVAQAL-HL 184 (380)
T ss_pred CCchhHHHHHHHHHhhcCchhhhhhheeeccccccC-CC-----Cc-eeEEeecCChhhhcccCCCcccHHHHHHHH-Hh
Confidence 788999999999999999999999999999999853 22 22 2899999863 4566666665544 22
Q ss_pred CCCCCeEEEEEeCCCCCCCCC
Q 024329 227 LPRGAKLHAIIDSCYSGTVLD 247 (269)
Q Consensus 227 l~~g~~l~vIlD~C~SG~~~d 247 (269)
. ...+.+.++|+||+|.++.
T Consensus 185 ~-~~~~ql~~~d~~~~~~~~~ 204 (380)
T COG4249 185 S-EPGNQLVDLDACVRGDVFK 204 (380)
T ss_pred c-cCCceeehhhhhcchhhhc
Confidence 2 3345679999999999864
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=98.87 E-value=1.4e-09 Score=68.53 Aligned_cols=31 Identities=32% Similarity=0.670 Sum_probs=29.2
Q ss_pred cccCCCCCCceecCCCCceeecccccceeec
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVTSF 35 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~ 35 (269)
.++|++|++.|+.|+||+++||+.|+.||.|
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 4789999999999999999999999999975
No 8
>PF14538 Raptor_N: Raptor N-terminal CASPase like domain
Probab=98.43 E-value=1.4e-06 Score=74.15 Aligned_cols=105 Identities=16% Similarity=0.315 Sum_probs=74.2
Q ss_pred HHHHHHHHHHHHHhh-CCCC-cceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCC
Q 024329 120 INDVKSMWFLLVRML-GFPS-DCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELD 197 (269)
Q Consensus 120 ~nDA~~m~~~L~~~~-Gf~~-~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~d 197 (269)
.+-.+.+.+.|..+| .+.. .....+.| ||.+++++.+..+.+.++. +.|+|||-|||...+..+|+
T Consensus 43 ~~~~~~I~~~l~~qY~~~~~~~~~~~~~d--------pt~e~~~~~~~~~R~~a~~-~RvLFHYnGhGvP~Pt~~Ge--- 110 (154)
T PF14538_consen 43 SKASEEIGKNLQSQYESWQPRARYKQSLD--------PTVEDLKRLCQSLRRNAKD-ERVLFHYNGHGVPRPTENGE--- 110 (154)
T ss_pred hhHHHHHHHHHHHHHHHhCccCcEEEecC--------CCHHHHHHHHHHHHhhCCC-ceEEEEECCCCCCCCCCCCe---
Confidence 355666788887655 4432 23444445 8999999999999988775 99999999999998665552
Q ss_pred CCcceeeccCCCCCC--CChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCCC
Q 024329 198 GFDETICPLDHETEG--PIIDDEINATIVRPLPRGAKLHAIIDSCYSGTVLD 247 (269)
Q Consensus 198 G~de~L~p~D~~~~g--~I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~d 247 (269)
|...|-.... .++-.||.+|+ |.-.++|+||.++|.+++
T Consensus 111 -----Iw~f~~~~tqyip~si~dL~~~l------g~Psi~V~DC~~AG~il~ 151 (154)
T PF14538_consen 111 -----IWVFNKNYTQYIPLSIYDLQSWL------GSPSIYVFDCSNAGSILN 151 (154)
T ss_pred -----EEEEcCCCCcceEEEHHHHHHhc------CCCEEEEEECCcHHHHHH
Confidence 2233322222 45677887776 345789999999998865
No 9
>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=98.42 E-value=1.4e-07 Score=56.48 Aligned_cols=25 Identities=40% Similarity=0.922 Sum_probs=24.0
Q ss_pred CCCCCCceecCCCCceeecccccce
Q 024329 8 CSGCGRQLWLPPQAVAARCYACRSV 32 (269)
Q Consensus 8 c~~c~~~~~~~~~~~~~~c~~c~~~ 32 (269)
|++|++.|..|+||+++||+.|+.|
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 10
>KOG1348 consensus Asparaginyl peptidases [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=3.3e-05 Score=73.58 Aligned_cols=131 Identities=19% Similarity=0.290 Sum_probs=89.2
Q ss_pred CCCCceEEEEEee-C-CCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCC-----CC-----------------
Q 024329 95 PVYGRKKALLCGV-T-YNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEE-----KN----------------- 150 (269)
Q Consensus 95 ~~~~~k~ALlIGI-n-Y~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e-----~~----------------- 150 (269)
...+++|||+|+- | |++.+.+ .|+---..+|+ +.|.+++||.++.-++ .+
T Consensus 41 ddggt~waVLVAGSngyyNYRHQ-----ADvcHAYqiLr-kgGikeEnIvv~MYDDIA~~~~NPrpG~iiN~P~G~DvY~ 114 (477)
T KOG1348|consen 41 DDGGTRWAVLVAGSNGYYNYRHQ-----ADVCHAYQILR-KGGIKEENIVVMMYDDIANNEENPRPGVIINRPNGKDVYQ 114 (477)
T ss_pred ccCceeEEEEEecCCcccchhhh-----hhHHHHHHHHH-hcCCCchhEEEEEehhhhcCCCCCCCceeecCCCchhhhc
Confidence 3447999999965 4 7765442 56666667775 5799999987765322 00
Q ss_pred --C----CCCccHHHHHHHHH---HHHHh-------CCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCC
Q 024329 151 --P----YRIPTKQNIRTAMR---WLAQD-------CQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPI 214 (269)
Q Consensus 151 --~----~~~pTk~nI~~aL~---~L~~~-------~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I 214 (269)
| -...|-+|+++.|. .-+++ .+|+|.+||||+-||..- .|.-. ..+.+
T Consensus 115 GvpkDYtg~~Vt~~Nf~aVllGd~savkGGsGKV~~SgpnDhiFiYytDHG~pG-------------vl~mP---~~~~l 178 (477)
T KOG1348|consen 115 GVPKDYTGEDVTPQNFLAVLLGDASAVKGGSGKVLKSGPNDHIFIYYTDHGGPG-------------VLGMP---TSPDL 178 (477)
T ss_pred CCCCcccCCcCCHHHHHHHHhcccccccCCCceeeccCCCceEEEEEecCCCCc-------------eEecC---CCcch
Confidence 0 13578899998884 22222 468999999999999962 12111 12356
Q ss_pred hHHHHHHHHhccCC--CCCeEEEEEeCCCCCCCCC
Q 024329 215 IDDEINATIVRPLP--RGAKLHAIIDSCYSGTVLD 247 (269)
Q Consensus 215 ~~deL~~~L~~~l~--~g~~l~vIlD~C~SG~~~d 247 (269)
...+|++.|.+.-+ .=+++++-|.||-||++++
T Consensus 179 ~akdlnevL~kmhk~k~Y~~mvfYlEACESGSmfe 213 (477)
T KOG1348|consen 179 YAKDLNEVLKKMHKSKTYKKMVFYLEACESGSMFE 213 (477)
T ss_pred hHHHHHHHHHHHHhccchheEEEEeeeccCcchhh
Confidence 77889998866433 2357899999999999876
No 11
>KOG1349 consensus Gpi-anchor transamidase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=0.00044 Score=63.29 Aligned_cols=144 Identities=18% Similarity=0.301 Sum_probs=89.8
Q ss_pred CCceEEEEEeeC--CCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEec-CCCC----C-------------------
Q 024329 97 YGRKKALLCGVT--YNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILT-EEEK----N------------------- 150 (269)
Q Consensus 97 ~~~k~ALlIGIn--Y~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLt-d~e~----~------------------- 150 (269)
+.+.|||+|--| +++.+ -+..+-.|.+.++ +.|+|.++|++.. |+.+ +
T Consensus 26 htnNwAVLv~tSRfwfNYR-----H~aNvl~~YrsvK-rlGipDsqIilmladd~acn~RN~~pg~Vy~n~~~~~nlygd 99 (309)
T KOG1349|consen 26 HTNNWAVLVCTSRFWFNYR-----HVANVLSVYRSVK-RLGIPDSQIILMLADDMACNSRNPRPGTVYNNENHALNLYGD 99 (309)
T ss_pred ccCceEEEEecchhhhhHH-----HHHHHHHHHHHHH-HcCCCcccEEEEeccccccccCCCCCcceeccccccccccCC
Confidence 578899999987 33322 3455667777774 7899999976554 3321 0
Q ss_pred -C---C--CCccHHHHHHHHHHHHH---------hCCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCCh
Q 024329 151 -P---Y--RIPTKQNIRTAMRWLAQ---------DCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPII 215 (269)
Q Consensus 151 -~---~--~~pTk~nI~~aL~~L~~---------~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~ 215 (269)
. + ...|-+|+++.|..-.. -..++..++||..|||.-. +|--.|.+ .|+
T Consensus 100 ~vevdyrgyevtvEnflr~LTgR~~~~tprSKrlltDe~SNIlIYmtGHGgd~-------------FlKFqd~e---elt 163 (309)
T KOG1349|consen 100 DVEVDYRGYEVTVENFLRVLTGRHPNNTPRSKRLLTDEGSNILIYLTGHGGDG-------------FLKFQDAE---ELT 163 (309)
T ss_pred cceeecccchhHHHHHHHHHcCCCCCCCchhhhhcccCCCcEEEEEccCCCcc-------------ceecccHH---Hhh
Confidence 0 0 23566666666642110 1345789999999999831 33333432 567
Q ss_pred HHHHHHHHhccC--CCCCeEEEEEeCCCCCCCCC---Ccccccccceeeccc
Q 024329 216 DDEINATIVRPL--PRGAKLHAIIDSCYSGTVLD---LPFVCKINGVQMGRS 262 (269)
Q Consensus 216 ~deL~~~L~~~l--~~g~~l~vIlD~C~SG~~~d---lp~~~~~~~~~~g~~ 262 (269)
.++|...+.+.. +.=.++++++|+|.+.++.+ .|.+-.+..+.+|..
T Consensus 164 s~dLadai~qm~e~~Ryneil~miDTCQaasly~~~~sPNVLav~SS~~ge~ 215 (309)
T KOG1349|consen 164 SDDLADAIQQMWEKKRYNEILFMIDTCQAASLYERFYSPNVLAVASSLVGEP 215 (309)
T ss_pred hHHHHHHHHHHHHhhhhceEEEEeeccchHHHHHhhcCCCeEEEeecccCCc
Confidence 778877774432 22246899999999999754 555555555555543
No 12
>PF12770 CHAT: CHAT domain
Probab=97.24 E-value=0.003 Score=57.03 Aligned_cols=112 Identities=21% Similarity=0.339 Sum_probs=72.4
Q ss_pred EEEeeCCCCC-------CCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCC
Q 024329 103 LLCGVTYNDT-------NYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGD 175 (269)
Q Consensus 103 LlIGInY~~~-------~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD 175 (269)
++||...... ..+|++...+++.+++.+... + ..++...+ +|++++++.+ ...+
T Consensus 82 l~i~~p~~~~~~~~~~~~~~l~~~~~e~~~l~~~~~~~-~-----~~~~~~~~------at~~~l~~~l-------~~~~ 142 (287)
T PF12770_consen 82 LVIGNPDFGGSLIRGAALSPLPGAQREADALAELLGAG-G-----LRVLVGPE------ATKDALLEAL-------ERRG 142 (287)
T ss_pred EEEecCCCcccccccccccCchHHHHHHHHHHHHhccc-c-----eeEeeccC------CCHHHHHhhh-------ccCC
Confidence 7777653322 258899988888888887531 1 13334443 7999998888 2345
Q ss_pred EEEEEEeccccccCCCCCCCCCCCcceeeccCCCC--CCCChHHHHHHHHhccCCCCCeEEEEEeCCCCCC
Q 024329 176 SLVFHYSGHGSRQKDYNKDELDGFDETICPLDHET--EGPIIDDEINATIVRPLPRGAKLHAIIDSCYSGT 244 (269)
Q Consensus 176 ~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~--~g~I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~ 244 (269)
.=+|||+|||....+.. .+..|+..+... .+.++..+|.+ + .++ +.+ ++||-+|+||.
T Consensus 143 ~~ilH~a~Hg~~~~~~~------~~~~l~l~~~~~~~~~~l~~~~l~~-l--~l~-~~~-lVvLsaC~s~~ 202 (287)
T PF12770_consen 143 PDILHFAGHGTFDPDPP------DQSGLVLSDESGQEDGLLSAEELAQ-L--DLR-GPR-LVVLSACESAS 202 (287)
T ss_pred CCEEEEEcccccCCCCC------CCCEEEEeccCCCCCcccCHHHHHh-h--cCC-CCC-EEEecCcCCcC
Confidence 55899999999873211 223565554332 45788888877 2 222 234 59999999994
No 13
>COG5206 GPI8 Glycosylphosphatidylinositol transamidase (GPIT), subunit GPI8 [Posttranslational modification, protein turnover, chaperones]
Probab=97.05 E-value=0.0058 Score=56.48 Aligned_cols=145 Identities=14% Similarity=0.303 Sum_probs=89.0
Q ss_pred CCCceEEEEEeeC--CCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEec-CCCC---------------C-------
Q 024329 96 VYGRKKALLCGVT--YNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILT-EEEK---------------N------- 150 (269)
Q Consensus 96 ~~~~k~ALlIGIn--Y~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLt-d~e~---------------~------- 150 (269)
...+.||+++.-+ +++.+. ...+..|.+.++ +.|++..+|+++. |++. |
T Consensus 25 t~tnNwAvLlstSRfwfNYRH-----mANVl~~Yr~vk-rlGipDsQIilm~~dd~acnsRnlfpgsvf~N~Dra~dlyg 98 (382)
T COG5206 25 TNTNNWAVLLSTSRFWFNYRH-----MANVLVFYRVVK-RLGIPDSQIILMSYDDQACNSRNLFPGSVFNNSDRAGDLYG 98 (382)
T ss_pred ccCCceEEEEecccceeehhh-----hhhHHHHHHHHH-HcCCCcceEEEEechhhhhhhcccCCcccccCcccccceeC
Confidence 4566899999987 343221 244666788885 6899998876554 3321 0
Q ss_pred -----CC--CCccHHHHHHHHHHHHHh---------CCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCC
Q 024329 151 -----PY--RIPTKQNIRTAMRWLAQD---------CQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPI 214 (269)
Q Consensus 151 -----~~--~~pTk~nI~~aL~~L~~~---------~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I 214 (269)
++ -.+|-+++.+-|...... ..+...++||..|||... +|--.|++ .+
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 11 357888887777543311 345678999999999842 23223332 45
Q ss_pred hHHHHHHHHhccCC--CCCeEEEEEeCCCCCCCCCCcccc---cccceeeccc
Q 024329 215 IDDEINATIVRPLP--RGAKLHAIIDSCYSGTVLDLPFVC---KINGVQMGRS 262 (269)
Q Consensus 215 ~~deL~~~L~~~l~--~g~~l~vIlD~C~SG~~~dlp~~~---~~~~~~~g~~ 262 (269)
+.++|.+.+.+... .-.++++++|+|...+..+.-|.. .+..+-+|.+
T Consensus 163 tseDladai~ql~~~kRyNeIlfmiDTCQAnaly~k~ysPNvLavgsSeig~s 215 (382)
T COG5206 163 TSEDLADAISQLAAKKRYNEILFMIDTCQANALYDKSYSPNVLAVGSSEIGQS 215 (382)
T ss_pred hhHHHHHHHHHHHHhhhhceEEEEeeccccchhhhhccCCceEEEeccccCCc
Confidence 66667766643222 223589999999999987755443 3444445543
No 14
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=96.14 E-value=0.0037 Score=40.69 Aligned_cols=31 Identities=23% Similarity=0.569 Sum_probs=26.2
Q ss_pred ccccCCCCCCceecCC-----CCceeecccccceee
Q 024329 4 RVERCSGCGRQLWLPP-----QAVAARCYACRSVTS 34 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~-----~~~~~~c~~c~~~~~ 34 (269)
|.+.|.+|++.+.||. +.+.+||+.|+.+-.
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 6789999999998875 467999999997643
No 15
>COG4249 Uncharacterized protein containing caspase domain [General function prediction only]
Probab=95.66 E-value=0.0012 Score=63.96 Aligned_cols=124 Identities=27% Similarity=0.436 Sum_probs=89.4
Q ss_pred CceEEEEEeeC-CCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCE
Q 024329 98 GRKKALLCGVT-YNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDS 176 (269)
Q Consensus 98 ~~k~ALlIGIn-Y~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~ 176 (269)
.++-||+||.| |+. ...|.++.||+..|+.+|+. .||+. +.-++ -.++.++..|+.+++.++.-|.
T Consensus 2 ~~r~alvigns~~~~-aa~l~np~~da~~~a~~L~~-iGfdv---y~~~d--------~~~~~~~~~L~~f~~da~ga~~ 68 (380)
T COG4249 2 ERRVALVIGNSTYYV-AAPLANPANDAGAMALWLTA-IGFDV---YLDTD--------LPKSGLRRALRYFAEDAEGADV 68 (380)
T ss_pred CcceEEEeecCcccc-cccCCCchhhHHHHHHHHHH-cCcee---ecccc--------cchHHHHhHHHHHHHHHHHHhH
Confidence 57899999999 554 67899999999999999974 79974 22222 2477899999999999999999
Q ss_pred EEEEEeccccccCCCCCCCCCCCcceeeccCCCCC-------CCChHHHHHHHHhccCCCCCeE-EEEEeCCCCCCCCC
Q 024329 177 LVFHYSGHGSRQKDYNKDELDGFDETICPLDHETE-------GPIIDDEINATIVRPLPRGAKL-HAIIDSCYSGTVLD 247 (269)
Q Consensus 177 lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~-------g~I~~deL~~~L~~~l~~g~~l-~vIlD~C~SG~~~d 247 (269)
+||||+|||.+.... .|++|.|.... .....+++. .+.+...++ .+|+|+|+.-...|
T Consensus 69 al~~~aGhg~Q~~~~---------~~~~pv~~~~~~~~~~~~~~v~~~~~~----~~~p~~~~V~~~~lD~~~~~~~~d 134 (380)
T COG4249 69 ALIYYAGHGLQVDGT---------NYLLPVDADDVSPTFAVTEAVLIDCRL----IPLPARTKVRRVLLDAARDNPPAD 134 (380)
T ss_pred HHhhhccccccccCc---------cccccchhhhccccchhhhhhhhhhhc----ccCCchhHHHHHHHHHhhcCchhh
Confidence 999999999886432 47889887521 122222221 233333333 58899998766643
No 16
>KOG1517 consensus Guanine nucleotide binding protein MIP1 [Cell cycle control, cell division, chromosome partitioning]
Probab=95.44 E-value=0.05 Score=58.27 Aligned_cols=104 Identities=18% Similarity=0.284 Sum_probs=67.7
Q ss_pred HHHHHHHHHHHHhh-CCCC-cceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCC---
Q 024329 121 NDVKSMWFLLVRML-GFPS-DCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDE--- 195 (269)
Q Consensus 121 nDA~~m~~~L~~~~-Gf~~-~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde--- 195 (269)
.-++.+.+-|..+| .+.. .+-.+-+| ||.+++++--..+.+.++ +|.|+|||-|||...+..||+-
T Consensus 140 KA~e~IG~nlq~qYE~wqprtRYK~~lD--------P~vddVrKlc~slRr~ak-~eRvLFHYNGHGVPkPT~nGEIWVF 210 (1387)
T KOG1517|consen 140 KALEAIGKNLQRQYERWQPRTRYKVCLD--------PTVDDVRKLCTSLRRNAK-EERVLFHYNGHGVPKPTANGEIWVF 210 (1387)
T ss_pred HHHHHHHHHHHHHHHhhChhhhhhhccC--------CcHHHHHHHHHHHhhhcC-CceEEEEecCCCCCCCCCCCcEEEE
Confidence 55566666666544 2222 22223333 899999988888866655 7999999999999999888741
Q ss_pred CCCCcceeeccCCCCCCCChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCCCC
Q 024329 196 LDGFDETICPLDHETEGPIIDDEINATIVRPLPRGAKLHAIIDSCYSGTVLDL 248 (269)
Q Consensus 196 ~dG~de~L~p~D~~~~g~I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~dl 248 (269)
..+|..|| | ++-.||..||. .-.+.|.||-..+.++-.
T Consensus 211 NK~fTQYI-P--------lsi~dLqsWl~------aP~IyVydcssA~~Il~n 248 (1387)
T KOG1517|consen 211 NKSFTQYI-P--------LSIFDLQSWLG------APTIYVYDCSSAENILVN 248 (1387)
T ss_pred ecCcceee-c--------ccHHHHHhhhc------CCeEEEEeccchHHHHHH
Confidence 22333333 2 24457778873 235788998887766543
No 17
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=94.96 E-value=0.023 Score=36.80 Aligned_cols=29 Identities=24% Similarity=0.631 Sum_probs=24.4
Q ss_pred ccccCCCCCCceecC-----CCCceeecccccce
Q 024329 4 RVERCSGCGRQLWLP-----PQAVAARCYACRSV 32 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~-----~~~~~~~c~~c~~~ 32 (269)
|.+.|.+|++...++ ++.+.+||..|+.+
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 678999999988765 56789999999865
No 18
>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=94.05 E-value=0.038 Score=35.68 Aligned_cols=31 Identities=19% Similarity=0.374 Sum_probs=24.9
Q ss_pred ccccCCCCCCceecCCC-----Cceeecccccceee
Q 024329 4 RVERCSGCGRQLWLPPQ-----AVAARCYACRSVTS 34 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~-----~~~~~c~~c~~~~~ 34 (269)
|.+.|++|++.+.++.. ...++|+.|+.+-.
T Consensus 1 M~~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 1 MRIQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred CEEECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 56889999999988852 34799999997654
No 19
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=93.48 E-value=0.064 Score=36.27 Aligned_cols=30 Identities=27% Similarity=0.558 Sum_probs=26.3
Q ss_pred ccccCCCCCCceecCCCCceeeccccccee
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~ 33 (269)
+...|.+||+.+.+.+....++|..|..--
T Consensus 2 ~~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~ 31 (46)
T PRK00398 2 AEYKCARCGREVELDEYGTGVRCPYCGYRI 31 (46)
T ss_pred CEEECCCCCCEEEECCCCCceECCCCCCeE
Confidence 567899999999999998899999998533
No 20
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=90.30 E-value=0.14 Score=35.60 Aligned_cols=35 Identities=26% Similarity=0.471 Sum_probs=28.9
Q ss_pred CCcccccCCCCCCceecCCCCceeecccccceeec
Q 024329 1 MTSRVERCSGCGRQLWLPPQAVAARCYACRSVTSF 35 (269)
Q Consensus 1 ~~~~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~ 35 (269)
|+++.-.|..|++.+.+......+||..|..-..+
T Consensus 2 ~~~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~rIl~ 36 (49)
T COG1996 2 EAMMEYKCARCGREVELDQETRGIRCPYCGSRILV 36 (49)
T ss_pred cceEEEEhhhcCCeeehhhccCceeCCCCCcEEEE
Confidence 45677789999999998889999999999754433
No 21
>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=89.48 E-value=2.1 Score=41.69 Aligned_cols=83 Identities=16% Similarity=0.284 Sum_probs=45.4
Q ss_pred CCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCC-CCCChHHHHHHHHhccCCCCC
Q 024329 153 RIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHET-EGPIIDDEINATIVRPLPRGA 231 (269)
Q Consensus 153 ~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~-~g~I~~deL~~~L~~~l~~g~ 231 (269)
...+.+.+.+-|+|..+... -|.-.+-|.+||.-+....... ...+ ..|... ...+.-.||.+.|. .+.
T Consensus 76 nm~dp~tL~~fi~~~~~~yP-A~~y~LIlw~HG~Gw~~~~~~~----~rg~-~~D~~~~~~~l~i~el~~aL~----~~~ 145 (397)
T PF03415_consen 76 NMGDPDTLSDFINWAKENYP-ADRYGLILWDHGGGWLPASDSS----TRGI-GFDETSGGDYLSIPELAEALE----GGP 145 (397)
T ss_dssp -TTSHHHHHHHHHHHHHHS--ECEEEEEEES-B-TT--TTGGG-------E-EEETTE---EE-HHHHHHHS------TT
T ss_pred CCCCHHHHHHHHHHHHHhCC-cccEEEEEEECCCCCCcCCCCC----cceE-ecCCCChhhcccHHHHHHHHc----CCC
Confidence 35567778888888888764 5888889999998763221100 0112 222221 33566788888774 345
Q ss_pred eE-EEEEeCCCCCCC
Q 024329 232 KL-HAIIDSCYSGTV 245 (269)
Q Consensus 232 ~l-~vIlD~C~SG~~ 245 (269)
++ ++.+|+|.=|++
T Consensus 146 ~~d~I~FDaClM~~v 160 (397)
T PF03415_consen 146 KFDFIGFDACLMGSV 160 (397)
T ss_dssp -EEEEEEESTT--BH
T ss_pred CCcEEEECcccchhH
Confidence 66 899999998774
No 22
>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=84.44 E-value=0.89 Score=28.30 Aligned_cols=27 Identities=30% Similarity=0.587 Sum_probs=18.5
Q ss_pred ccCCCCCCceecCCCCceeecccccce
Q 024329 6 ERCSGCGRQLWLPPQAVAARCYACRSV 32 (269)
Q Consensus 6 ~~c~~c~~~~~~~~~~~~~~c~~c~~~ 32 (269)
-.|+.||.+...-++..+-+|..|...
T Consensus 4 rfC~~CG~~t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 4 RFCGRCGAPTKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp SB-TTT--BEEE-SSSS-EEESSSS-E
T ss_pred cccCcCCccccCCCCcCEeECCCCcCE
Confidence 359999999999999999999999754
No 23
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=82.95 E-value=5.8 Score=34.60 Aligned_cols=61 Identities=18% Similarity=0.318 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccC
Q 024329 121 NDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQK 189 (269)
Q Consensus 121 nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~ 189 (269)
.+-+...+-|.++.||...++..+..+. |.++++++.+ +-+-.-.+|.|-|+.+|||...-
T Consensus 50 ~a~~~eid~l~~e~Gyk~~Dvvsv~~~~------pk~del~akF--~~EH~H~d~EvRy~vaG~GiF~v 110 (181)
T COG1791 50 DAYETEIDRLIRERGYKNRDVVSVSPSN------PKLDELRAKF--LQEHLHTDDEVRYFVAGEGIFDV 110 (181)
T ss_pred hhHHHHHHHHHHhhCCceeeEEEeCCCC------ccHHHHHHHH--HHHhccCCceEEEEEecceEEEE
Confidence 3334456667778899988888888765 8899988887 33445578999999999998754
No 24
>COG4995 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=81.91 E-value=3 Score=41.11 Aligned_cols=118 Identities=14% Similarity=0.115 Sum_probs=69.4
Q ss_pred CCCceEEEEEeeCC--C---CCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHh
Q 024329 96 VYGRKKALLCGVTY--N---DTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQD 170 (269)
Q Consensus 96 ~~~~k~ALlIGInY--~---~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~ 170 (269)
...+-++++-|.+- . ..-..|+++...|+.+++.+... .+|.+.+ -|..+....++..
T Consensus 209 ~~~~l~vl~~g~s~~~~~~~~~~~~Lp~~~~Ev~~Ia~~~~~~--------~~ll~q~------Ft~~~~~~~~~~~--- 271 (420)
T COG4995 209 RQQNLKVLAAGLSEPSGPARTGFDALPFAALEVETIAAIFPPQ--------KLLLNQA------FTAANLAQEIDTK--- 271 (420)
T ss_pred cccchhHHHhccCcccccccccccccchHHHHHHHHHHhhhhH--------Hhhhccc------chhhHHhhhhhcC---
Confidence 34455667777663 1 12358999999999999887421 1233332 2445554444433
Q ss_pred CCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCChHHHHHHHHhc--cCCCCCeEEEEEeCCCCCCC
Q 024329 171 CQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPIIDDEINATIVR--PLPRGAKLHAIIDSCYSGTV 245 (269)
Q Consensus 171 ~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~~deL~~~L~~--~l~~g~~l~vIlD~C~SG~~ 245 (269)
+-=|+||+.||..... +..+.+|+.+|.+.+. +++..++.. .....+.+ +||.||-.|..
T Consensus 272 ----~~~vvHlATHg~f~s~------~p~~S~l~~~~~~~~~----~~~~~~~~~~~~~~~~vdL-vVLSACqTa~g 333 (420)
T COG4995 272 ----PYSVVHLATHGQFSSG------NPEDSFLLLWDGPINV----TELDILLRNRNNNLLPVEL-VVLSACQTALG 333 (420)
T ss_pred ----CCceEEEeccccccCC------CcccceeeecCCCCcc----cHHHHHHHhcccCCCCeee-EEEecchhccC
Confidence 3447899999998652 2234578888765442 233332211 11223554 99999998873
No 25
>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=81.73 E-value=0.74 Score=32.22 Aligned_cols=35 Identities=17% Similarity=0.548 Sum_probs=27.1
Q ss_pred ccccCCCCCCceecCCCC--ceeecccccceeeccCC
Q 024329 4 RVERCSGCGRQLWLPPQA--VAARCYACRSVTSFPSS 38 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~--~~~~c~~c~~~~~~~~~ 38 (269)
..++|.+|++-|.---++ -.|.|.-|.++.+|...
T Consensus 3 ~eiRC~~CnklLa~~g~~~~leIKCpRC~tiN~~~a~ 39 (51)
T PF10122_consen 3 KEIRCGHCNKLLAKAGEVIELEIKCPRCKTINHVRAT 39 (51)
T ss_pred cceeccchhHHHhhhcCccEEEEECCCCCccceEecc
Confidence 568999999866553333 38999999999998843
No 26
>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=80.52 E-value=1.4 Score=29.00 Aligned_cols=33 Identities=21% Similarity=0.433 Sum_probs=20.1
Q ss_pred cccCCCCCCce----ecCCCCceeecccccceeeccC
Q 024329 5 VERCSGCGRQL----WLPPQAVAARCYACRSVTSFPS 37 (269)
Q Consensus 5 ~~~c~~c~~~~----~~~~~~~~~~c~~c~~~~~~~~ 37 (269)
.++|++|++.| .+-.+.++..|.+|...+.+..
T Consensus 2 p~rC~~C~aylNp~~~~~~~~~~w~C~~C~~~N~lp~ 38 (40)
T PF04810_consen 2 PVRCRRCRAYLNPFCQFDDGGKTWICNFCGTKNPLPP 38 (40)
T ss_dssp S-B-TTT--BS-TTSEEETTTTEEEETTT--EEE--G
T ss_pred ccccCCCCCEECCcceEcCCCCEEECcCCCCcCCCCC
Confidence 57999999964 5567888999999998887763
No 27
>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=75.65 E-value=2.7 Score=27.27 Aligned_cols=30 Identities=27% Similarity=0.490 Sum_probs=24.6
Q ss_pred CCcccccCCCCCCce-ec-----CCCCceeeccccc
Q 024329 1 MTSRVERCSGCGRQL-WL-----PPQAVAARCYACR 30 (269)
Q Consensus 1 ~~~~~~~c~~c~~~~-~~-----~~~~~~~~c~~c~ 30 (269)
||.-.|.|+.|+... .. +.|...+||-.|+
T Consensus 1 Ma~i~v~CP~C~s~~~v~k~G~~~~G~qryrC~~C~ 36 (36)
T PF03811_consen 1 MAKIDVHCPRCQSTEGVKKNGKSPSGHQRYRCKDCR 36 (36)
T ss_pred CCcEeeeCCCCCCCCcceeCCCCCCCCEeEecCcCC
Confidence 888899999999877 33 4577899999886
No 28
>KOG1321 consensus Protoheme ferro-lyase (ferrochelatase) [Coenzyme transport and metabolism]
Probab=74.27 E-value=14 Score=35.47 Aligned_cols=63 Identities=17% Similarity=0.320 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHhhCCCCcceE-EecCCCCCCCCCccHHHHHHHHHHHHHh-C-----CCCCEEEEEEeccccccCCC
Q 024329 121 NDVKSMWFLLVRMLGFPSDCVV-ILTEEEKNPYRIPTKQNIRTAMRWLAQD-C-----QPGDSLVFHYSGHGSRQKDY 191 (269)
Q Consensus 121 nDA~~m~~~L~~~~Gf~~~~I~-lLtd~e~~~~~~pTk~nI~~aL~~L~~~-~-----~~gD~lvfYFSGHG~~~~d~ 191 (269)
...+.+.+.+++ -|+..+ |. -..| +|||++-+.++|.+.++. . ...|.|||+||.||....-.
T Consensus 173 SSln~l~r~~r~-~~~~~~-~~wsiId------rW~t~~glIkafA~~I~keL~~F~~~~r~~VVIlFSAHslPms~V 242 (395)
T KOG1321|consen 173 SSLNELWRQFRE-DGYERD-IKWSIID------RWPTREGLIKAFAENIEKELQTFPEPVRDDVVILFSAHSLPMSVV 242 (395)
T ss_pred ccHHHHHHHHHh-cCcccC-CceEeec------cccccchHHHHHHHHHHHHHHhcCCcccccEEEEEecCCCcHHHH
Confidence 344556666653 344332 21 1223 578888888777655543 1 12488999999999976543
No 29
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=73.79 E-value=23 Score=34.74 Aligned_cols=81 Identities=14% Similarity=0.224 Sum_probs=48.7
Q ss_pred CCceEEEEEeeCCCCCCCCCCChHHHHHHHHHHHHH--------hhCC--CCcceEEecCCCCCCCCCccHHHHHHH--H
Q 024329 97 YGRKKALLCGVTYNDTNYMLTGSINDVKSMWFLLVR--------MLGF--PSDCVVILTEEEKNPYRIPTKQNIRTA--M 164 (269)
Q Consensus 97 ~~~k~ALlIGInY~~~~~~L~g~~nDA~~m~~~L~~--------~~Gf--~~~~I~lLtd~e~~~~~~pTk~nI~~a--L 164 (269)
..+.++++||.. |.+..=|..+.+.+.. ++|+ +.++|.++... ...|....++.+ |
T Consensus 35 ~p~gr~~Vig~G--------KAs~~MA~a~~~~~~~~~~GvVVt~~g~~~~~~~ieViea~----HPvPDe~s~~asrrl 102 (422)
T COG2379 35 PPKGRTIVIGAG--------KASAEMARAFEEHWKGPLAGVVVTPYGYGGPCPRIEVIEAG----HPVPDEASLKASRRL 102 (422)
T ss_pred CCCCceEEEecc--------hhHHHHHHHHHHHhccccCceEeccCccCCCCCceeEEeCC----CCCCCchhHHHHHHH
Confidence 455688899874 4445545555555521 2232 22445554332 234555555443 4
Q ss_pred HHHHHhCCCCCEEEEEEeccccccC
Q 024329 165 RWLAQDCQPGDSLVFHYSGHGSRQK 189 (269)
Q Consensus 165 ~~L~~~~~~gD~lvfYFSGHG~~~~ 189 (269)
-+++++.+++|.|+|.+||=|+..-
T Consensus 103 L~~v~~l~e~D~Vi~LISGGGSaL~ 127 (422)
T COG2379 103 LELVSGLTEDDLVIVLISGGGSALL 127 (422)
T ss_pred HHHhcCCCCCcEEEEEEeCCchhhc
Confidence 5666788999999999999998754
No 30
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=73.72 E-value=2.9 Score=28.28 Aligned_cols=27 Identities=26% Similarity=0.578 Sum_probs=21.6
Q ss_pred cccCCCCCCceecCCCCceeecccccce
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSV 32 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~ 32 (269)
.-.|+.||+.+.+.. ...+||..|..=
T Consensus 2 ~Y~C~~Cg~~~~~~~-~~~irC~~CG~r 28 (44)
T smart00659 2 IYICGECGRENEIKS-KDVVRCRECGYR 28 (44)
T ss_pred EEECCCCCCEeecCC-CCceECCCCCce
Confidence 346999999998874 468999999743
No 31
>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=72.49 E-value=2.2 Score=31.64 Aligned_cols=32 Identities=28% Similarity=0.682 Sum_probs=24.6
Q ss_pred cccCCCCCCceecCCCCceeecccccceeeccCC
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVTSFPSS 38 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~~~~ 38 (269)
..+| .||+.|-...++.+-.| .|....+|.+.
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 99999999865
No 32
>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=72.02 E-value=2.4 Score=26.84 Aligned_cols=24 Identities=33% Similarity=0.805 Sum_probs=19.0
Q ss_pred cCCCCCCceecCCCCceeecccccc
Q 024329 7 RCSGCGRQLWLPPQAVAARCYACRS 31 (269)
Q Consensus 7 ~c~~c~~~~~~~~~~~~~~c~~c~~ 31 (269)
.|+.|++...+.++. .|||..|..
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 499999999998876 689999963
No 33
>PF13660 DUF4147: Domain of unknown function (DUF4147); PDB: 1X3L_A 2B8N_A.
Probab=71.27 E-value=8.6 Score=35.09 Aligned_cols=37 Identities=27% Similarity=0.391 Sum_probs=26.0
Q ss_pred CCCccHHHHHHH--HHHHHHhCCCCCEEEEEEecccccc
Q 024329 152 YRIPTKQNIRTA--MRWLAQDCQPGDSLVFHYSGHGSRQ 188 (269)
Q Consensus 152 ~~~pTk~nI~~a--L~~L~~~~~~gD~lvfYFSGHG~~~ 188 (269)
...|+...+..+ +.+++++++++|.|+|..||=|+-.
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 356888887764 6788888999999999999988764
No 34
>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function.
Probab=71.07 E-value=2.2 Score=29.32 Aligned_cols=34 Identities=38% Similarity=0.636 Sum_probs=27.0
Q ss_pred cccccCCCCCCceecCCC-------Cceeecccccceeecc
Q 024329 3 SRVERCSGCGRQLWLPPQ-------AVAARCYACRSVTSFP 36 (269)
Q Consensus 3 ~~~~~c~~c~~~~~~~~~-------~~~~~c~~c~~~~~~~ 36 (269)
+.-+-|++|-.-|+||.+ .+.+||..|..|-.+.
T Consensus 4 APFv~C~~C~~lLqlP~~~~~~~k~~~klrCGaCs~vl~~s 44 (46)
T PF11331_consen 4 APFVVCSSCFELLQLPAKFSLSKKNQQKLRCGACSEVLSFS 44 (46)
T ss_pred CCEeECccHHHHHcCCCccCCCccceeEEeCCCCceeEEEe
Confidence 345789999999999964 3589999999876553
No 35
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=70.54 E-value=3.3 Score=26.50 Aligned_cols=27 Identities=30% Similarity=0.599 Sum_probs=14.5
Q ss_pred cCCCCCCcee--cCCCC--ceeeccccccee
Q 024329 7 RCSGCGRQLW--LPPQA--VAARCYACRSVT 33 (269)
Q Consensus 7 ~c~~c~~~~~--~~~~~--~~~~c~~c~~~~ 33 (269)
.|++||.+|. +|.|. ....|..|..|-
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 5999999865 47665 466799998764
No 36
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=69.80 E-value=3.5 Score=30.43 Aligned_cols=30 Identities=17% Similarity=0.573 Sum_probs=23.9
Q ss_pred ccccCCCCCCc-eecCCCCceeeccccccee
Q 024329 4 RVERCSGCGRQ-LWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 4 ~~~~c~~c~~~-~~~~~~~~~~~c~~c~~~~ 33 (269)
+.|.|..|+.. ...-.-+..++|.+|.++-
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 45789999984 6667778899999998654
No 37
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=69.14 E-value=3.7 Score=29.32 Aligned_cols=32 Identities=28% Similarity=0.635 Sum_probs=25.4
Q ss_pred CCcccccCCCCCCceecCCCCceeecccccceeeccCC
Q 024329 1 MTSRVERCSGCGRQLWLPPQAVAARCYACRSVTSFPSS 38 (269)
Q Consensus 1 ~~~~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~~~~ 38 (269)
|-+++..|+.|++.-. ..+|..|...|.++-+
T Consensus 1 Mks~mr~C~~CgvYTL------k~~CP~CG~~t~~~~P 32 (56)
T PRK13130 1 MKSKIRKCPKCGVYTL------KEICPVCGGKTKNPHP 32 (56)
T ss_pred CCccceECCCCCCEEc------cccCcCCCCCCCCCCC
Confidence 5677888999999643 5679999988888754
No 38
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=68.49 E-value=3.2 Score=24.64 Aligned_cols=23 Identities=30% Similarity=0.629 Sum_probs=16.0
Q ss_pred ccccCCCCCCceecCCCCceeeccccc
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACR 30 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~ 30 (269)
|.+.|++|++ .++++++ -|..|.
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 5678999999 4566654 377774
No 39
>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=68.04 E-value=32 Score=32.44 Aligned_cols=75 Identities=16% Similarity=0.171 Sum_probs=45.2
Q ss_pred CCCceEEEEEeeCCCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCC
Q 024329 96 VYGRKKALLCGVTYNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGD 175 (269)
Q Consensus 96 ~~~~k~ALlIGInY~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD 175 (269)
....+.||+||=+ ...-.....++..+.+.|.+...-....+.+-+... |-.+++++|+.+.+ ..+
T Consensus 144 l~~p~~avLIGG~----s~~~~~~~~~~~~l~~~l~~~~~~~~~~~~vttSRR-------Tp~~~~~~L~~~~~---~~~ 209 (311)
T PF06258_consen 144 LPRPRVAVLIGGD----SKHYRWDEEDAERLLDQLAALAAAYGGSLLVTTSRR-------TPPEAEAALRELLK---DNP 209 (311)
T ss_pred CCCCeEEEEECcC----CCCcccCHHHHHHHHHHHHHHHHhCCCeEEEEcCCC-------CcHHHHHHHHHhhc---CCC
Confidence 3467899999953 223355567777777777643211113455555544 77888888877765 345
Q ss_pred EEEEEEeccc
Q 024329 176 SLVFHYSGHG 185 (269)
Q Consensus 176 ~lvfYFSGHG 185 (269)
.++|| ++.|
T Consensus 210 ~~~~~-~~~~ 218 (311)
T PF06258_consen 210 GVYIW-DGTG 218 (311)
T ss_pred ceEEe-cCCC
Confidence 55455 6655
No 40
>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=66.76 E-value=4 Score=37.62 Aligned_cols=34 Identities=26% Similarity=0.506 Sum_probs=26.0
Q ss_pred ccccCCCCCCceecCCCC--ceeecccccceeeccC
Q 024329 4 RVERCSGCGRQLWLPPQA--VAARCYACRSVTSFPS 37 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~--~~~~c~~c~~~~~~~~ 37 (269)
-.+.|.||...+..+.=. .-.||.+|++|+.|..
T Consensus 156 ~rv~CghC~~~Fl~~~~~~~tlARCPHCrKvSSVG~ 191 (256)
T PF09788_consen 156 CRVICGHCSNTFLFNTLTSNTLARCPHCRKVSSVGP 191 (256)
T ss_pred eeEECCCCCCcEeccCCCCCccccCCCCceeccccc
Confidence 347799999987776433 4569999999988874
No 41
>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=65.53 E-value=4.7 Score=28.70 Aligned_cols=30 Identities=20% Similarity=0.502 Sum_probs=19.2
Q ss_pred ccccCCCCCCc-eecCCCCceeeccccccee
Q 024329 4 RVERCSGCGRQ-LWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 4 ~~~~c~~c~~~-~~~~~~~~~~~c~~c~~~~ 33 (269)
|.|+|..|... ...-.-...|.|..|..+-
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 67889999984 5666777899999998653
No 42
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.44 E-value=3 Score=44.47 Aligned_cols=35 Identities=20% Similarity=0.372 Sum_probs=29.9
Q ss_pred ccccCCCCCCc----eecCCCCceeecccccceeeccCC
Q 024329 4 RVERCSGCGRQ----LWLPPQAVAARCYACRSVTSFPSS 38 (269)
Q Consensus 4 ~~~~c~~c~~~----~~~~~~~~~~~c~~c~~~~~~~~~ 38 (269)
-.+||++|+.+ ++.--|.|.++|.+|+..+.+.+-
T Consensus 337 gPvRC~RCkaYinPFmqF~~~gr~f~Cn~C~~~n~vp~~ 375 (1007)
T KOG1984|consen 337 GPVRCNRCKAYINPFMQFIDGGRKFICNFCGSKNQVPDD 375 (1007)
T ss_pred CCcchhhhhhhcCcceEEecCCceEEecCCCccccCChh
Confidence 36899999996 566778899999999999998864
No 43
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=64.98 E-value=4.8 Score=29.06 Aligned_cols=29 Identities=21% Similarity=0.661 Sum_probs=23.0
Q ss_pred ccccCCCCCCc-eecCCCCceeecccccce
Q 024329 4 RVERCSGCGRQ-LWLPPQAVAARCYACRSV 32 (269)
Q Consensus 4 ~~~~c~~c~~~-~~~~~~~~~~~c~~c~~~ 32 (269)
|.|+|+.|+.. ...-.-...+.|..|.++
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 56889999984 556677789999999854
No 44
>PLN02450 1-aminocyclopropane-1-carboxylate synthase
Probab=62.72 E-value=37 Score=33.46 Aligned_cols=36 Identities=33% Similarity=0.515 Sum_probs=23.2
Q ss_pred CCC-CChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCCC
Q 024329 210 TEG-PIIDDEINATIVRPLPRGAKLHAIIDSCYSGTVLD 247 (269)
Q Consensus 210 ~~g-~I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~d 247 (269)
+.| .++.+++.+++ +-. +...+++|.|=+|+....+
T Consensus 203 PTG~~~s~e~l~~ll-~~a-~~~~~~iI~DE~Y~~~~f~ 239 (468)
T PLN02450 203 PLGTTTTRTELNLLV-DFI-TAKNIHLISDEIYSGTVFD 239 (468)
T ss_pred CCCcccCHHHHHHHH-HHH-HHCCcEEEEEccccccccC
Confidence 345 45666676655 322 2357899999999986543
No 45
>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=60.69 E-value=26 Score=26.79 Aligned_cols=46 Identities=15% Similarity=0.302 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecccccc
Q 024329 122 DVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQ 188 (269)
Q Consensus 122 DA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~ 188 (269)
-.+.+.+.|.+. |+. | ..|+.+-+..+|..|++.-+ ||+.|+|+..
T Consensus 31 t~E~l~~~L~~~--yp~--i-----------~~Ps~e~l~~~L~~Li~erk------IY~tg~GYfi 76 (80)
T PF10264_consen 31 TQETLREHLRKH--YPG--I-----------AIPSQEVLYNTLGTLIKERK------IYHTGEGYFI 76 (80)
T ss_pred hHHHHHHHHHHh--CCC--C-----------CCCCHHHHHHHHHHHHHcCc------eeeCCCceEe
Confidence 345577777654 442 2 12899999999999987644 8999999864
No 46
>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=59.68 E-value=1.2e+02 Score=30.55 Aligned_cols=84 Identities=15% Similarity=0.365 Sum_probs=46.3
Q ss_pred ccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCC-C--C---CCChHHHHHHHHhccCC
Q 024329 155 PTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHE-T--E---GPIIDDEINATIVRPLP 228 (269)
Q Consensus 155 pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~-~--~---g~I~~deL~~~L~~~l~ 228 (269)
...+.+..-|+|..+... -|.-.+.|..||.-+....... ......++ +|.. . . ..+...||.+.|..
T Consensus 94 gDp~tLt~FL~~~~~~yP-Ad~Y~LIiwnHG~GW~p~~~~~-~~~~r~i~-wDdt~~~~~g~~D~L~~~EI~daL~~--- 167 (476)
T TIGR02806 94 GDAETLKKFIDFCKKNYE-ADKYMLIMANHGGGAKDDKDRA-PRLNKAIC-WDDSNLDKNGEADCLYMGEISDHLTE--- 167 (476)
T ss_pred CCHHHHHHHHHHHHhhCc-ccceeEEEEeCCCCCcCCCccc-ccccccce-eccCCCCcCccccccchHHHHHHhcc---
Confidence 444556666777776544 5778888889999765321100 00001122 2221 1 1 12344678776632
Q ss_pred CCCeE-EEEEeCCCCCCC
Q 024329 229 RGAKL-HAIIDSCYSGTV 245 (269)
Q Consensus 229 ~g~~l-~vIlD~C~SG~~ 245 (269)
+.++ +|.+|+|+=|++
T Consensus 168 -~~k~D~I~FDAClM~sV 184 (476)
T TIGR02806 168 -DESVDLLAFDACLMGNA 184 (476)
T ss_pred -CCceeEEEEchhcccHH
Confidence 3344 799999997775
No 47
>COG0648 Nfo Endonuclease IV [DNA replication, recombination, and repair]
Probab=59.05 E-value=28 Score=32.60 Aligned_cols=63 Identities=19% Similarity=0.204 Sum_probs=40.0
Q ss_pred cHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCChHHHHHHHHhccCCCCCeEEE
Q 024329 156 TKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPIIDDEINATIVRPLPRGAKLHA 235 (269)
Q Consensus 156 Tk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~~deL~~~L~~~l~~g~~l~v 235 (269)
..++|.++|+++... +....++.+.+|=|.-.. . .-.+|.+++ +.+....++-+
T Consensus 119 ~l~~i~~~Ln~~~~~-~~v~i~~e~~agegs~~g----------------~--------~F~~L~eii-~~~~~~~~igv 172 (280)
T COG0648 119 GLNRIAEALNELLEE-EGVIILLENTAGEGSGKG----------------T--------QFGELAEII-DLIEEKERIGV 172 (280)
T ss_pred HHHHHHHHHHHHhhc-cCCeEEEEEeccccCccc----------------c--------chhhHHHHH-HhhcccCceEE
Confidence 566777788777765 444567788888766431 1 124566655 33433346899
Q ss_pred EEeCCCCCC
Q 024329 236 IIDSCYSGT 244 (269)
Q Consensus 236 IlD~C~SG~ 244 (269)
.||+||.-.
T Consensus 173 CiDtcH~~A 181 (280)
T COG0648 173 CIDTCHAFA 181 (280)
T ss_pred EEEchhhhh
Confidence 999999433
No 48
>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=57.99 E-value=12 Score=25.27 Aligned_cols=32 Identities=25% Similarity=0.516 Sum_probs=24.6
Q ss_pred ccccCCCCCCceecCCCCceeecccccceeecc
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACRSVTSFP 36 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~~ 36 (269)
....|..|+..|+- .+...++|..|+-+.+-.
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 45689999999966 788899999998776544
No 49
>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=57.42 E-value=6 Score=25.29 Aligned_cols=31 Identities=26% Similarity=0.518 Sum_probs=22.8
Q ss_pred CCcccccCCCCCCceecCCC---Cceeecccccc
Q 024329 1 MTSRVERCSGCGRQLWLPPQ---AVAARCYACRS 31 (269)
Q Consensus 1 ~~~~~~~c~~c~~~~~~~~~---~~~~~c~~c~~ 31 (269)
|-.-.-+|..|+..+.+..+ ...+.|..|.+
T Consensus 1 Mp~Y~y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 1 MPIYEYRCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred CCCEEEEcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 33445679999997766553 45889999987
No 50
>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=57.27 E-value=34 Score=34.70 Aligned_cols=106 Identities=15% Similarity=0.190 Sum_probs=63.6
Q ss_pred CCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCC-----C------------CCCCh
Q 024329 153 RIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHE-----T------------EGPII 215 (269)
Q Consensus 153 ~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~-----~------------~g~I~ 215 (269)
-.||-..++..|....+...++-.+++|.|++|........ +..++|..-+..+.. . ...+.
T Consensus 292 YrPT~sqll~~LAt~~kELP~n~~lLlYlSA~G~~~~~~~~-~~~~y~~ggv~t~~~~~~~~~~~~~~~~~~~~~~~~Ly 370 (513)
T PF12070_consen 292 YRPTFSQLLAFLATAFKELPPNGALLLYLSADGCFSTSKSD-SDGPYDFGGVLTNSNRDSNNGDCLWKRNQGNKEMHCLY 370 (513)
T ss_pred ecCCHHHHHHHHHHHHHhcCCCceEEEEEeccCcccCCCCC-ccccCCCCCcCCCCcccccCCcccccCCcccCCCcccc
Confidence 47999999999999999999999999999999986543221 111233221111111 0 01233
Q ss_pred HHHHHHHHhccCCCCCeEEEEEeCCCCCCCCC------CcccccccceeecccCCC
Q 024329 216 DDEINATIVRPLPRGAKLHAIIDSCYSGTVLD------LPFVCKINGVQMGRSKNS 265 (269)
Q Consensus 216 ~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~d------lp~~~~~~~~~~g~~~~~ 265 (269)
..+|. +. ..+-+.+|||+=.|..+.. .|++|=|+=..+..+...
T Consensus 371 P~DL~-----PF-TRkPLFlIVDSdnS~aF~~l~~~fGqP~v~LlSP~~~p~~~~~ 420 (513)
T PF12070_consen 371 PGDLY-----PF-TRKPLFLIVDSDNSHAFKNLPNEFGQPLVCLLSPKSIPKPLSD 420 (513)
T ss_pred hhhcc-----cc-ccCCeEEEEeCCccHHhhhcccccCCeEEEEeCCcccCccccc
Confidence 33332 22 2245799999998888744 455555554444444433
No 51
>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=56.96 E-value=14 Score=26.13 Aligned_cols=34 Identities=21% Similarity=0.368 Sum_probs=27.3
Q ss_pred cccCCCCCCceecCCCC--ceeecccccceeeccCC
Q 024329 5 VERCSGCGRQLWLPPQA--VAARCYACRSVTSFPSS 38 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~--~~~~c~~c~~~~~~~~~ 38 (269)
...|..|++.+.||... .-+.|..|.+.-.|...
T Consensus 2 ~~~CP~CG~~iev~~~~~GeiV~Cp~CGaeleVv~~ 37 (54)
T TIGR01206 2 QFECPDCGAEIELENPELGELVICDECGAELEVVSL 37 (54)
T ss_pred ccCCCCCCCEEecCCCccCCEEeCCCCCCEEEEEeC
Confidence 45899999999998744 47899999987777643
No 52
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=56.64 E-value=14 Score=24.86 Aligned_cols=30 Identities=20% Similarity=0.360 Sum_probs=22.8
Q ss_pred cCCCCCCceecCCCC--ceeecccccceeecc
Q 024329 7 RCSGCGRQLWLPPQA--VAARCYACRSVTSFP 36 (269)
Q Consensus 7 ~c~~c~~~~~~~~~~--~~~~c~~c~~~~~~~ 36 (269)
-|+.||..|..+.+. ....|..|...-++.
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCCeEECC
Confidence 499999977776554 378899999766655
No 53
>PF12156 ATPase-cat_bd: Putative metal-binding domain of cation transport ATPase; InterPro: IPR021993 This domain is found in bacteria, and is approximately 90 amino acids in length. It is found associated with PF00403 from PFAM, PF00122 from PFAM, PF00702 from PFAM. The cysteine-rich nature and composition suggest this might be a cation-binding domain; most members are annotated as being cation transport ATPases.
Probab=56.44 E-value=3.9 Score=31.46 Aligned_cols=32 Identities=19% Similarity=0.431 Sum_probs=23.6
Q ss_pred ccCCCCCCcee--------cCCCCceeecccccceeeccC
Q 024329 6 ERCSGCGRQLW--------LPPQAVAARCYACRSVTSFPS 37 (269)
Q Consensus 6 ~~c~~c~~~~~--------~~~~~~~~~c~~c~~~~~~~~ 37 (269)
+.|-||+.++. +.-..+.+-|..|++|-.+-.
T Consensus 1 ~~C~HCg~~~p~~~~~~~~~~g~~~~FCC~GC~~V~~~i~ 40 (88)
T PF12156_consen 1 MKCYHCGLPVPEGAKITVEIDGEERPFCCPGCQAVYQLIH 40 (88)
T ss_pred CCCCCCCCCCCCCCCeeeeeCCCccccccHHHHHHHHHHH
Confidence 47999988764 112347899999999987763
No 54
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=56.04 E-value=41 Score=27.36 Aligned_cols=61 Identities=18% Similarity=0.264 Sum_probs=35.3
Q ss_pred hHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccc
Q 024329 119 SINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSR 187 (269)
Q Consensus 119 ~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~ 187 (269)
...+++.|+++|.+. |++.+.|.+..... -|.+|++...+++.+. +-...+++-=.-|-.+
T Consensus 52 ~~~ea~~~~~~l~~~-gvp~~~I~~e~~s~------~T~ena~~~~~~~~~~-~~~~iilVT~~~H~~R 112 (155)
T PF02698_consen 52 GRSEAEAMRDYLIEL-GVPEERIILEPKST------NTYENARFSKRLLKER-GWQSIILVTSPYHMRR 112 (155)
T ss_dssp TS-HHHHHHHHHHHT----GGGEEEE----------SHHHHHHHHHHHHHT--SSS-EEEE--CCCHHH
T ss_pred CCCHHHHHHHHHHhc-ccchheeEccCCCC------CHHHHHHHHHHHHHhh-cCCeEEEECCHHHHHH
Confidence 458999999999976 99998887644433 4999999998887643 2234555444444443
No 55
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=53.61 E-value=70 Score=28.08 Aligned_cols=76 Identities=17% Similarity=0.225 Sum_probs=39.6
Q ss_pred CceEEEEEeeCCCCCCCCCCChHHHHHHHHHHHHH-----hhCCCCcceEEecCCCCCCCCCccHHHHHHHH-HHHHHhC
Q 024329 98 GRKKALLCGVTYNDTNYMLTGSINDVKSMWFLLVR-----MLGFPSDCVVILTEEEKNPYRIPTKQNIRTAM-RWLAQDC 171 (269)
Q Consensus 98 ~~k~ALlIGInY~~~~~~L~g~~nDA~~m~~~L~~-----~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL-~~L~~~~ 171 (269)
..++.+++|+. +..-+|..+...|.. +.|++ ...|.++..--...++-....+.+ +++....
T Consensus 40 ~~~rI~~~G~G---------gSa~~A~~~a~~l~~~~~~~r~gl~---a~~l~~d~~~~ta~and~~~~~~f~~ql~~~~ 107 (196)
T PRK10886 40 NGNKILCCGNG---------TSAANAQHFAASMINRFETERPSLP---AIALNTDNVVLTAIANDRLHDEVYAKQVRALG 107 (196)
T ss_pred cCCEEEEEECc---------HHHHHHHHHHHHHhccccccCCCcc---eEEecCcHHHHHHHhccccHHHHHHHHHHHcC
Confidence 45788999973 335688888877754 34554 233433210000001111223333 4555567
Q ss_pred CCCCEEEEEEecccc
Q 024329 172 QPGDSLVFHYSGHGS 186 (269)
Q Consensus 172 ~~gD~lvfYFSGHG~ 186 (269)
++||.+++ +|+-|.
T Consensus 108 ~~gDvli~-iS~SG~ 121 (196)
T PRK10886 108 HAGDVLLA-ISTRGN 121 (196)
T ss_pred CCCCEEEE-EeCCCC
Confidence 88887765 666554
No 56
>PRK01688 histidinol-phosphate aminotransferase; Provisional
Probab=53.46 E-value=78 Score=29.52 Aligned_cols=50 Identities=18% Similarity=0.375 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCC-CEEEEEEecc
Q 024329 123 VKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPG-DSLVFHYSGH 184 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~g-D~lvfYFSGH 184 (269)
...+++.+.+.+|+++++|.+ ++. +.+.|...+..+ +++| |.|++.--++
T Consensus 59 ~~~l~~~~a~~~g~~~~~I~~-~~G--------s~e~i~~~~~~~---~~~g~~~vli~~P~y 109 (351)
T PRK01688 59 PKAVIENYAAYAGVKPEQVLV-SRG--------ADEGIELLIRAF---CEPGKDAILYCPPTY 109 (351)
T ss_pred hHHHHHHHHHHhCCCHHHEEE-cCC--------HHHHHHHHHHHh---cCCCCCEEEEcCCCH
Confidence 467888888888999999865 432 334444444443 3566 8777764443
No 57
>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=53.30 E-value=12 Score=22.29 Aligned_cols=22 Identities=41% Similarity=0.985 Sum_probs=17.5
Q ss_pred CCCCCCceecCCC-Cceeeccccc
Q 024329 8 CSGCGRQLWLPPQ-AVAARCYACR 30 (269)
Q Consensus 8 c~~c~~~~~~~~~-~~~~~c~~c~ 30 (269)
|..|+..|. |.+ +..+.|..|.
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 788988766 666 8899999885
No 58
>PRK08361 aspartate aminotransferase; Provisional
Probab=52.88 E-value=1.2e+02 Score=28.54 Aligned_cols=49 Identities=14% Similarity=0.214 Sum_probs=27.9
Q ss_pred HHHHHHHHHhhC--CCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecc
Q 024329 124 KSMWFLLVRMLG--FPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGH 184 (269)
Q Consensus 124 ~~m~~~L~~~~G--f~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGH 184 (269)
+.+++++.+.+| +++++|.+... +.+.|...+..+ +++||.|++---+|
T Consensus 77 ~~ia~~~~~~~g~~~~~~~i~~t~G---------~~~al~~~~~~l---~~~g~~Vlv~~p~y 127 (391)
T PRK08361 77 EAIAEYYKKFYGVDVDVDNVIVTAG---------AYEATYLAFESL---LEEGDEVIIPDPAF 127 (391)
T ss_pred HHHHHHHHHHhCCCCCcccEEEeCC---------hHHHHHHHHHHh---cCCCCEEEEcCCCC
Confidence 356666655455 56677765333 344455555544 46899888644333
No 59
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=52.43 E-value=11 Score=29.15 Aligned_cols=29 Identities=21% Similarity=0.475 Sum_probs=22.2
Q ss_pred ccccCCCCCCc-eecCCCCceeecccccce
Q 024329 4 RVERCSGCGRQ-LWLPPQAVAARCYACRSV 32 (269)
Q Consensus 4 ~~~~c~~c~~~-~~~~~~~~~~~c~~c~~~ 32 (269)
|.|.|.+|... .....-...|.|..|..+
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 56789999884 555667788999999754
No 60
>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=52.09 E-value=80 Score=29.70 Aligned_cols=55 Identities=15% Similarity=0.228 Sum_probs=34.2
Q ss_pred HHHHHHHHHHhhCCC-CcceEEecCCCCCCCCCccHHHHHHHHHHHHH-hCCCCCEEEEEEecccc
Q 024329 123 VKSMWFLLVRMLGFP-SDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQ-DCQPGDSLVFHYSGHGS 186 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~-~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~-~~~~gD~lvfYFSGHG~ 186 (269)
.+.+++.+.+.+|.+ .++|.+ +.. +.+.+...+..+.. ..++||.|++.-..|..
T Consensus 64 ~~~~r~~ia~~~~~~~~~~v~~-~~g--------~t~~l~~~~~~~~~~~~~~g~~vl~~~~~~~s 120 (403)
T TIGR01979 64 YEAVREKVAKFINAASDEEIVF-TRG--------TTESINLVAYSWGDSNLKAGDEIVISEMEHHA 120 (403)
T ss_pred HHHHHHHHHHHhCcCCCCeEEE-eCC--------HHHHHHHHHHHhhhhcCCCCCEEEECcchhhH
Confidence 456667777777887 456654 432 44555555555532 35789998887666654
No 61
>cd06451 AGAT_like Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-glyoxylate aminotransferase (SGAT), and 3-hydroxykynurenine transaminase (HKT). AGAT is a homodimeric protein, which catalyses the transamination of glyoxylate to glycine, and SGAT converts serine and glyoxylate to hydroxypyruvate and glycine. HKT catalyzes the PLP-dependent transamination of 3-hydroxykynurenine, a potentially toxic metabolite of the kynurenine pathway.
Probab=51.39 E-value=1.4e+02 Score=27.47 Aligned_cols=52 Identities=15% Similarity=0.197 Sum_probs=33.9
Q ss_pred HHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccc
Q 024329 123 VKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHG 185 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG 185 (269)
.+.+++.|.+.+|.+++++.+++.. +.+.+...+..+ +++||.+++.-.+|-
T Consensus 34 ~~~~~~~la~~~g~~~~~~~~~~~~--------~t~al~~~~~~~---~~~g~~vl~~~~~~~ 85 (356)
T cd06451 34 MDEILEGLRYVFQTENGLTFLLSGS--------GTGAMEAALSNL---LEPGDKVLVGVNGVF 85 (356)
T ss_pred HHHHHHHHHHHhcCCCCCEEEEecC--------cHHHHHHHHHHh---CCCCCEEEEecCCch
Confidence 5677788877779866565555653 245566666655 368998887655543
No 62
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=50.64 E-value=12 Score=24.34 Aligned_cols=27 Identities=22% Similarity=0.534 Sum_probs=19.5
Q ss_pred cCCCCCCceecC--CCCceeeccccccee
Q 024329 7 RCSGCGRQLWLP--PQAVAARCYACRSVT 33 (269)
Q Consensus 7 ~c~~c~~~~~~~--~~~~~~~c~~c~~~~ 33 (269)
+|+.|++.|..- .+...-+|..|+++=
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 599999865422 456778899998764
No 63
>PF12773 DZR: Double zinc ribbon
Probab=50.60 E-value=8.9 Score=25.74 Aligned_cols=28 Identities=29% Similarity=0.649 Sum_probs=21.6
Q ss_pred ccccCCCCCCceecCCCCceeecccccce
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACRSV 32 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~~~ 32 (269)
....|.+||+.|. ......+.|..|.+.
T Consensus 11 ~~~fC~~CG~~l~-~~~~~~~~C~~Cg~~ 38 (50)
T PF12773_consen 11 DAKFCPHCGTPLP-PPDQSKKICPNCGAE 38 (50)
T ss_pred cccCChhhcCChh-hccCCCCCCcCCcCC
Confidence 3456999999888 555667889999865
No 64
>PLN00209 ribosomal protein S27; Provisional
Probab=50.54 E-value=12 Score=28.97 Aligned_cols=29 Identities=21% Similarity=0.476 Sum_probs=22.3
Q ss_pred ccccCCCCCCc-eecCCCCceeecccccce
Q 024329 4 RVERCSGCGRQ-LWLPPQAVAARCYACRSV 32 (269)
Q Consensus 4 ~~~~c~~c~~~-~~~~~~~~~~~c~~c~~~ 32 (269)
|-|.|.+|... ...-.-...|.|..|..+
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 56789999884 556667788999999754
No 65
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=50.47 E-value=12 Score=34.33 Aligned_cols=30 Identities=23% Similarity=0.383 Sum_probs=24.6
Q ss_pred ccCCCCCCceecCCCCceeecccccceeec
Q 024329 6 ERCSGCGRQLWLPPQAVAARCYACRSVTSF 35 (269)
Q Consensus 6 ~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~ 35 (269)
-.|++||+++..-.+...-+|..|..+-..
T Consensus 100 ~fC~~CG~~~~~~~~~~~~~C~~c~~~~yp 129 (256)
T PRK00241 100 RFCGYCGHPMHPSKTEWAMLCPHCRERYYP 129 (256)
T ss_pred ccccccCCCCeecCCceeEECCCCCCEECC
Confidence 459999999998888888999999855443
No 66
>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=50.23 E-value=89 Score=29.16 Aligned_cols=56 Identities=14% Similarity=0.151 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccc
Q 024329 121 NDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHG 185 (269)
Q Consensus 121 nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG 185 (269)
.-.+.+++.|.+.+|.+.++|.+ +.. +.+.+..++..+.....++|.|++.-..|.
T Consensus 42 ~~~~~~r~~la~~~g~~~~~i~~-t~~--------~t~a~~~al~~~~~~~~~~~~vv~~~~~~~ 97 (379)
T TIGR03402 42 KAVEEAREQVAKLLGAEPDEIIF-TSG--------GTESDNTAIKSALAAQPEKRHIITTAVEHP 97 (379)
T ss_pred HHHHHHHHHHHHHhCCCCCeEEE-eCc--------HHHHHHHHHHHHHHhcCCCCeEEEcccccH
Confidence 34556777777777887777654 432 445556666555443345688777665663
No 67
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=48.58 E-value=65 Score=34.17 Aligned_cols=26 Identities=27% Similarity=0.613 Sum_probs=22.0
Q ss_pred cccCCCCCCceecCCCCceeeccccc
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACR 30 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~ 30 (269)
...|.+|..+|.+.-.....+|..|.
T Consensus 444 v~~Cp~Cd~~lt~H~~~~~L~CH~Cg 469 (730)
T COG1198 444 IAECPNCDSPLTLHKATGQLRCHYCG 469 (730)
T ss_pred cccCCCCCcceEEecCCCeeEeCCCC
Confidence 35688888888888889999999996
No 68
>PLN02651 cysteine desulfurase
Probab=48.08 E-value=1e+02 Score=28.79 Aligned_cols=55 Identities=9% Similarity=0.123 Sum_probs=32.7
Q ss_pred HHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHh-CCCCCEEEEEEecccc
Q 024329 123 VKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQD-CQPGDSLVFHYSGHGS 186 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~-~~~gD~lvfYFSGHG~ 186 (269)
.+..++.|.+.+|.++++|.+ +.. +.+.+..++..++.. .++||.|++.-..|..
T Consensus 45 ~~~~r~~la~~~g~~~~~v~~-t~~--------~t~a~~~~l~~~~~~~~~~g~~vl~~~~~h~s 100 (364)
T PLN02651 45 VEKARAQVAALIGADPKEIIF-TSG--------ATESNNLAIKGVMHFYKDKKKHVITTQTEHKC 100 (364)
T ss_pred HHHHHHHHHHHhCCCCCeEEE-eCC--------HHHHHHHHHHHHHHhccCCCCEEEEcccccHH
Confidence 445666676667887766654 442 334444455544432 3678988876666654
No 69
>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=47.69 E-value=9.5 Score=24.76 Aligned_cols=29 Identities=21% Similarity=0.618 Sum_probs=22.2
Q ss_pred ccccCCCCCCceecCCCCceeecccccceee
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACRSVTS 34 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~ 34 (269)
+...|..|+..++-.. ...+|..|+.+.+
T Consensus 10 ~~~~C~~C~~~i~~~~--~~~~C~~C~~~~H 38 (49)
T smart00109 10 KPTKCCVCRKSIWGSF--QGLRCSWCKVKCH 38 (49)
T ss_pred CCCCccccccccCcCC--CCcCCCCCCchHH
Confidence 4567999999988644 5789999975544
No 70
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=47.59 E-value=13 Score=34.88 Aligned_cols=27 Identities=22% Similarity=0.482 Sum_probs=24.1
Q ss_pred cCCCCCCceecCCCCceeeccccccee
Q 024329 7 RCSGCGRQLWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 7 ~c~~c~~~~~~~~~~~~~~c~~c~~~~ 33 (269)
-|++||++...-.|-...+|..|....
T Consensus 113 FCg~CG~~~~~~~~g~~~~C~~cg~~~ 139 (279)
T COG2816 113 FCGRCGTKTYPREGGWARVCPKCGHEH 139 (279)
T ss_pred CCCCCCCcCccccCceeeeCCCCCCcc
Confidence 399999999999999999999997544
No 71
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=47.43 E-value=13 Score=33.74 Aligned_cols=28 Identities=18% Similarity=0.278 Sum_probs=22.5
Q ss_pred cccCCCCCCceecCCCCceeecccccceee
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVTS 34 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~ 34 (269)
.-.|+.|+.+|.+ ..++.+|..+|..-.
T Consensus 2 ~~~CP~C~~~l~~--~~~~~~C~~~h~fd~ 29 (272)
T PRK11088 2 SYQCPLCHQPLTL--EENSWICPQNHQFDC 29 (272)
T ss_pred cccCCCCCcchhc--CCCEEEcCCCCCCcc
Confidence 4579999999966 457899999997543
No 72
>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=47.36 E-value=1.4e+02 Score=27.03 Aligned_cols=59 Identities=22% Similarity=0.326 Sum_probs=33.3
Q ss_pred CCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Q 024329 115 MLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGS 186 (269)
Q Consensus 115 ~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~ 186 (269)
+|..+..-.+...+.+.+-+|-+ +..++++. +...+...+..+ +++||.|++---.|..
T Consensus 53 ~l~~~~g~i~~~~~~~A~~~ga~--~~~~~~~G--------st~a~~~~l~al---~~~gd~Vlv~~~~h~s 111 (294)
T cd00615 53 DLLDPTGPIKEAQELAARAFGAK--HTFFLVNG--------TSSSNKAVILAV---CGPGDKILIDRNCHKS 111 (294)
T ss_pred CCCCCChHHHHHHHHHHHHhCCC--CEEEEcCc--------HHHHHHHHHHHc---CCCCCEEEEeCCchHH
Confidence 44444444444555555545643 45555653 344444454444 5799999987777743
No 73
>PLN02994 1-aminocyclopropane-1-carboxylate synthase
Probab=46.93 E-value=53 Score=27.66 Aligned_cols=51 Identities=22% Similarity=0.345 Sum_probs=29.9
Q ss_pred CChHHHHHHHHHHHHHhhC----CCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEE
Q 024329 117 TGSINDVKSMWFLLVRMLG----FPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVF 179 (269)
Q Consensus 117 ~g~~nDA~~m~~~L~~~~G----f~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvf 179 (269)
.|-..=-++++++|.+++| +++++|.+... ....+...+.-| +++||.|++
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 3444455668888887777 55677655433 233333333333 468998876
No 74
>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=46.38 E-value=9.6 Score=24.22 Aligned_cols=23 Identities=43% Similarity=1.067 Sum_probs=11.9
Q ss_pred cccCCCCCCceecCCCCceeecccccc
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRS 31 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~ 31 (269)
..+|..|++ ++.||- ..|..|++
T Consensus 11 ~~rC~~Cg~-~~~pPr---~~Cp~C~s 33 (37)
T PF12172_consen 11 GQRCRDCGR-VQFPPR---PVCPHCGS 33 (37)
T ss_dssp EEE-TTT---EEES-----SEETTTT-
T ss_pred EEEcCCCCC-EecCCC---cCCCCcCc
Confidence 457999998 566665 45888863
No 75
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=45.11 E-value=15 Score=26.42 Aligned_cols=32 Identities=31% Similarity=0.727 Sum_probs=24.5
Q ss_pred CCcccccCCCCCCceecCCCCceeecccccceeeccCC
Q 024329 1 MTSRVERCSGCGRQLWLPPQAVAARCYACRSVTSFPSS 38 (269)
Q Consensus 1 ~~~~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~~~~ 38 (269)
|-++.-.|..|+.+-. .-.|..|...|.|+-+
T Consensus 1 M~~~~rkC~~cg~YTL------ke~Cp~CG~~t~~~~P 32 (59)
T COG2260 1 MKSLIRKCPKCGRYTL------KEKCPVCGGDTKVPHP 32 (59)
T ss_pred CcchhhcCcCCCceee------cccCCCCCCccccCCC
Confidence 6677788999998622 1349999999998855
No 76
>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=44.77 E-value=13 Score=24.36 Aligned_cols=30 Identities=20% Similarity=0.515 Sum_probs=23.3
Q ss_pred ccccCCCCCCceecCCCCceeecccccceee
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACRSVTS 34 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~ 34 (269)
+...|..|+..|+-. +....+|..|+-+.+
T Consensus 10 ~~~~C~~C~~~i~~~-~~~~~~C~~C~~~~H 39 (50)
T cd00029 10 KPTFCDVCRKSIWGL-FKQGLRCSWCKVKCH 39 (50)
T ss_pred CCCChhhcchhhhcc-ccceeEcCCCCCchh
Confidence 345799999998864 578899999975544
No 77
>PRK05387 histidinol-phosphate aminotransferase; Provisional
Probab=44.07 E-value=1.3e+02 Score=27.60 Aligned_cols=103 Identities=15% Similarity=0.150 Sum_probs=54.4
Q ss_pred HHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEE----------eccccccCCCCC
Q 024329 124 KSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHY----------SGHGSRQKDYNK 193 (269)
Q Consensus 124 ~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYF----------SGHG~~~~d~~g 193 (269)
..+++.+.+.++.++++|.+-.. +.+.|...+.-+ +++||.|++-= .-+|.......-
T Consensus 63 ~~lr~aia~~~~~~~~~I~it~G---------~~~al~~~~~~l---~~~gd~vlv~~P~y~~~~~~~~~~g~~~~~v~~ 130 (353)
T PRK05387 63 DALRQAIAAYYGLDPEQVFVGNG---------SDEVLAHAFLAF---FNHDRPLLFPDITYSFYPVYAGLYGIPYEEIPL 130 (353)
T ss_pred HHHHHHHHHHhCCCHHHEEEcCC---------HHHHHHHHHHHh---cCCCCEEEEeCCCHHHHHHHHHHcCCEEEEeec
Confidence 46888888778888888765333 345455455444 46899887631 123332211100
Q ss_pred CCCCCC---------cceeeccCCCCCCCC-hHHHHHHHHhccCCCCCeEEEEEeCCCC
Q 024329 194 DELDGF---------DETICPLDHETEGPI-IDDEINATIVRPLPRGAKLHAIIDSCYS 242 (269)
Q Consensus 194 de~dG~---------de~L~p~D~~~~g~I-~~deL~~~L~~~l~~g~~l~vIlD~C~S 242 (269)
++..+. ...+++.=..+.|.+ +.+++.+++ +.. ..+++|+|-+|+
T Consensus 131 ~~~~~~d~~~l~~~~~~v~~~~P~NPtG~~~~~~~~~~l~-~~~---~~~~livDe~y~ 185 (353)
T PRK05387 131 DDDFSIDVEDYLRPNGGIIFPNPNAPTGIALPLAEIERIL-AAN---PDSVVVIDEAYV 185 (353)
T ss_pred CCCCCCCHHHHHhcCCEEEEeCCCCCCCCCCCHHHHHHHH-HhC---CCcEEEEeCccc
Confidence 110011 111222212234544 567787765 322 268899999985
No 78
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7.0 [Transcription]
Probab=44.02 E-value=13 Score=26.83 Aligned_cols=26 Identities=27% Similarity=0.622 Sum_probs=21.9
Q ss_pred ccccCCCCCCceecCCCCceeeccccc
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACR 30 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~ 30 (269)
|.--|..|++...+.++. .|||.-|.
T Consensus 19 miYiCgdC~~en~lk~~D-~irCReCG 44 (62)
T KOG3507|consen 19 MIYICGDCGQENTLKRGD-VIRCRECG 44 (62)
T ss_pred EEEEeccccccccccCCC-cEehhhcc
Confidence 445599999999998887 89999995
No 79
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=43.95 E-value=32 Score=36.75 Aligned_cols=8 Identities=38% Similarity=1.319 Sum_probs=3.5
Q ss_pred CCcccccc
Q 024329 247 DLPFVCKI 254 (269)
Q Consensus 247 dlp~~~~~ 254 (269)
++-|+|+.
T Consensus 844 ~is~L~kL 851 (1102)
T KOG1924|consen 844 NISFLCKL 851 (1102)
T ss_pred chHHHHhh
Confidence 44444443
No 80
>PRK06107 aspartate aminotransferase; Provisional
Probab=43.24 E-value=1.2e+02 Score=28.86 Aligned_cols=52 Identities=21% Similarity=0.230 Sum_probs=29.7
Q ss_pred CChHHHHHHHHHHHHHhhCC--CCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEE
Q 024329 117 TGSINDVKSMWFLLVRMLGF--PSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFH 180 (269)
Q Consensus 117 ~g~~nDA~~m~~~L~~~~Gf--~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfY 180 (269)
.|...=-+.++++|.+.+|. .+++|.+ +.. +...+...+..+ +++||.|++-
T Consensus 70 ~G~~~lr~~ia~~l~~~~g~~~~~~~i~~-t~G--------~~~al~~~~~~~---~~~gd~vl~~ 123 (402)
T PRK06107 70 NGTPALRKAIIAKLERRNGLHYADNEITV-GGG--------AKQAIFLALMAT---LEAGDEVIIP 123 (402)
T ss_pred CCCHHHHHHHHHHHHHhcCCCCChhhEEE-eCC--------HHHHHHHHHHHh---cCCCCEEEEe
Confidence 34333335678888766676 4567654 332 344444444332 5789988773
No 81
>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=42.72 E-value=73 Score=23.19 Aligned_cols=51 Identities=20% Similarity=0.102 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHhhCCCC-cceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCC-CEEEEEE
Q 024329 121 NDVKSMWFLLVRMLGFPS-DCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPG-DSLVFHY 181 (269)
Q Consensus 121 nDA~~m~~~L~~~~Gf~~-~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~g-D~lvfYF 181 (269)
.....+++.|. .+|... .++... + -|..++...++.|.+-..++ |.|.+|-
T Consensus 14 k~~~kv~k~L~-~~g~~iQ~SVf~~-~--------~~~~~~~~l~~~l~~~i~~~~d~i~i~~ 66 (78)
T PF09827_consen 14 KRRNKVRKILK-SYGTRIQYSVFEG-N--------LTNAELRKLRRELEKLIDPDEDSIRIYP 66 (78)
T ss_dssp HHHHHHHHHHH-HTTEEEETTEEEE-E--------E-HHHHHHHHHHHHHHSCTTTCEEEEEE
T ss_pred HHHHHHHHHHH-HhCccccceEEEE-E--------cCHHHHHHHHHHHHhhCCCCCCEEEEEE
Confidence 56778999996 467432 234332 2 24555555556666666677 8888875
No 82
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.56 E-value=11 Score=39.99 Aligned_cols=35 Identities=26% Similarity=0.513 Sum_probs=27.9
Q ss_pred ccccCCCCCCce----ecCCCCceeecccccceeeccCC
Q 024329 4 RVERCSGCGRQL----WLPPQAVAARCYACRSVTSFPSS 38 (269)
Q Consensus 4 ~~~~c~~c~~~~----~~~~~~~~~~c~~c~~~~~~~~~ 38 (269)
-.|||..|++++ .+..-.+..||.+|..+.-|...
T Consensus 217 ~IvRCr~CRtYiNPFV~fid~gr~WrCNlC~~~NdvP~~ 255 (887)
T KOG1985|consen 217 LIVRCRRCRTYINPFVEFIDQGRRWRCNLCGRVNDVPDD 255 (887)
T ss_pred ceeeehhhhhhcCCeEEecCCCceeeechhhhhcCCcHH
Confidence 468999999964 45556689999999999888743
No 83
>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=41.99 E-value=48 Score=30.97 Aligned_cols=56 Identities=23% Similarity=0.376 Sum_probs=39.6
Q ss_pred HHHHHHHHHhhCCCC-cceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecccccc
Q 024329 124 KSMWFLLVRMLGFPS-DCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQ 188 (269)
Q Consensus 124 ~~m~~~L~~~~Gf~~-~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~ 188 (269)
+..++.|.+-+|.+. ++|.+ +.. +...+...+..+....++||.|++.-.+|....
T Consensus 46 ~~~r~~la~~lg~~~~~~v~~-~~~--------~t~a~~~~~~~l~~~~~~g~~vl~~~~~~~s~~ 102 (371)
T PF00266_consen 46 EEAREALAKLLGAPPDEEVVF-TSN--------GTEALNAVASSLLNPLKPGDEVLVTSNEHPSNR 102 (371)
T ss_dssp HHHHHHHHHHHTSSTTEEEEE-ESS--------HHHHHHHHHHHHHHHGTTTCEEEEEESSHHHHH
T ss_pred HHHHHHHHHhcCCcccccccc-ccc--------cchhhhhhhhccccccccccccccccccccccc
Confidence 345566666679888 66644 432 344777777777666789999999999988765
No 84
>PF08541 ACP_syn_III_C: 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal ; InterPro: IPR013747 This domain is found on 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III 2.3.1.41 from EC, the enzyme responsible for initiating the chain of reactions of the fatty acid synthase in plants and bacteria. ; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups, 0008610 lipid biosynthetic process; PDB: 3IL3_A 1ZOW_C 3GWE_B 3GWA_B 1UB7_B 3LED_B 2EBD_A 1HNJ_A 2EFT_B 1HN9_B ....
Probab=41.90 E-value=50 Score=24.46 Aligned_cols=59 Identities=19% Similarity=0.214 Sum_probs=37.3
Q ss_pred HHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHH--hCCCCCEEEEEEecccccc
Q 024329 126 MWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQ--DCQPGDSLVFHYSGHGSRQ 188 (269)
Q Consensus 126 m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~--~~~~gD~lvfYFSGHG~~~ 188 (269)
+.+.+.+.+|++.+.+..-..+ +...-...+.-.|..+.+ ..++||.+++.=.|-|...
T Consensus 23 ~~~~~~~~lgi~~~~~~~~~~~----~Gn~~sa~~~~~L~~~~~~g~~~~Gd~vl~~~~G~G~~~ 83 (90)
T PF08541_consen 23 ILDSIAKRLGIPPERFPDNLAE----YGNTGSASIPINLADALEEGRIKPGDRVLLVGFGAGFSW 83 (90)
T ss_dssp HHHHHHHHHTS-GGGBE-THHH----H-B-GGGHHHHHHHHHHHTTSSCTTEEEEEEEEETTTEE
T ss_pred HHHHHHHHcCCcHHHHHHHHhc----cCcchhhhHHHHHHHHHHcCCCCCCCEEEEEEEEhhhee
Confidence 3344556789988765432211 011234567778888887 6899999999988888753
No 85
>PRK02948 cysteine desulfurase; Provisional
Probab=41.89 E-value=1.1e+02 Score=28.52 Aligned_cols=53 Identities=13% Similarity=0.088 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHh-CCCCCEEEEEEecc
Q 024329 123 VKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQD-CQPGDSLVFHYSGH 184 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~-~~~gD~lvfYFSGH 184 (269)
.+.+++.|.+.+|.++++|.+ +.. +.+.+..++..+... .++||.|++--..|
T Consensus 45 ~~~~r~~la~~~g~~~~~i~~-~~g--------~t~a~~~~~~~~~~~~~~~g~~vv~~~~~h 98 (381)
T PRK02948 45 LQVCRKTFAEMIGGEEQGIYF-TSG--------GTESNYLAIQSLLNALPQNKKHIITTPMEH 98 (381)
T ss_pred HHHHHHHHHHHhCCCCCeEEE-eCc--------HHHHHHHHHHHHHHhccCCCCEEEECCccc
Confidence 345666666667887777754 432 234455555555443 35788877644444
No 86
>COG1350 Predicted alternative tryptophan synthase beta-subunit (paralog of TrpB) [General function prediction only]
Probab=41.47 E-value=20 Score=34.80 Aligned_cols=33 Identities=21% Similarity=0.374 Sum_probs=21.7
Q ss_pred cHHHHHHHHHHHHHhCC--CCCEEEEEEecccccc
Q 024329 156 TKQNIRTAMRWLAQDCQ--PGDSLVFHYSGHGSRQ 188 (269)
Q Consensus 156 Tk~nI~~aL~~L~~~~~--~gD~lvfYFSGHG~~~ 188 (269)
|...|..+++...+.-+ +.-+++|-|||||..+
T Consensus 384 saHAi~~aid~A~~a~~~geekvI~fnlSGHGllD 418 (432)
T COG1350 384 SAHAIKAAIDEALKAREEGEEKVILFNLSGHGLLD 418 (432)
T ss_pred chhhHHHHHHHHHhccccCceeEEEEeccCccccc
Confidence 44556666665544322 3348999999999974
No 87
>KOG3425 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.25 E-value=32 Score=28.47 Aligned_cols=24 Identities=8% Similarity=0.192 Sum_probs=19.9
Q ss_pred HHHHHHHHHHhCCCCCEEEEEEec
Q 024329 160 IRTAMRWLAQDCQPGDSLVFHYSG 183 (269)
Q Consensus 160 I~~aL~~L~~~~~~gD~lvfYFSG 183 (269)
..+.|+++++....|+++|+||.|
T Consensus 11 g~e~~~~~~~~~~n~~~ifvlF~g 34 (128)
T KOG3425|consen 11 GYESFEETLKNVENGKTIFVLFLG 34 (128)
T ss_pred hHHHHHHHHHHHhCCceEEEEEec
Confidence 456777778888889999999998
No 88
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=41.21 E-value=61 Score=28.36 Aligned_cols=30 Identities=27% Similarity=0.302 Sum_probs=23.1
Q ss_pred CceEEEEEeeCCCCCCCCCCChHHHHHHHHHHHHHhhCC
Q 024329 98 GRKKALLCGVTYNDTNYMLTGSINDVKSMWFLLVRMLGF 136 (269)
Q Consensus 98 ~~k~ALlIGInY~~~~~~L~g~~nDA~~m~~~L~~~~Gf 136 (269)
.-.+.|++|+. |...||+-|...|+.+|-+
T Consensus 40 ~G~Kvl~cGNG---------gSaadAqHfaael~gRf~~ 69 (176)
T COG0279 40 NGNKVLACGNG---------GSAADAQHFAAELTGRFEK 69 (176)
T ss_pred cCCEEEEECCC---------cchhhHHHHHHHHhhHHHh
Confidence 33578899963 4568999999999988744
No 89
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=41.07 E-value=17 Score=30.38 Aligned_cols=31 Identities=19% Similarity=0.500 Sum_probs=24.3
Q ss_pred ccCCCCCCceecCCCCceeeccccc-ceeeccCC
Q 024329 6 ERCSGCGRQLWLPPQAVAARCYACR-SVTSFPSS 38 (269)
Q Consensus 6 ~~c~~c~~~~~~~~~~~~~~c~~c~-~~~~~~~~ 38 (269)
..|+.||++|.= -.-.+-|++|. .++.+...
T Consensus 29 ~hCp~Cg~PLF~--KdG~v~CPvC~~~~~~v~~e 60 (131)
T COG1645 29 KHCPKCGTPLFR--KDGEVFCPVCGYREVVVEEE 60 (131)
T ss_pred hhCcccCCccee--eCCeEECCCCCceEEEeecc
Confidence 459999999877 45578899999 77766644
No 90
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=40.60 E-value=85 Score=25.32 Aligned_cols=46 Identities=26% Similarity=0.342 Sum_probs=34.0
Q ss_pred ceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccc
Q 024329 140 CVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSR 187 (269)
Q Consensus 140 ~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~ 187 (269)
+|.+|.|....- ...+..++++|+.+++...++|.+-|+..|+...
T Consensus 2 ~vvilvD~S~Sm--~g~~~~~k~al~~~l~~L~~~d~fnii~f~~~~~ 47 (155)
T PF13768_consen 2 DVVILVDTSGSM--SGEKELVKDALRAILRSLPPGDRFNIIAFGSSVR 47 (155)
T ss_pred eEEEEEeCCCCC--CCcHHHHHHHHHHHHHhCCCCCEEEEEEeCCEee
Confidence 577777764321 1222788889999999999999999998888754
No 91
>PRK05942 aspartate aminotransferase; Provisional
Probab=40.52 E-value=1.8e+02 Score=27.47 Aligned_cols=31 Identities=13% Similarity=0.206 Sum_probs=19.0
Q ss_pred CCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCC
Q 024329 211 EGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSG 243 (269)
Q Consensus 211 ~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG 243 (269)
.|. ++.+++.+++ +.. +...+++|+|-+|+.
T Consensus 183 tG~~~s~~~~~~i~-~~a-~~~~~~iI~De~y~~ 214 (394)
T PRK05942 183 TTATAPREFFEEIV-AFA-RKYEIMLVHDLCYAE 214 (394)
T ss_pred CCCcCCHHHHHHHH-HHH-HHcCeEEEEeccchh
Confidence 454 4556666654 322 235688999999863
No 92
>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=40.51 E-value=44 Score=32.24 Aligned_cols=53 Identities=25% Similarity=0.353 Sum_probs=31.8
Q ss_pred CCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccc
Q 024329 112 TNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSR 187 (269)
Q Consensus 112 ~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~ 187 (269)
...+|+.+. +.|..+|.+..++. -+++. .||.+++.++|. ..| +|.|.|||.-
T Consensus 268 P~gDL~~T~---~~~~~~~~~~~~w~-----g~~g~------~P~~~e~~~~l~-------~~d--lf~Y~GHG~G 320 (383)
T PF03568_consen 268 PSGDLKRTE---KRFEPFFKSWKGWK-----GIIGR------APTEEEFLQALT-------SSD--LFLYCGHGSG 320 (383)
T ss_pred CCCCHHHHH---HHHHHHHhcccCCC-----ceECC------CCCHHHHHHHHH-------hCC--eEEEecCCcH
Confidence 344565554 35666776544433 23343 389998888874 224 5568899984
No 93
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=39.98 E-value=3e+02 Score=26.27 Aligned_cols=106 Identities=19% Similarity=0.264 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHhhC-CCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEE---eccccccCCCC----
Q 024329 121 NDVKSMWFLLVRMLG-FPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHY---SGHGSRQKDYN---- 192 (269)
Q Consensus 121 nDA~~m~~~L~~~~G-f~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYF---SGHG~~~~d~~---- 192 (269)
.+...+++.+.+.+| .+.++|.+-.. ..+++..+-..+ +.+||.+++-. +-|........
T Consensus 57 ~~~~~l~~a~a~~~~~~~~~~V~~gnG----------sde~i~~l~~~~--~~~gd~vl~~~Ptf~~Y~~~a~~~g~~~~ 124 (356)
T COG0079 57 PDYRELRAALAEYYGVVDPENVLVGNG----------SDELIELLVRAF--VEPGDTVLIPEPTFSMYEIAAQLAGAEVV 124 (356)
T ss_pred CcHHHHHHHHHHHhCCCCcceEEEcCC----------hHHHHHHHHHHh--hcCCCEEEEcCCChHHHHHHHHhcCCeEE
Confidence 367778888888888 77777655332 355555554443 35789998863 22222211110
Q ss_pred ---CCC--CC--C--------Cc-ceeeccCCCCCCCChHHHHHHHHhccCCCCCeEEEEEeCCC
Q 024329 193 ---KDE--LD--G--------FD-ETICPLDHETEGPIIDDEINATIVRPLPRGAKLHAIIDSCY 241 (269)
Q Consensus 193 ---gde--~d--G--------~d-e~L~p~D~~~~g~I~~deL~~~L~~~l~~g~~l~vIlD~C~ 241 (269)
-++ .| . -+ -++|--+..+...+..++|.+++ +.++. +.++|||==|
T Consensus 125 ~v~~~~~~~d~~~~~~~~~~~~~lv~i~nPNNPTG~~~~~~~l~~l~-~~~~~--~~~vVvDEAY 186 (356)
T COG0079 125 KVPLKEFRLDLDAILAAIRDKTKLVFLCNPNNPTGTLLPREELRALL-EALPE--GGLVVIDEAY 186 (356)
T ss_pred EecccccccCHHHHHHhhhcCCCEEEEeCCCCCCCCCCCHHHHHHHH-HhCCC--CcEEEEeCch
Confidence 000 00 0 01 12221221222467888888876 45543 6779999766
No 94
>PTZ00377 alanine aminotransferase; Provisional
Probab=39.94 E-value=1.2e+02 Score=29.91 Aligned_cols=46 Identities=17% Similarity=0.318 Sum_probs=26.9
Q ss_pred HHHHHHHHHHhhCC--CCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEE
Q 024329 123 VKSMWFLLVRMLGF--PSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVF 179 (269)
Q Consensus 123 A~~m~~~L~~~~Gf--~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvf 179 (269)
-+.++++|.+++|+ ++++|.+ +.. +.+.|...+.-++. ++||.|++
T Consensus 121 R~aia~~~~~~~g~~~~~~~I~i-t~G--------a~~al~~~~~~l~~--~~gD~Vlv 168 (481)
T PTZ00377 121 RKAVAAFIERRDGVPKDPSDIFL-TDG--------ASSGIKLLLQLLIG--DPSDGVMI 168 (481)
T ss_pred HHHHHHHHHHhcCCCCChhhEEE-cCC--------HHHHHHHHHHHhcc--CCCCEEEE
Confidence 34567777655564 5677754 432 45555555554431 57898876
No 95
>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=39.89 E-value=54 Score=31.17 Aligned_cols=26 Identities=35% Similarity=0.474 Sum_probs=14.3
Q ss_pred ccHHHHHHHHHHHHHhCCCCCEEEEEEecccccc
Q 024329 155 PTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQ 188 (269)
Q Consensus 155 pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~ 188 (269)
.++++|.++|+. ...++.|.|||...
T Consensus 226 ~~~~~i~~~ln~--------G~~~v~y~GHG~~~ 251 (378)
T PF01364_consen 226 GTRDNIINALNQ--------GAGFVNYFGHGSPT 251 (378)
T ss_dssp --HHHHHHHHHH----------SEEEEES-B-SS
T ss_pred chHHHHHHHHhC--------CCeEEEEecCCchh
Confidence 467777777764 34466777999974
No 96
>PRK00420 hypothetical protein; Validated
Probab=39.65 E-value=25 Score=28.51 Aligned_cols=33 Identities=21% Similarity=0.323 Sum_probs=24.4
Q ss_pred cccCCCCCCceecCCCCceeecccccceeeccCC
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVTSFPSS 38 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~~~~ 38 (269)
.-.|+.|+.+|.=- ....+.|..|..+-.|...
T Consensus 23 ~~~CP~Cg~pLf~l-k~g~~~Cp~Cg~~~~v~~~ 55 (112)
T PRK00420 23 SKHCPVCGLPLFEL-KDGEVVCPVHGKVYIVKSD 55 (112)
T ss_pred cCCCCCCCCcceec-CCCceECCCCCCeeeeccH
Confidence 35699999987653 3337889999987777643
No 97
>PRK01642 cls cardiolipin synthetase; Reviewed
Probab=39.47 E-value=2.6e+02 Score=27.84 Aligned_cols=84 Identities=18% Similarity=0.206 Sum_probs=46.6
Q ss_pred HHHHHHHHHhhCCC---CcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCc
Q 024329 124 KSMWFLLVRMLGFP---SDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFD 200 (269)
Q Consensus 124 ~~m~~~L~~~~Gf~---~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~d 200 (269)
..+.+++.+..+++ ..++.+|++. ++..++|.+.+++++..=.+.+|+
T Consensus 98 ~~~~~~~~~~~~~~~~~~n~v~ll~~g----------~~~~~~l~~~I~~Ak~~I~l~~yi------------------- 148 (483)
T PRK01642 98 APLFRLCERLQGIPGLKGNQLRLLTNG----------DETFQAIIRDIELARHYILMEFYI------------------- 148 (483)
T ss_pred HHHHHHHHhccCCCccCCCEEEEEcCH----------HHHHHHHHHHHHHhhcEEEEEEEE-------------------
Confidence 44566665544553 3557777663 455666666666666422222222
Q ss_pred ceeeccCCCCCCCChHHHHHHHHhccCCCCCeEEEEEeCCCCCCC
Q 024329 201 ETICPLDHETEGPIIDDEINATIVRPLPRGAKLHAIIDSCYSGTV 245 (269)
Q Consensus 201 e~L~p~D~~~~g~I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~ 245 (269)
+-.| -...++.+.|.+....|++|-+++|.=.|...
T Consensus 149 ---~~~d------~~g~~i~~aL~~aa~rGV~VriL~D~~Gs~~~ 184 (483)
T PRK01642 149 ---WRPD------GLGDQVAEALIAAAKRGVRVRLLYDSIGSFAF 184 (483)
T ss_pred ---EccC------CcHHHHHHHHHHHHHCCCEEEEEEECCCCCCC
Confidence 1111 02345666666666789999999996444333
No 98
>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=39.04 E-value=2.5e+02 Score=24.99 Aligned_cols=58 Identities=19% Similarity=0.212 Sum_probs=33.3
Q ss_pred CChHHHHHHHHHHHHHhhCCC--CcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Q 024329 117 TGSINDVKSMWFLLVRMLGFP--SDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGS 186 (269)
Q Consensus 117 ~g~~nDA~~m~~~L~~~~Gf~--~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~ 186 (269)
.+...=.+.++++|...++++ .+++.+ ++. +...+..++..+ .++||.+++-=.+|+.
T Consensus 36 ~~~~~l~~~l~~~l~~~~~~~~~~~~~~~-~~~--------~t~a~~~~~~~~---~~~g~~vl~~~~~~~~ 95 (350)
T cd00609 36 PGLPELREAIAEWLGRRGGVDVPPEEIVV-TNG--------AQEALSLLLRAL---LNPGDEVLVPDPTYPG 95 (350)
T ss_pred CCcHHHHHHHHHHHHHHhCCCCCcceEEE-ecC--------cHHHHHHHHHHh---CCCCCEEEEcCCCchh
Confidence 343333456777776656653 334443 432 456666666655 3568988877667663
No 99
>PF14369 zf-RING_3: zinc-finger
Probab=38.15 E-value=23 Score=22.60 Aligned_cols=26 Identities=23% Similarity=0.627 Sum_probs=19.3
Q ss_pred ccCCCCCCceecCC-CCceeecccccc
Q 024329 6 ERCSGCGRQLWLPP-QAVAARCYACRS 31 (269)
Q Consensus 6 ~~c~~c~~~~~~~~-~~~~~~c~~c~~ 31 (269)
-+|=+|.+.+.+.+ +...+-|..|+.
T Consensus 3 ywCh~C~~~V~~~~~~~~~~~CP~C~~ 29 (35)
T PF14369_consen 3 YWCHQCNRFVRIAPSPDSDVACPRCHG 29 (35)
T ss_pred EeCccCCCEeEeCcCCCCCcCCcCCCC
Confidence 36899999888854 445556999973
No 100
>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=38.06 E-value=92 Score=25.12 Aligned_cols=75 Identities=19% Similarity=0.253 Sum_probs=47.3
Q ss_pred ceEEEEEeeCCCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEE
Q 024329 99 RKKALLCGVTYNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLV 178 (269)
Q Consensus 99 ~k~ALlIGInY~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lv 178 (269)
..+.|+-|-.-.+ ....+++.|+++|.+ .|.+.+.|.+..... -|.+|++...+++.+.-- ...++
T Consensus 35 ~~~ii~sGg~~~~------~~~~ea~~m~~~l~~-~gv~~~~I~~e~~s~------~T~ena~~~~~~~~~~~~-~~i~l 100 (150)
T cd06259 35 APKLIVSGGQGPG------EGYSEAEAMARYLIE-LGVPAEAILLEDRST------NTYENARFSAELLRERGI-RSVLL 100 (150)
T ss_pred CCEEEEcCCCCCC------CCCCHHHHHHHHHHH-cCCCHHHeeecCCCC------CHHHHHHHHHHHHHhcCC-CeEEE
Confidence 3455665643111 234789999999985 588887776543332 399999999998866422 35555
Q ss_pred EEEeccccc
Q 024329 179 FHYSGHGSR 187 (269)
Q Consensus 179 fYFSGHG~~ 187 (269)
+--.=|-.+
T Consensus 101 VTs~~H~~R 109 (150)
T cd06259 101 VTSAYHMPR 109 (150)
T ss_pred ECCHHHHHH
Confidence 544444443
No 101
>PRK08056 threonine-phosphate decarboxylase; Provisional
Probab=37.92 E-value=1.1e+02 Score=28.62 Aligned_cols=21 Identities=14% Similarity=0.265 Sum_probs=15.7
Q ss_pred HHHHHHHHHHhhCCCCcceEE
Q 024329 123 VKSMWFLLVRMLGFPSDCVVI 143 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~~~~I~l 143 (269)
...+++.+.+.+++++++|.+
T Consensus 57 ~~~lr~~ia~~~~~~~~~i~i 77 (356)
T PRK08056 57 YRHLHQALARHHQVPASWILA 77 (356)
T ss_pred HHHHHHHHHHHhCcChhhEEE
Confidence 356777777778898888754
No 102
>PLN03026 histidinol-phosphate aminotransferase; Provisional
Probab=37.80 E-value=96 Score=29.36 Aligned_cols=46 Identities=20% Similarity=0.307 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEE
Q 024329 123 VKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFH 180 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfY 180 (269)
...+++.+.+.+|+++++|.+ +.. +.+.|...+..+ +++||.|++.
T Consensus 88 ~~~lr~~ia~~~~~~~~~I~~-t~G--------a~~~i~~~~~~~---~~~gd~Vlv~ 133 (380)
T PLN03026 88 SRRLRAALAEDSGLESENILV-GCG--------ADELIDLLMRCV---LDPGDKIIDC 133 (380)
T ss_pred HHHHHHHHHHHhCcChhhEEE-cCC--------HHHHHHHHHHHh---cCCCCEEEEc
Confidence 346888888778998888854 442 344444444443 4689988874
No 103
>PRK06108 aspartate aminotransferase; Provisional
Probab=37.74 E-value=3.2e+02 Score=25.29 Aligned_cols=54 Identities=22% Similarity=0.249 Sum_probs=30.8
Q ss_pred ChHHHHHHHHHHHHHhhC--CCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEec
Q 024329 118 GSINDVKSMWFLLVRMLG--FPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSG 183 (269)
Q Consensus 118 g~~nDA~~m~~~L~~~~G--f~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSG 183 (269)
|...=-+.++++|.+.+| .++++|.+ +.. +.+.+..++..+ +++||.|++---.
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 333334557777766567 67778765 332 334455555544 4688988764333
No 104
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=37.51 E-value=13 Score=39.25 Aligned_cols=34 Identities=29% Similarity=0.599 Sum_probs=27.6
Q ss_pred cccCCCCCCce----ecCCCCceeecccccceeeccCC
Q 024329 5 VERCSGCGRQL----WLPPQAVAARCYACRSVTSFPSS 38 (269)
Q Consensus 5 ~~~c~~c~~~~----~~~~~~~~~~c~~c~~~~~~~~~ 38 (269)
.+||.+|+.++ +.-.+-+..||.+|+.+..|...
T Consensus 199 ivRCrrCrsYiNPfv~fi~~g~kw~CNiC~~kN~vp~~ 236 (861)
T COG5028 199 IVRCRRCRSYINPFVQFIEQGRKWRCNICRSKNDVPEG 236 (861)
T ss_pred chhhhhhHhhcCceEEEecCCcEEEEeeccccccCccc
Confidence 58999999864 35567779999999999988854
No 105
>PRK09440 avtA valine--pyruvate transaminase; Provisional
Probab=37.39 E-value=2.8e+02 Score=26.29 Aligned_cols=31 Identities=23% Similarity=0.403 Sum_probs=20.1
Q ss_pred CCC-CChHHHHHHHHhccCCCCCeEEEEEeCCCC
Q 024329 210 TEG-PIIDDEINATIVRPLPRGAKLHAIIDSCYS 242 (269)
Q Consensus 210 ~~g-~I~~deL~~~L~~~l~~g~~l~vIlD~C~S 242 (269)
+.| .++.+++.+++ +.. ....+++|.|-+|+
T Consensus 191 PTG~~~s~~~~~~l~-~~a-~~~~~~iI~De~Y~ 222 (416)
T PRK09440 191 PTGNVLTDEELEKLD-ALA-RQHNIPLLIDNAYG 222 (416)
T ss_pred CCCccCCHHHHHHHH-HHH-HHcCCcEEEeCCcc
Confidence 345 44667777755 322 23567899999996
No 106
>PLN02368 alanine transaminase
Probab=37.11 E-value=1.3e+02 Score=29.14 Aligned_cols=35 Identities=11% Similarity=0.267 Sum_probs=22.9
Q ss_pred CCCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCC
Q 024329 210 TEGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSGTVL 246 (269)
Q Consensus 210 ~~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~ 246 (269)
+.|. ++.+++.+++ +.. +...+++|.|=+|+.-..
T Consensus 222 PTG~v~s~e~l~~l~-~~a-~~~~~~II~DE~Y~~l~y 257 (407)
T PLN02368 222 PTGQCLSEANLREIL-KFC-YQERLVLLGDEVYQQNIY 257 (407)
T ss_pred CCCccCCHHHHHHHH-HHH-HHcCCEEEEEcccccccc
Confidence 4554 4677776655 322 234688999999987654
No 107
>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=36.56 E-value=25 Score=24.12 Aligned_cols=31 Identities=16% Similarity=0.381 Sum_probs=19.8
Q ss_pred ccCCC--CCCceecCCCCce--eecccccceeecc
Q 024329 6 ERCSG--CGRQLWLPPQAVA--ARCYACRSVTSFP 36 (269)
Q Consensus 6 ~~c~~--c~~~~~~~~~~~~--~~c~~c~~~~~~~ 36 (269)
..|.+ |+..+.+..+... ++|..|+...=..
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~ 53 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFK 53 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSS
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccc
Confidence 47977 9999999998887 9999998665433
No 108
>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=36.40 E-value=2e+02 Score=26.81 Aligned_cols=56 Identities=16% Similarity=0.150 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Q 024329 122 DVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGS 186 (269)
Q Consensus 122 DA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~ 186 (269)
-.+.+++.+.+.+|.+.++|.+ +.. +...+...+..+....++||.|++.-.+|..
T Consensus 61 ~~~~l~~~ia~~~~~~~~~v~~-~~~--------~t~~l~~~~~~~~~~~~~gd~vl~~~~~~~s 116 (397)
T TIGR01976 61 VVDDAREAVADLLNADPPEVVF-GAN--------ATSLTFLLSRAISRRWGPGDEVIVTRLDHEA 116 (397)
T ss_pred HHHHHHHHHHHHcCCCCCeEEE-eCC--------HHHHHHHHHHHHHhcCCCCCEEEEcCCchHh
Confidence 3556777777777877666543 332 2233333333333346789988876656633
No 109
>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=36.12 E-value=28 Score=24.86 Aligned_cols=27 Identities=19% Similarity=0.401 Sum_probs=20.1
Q ss_pred ccCCCCCCceecCCCCceeecccccce
Q 024329 6 ERCSGCGRQLWLPPQAVAARCYACRSV 32 (269)
Q Consensus 6 ~~c~~c~~~~~~~~~~~~~~c~~c~~~ 32 (269)
-.|+.||....-....+...|..|...
T Consensus 29 q~C~~CG~~~~~~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 29 QTCPRCGHRNKKRRSGRVFTCPNCGFE 55 (69)
T ss_pred cCccCcccccccccccceEEcCCCCCE
Confidence 348888887766677788888888754
No 110
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=35.88 E-value=39 Score=21.34 Aligned_cols=30 Identities=23% Similarity=0.476 Sum_probs=23.2
Q ss_pred ccccCCCCCCceecCCCCceeeccccccee
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~ 33 (269)
-+..|+.|+..+.+-....-..|..|..++
T Consensus 2 ~~~~C~~C~~~~i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 2 NLKKCSKCGGNGIVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred CceEcCCCCCCeEEEecCCeEEcccCCcEe
Confidence 356799999998886556677799998765
No 111
>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=35.11 E-value=35 Score=22.37 Aligned_cols=29 Identities=24% Similarity=0.631 Sum_probs=21.4
Q ss_pred ccCCCCCCc-eecCCCCceeecccccceee
Q 024329 6 ERCSGCGRQ-LWLPPQAVAARCYACRSVTS 34 (269)
Q Consensus 6 ~~c~~c~~~-~~~~~~~~~~~c~~c~~~~~ 34 (269)
+.|+.|+.. +..-.....+-|..|..|-.
T Consensus 1 m~Cp~Cg~~~~~~D~~~g~~vC~~CG~Vl~ 30 (43)
T PF08271_consen 1 MKCPNCGSKEIVFDPERGELVCPNCGLVLE 30 (43)
T ss_dssp ESBTTTSSSEEEEETTTTEEEETTT-BBEE
T ss_pred CCCcCCcCCceEEcCCCCeEECCCCCCEee
Confidence 369999997 45566777889999976653
No 112
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=35.09 E-value=28 Score=24.16 Aligned_cols=24 Identities=38% Similarity=0.803 Sum_probs=17.6
Q ss_pred cCCCCCCceecCC--------CCceeecccccce
Q 024329 7 RCSGCGRQLWLPP--------QAVAARCYACRSV 32 (269)
Q Consensus 7 ~c~~c~~~~~~~~--------~~~~~~c~~c~~~ 32 (269)
.|+.|+. .+|+ +..-+.|..|+++
T Consensus 24 ~C~gC~~--~l~~~~~~~i~~~~~i~~Cp~CgRi 55 (56)
T PF02591_consen 24 TCSGCHM--ELPPQELNEIRKGDEIVFCPNCGRI 55 (56)
T ss_pred ccCCCCE--EcCHHHHHHHHcCCCeEECcCCCcc
Confidence 5999964 5554 5578999999864
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=34.11 E-value=31 Score=28.16 Aligned_cols=17 Identities=35% Similarity=0.645 Sum_probs=12.2
Q ss_pred HHHhCCCCCEEEEEEec
Q 024329 167 LAQDCQPGDSLVFHYSG 183 (269)
Q Consensus 167 L~~~~~~gD~lvfYFSG 183 (269)
.++++++||.++||-||
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 44578999999999999
No 114
>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=32.78 E-value=2.6e+02 Score=26.47 Aligned_cols=56 Identities=16% Similarity=0.229 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHH-hCCCCCEEEEEEecccc
Q 024329 122 DVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQ-DCQPGDSLVFHYSGHGS 186 (269)
Q Consensus 122 DA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~-~~~~gD~lvfYFSGHG~ 186 (269)
-.+.+++.|.+.+|.++++|.+ +.. +.+.+..++..+.. ..++||.|++--..|..
T Consensus 48 ~~~~~r~~la~~~g~~~~~v~~-~~g--------~t~a~~~~l~~l~~~~~~~g~~Vi~~~~~h~s 104 (402)
T TIGR02006 48 AVENARNQVAELIGADSREIVF-TSG--------ATESNNLAIKGIAHFYKSKGNHIITSKTEHKA 104 (402)
T ss_pred HHHHHHHHHHHHhCCCCCeEEE-eCC--------HHHHHHHHHHHHHHhhcCCCCEEEECCCccHH
Confidence 3556677777777887777644 432 23334434443332 23578988876556653
No 115
>PRK09814 beta-1,6-galactofuranosyltransferase; Provisional
Probab=32.70 E-value=1.1e+02 Score=28.27 Aligned_cols=54 Identities=13% Similarity=0.246 Sum_probs=34.1
Q ss_pred HHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecc
Q 024329 124 KSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGH 184 (269)
Q Consensus 124 ~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGH 184 (269)
.+|.+.|. +.||+.-.+..-.+.. -...++...++.++.+.++||.|+|++...
T Consensus 22 ~d~~~~~~-~~g~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~Dvv~~~~P~~ 75 (333)
T PRK09814 22 NDVTKIAK-QLGFEELGIYFYNIKR------DSLSERSKRLDGILASLKPGDIVIFQFPTW 75 (333)
T ss_pred HHHHHHHH-HCCCeEeEEEeccccc------chHHHHHHHHHHHHhcCCCCCEEEEECCCC
Confidence 34666675 4799864443321111 124556667777788899999999988654
No 116
>PLN00162 transport protein sec23; Provisional
Probab=31.76 E-value=33 Score=36.40 Aligned_cols=35 Identities=29% Similarity=0.405 Sum_probs=28.6
Q ss_pred ccccCCCCCCce----ecCCCCceeecccccceeeccCC
Q 024329 4 RVERCSGCGRQL----WLPPQAVAARCYACRSVTSFPSS 38 (269)
Q Consensus 4 ~~~~c~~c~~~~----~~~~~~~~~~c~~c~~~~~~~~~ 38 (269)
..++|.+|++.| .+-.+.+..+|.+|...+.+...
T Consensus 52 ~pvRC~~CraylNPf~~~d~~~~~W~C~~C~~~N~~P~~ 90 (761)
T PLN00162 52 DPLRCRTCRAVLNPYCRVDFQAKIWICPFCFQRNHFPPH 90 (761)
T ss_pred CCCccCCCcCEECCceEEecCCCEEEccCCCCCCCCchH
Confidence 468999999964 55578899999999988887754
No 117
>PRK13772 formimidoylglutamase; Provisional
Probab=31.71 E-value=1.3e+02 Score=28.18 Aligned_cols=53 Identities=11% Similarity=0.145 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCcceeecc-CCCCCCCChHHHHHHHHh
Q 024329 159 NIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPL-DHETEGPIIDDEINATIV 224 (269)
Q Consensus 159 nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~-D~~~~g~I~~deL~~~L~ 224 (269)
.+...++.+.+.++..|.++|-| | .|++|..++|- ....-|.++..|+.++|.
T Consensus 223 g~~~~~~~i~~~l~~~~~vylS~--------D-----iD~lDps~aPGvgtP~pgGlt~~e~~~il~ 276 (314)
T PRK13772 223 HLDARLAELDALLDAADHVYLTI--------D-----LDVLPAAVAPGVSAPAAYGVPLPVVEEIVL 276 (314)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEE--------E-----ecCcCcccCCCCCCCCCCCCCHHHHHHHHH
Confidence 35555555555444457777766 2 35778888884 444556788999988773
No 118
>PRK12452 cardiolipin synthetase; Reviewed
Probab=31.68 E-value=4.7e+02 Score=26.34 Aligned_cols=85 Identities=13% Similarity=0.148 Sum_probs=48.0
Q ss_pred HHHHHHHHHHHHhhCCC---CcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCC
Q 024329 121 NDVKSMWFLLVRMLGFP---SDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELD 197 (269)
Q Consensus 121 nDA~~m~~~L~~~~Gf~---~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~d 197 (269)
.+...+.+++....+++ ..++.+|++. ++...++-+.+++++.. +.+-||
T Consensus 119 ~~~~~l~~~~~~~~~~p~~~~n~~~ll~~g----------~~~~~~l~~~I~~Ak~~-I~i~~y---------------- 171 (509)
T PRK12452 119 ERSVHLTEVVQKFGGGPAADRTTTKLLTNG----------DQTFSEILQAIEQAKHH-IHIQYY---------------- 171 (509)
T ss_pred hhHHHHHHHHHhccCCcccCCCEEEEeCCH----------HHHHHHHHHHHHHhCCE-EEEEEE----------------
Confidence 33455667776555554 3567787764 44555666666666632 222233
Q ss_pred CCcceeeccCCCCCCCChHHHHHHHHhccCCCCCeEEEEEeCCCCC
Q 024329 198 GFDETICPLDHETEGPIIDDEINATIVRPLPRGAKLHAIIDSCYSG 243 (269)
Q Consensus 198 G~de~L~p~D~~~~g~I~~deL~~~L~~~l~~g~~l~vIlD~C~SG 243 (269)
++-.| -..+++.+.|.+...+|++|-+++|.=.|.
T Consensus 172 -----i~~~d------~~g~~i~~aL~~aa~rGV~VRiL~D~~Gs~ 206 (509)
T PRK12452 172 -----IYKSD------EIGTKVRDALIKKAKDGVIVRFLYDGLGSN 206 (509)
T ss_pred -----EEeCC------cHHHHHHHHHHHHHHCCCEEEEEEECCCCC
Confidence 11111 123456666666666899999999966543
No 119
>PF14353 CpXC: CpXC protein
Probab=31.61 E-value=50 Score=26.52 Aligned_cols=33 Identities=15% Similarity=0.400 Sum_probs=23.9
Q ss_pred ccCCCCCCceecCC------C-------------CceeecccccceeeccCC
Q 024329 6 ERCSGCGRQLWLPP------Q-------------AVAARCYACRSVTSFPSS 38 (269)
Q Consensus 6 ~~c~~c~~~~~~~~------~-------------~~~~~c~~c~~~~~~~~~ 38 (269)
+.|.+|++...+.- . --.+.|..|+...++.-+
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p 53 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYP 53 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCC
Confidence 68999999766541 1 138999999988777643
No 120
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=31.44 E-value=34 Score=20.75 Aligned_cols=21 Identities=33% Similarity=0.642 Sum_probs=13.3
Q ss_pred cCCCCCCceecCCCCceeecc
Q 024329 7 RCSGCGRQLWLPPQAVAARCY 27 (269)
Q Consensus 7 ~c~~c~~~~~~~~~~~~~~c~ 27 (269)
+|.-|++.|.-..|...+||.
T Consensus 1 ~CP~C~s~l~~~~~ev~~~C~ 21 (28)
T PF03119_consen 1 TCPVCGSKLVREEGEVDIRCP 21 (28)
T ss_dssp B-TTT--BEEE-CCTTCEEE-
T ss_pred CcCCCCCEeEcCCCCEeEECC
Confidence 588999998888888788884
No 121
>PRK00809 hypothetical protein; Provisional
Probab=31.42 E-value=44 Score=28.04 Aligned_cols=20 Identities=30% Similarity=0.536 Sum_probs=15.6
Q ss_pred HHHhCCCCCEEEEEEec-ccc
Q 024329 167 LAQDCQPGDSLVFHYSG-HGS 186 (269)
Q Consensus 167 L~~~~~~gD~lvfYFSG-HG~ 186 (269)
.+++.++||.++||-|+ +|.
T Consensus 31 ~lr~Mk~GD~v~fYhs~~~~~ 51 (144)
T PRK00809 31 TIEKVKPGDKLIIYVSQEYGA 51 (144)
T ss_pred HHhhCCCCCEEEEEECCccCC
Confidence 44468999999999998 443
No 122
>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=31.31 E-value=43 Score=22.26 Aligned_cols=22 Identities=27% Similarity=0.751 Sum_probs=16.4
Q ss_pred ccCCCCCCceecCCCCceeecccccc
Q 024329 6 ERCSGCGRQLWLPPQAVAARCYACRS 31 (269)
Q Consensus 6 ~~c~~c~~~~~~~~~~~~~~c~~c~~ 31 (269)
|.|++|++++ .| ..++|..|..
T Consensus 1 v~Cd~C~~~i---~G-~ry~C~~C~d 22 (43)
T cd02340 1 VICDGCQGPI---VG-VRYKCLVCPD 22 (43)
T ss_pred CCCCCCCCcC---cC-CeEECCCCCC
Confidence 5799999822 34 5899999973
No 123
>PRK14873 primosome assembly protein PriA; Provisional
Probab=31.03 E-value=31 Score=36.02 Aligned_cols=28 Identities=32% Similarity=0.632 Sum_probs=23.6
Q ss_pred cccCCCCCCceecCCCCceeecccccce
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSV 32 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~ 32 (269)
..+|.+|..+|.+..+....+|..|...
T Consensus 392 ~~~C~~C~~~L~~h~~~~~l~Ch~CG~~ 419 (665)
T PRK14873 392 PARCRHCTGPLGLPSAGGTPRCRWCGRA 419 (665)
T ss_pred eeECCCCCCceeEecCCCeeECCCCcCC
Confidence 4679999999999888788999999863
No 124
>PRK05957 aspartate aminotransferase; Provisional
Probab=30.99 E-value=4.2e+02 Score=24.94 Aligned_cols=51 Identities=18% Similarity=0.288 Sum_probs=30.0
Q ss_pred CChHHHHHHHHHHHHHhhCCC---CcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEE
Q 024329 117 TGSINDVKSMWFLLVRMLGFP---SDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVF 179 (269)
Q Consensus 117 ~g~~nDA~~m~~~L~~~~Gf~---~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvf 179 (269)
.|...-.+.++++|.+.+|++ .++|.+ +.. +...|...+..+ +++||.|++
T Consensus 65 ~G~~~lr~~~~~~l~~~~g~~~~~~~~i~~-t~G--------~~~~l~~~~~~~---~~~gd~Vlv 118 (389)
T PRK05957 65 QGIPPLLEAITQKLQQDNGIELNNEQAIVV-TAG--------SNMAFMNAILAI---TDPGDEIIL 118 (389)
T ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCeEEE-eCC--------hHHHHHHHHHHh---cCCCCEEEE
Confidence 444455567888887667874 445644 432 334444444444 468998875
No 125
>PRK01722 formimidoylglutamase; Provisional
Probab=30.91 E-value=86 Score=29.36 Aligned_cols=66 Identities=20% Similarity=0.226 Sum_probs=39.3
Q ss_pred HHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCcceeeccC-CCCCCCChHHHHHHHHhccCCCCCeEEEEEe
Q 024329 160 IRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLD-HETEGPIIDDEINATIVRPLPRGAKLHAIID 238 (269)
Q Consensus 160 I~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D-~~~~g~I~~deL~~~L~~~l~~g~~l~vIlD 238 (269)
+...++++.+..+..|.|+|.| | .|.+|..+.|-- ....|.++..|+.++| +.+....++ +=+|
T Consensus 223 ~~~~~~~~~~~i~~~~~vyvS~--------D-----iDvlDps~aPgtgtp~pgGls~~e~~~il-~~l~~~~~v-vg~D 287 (320)
T PRK01722 223 LKDILTELQEFIDQVDYIYLTI--------D-----LDVLPAAEAPGVSAPAAGGVPLETLLRAI-EPICRSGKL-QAAD 287 (320)
T ss_pred HHHHHHHHHHHHhcCCeEEEEE--------E-----ecCcChhhCCCCCCCcCCCCCHHHHHHHH-HHHHhcCCE-EEEE
Confidence 4445555554444467888888 2 356777777753 3345778899998877 444223344 4445
Q ss_pred CC
Q 024329 239 SC 240 (269)
Q Consensus 239 ~C 240 (269)
-|
T Consensus 288 iv 289 (320)
T PRK01722 288 LV 289 (320)
T ss_pred EE
Confidence 33
No 126
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=30.90 E-value=55 Score=23.63 Aligned_cols=29 Identities=28% Similarity=0.595 Sum_probs=21.4
Q ss_pred ccccCCCCCCceecCCCCceeecccccce
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACRSV 32 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~~~ 32 (269)
+...|..|+..|.--..+..+-|..|..+
T Consensus 6 ~~~~CtSCg~~i~~~~~~~~F~CPnCG~~ 34 (59)
T PRK14890 6 EPPKCTSCGIEIAPREKAVKFLCPNCGEV 34 (59)
T ss_pred cCccccCCCCcccCCCccCEeeCCCCCCe
Confidence 44569999998843333788889999765
No 127
>PRK06959 putative threonine-phosphate decarboxylase; Provisional
Probab=30.86 E-value=2.2e+02 Score=26.45 Aligned_cols=105 Identities=16% Similarity=0.174 Sum_probs=51.8
Q ss_pred HHHHHHHHHhhCCCC-cceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEE--Eec-------cccccCCCCC
Q 024329 124 KSMWFLLVRMLGFPS-DCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFH--YSG-------HGSRQKDYNK 193 (269)
Q Consensus 124 ~~m~~~L~~~~Gf~~-~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfY--FSG-------HG~~~~d~~g 193 (269)
..+++.|.+.+|.+. ++|.+ ++- + .++...+..+ +++||+++.- |++ +|........
T Consensus 56 ~~L~~~ia~~~~~~~~~~I~i-~~G--------s-~e~i~~l~~~---~~~g~v~v~~P~y~~y~~~~~~~g~~~~~v~~ 122 (339)
T PRK06959 56 DGLAACAARYYGAPDAAHVLP-VAG--------S-QAAIRALPAL---LPRGRVGIAPLAYSEYAPAFARHGHRVVPLDE 122 (339)
T ss_pred HHHHHHHHHHhCCCCcccEEE-CcC--------H-HHHHHHHHHh---cCCCeEEEcCCCcHHHHHHHHHCCCEEEeecc
Confidence 678899988899974 67754 432 2 3333344333 4677754421 332 2322211111
Q ss_pred CC---CCCCcc-eeeccCCCCCC-CChHHHHHHHHhccCCCCCeEEEEEeCCCCCC
Q 024329 194 DE---LDGFDE-TICPLDHETEG-PIIDDEINATIVRPLPRGAKLHAIIDSCYSGT 244 (269)
Q Consensus 194 de---~dG~de-~L~p~D~~~~g-~I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~ 244 (269)
++ .+..+- ++|-.+ .+.| .++.+++.+++. .+.+ ...++|+|=.|..-
T Consensus 123 ~~~~~~~~~~~v~l~nPn-NPTG~~~s~~~l~~l~~-~~~~-~~~~vI~DEay~~~ 175 (339)
T PRK06959 123 AADTLPAALTHLIVVNPN-NPTAERLPAARLLRWHA-QLAA-RGGTLIVDEAFADT 175 (339)
T ss_pred cchhccccCCEEEEeCCC-CCCCCCCCHHHHHHHHH-HHHH-cCCEEEEECCCccC
Confidence 10 001111 122222 3445 457777877653 2221 24567889998864
No 128
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=30.71 E-value=39 Score=27.47 Aligned_cols=20 Identities=30% Similarity=0.883 Sum_probs=17.5
Q ss_pred CCCCCCceecCCCCceeecccccc
Q 024329 8 CSGCGRQLWLPPQAVAARCYACRS 31 (269)
Q Consensus 8 c~~c~~~~~~~~~~~~~~c~~c~~ 31 (269)
|+-|+..|.| +..+|..|+.
T Consensus 1 CPvCg~~l~v----t~l~C~~C~t 20 (113)
T PF09862_consen 1 CPVCGGELVV----TRLKCPSCGT 20 (113)
T ss_pred CCCCCCceEE----EEEEcCCCCC
Confidence 8999999987 6899999983
No 129
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=30.65 E-value=24 Score=28.54 Aligned_cols=29 Identities=17% Similarity=0.291 Sum_probs=18.9
Q ss_pred ccccCCCCCCceecCCCCceeeccccccee
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~ 33 (269)
...+|..|+....+. .....+|..|++..
T Consensus 70 ~~~~C~~Cg~~~~~~-~~~~~~CP~Cgs~~ 98 (117)
T PRK00564 70 VELECKDCSHVFKPN-ALDYGVCEKCHSKN 98 (117)
T ss_pred CEEEhhhCCCccccC-CccCCcCcCCCCCc
Confidence 356799999654443 22345699998653
No 130
>COG2830 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.61 E-value=42 Score=29.54 Aligned_cols=38 Identities=24% Similarity=0.447 Sum_probs=23.0
Q ss_pred CCCCCEEEEEEeccccccCCCCC-CCCCCCcceeeccCCC
Q 024329 171 CQPGDSLVFHYSGHGSRQKDYNK-DELDGFDETICPLDHE 209 (269)
Q Consensus 171 ~~~gD~lvfYFSGHG~~~~d~~g-de~dG~de~L~p~D~~ 209 (269)
++.||.|++||+|-|..-...+. -....+| .++.+|++
T Consensus 7 ~~qgd~LIvyFaGwgtpps~v~HLilpeN~d-l~lcYDY~ 45 (214)
T COG2830 7 CKQGDHLIVYFAGWGTPPSAVNHLILPENHD-LLLCYDYQ 45 (214)
T ss_pred ecCCCEEEEEEecCCCCHHHHhhccCCCCCc-EEEEeehh
Confidence 45789999999999987543221 0011222 45667765
No 131
>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=30.44 E-value=1.6e+02 Score=28.17 Aligned_cols=32 Identities=19% Similarity=0.228 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHhCCCCCEEEEEEecccccc
Q 024329 157 KQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQ 188 (269)
Q Consensus 157 k~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~ 188 (269)
-..-..++..+.+...+++.|++.|+|||...
T Consensus 330 sgaalAa~~~~~~~~~~~~~Vv~i~~g~G~k~ 361 (365)
T cd06446 330 SSHAIAYAIKLAKKLGKEKVIVVNLSGRGDKD 361 (365)
T ss_pred chHHHHHHHHHHHhcCCCCeEEEEeCCCCccc
Confidence 33334444445555567889999999999764
No 132
>PRK07337 aminotransferase; Validated
Probab=30.38 E-value=2.6e+02 Score=26.21 Aligned_cols=46 Identities=17% Similarity=0.257 Sum_probs=27.2
Q ss_pred HHHHHHHHHhhC--CCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEE
Q 024329 124 KSMWFLLVRMLG--FPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHY 181 (269)
Q Consensus 124 ~~m~~~L~~~~G--f~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYF 181 (269)
+.++++|...+| +++++|.+ +.. +.+.|...+.-+ +++||.|++--
T Consensus 74 ~~ia~~~~~~~~~~~~~~~i~~-t~G--------~~~al~~~~~~l---~~~gd~Vlv~~ 121 (388)
T PRK07337 74 EAIAAWYARRFGLDVAPERIVV-TAG--------ASAALLLACLAL---VERGDEVLMPD 121 (388)
T ss_pred HHHHHHHHHHhCCCCChHhEEE-ecC--------cHHHHHHHHHHh---cCCCCEEEEeC
Confidence 456777765555 46777654 432 344444444444 46899888743
No 133
>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=30.22 E-value=40 Score=22.98 Aligned_cols=23 Identities=26% Similarity=0.729 Sum_probs=17.2
Q ss_pred ccCCCCC-CceecCCCCceeecccccce
Q 024329 6 ERCSGCG-RQLWLPPQAVAARCYACRSV 32 (269)
Q Consensus 6 ~~c~~c~-~~~~~~~~~~~~~c~~c~~~ 32 (269)
|.|..|+ .++. | ..++|..|..+
T Consensus 1 i~C~~C~~~~i~---g-~R~~C~~C~d~ 24 (49)
T cd02338 1 VSCDGCGKSNFT---G-RRYKCLICYDY 24 (49)
T ss_pred CCCCCCcCCCcE---E-eeEEeCCCCCC
Confidence 5799999 5565 4 67899999643
No 134
>PRK09428 pssA phosphatidylserine synthase; Provisional
Probab=30.14 E-value=3.2e+02 Score=27.22 Aligned_cols=75 Identities=13% Similarity=0.100 Sum_probs=47.3
Q ss_pred HHHHHHh--hCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCcceee
Q 024329 127 WFLLVRM--LGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETIC 204 (269)
Q Consensus 127 ~~~L~~~--~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~ 204 (269)
+..|.+- +....+++.+|++ -+++..+|-+.+++++.-=.+..||-+.+..
T Consensus 11 ~~~~~~l~~~~~~~~~v~~l~~----------~~~f~~~Ll~~I~~Ak~~I~l~~y~~~~D~~----------------- 63 (451)
T PRK09428 11 QQHLAQLPKIPQSPDDVETLYS----------PADFRETLLEKIASAKKRIYIVALYLEDDEA----------------- 63 (451)
T ss_pred HHHHHhCCCcccCcccEEEEcC----------HHHHHHHHHHHHHhcCCeEEEEEEEecCCch-----------------
Confidence 3455442 3345678888876 3568888888888887654555555443321
Q ss_pred ccCCCCCCCChHHHHHHHHhccC--CCCCeEEEEEeC
Q 024329 205 PLDHETEGPIIDDEINATIVRPL--PRGAKLHAIIDS 239 (269)
Q Consensus 205 p~D~~~~g~I~~deL~~~L~~~l--~~g~~l~vIlD~ 239 (269)
..+|.+.|.+.. ..|++|.+++|.
T Consensus 64 -----------g~~il~AL~~a~~~~~gv~VrvLvD~ 89 (451)
T PRK09428 64 -----------GREILDALYQAKQQNPELDIKVLVDW 89 (451)
T ss_pred -----------HHHHHHHHHHHHhcCCCcEEEEEEEc
Confidence 245555564442 368999999997
No 135
>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=30.13 E-value=2.5e+02 Score=21.43 Aligned_cols=54 Identities=11% Similarity=0.194 Sum_probs=35.0
Q ss_pred HHHHHHHHHHhhCCCC-cceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEec
Q 024329 123 VKSMWFLLVRMLGFPS-DCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSG 183 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~~-~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSG 183 (269)
+..+..+|+++.+..+ +.|.+..+.. ..|+..+....| -+.-+.++.|++.||+
T Consensus 28 v~~~~~~lrk~L~l~~~~slflyvnn~----f~p~~d~~~g~L---Y~~~~~dGfLyi~Ys~ 82 (87)
T cd01612 28 FQAVIDFLRKRLKLKASDSLFLYINNS----FAPSPDENVGNL---YRCFGTNGELIVSYCK 82 (87)
T ss_pred HHHHHHHHHHHhCCCccCeEEEEECCc----cCCCchhHHHHH---HHhcCCCCEEEEEEeC
Confidence 4457788888888754 4577777753 125554444444 3333578899999986
No 136
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=29.54 E-value=19 Score=29.31 Aligned_cols=33 Identities=24% Similarity=0.539 Sum_probs=27.9
Q ss_pred cccCCCCCCceecCCCCceeecccccceeeccC
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVTSFPS 37 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~~~ 37 (269)
+.-|+.||.-|.+|.-...+-|..|...-.|..
T Consensus 7 ~~FC~~CG~ll~~~~~~~~~~C~~Ck~~~~v~~ 39 (116)
T KOG2907|consen 7 LDFCSDCGSLLEEPSAQSTVLCIRCKIEYPVSQ 39 (116)
T ss_pred cchhhhhhhhcccccccCceEeccccccCCHHH
Confidence 567999999999999888888999987666653
No 137
>PRK13355 bifunctional HTH-domain containing protein/aminotransferase; Provisional
Probab=29.39 E-value=3e+02 Score=27.32 Aligned_cols=31 Identities=16% Similarity=0.234 Sum_probs=19.7
Q ss_pred CCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCC
Q 024329 211 EGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSG 243 (269)
Q Consensus 211 ~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG 243 (269)
.|. ++.+++.+++ +.. +...+++|.|-+|+.
T Consensus 294 TG~v~~~~~l~~i~-~~a-~~~~~~ii~DE~Y~~ 325 (517)
T PRK13355 294 TGALYPREVLQQIV-DIA-REHQLIIFSDEIYDR 325 (517)
T ss_pred CCcCcCHHHHHHHH-HHH-HHcCcEEEEehhhhh
Confidence 454 4566676654 332 224688999999874
No 138
>PRK09257 aromatic amino acid aminotransferase; Provisional
Probab=29.09 E-value=3.4e+02 Score=25.58 Aligned_cols=54 Identities=13% Similarity=0.121 Sum_probs=28.4
Q ss_pred CChHHHHHHHHHHHHHhhC--CCCcce-EEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEE
Q 024329 117 TGSINDVKSMWFLLVRMLG--FPSDCV-VILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVF 179 (269)
Q Consensus 117 ~g~~nDA~~m~~~L~~~~G--f~~~~I-~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvf 179 (269)
.|...=-+.++++|.+..+ ..+++| .++|.- +.+.|.-+++- +..+++||.|++
T Consensus 69 ~G~~~lR~aia~~~~~~~~~~~~~~~i~v~iT~G--------a~~al~~~~~~-l~~~~pGd~Vlv 125 (396)
T PRK09257 69 EGLAAYRQAVQELLFGADSPALAAGRVATVQTPG--------GTGALRVGADF-LKRAFPDAKVWV 125 (396)
T ss_pred CCCHHHHHHHHHHhcCCCCcccccCeEEEEecCC--------ccHHHHHHHHH-HHHhCCCCeEEE
Confidence 4444444567777754433 256676 234432 23444444432 233478998886
No 139
>PRK07550 hypothetical protein; Provisional
Probab=28.98 E-value=4.5e+02 Score=24.58 Aligned_cols=45 Identities=24% Similarity=0.311 Sum_probs=25.8
Q ss_pred HHHHHHHHHhhC--CCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEE
Q 024329 124 KSMWFLLVRMLG--FPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFH 180 (269)
Q Consensus 124 ~~m~~~L~~~~G--f~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfY 180 (269)
+.+++.|.+.+| .++++|.+ +.. +.+.|...++.+ +++||.|++-
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 55677654 432 334444444444 4689988764
No 140
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 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 domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=28.84 E-value=36 Score=20.51 Aligned_cols=26 Identities=19% Similarity=0.363 Sum_probs=14.5
Q ss_pred cCCCCCCcee--cCCCCceeecccccce
Q 024329 7 RCSGCGRQLW--LPPQAVAARCYACRSV 32 (269)
Q Consensus 7 ~c~~c~~~~~--~~~~~~~~~c~~c~~~ 32 (269)
.|.+|+..+. .-.+..+.-|..|+.|
T Consensus 3 ~C~rC~~~~~~~~~~~r~~~~C~rCq~v 30 (30)
T PF06827_consen 3 KCPRCWNYIEDIGINGRSTYLCPRCQKV 30 (30)
T ss_dssp B-TTT--BBEEEEETTEEEEE-TTTCCH
T ss_pred cCccCCCcceEeEecCCCCeECcCCcCC
Confidence 5889988753 2245568889998754
No 141
>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=28.73 E-value=29 Score=27.86 Aligned_cols=27 Identities=19% Similarity=0.465 Sum_probs=19.1
Q ss_pred cccCCCCCCceecCCCCceeeccccccee
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~ 33 (269)
..+|.+|+....+. ....+|+.|++..
T Consensus 70 ~~~C~~Cg~~~~~~--~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSPE--IDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEecC--CcCccCcCCcCCC
Confidence 46799999655443 3467899998654
No 142
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=28.57 E-value=30 Score=30.08 Aligned_cols=31 Identities=26% Similarity=0.519 Sum_probs=24.4
Q ss_pred ccCCCCCCceecCC------CCceeecccccceeecc
Q 024329 6 ERCSGCGRQLWLPP------QAVAARCYACRSVTSFP 36 (269)
Q Consensus 6 ~~c~~c~~~~~~~~------~~~~~~c~~c~~~~~~~ 36 (269)
|+|+-|.|-|.|-- ..-+|||..|-..-.|.
T Consensus 13 VhCnFC~TiLaVsVP~ssL~~~VTVRCGHCtNLLSVN 49 (170)
T PF04690_consen 13 VHCNFCNTILAVSVPCSSLLKTVTVRCGHCTNLLSVN 49 (170)
T ss_pred EEcCCcCeEEEEecchhhhhhhhceeccCccceeeee
Confidence 68999999887752 34599999998776665
No 143
>PRK06207 aspartate aminotransferase; Provisional
Probab=28.47 E-value=3.5e+02 Score=25.74 Aligned_cols=56 Identities=18% Similarity=0.144 Sum_probs=33.2
Q ss_pred CChHHHHHHHHHHHHHhhCC--CC-cceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecc
Q 024329 117 TGSINDVKSMWFLLVRMLGF--PS-DCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGH 184 (269)
Q Consensus 117 ~g~~nDA~~m~~~L~~~~Gf--~~-~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGH 184 (269)
.|...=-+.++++|.+.+|. .+ ++|.+ +.. +.+.|...+..+ +++||.|++---++
T Consensus 78 ~G~~~LR~aia~~l~~~~g~~~~~~~~I~i-t~G--------a~~al~~~~~~l---~~~Gd~Vlv~~P~y 136 (405)
T PRK06207 78 RGDADIRELLAARLAAFTGAPVDAADELII-TPG--------TQGALFLAVAAT---VARGDKVAIVQPDY 136 (405)
T ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCCEEE-eCC--------cHHHHHHHHHHh---cCCCCEEEEeCCCc
Confidence 34434345677888776785 44 67654 432 345555555555 47899888754333
No 144
>PRK14012 cysteine desulfurase; Provisional
Probab=28.38 E-value=3.1e+02 Score=25.97 Aligned_cols=53 Identities=15% Similarity=0.171 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHh-CCCCCEEEEEEecc
Q 024329 123 VKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQD-CQPGDSLVFHYSGH 184 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~-~~~gD~lvfYFSGH 184 (269)
.+.+++.|.+.+|.+.++|.+ +.. +.+.+..++.-+... .++||.|++-=..|
T Consensus 51 ~~~~r~~ia~~~g~~~~~v~~-~~g--------~t~al~~~l~~l~~~~~~~gd~Vi~~~~~~ 104 (404)
T PRK14012 51 VDIARNQIADLIGADPREIVF-TSG--------ATESDNLAIKGAAHFYQKKGKHIITSKTEH 104 (404)
T ss_pred HHHHHHHHHHHcCcCcCeEEE-eCC--------HHHHHHHHHHHHHHhhcCCCCEEEEecCcc
Confidence 455667776667887777654 432 234444444434322 36789888754455
No 145
>PRK09265 aminotransferase AlaT; Validated
Probab=28.35 E-value=3.9e+02 Score=25.22 Aligned_cols=32 Identities=16% Similarity=0.239 Sum_probs=19.9
Q ss_pred CCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCCC
Q 024329 211 EGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSGT 244 (269)
Q Consensus 211 ~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~ 244 (269)
.|. ++.+++.+++ +.. +...+++|+|-.|+.-
T Consensus 181 tG~~~~~~~~~~i~-~~a-~~~~~~ii~De~y~~~ 213 (404)
T PRK09265 181 TGAVYSKELLEEIV-EIA-RQHNLIIFADEIYDKI 213 (404)
T ss_pred CCcCCCHHHHHHHH-HHH-HHCCCEEEEehhhhhc
Confidence 454 4566776654 322 2345789999998754
No 146
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.02 E-value=44 Score=25.65 Aligned_cols=31 Identities=26% Similarity=0.392 Sum_probs=23.8
Q ss_pred ccCCCCCCceecC--CCCceeecccccceeecc
Q 024329 6 ERCSGCGRQLWLP--PQAVAARCYACRSVTSFP 36 (269)
Q Consensus 6 ~~c~~c~~~~~~~--~~~~~~~c~~c~~~~~~~ 36 (269)
.-|+.|+..|+.- .|..--.|..|++|-.=.
T Consensus 2 llCP~C~v~l~~~~rs~vEiD~CPrCrGVWLDr 34 (88)
T COG3809 2 LLCPICGVELVMSVRSGVEIDYCPRCRGVWLDR 34 (88)
T ss_pred cccCcCCceeeeeeecCceeeeCCccccEeecc
Confidence 4599999987654 477777899999887543
No 147
>TIGR01229 rocF_arginase arginase. This model helps resolve arginases from known and putative agmatinases, formiminoglutamases, and other related proteins of unknown specifity. The pathway from arginine to the polyamine putrescine may procede by hydrolysis to remove urea (arginase) followed by decarboxylation (ornithine decarboxylase), or by decarboxylation first (arginine decarboxylase) followed by removal of urea (agmatinase).
Probab=27.49 E-value=1.5e+02 Score=27.44 Aligned_cols=68 Identities=18% Similarity=0.213 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHhCCCCC-EEEEEEeccccccCCCCCCCCCCCcceeeccC-CCCCCCChHHHHHHHHhccCCCCCeEE
Q 024329 157 KQNIRTAMRWLAQDCQPGD-SLVFHYSGHGSRQKDYNKDELDGFDETICPLD-HETEGPIIDDEINATIVRPLPRGAKLH 234 (269)
Q Consensus 157 k~nI~~aL~~L~~~~~~gD-~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D-~~~~g~I~~deL~~~L~~~l~~g~~l~ 234 (269)
+..+.+.++++.+.+..+| .+++.| | .|.+|..+.|-- ....|.++..|+.++| +.+....++
T Consensus 199 ~~g~~~v~~~~~~~l~~~~~~vyvS~--------D-----iDvlDps~aPgv~tp~pgGl~~~e~~~~l-~~i~~~~~v- 263 (300)
T TIGR01229 199 ELGIGKVVEETLEYLKAEDGPIHLSL--------D-----VDGLDPSLAPATGTPVVGGLTFREGLLIM-EMLYETGLL- 263 (300)
T ss_pred hhhHHHHHHHHHHHHhcCCCeEEEEE--------e-----ccccCcccCCCCCCCCCCCCCHHHHHHHH-HHHHhcCCE-
Confidence 3445555666666555556 788877 2 356777788854 3345678889988876 443222333
Q ss_pred EEEeC
Q 024329 235 AIIDS 239 (269)
Q Consensus 235 vIlD~ 239 (269)
+-+|-
T Consensus 264 ~g~Di 268 (300)
T TIGR01229 264 TALDV 268 (300)
T ss_pred EEEEE
Confidence 34443
No 148
>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=27.40 E-value=54 Score=21.07 Aligned_cols=26 Identities=23% Similarity=0.641 Sum_probs=18.6
Q ss_pred cCCCCCCceecCCCCceeeccccccee
Q 024329 7 RCSGCGRQLWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 7 ~c~~c~~~~~~~~~~~~~~c~~c~~~~ 33 (269)
.|..|+.. +.-...-..-|..|+.+.
T Consensus 10 ~C~~C~~~-~~~~~dG~~yC~~cG~~~ 35 (36)
T PF11781_consen 10 PCPVCGSR-WFYSDDGFYYCDRCGHQS 35 (36)
T ss_pred cCCCCCCe-EeEccCCEEEhhhCceEc
Confidence 49999988 555556667788887653
No 149
>PF07521 RMMBL: RNA-metabolising metallo-beta-lactamase; InterPro: IPR011108 The metallo-beta-lactamase fold contains five sequence motifs. The first four motifs are found in IPR001279 from INTERPRO and are common to all metallo-beta-lactamases. The fifth motif appears to be specific to function. This entry represents the fifth motif from metallo-beta-lactamases involved in RNA metabolism [].; PDB: 3ZQ4_D 2I7T_A 2I7V_A 2YCB_B 3BK1_A 3T3N_A 3BK2_A 3T3O_A 3AF5_A 3AF6_A ....
Probab=27.23 E-value=46 Score=21.91 Aligned_cols=12 Identities=33% Similarity=0.603 Sum_probs=7.0
Q ss_pred EEEEEEeccccc
Q 024329 176 SLVFHYSGHGSR 187 (269)
Q Consensus 176 ~lvfYFSGHG~~ 187 (269)
+..|-||||+.+
T Consensus 9 v~~~~fSgHad~ 20 (43)
T PF07521_consen 9 VEQIDFSGHADR 20 (43)
T ss_dssp EEESGCSSS-BH
T ss_pred EEEEeecCCCCH
Confidence 445567777765
No 150
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=27.22 E-value=49 Score=22.02 Aligned_cols=25 Identities=28% Similarity=0.679 Sum_probs=17.9
Q ss_pred cccCCCCCCceecCCCCceeeccccc
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACR 30 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~ 30 (269)
...|..|+.+|.=..+. .+.|..|.
T Consensus 17 ~~~Cp~C~~PL~~~k~g-~~~Cv~C~ 41 (41)
T PF06677_consen 17 DEHCPDCGTPLMRDKDG-KIYCVSCG 41 (41)
T ss_pred cCccCCCCCeeEEecCC-CEECCCCC
Confidence 44699999998764433 57788884
No 151
>PRK12495 hypothetical protein; Provisional
Probab=27.17 E-value=42 Score=30.45 Aligned_cols=27 Identities=19% Similarity=0.564 Sum_probs=20.7
Q ss_pred cccCCCCCCceecCCCCceeeccccccee
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~ 33 (269)
...|..|+.+|.--+| .++|..|+.+.
T Consensus 42 a~hC~~CG~PIpa~pG--~~~Cp~CQ~~~ 68 (226)
T PRK12495 42 NAHCDECGDPIFRHDG--QEFCPTCQQPV 68 (226)
T ss_pred hhhcccccCcccCCCC--eeECCCCCCcc
Confidence 3469999999884444 67899999664
No 152
>PRK07324 transaminase; Validated
Probab=27.15 E-value=2.3e+02 Score=26.66 Aligned_cols=48 Identities=10% Similarity=0.136 Sum_probs=27.9
Q ss_pred HHHHHHHHhh-CCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecc
Q 024329 125 SMWFLLVRML-GFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGH 184 (269)
Q Consensus 125 ~m~~~L~~~~-Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGH 184 (269)
.+++.+.+.+ ++++++|.+... ....+..++..+ +.+||.|++-.-++
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 4555555544 577788854333 234455555444 57899888844443
No 153
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=27.06 E-value=37 Score=24.51 Aligned_cols=22 Identities=41% Similarity=0.625 Sum_probs=19.0
Q ss_pred CcccccCCCCCCceecCCCCce
Q 024329 2 TSRVERCSGCGRQLWLPPQAVA 23 (269)
Q Consensus 2 ~~~~~~c~~c~~~~~~~~~~~~ 23 (269)
|...|.|..|++.|.=|.|-+.
T Consensus 27 a~t~V~C~~Cg~~L~~PtGGKa 48 (59)
T PRK00415 27 ASTVVRCLVCGKTLAEPTGGKA 48 (59)
T ss_pred CCcEEECcccCCCcccCCCcce
Confidence 5678999999999999998764
No 154
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=26.80 E-value=17 Score=29.05 Aligned_cols=27 Identities=26% Similarity=0.519 Sum_probs=17.6
Q ss_pred cccCCCCCCceecCCCCceeeccccccee
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~ 33 (269)
..+|..|+....+.... .+|+.|++..
T Consensus 70 ~~~C~~Cg~~~~~~~~~--~~CP~Cgs~~ 96 (113)
T PF01155_consen 70 RARCRDCGHEFEPDEFD--FSCPRCGSPD 96 (113)
T ss_dssp EEEETTTS-EEECHHCC--HH-SSSSSS-
T ss_pred cEECCCCCCEEecCCCC--CCCcCCcCCC
Confidence 46799999876655443 7799998753
No 155
>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=26.76 E-value=51 Score=22.46 Aligned_cols=23 Identities=26% Similarity=0.704 Sum_probs=17.1
Q ss_pred ccCCCCCC-ceecCCCCceeecccccce
Q 024329 6 ERCSGCGR-QLWLPPQAVAARCYACRSV 32 (269)
Q Consensus 6 ~~c~~c~~-~~~~~~~~~~~~c~~c~~~ 32 (269)
+.|+.|++ ++. | ..++|..|..+
T Consensus 1 ~~C~~C~~~~i~---g-~R~~C~~C~dy 24 (49)
T cd02345 1 LSCSACRKQDIS---G-IRFPCQVCRDY 24 (49)
T ss_pred CcCCCCCCCCce---E-eeEECCCCCCc
Confidence 46999998 555 5 56799999644
No 156
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=26.63 E-value=93 Score=22.80 Aligned_cols=49 Identities=12% Similarity=0.128 Sum_probs=28.2
Q ss_pred HHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEE
Q 024329 123 VKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHY 181 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYF 181 (269)
+..+++.+.+..|++.+++++..... ..... ..|... +++.|++|.+||
T Consensus 24 V~~LK~~I~~~~~~~~~~qrLi~~Gk----~L~D~----~tL~~y--gi~~~stv~l~~ 72 (73)
T cd01791 24 IGDLKKLIAAQTGTRPEKIVLKKWYT----IFKDH----ISLGDY--EIHDGMNLELYY 72 (73)
T ss_pred HHHHHHHHHHHhCCChHHEEEEeCCc----CCCCC----CCHHHc--CCCCCCEEEEEe
Confidence 45566667666788888877654421 00000 022222 567888888887
No 157
>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=26.56 E-value=60 Score=21.60 Aligned_cols=25 Identities=36% Similarity=0.674 Sum_probs=16.4
Q ss_pred ccCCCCCCc--eecCCCCceeecccccc
Q 024329 6 ERCSGCGRQ--LWLPPQAVAARCYACRS 31 (269)
Q Consensus 6 ~~c~~c~~~--~~~~~~~~~~~c~~c~~ 31 (269)
+.|++|+.. ..+.. ....+|..|+.
T Consensus 19 ~~CP~Cg~~~~~~~~~-~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGSTKHYRLKT-RGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCeeeEEeCC-CCeEECCCCCC
Confidence 448888864 23322 57888888874
No 158
>COG2194 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]
Probab=26.40 E-value=80 Score=32.39 Aligned_cols=15 Identities=20% Similarity=0.434 Sum_probs=13.3
Q ss_pred CEEEEEEeccccccC
Q 024329 175 DSLVFHYSGHGSRQK 189 (269)
Q Consensus 175 D~lvfYFSGHG~~~~ 189 (269)
|..+||||-||...-
T Consensus 445 ~~~liY~SDHGEslg 459 (555)
T COG2194 445 NTSLIYFSDHGESLG 459 (555)
T ss_pred CeEEEEEcCccHhhc
Confidence 899999999999653
No 159
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=26.30 E-value=33 Score=19.83 Aligned_cols=20 Identities=30% Similarity=0.763 Sum_probs=13.1
Q ss_pred cCCCCCCceecCCCCceeeccccc
Q 024329 7 RCSGCGRQLWLPPQAVAARCYACR 30 (269)
Q Consensus 7 ~c~~c~~~~~~~~~~~~~~c~~c~ 30 (269)
.|.+||+.+. .++ .-|..|.
T Consensus 1 ~Cp~CG~~~~--~~~--~fC~~CG 20 (23)
T PF13240_consen 1 YCPNCGAEIE--DDA--KFCPNCG 20 (23)
T ss_pred CCcccCCCCC--CcC--cchhhhC
Confidence 4889988764 333 3477775
No 160
>PRK08960 hypothetical protein; Provisional
Probab=26.20 E-value=5.5e+02 Score=24.04 Aligned_cols=46 Identities=13% Similarity=0.219 Sum_probs=27.1
Q ss_pred HHHHHHHHHhhC--CCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEE
Q 024329 124 KSMWFLLVRMLG--FPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHY 181 (269)
Q Consensus 124 ~~m~~~L~~~~G--f~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYF 181 (269)
+.+++++..++| +++++|.+ +.. +.+.|...+.-+ +.+||.|++.=
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 446666665555 56777754 432 345555555444 47899888743
No 161
>PTZ00433 tyrosine aminotransferase; Provisional
Probab=26.17 E-value=3.1e+02 Score=26.13 Aligned_cols=33 Identities=27% Similarity=0.394 Sum_probs=20.8
Q ss_pred CCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCCCC
Q 024329 211 EGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSGTV 245 (269)
Q Consensus 211 ~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~ 245 (269)
.|. ++.+++.+++ +.. +...+++|+|-+|..-.
T Consensus 190 tG~~~s~~~~~~l~-~~a-~~~~~~ii~De~y~~~~ 223 (412)
T PTZ00433 190 CGSNFSRKHVEDII-RLC-EELRLPLISDEIYAGMV 223 (412)
T ss_pred CCcccCHHHHHHHH-HHH-HHcCCeEEEeccccccc
Confidence 453 4567776654 322 23467899999997543
No 162
>PLN00143 tyrosine/nicotianamine aminotransferase; Provisional
Probab=26.10 E-value=2.4e+02 Score=26.90 Aligned_cols=35 Identities=20% Similarity=0.268 Sum_probs=22.2
Q ss_pred CCCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCC
Q 024329 210 TEGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSGTVL 246 (269)
Q Consensus 210 ~~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~ 246 (269)
+.|. ++.+++.+++ +.. +...+++|.|-+|..-..
T Consensus 182 PTG~~~s~~~~~~l~-~~a-~~~~~~ii~De~Y~~l~~ 217 (409)
T PLN00143 182 PCGSVYSYEHLNKIA-ETA-RKLGILVIADEVYGHIVF 217 (409)
T ss_pred CCCCccCHHHHHHHH-HHH-HHcCCeEEEEcccccccc
Confidence 3454 4667776654 333 234688999999986543
No 163
>PRK09295 bifunctional cysteine desulfurase/selenocysteine lyase; Validated
Probab=26.00 E-value=3.6e+02 Score=25.48 Aligned_cols=56 Identities=11% Similarity=0.205 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHhhCC-CCcceEEecCCCCCCCCCccHHHHHHHHHHHH-HhCCCCCEEEEEEeccc
Q 024329 121 NDVKSMWFLLVRMLGF-PSDCVVILTEEEKNPYRIPTKQNIRTAMRWLA-QDCQPGDSLVFHYSGHG 185 (269)
Q Consensus 121 nDA~~m~~~L~~~~Gf-~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~-~~~~~gD~lvfYFSGHG 185 (269)
...+.+++.|.+.+|. ++++|. ++.. +.+.+...+..+. ...++||.|++.-..|.
T Consensus 67 ~~~~~~r~~la~~~~~~~~~~v~-~t~g--------~t~~l~~~~~~~~~~~~~~gd~vl~~~~~~~ 124 (406)
T PRK09295 67 EKMENVRKQAALFINARSAEELV-FVRG--------TTEGINLVANSWGNSNVRAGDNIIISEMEHH 124 (406)
T ss_pred HHHHHHHHHHHHHcCcCCCCeEE-EeCC--------HHHHHHHHHHHhhhhcCCCcCEEEECcchhh
Confidence 3355566667666676 455664 4442 3344444444442 24578999888776664
No 164
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=25.98 E-value=47 Score=22.91 Aligned_cols=24 Identities=21% Similarity=0.556 Sum_probs=17.7
Q ss_pred cCCCCCCceecCCCCceeecccccc
Q 024329 7 RCSGCGRQLWLPPQAVAARCYACRS 31 (269)
Q Consensus 7 ~c~~c~~~~~~~~~~~~~~c~~c~~ 31 (269)
.|+.|+.. .+-+......|..|+-
T Consensus 22 fCP~Cg~~-~m~~~~~r~~C~~Cgy 45 (50)
T PRK00432 22 FCPRCGSG-FMAEHLDRWHCGKCGY 45 (50)
T ss_pred cCcCCCcc-hheccCCcEECCCcCC
Confidence 69999987 4444446888999974
No 165
>cd06452 SepCysS Sep-tRNA:Cys-tRNA synthase. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Cys-tRNA(Cys) is produced by O-phosphoseryl-tRNA synthetase which ligates O-phosphoserine (Sep) to tRNA(Cys), and Sep-tRNA:Cys-tRNA synthase (SepCysS) converts Sep-tRNA(Cys) to Cys-tRNA(Cys), in methanogenic archaea. SepCysS forms a dimer, each monomer is composed of a large and small domain; the larger, a typical pyridoxal 5'-phosphate (PLP)-dependent-like enzyme fold. In the active site of each monomer, PLP is covalently bound to a conserved Lys residue near the dimer interface.
Probab=25.95 E-value=4e+02 Score=24.61 Aligned_cols=51 Identities=25% Similarity=0.366 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Q 024329 122 DVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGS 186 (269)
Q Consensus 122 DA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~ 186 (269)
....+++.|.+.+|. ++|.+ +.. +...+..++..+ +++||.|++--.+|-.
T Consensus 45 ~~~~l~~~la~~~g~--~~i~~-~~g--------~t~al~~~l~~~---~~~gd~Vl~~~~~~~~ 95 (361)
T cd06452 45 PIKDFHHDLAEFLGM--DEARV-TPG--------AREGKFAVMHSL---CEKGDWVVVDGLAHYT 95 (361)
T ss_pred hHHHHHHHHHHHcCC--ceEEE-eCC--------HHHHHHHHHHHh---cCCCCEEEEcCCcchH
Confidence 466677777766787 56654 432 234455555554 4689988876555543
No 166
>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=25.94 E-value=94 Score=25.17 Aligned_cols=51 Identities=16% Similarity=0.237 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHH--HHHHHHHHHhCCCCCEEEEEEe
Q 024329 120 INDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNI--RTAMRWLAQDCQPGDSLVFHYS 182 (269)
Q Consensus 120 ~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI--~~aL~~L~~~~~~gD~lvfYFS 182 (269)
.+=+.+++++|++.+|++. ..|.- ...+| ....+|+.++.+..|.|++..|
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 3567889999987778874 22321 11122 2367899888999999999998
No 167
>TIGR00263 trpB tryptophan synthase, beta subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. the beta chain contains the functional domain for or the synthesis of tryptophan from indole and serine. The enzyme requires pyridoxal-phosphate as a cofactor. The pyridoxal-P attachment site is contained within the conserved region [LIVM]-x-H-x-G-[STA]-H-K-x-N] [K is the pyridoxal-P attachment site] which is present between residues 90-100 of the model.
Probab=25.87 E-value=1.6e+02 Score=28.36 Aligned_cols=33 Identities=15% Similarity=0.268 Sum_probs=23.6
Q ss_pred cHHHHHHHHHHHHHhCCCCCEEEEEEecccccc
Q 024329 156 TKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQ 188 (269)
Q Consensus 156 Tk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~ 188 (269)
+...-..++.++.+..++++.|++.++|||...
T Consensus 345 ssaaalaa~~~~~~~l~~~~~Vv~i~~g~G~~d 377 (385)
T TIGR00263 345 ESSHALAHLEKIAPTLPKDQIVVVNLSGRGDKD 377 (385)
T ss_pred HHHHHHHHHHHHHHhCCCCCeEEEEeCCCCcCC
Confidence 333344455556666778999999999999863
No 168
>PF04502 DUF572: Family of unknown function (DUF572) ; InterPro: IPR007590 This entry represents eukaryotic proteins with undetermined function belonging to the CWC16 family.
Probab=25.79 E-value=57 Score=30.88 Aligned_cols=34 Identities=21% Similarity=0.418 Sum_probs=24.1
Q ss_pred CCcccccCCCCCCceecCCCCc---------------------eeecccccceeecc
Q 024329 1 MTSRVERCSGCGRQLWLPPQAV---------------------AARCYACRSVTSFP 36 (269)
Q Consensus 1 ~~~~~~~c~~c~~~~~~~~~~~---------------------~~~c~~c~~~~~~~ 36 (269)
|+-..|+|.+|+.++ ..|.+ .++|..|.+.--|.
T Consensus 36 ~~Pf~i~C~~C~~~I--~kG~rFNA~Ke~v~~E~Yls~~I~rF~~kC~~C~~~i~~k 90 (324)
T PF04502_consen 36 MMPFNIWCNTCGEYI--YKGVRFNARKEKVGNEKYLSTPIYRFYIKCPRCSNEIEFK 90 (324)
T ss_pred cCCccCcCCCCcccc--ccceeeeeeeEecCCCccccceEEEEEEEcCCCCCEEeee
Confidence 555779999999874 33332 68999998765554
No 169
>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=25.64 E-value=1.2e+02 Score=30.59 Aligned_cols=73 Identities=25% Similarity=0.312 Sum_probs=51.2
Q ss_pred CCCCCC--CCC-CChHHHHHHHHHHHHHhh---CCCCcce----EEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEE
Q 024329 108 TYNDTN--YML-TGSINDVKSMWFLLVRML---GFPSDCV----VILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSL 177 (269)
Q Consensus 108 nY~~~~--~~L-~g~~nDA~~m~~~L~~~~---Gf~~~~I----~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~l 177 (269)
-|.+.. .+| ....=|+++++++..+.| |+.+++| .++|.+. +.|+|-++.+..|... .||-|
T Consensus 44 iYrS~I~fTPl~~~~~ID~~al~~iv~~eY~~Agi~p~~I~TGAVIITGET------ArKeNA~~v~~~Ls~~--aGDFV 115 (473)
T PF06277_consen 44 IYRSPIYFTPLLSQTEIDAEALKEIVEEEYRKAGITPEDIDTGAVIITGET------ARKENAREVLHALSGF--AGDFV 115 (473)
T ss_pred EecCCccccCCCCCCccCHHHHHHHHHHHHHHcCCCHHHCccccEEEecch------hhhhhHHHHHHHHHHh--cCCEE
Confidence 366543 355 357789999999998765 8887765 4577776 7899999988888776 45655
Q ss_pred EE--------EEecccccc
Q 024329 178 VF--------HYSGHGSRQ 188 (269)
Q Consensus 178 vf--------YFSGHG~~~ 188 (269)
|= ..+|+|.-.
T Consensus 116 VATAGPdLEsiiAgkGsGA 134 (473)
T PF06277_consen 116 VATAGPDLESIIAGKGSGA 134 (473)
T ss_pred EEccCCCHHHHHhccCccH
Confidence 53 346666543
No 170
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=25.47 E-value=35 Score=27.33 Aligned_cols=27 Identities=19% Similarity=0.437 Sum_probs=18.7
Q ss_pred ccccCCCCCCceecCCCCceeecccccce
Q 024329 4 RVERCSGCGRQLWLPPQAVAARCYACRSV 32 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~~~~~c~~c~~~ 32 (269)
...+|.+|+....+. ....+|+.|...
T Consensus 69 ~~~~C~~Cg~~~~~~--~~~~~CP~Cgs~ 95 (113)
T PRK12380 69 AQAWCWDCSQVVEIH--QHDAQCPHCHGE 95 (113)
T ss_pred cEEEcccCCCEEecC--CcCccCcCCCCC
Confidence 356799999655543 345569999854
No 171
>PF00884 Sulfatase: Sulfatase; InterPro: IPR000917 Sulphatases 3.1.6. from EC are enzymes that hydrolyze various sulphate esters. The sequence of different types of sulphatases are available and have shown to be structurally related [, , ]; these include: arylsulphatase A 3.1.6.8 from EC (ASA), a lysosomal enzyme which hydrolyses cerebroside sulphate; arylsulphatase B 3.1.6.12 from EC (ASB), which hydrolyses the sulphate ester group from N-acetylgalactosamine 4-sulphate residues of dermatan sulphate; arylsulphatase C (ASD) and E (ASE); steryl-sulphatase 3.1.6.2 from EC (STS), a membrane bound microsomal enzyme which hydrolyses 3-beta-hydroxy steroid sulphates; iduronate 2-sulphatase precursor 3.1.6.13 from EC (IDS), a lysosomal enzyme that hydrolyses the 2-sulphate groups from non-reducing-terminal iduronic acid residues in dermatan sulphate and heparan sulphate; N-acetylgalactosamine-6-sulphatase 3.1.6.4 from EC, which hydrolyses the 6-sulphate groups of the N-acetyl-d-galactosamine 6-sulphate units of chondroitin sulphate and the D-galactose 6-sulphate units of keratan sulphate; glucosamine-6-sulphatase 3.1.6.14 from EC (G6S), which hydrolyses the N-acetyl-D-glucosamine 6-sulphate units of heparan sulphate and keratan sulphate; N-sulphoglucosamine sulphohydrolase 3.10.1.1 from EC (sulphamidase), the lysosomal enzyme that catalyses the hydrolysis of N-sulpho-d-glucosamine into glucosamine and sulphate; sea urchin embryo arylsulphatase 3.1.6.1 from EC; green algae arylsulphatase 3.1.6.1 from EC, which plays an important role in the mineralisation of sulphates; and arylsulphatase 3.1.6.1 from EC from Escherichia coli (aslA), Klebsiella aerogenes (gene atsA) and Pseudomonas aeruginosa (gene atsA). ; GO: 0008484 sulfuric ester hydrolase activity, 0008152 metabolic process; PDB: 1P49_A 1FSU_A 2QZU_A 2W5Q_A 2W5T_A 2W5S_A 2W5R_A 3LXQ_A 1HDH_B 1E33_P ....
Probab=25.45 E-value=87 Score=27.52 Aligned_cols=24 Identities=17% Similarity=0.320 Sum_probs=17.9
Q ss_pred HHHHHhCCCCCEEEEEEecccccc
Q 024329 165 RWLAQDCQPGDSLVFHYSGHGSRQ 188 (269)
Q Consensus 165 ~~L~~~~~~gD~lvfYFSGHG~~~ 188 (269)
++|.+.-..+++++|++|=||...
T Consensus 229 ~~l~~~~~~d~TiiiitsDHG~~~ 252 (308)
T PF00884_consen 229 EYLKEQGLYDNTIIIITSDHGESF 252 (308)
T ss_dssp HHHHHTTCGGGEEEEEEESSSSST
T ss_pred hhhhhcCCcccceeEEecCcCccc
Confidence 334334466789999999999976
No 172
>KOG1553 consensus Predicted alpha/beta hydrolase BAT5 [General function prediction only]
Probab=25.39 E-value=84 Score=30.90 Aligned_cols=33 Identities=15% Similarity=0.283 Sum_probs=24.6
Q ss_pred CCCCCChHHHHHHHHHHHH---HhhCCCCcceEEec
Q 024329 113 NYMLTGSINDVKSMWFLLV---RMLGFPSDCVVILT 145 (269)
Q Consensus 113 ~~~L~g~~nDA~~m~~~L~---~~~Gf~~~~I~lLt 145 (269)
+..+++++||+.+|-.+.+ +.+||+.++|++.-
T Consensus 282 STG~P~p~n~~nA~DaVvQfAI~~Lgf~~edIilyg 317 (517)
T KOG1553|consen 282 STGLPYPVNTLNAADAVVQFAIQVLGFRQEDIILYG 317 (517)
T ss_pred cCCCCCcccchHHHHHHHHHHHHHcCCCccceEEEE
Confidence 3468888888887665553 67899999987643
No 173
>PRK05166 histidinol-phosphate aminotransferase; Provisional
Probab=25.15 E-value=1.8e+02 Score=27.26 Aligned_cols=47 Identities=21% Similarity=0.398 Sum_probs=28.5
Q ss_pred HHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEec
Q 024329 125 SMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSG 183 (269)
Q Consensus 125 ~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSG 183 (269)
.+++.+.+.+|.+.++|.+ +.. +.+.|...+..+ +++||.|++..-+
T Consensus 75 ~lr~~ia~~~~~~~~~i~~-t~G--------~~~~l~~~~~~~---~~~gd~vli~~P~ 121 (371)
T PRK05166 75 ALREAIAARTGVPADRIIL-GNG--------SEDLIAVICRAV---LRPGDRVVTLYPS 121 (371)
T ss_pred HHHHHHHHHhCcCHHHEEE-cCC--------HHHHHHHHHHHh---cCCCCEEEEcCCC
Confidence 5777777777888888754 332 233333333333 4789988876433
No 174
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=25.08 E-value=21 Score=25.46 Aligned_cols=35 Identities=23% Similarity=0.610 Sum_probs=24.4
Q ss_pred cccccCCCCCCceecCCCC---ceeecccccceeeccCC
Q 024329 3 SRVERCSGCGRQLWLPPQA---VAARCYACRSVTSFPSS 38 (269)
Q Consensus 3 ~~~~~c~~c~~~~~~~~~~---~~~~c~~c~~~~~~~~~ 38 (269)
+..+||..|+.-| +-.+. -.+.|.-|..|..+..+
T Consensus 2 ~~tiRC~~CnKlL-a~a~~~~yle~KCPrCK~vN~~~~~ 39 (60)
T COG4416 2 MQTIRCAKCNKLL-AEAEGQAYLEKKCPRCKEVNEFYIK 39 (60)
T ss_pred ceeeehHHHhHHH-HhcccceeeeecCCccceeeeeecc
Confidence 4568899998844 33333 36789999988877654
No 175
>cd02152 OAT Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in the arginine biosynthetic pathway. Members of this family may experience feedback inhibition by L-arginine. The active enzyme is a heterotetramer of two alpha and two beta chains, where the alpha and beta chains are the result of autocatalytic cleavage. OATs found in the clavulanic acid biosynthesis gene cluster catalyze the fifth step only, and may utilize acetyl acceptors other than glutamate.
Probab=24.88 E-value=3.2e+02 Score=26.91 Aligned_cols=69 Identities=20% Similarity=0.371 Sum_probs=45.4
Q ss_pred CceEEEEE--ee-C-CCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCC
Q 024329 98 GRKKALLC--GV-T-YNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQP 173 (269)
Q Consensus 98 ~~k~ALlI--GI-n-Y~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~ 173 (269)
++-+|||| |+ | ..+ .--..|++.|.+.+-+.+|.++++|++...-- =..+.| -+.|+..+..++..+.+
T Consensus 56 ~~~ravvvNSGnANA~TG-----~~G~~da~~~~~~~A~~l~i~~~~VlvaSTGV-IG~~Lp-~~~i~~gi~~~~~~l~~ 128 (390)
T cd02152 56 GKARAVVVNSGNANACTG-----EQGLEDAREMAELVAELLGIPEEEVLVASTGV-IGEPLP-MDKIRAGIPELVASLSE 128 (390)
T ss_pred CCceEEEEcCCccccccC-----HHHHHHHHHHHHHHHHHhCCCcccEEEeCchh-ccCCCC-HHHHHHhHHHHHHHhCc
Confidence 56789888 33 1 222 23359999999999999999998887644210 011233 46778888777766544
No 176
>KOG0256 consensus 1-aminocyclopropane-1-carboxylate synthase, and related proteins [Signal transduction mechanisms]
Probab=24.83 E-value=2.3e+02 Score=28.33 Aligned_cols=34 Identities=24% Similarity=0.429 Sum_probs=25.4
Q ss_pred ChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCCCCc
Q 024329 214 IIDDEINATIVRPLPRGAKLHAIIDSCYSGTVLDLP 249 (269)
Q Consensus 214 I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~dlp 249 (269)
.+.++|..++.- ...+++++|+|==|+|++++.+
T Consensus 243 ~~~e~L~~ll~F--a~~kniHvI~DEIya~sVF~~~ 276 (471)
T KOG0256|consen 243 LSPEELISLLNF--ASRKNIHVISDEIYAGSVFDKS 276 (471)
T ss_pred cCHHHHHHHHHH--HhhcceEEEeehhhcccccCcc
Confidence 456777776632 2457899999999999988644
No 177
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=24.57 E-value=3.3e+02 Score=20.97 Aligned_cols=54 Identities=20% Similarity=0.305 Sum_probs=34.3
Q ss_pred HHHHHHHHhhCCCCcc-eE-EecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEE
Q 024329 125 SMWFLLVRMLGFPSDC-VV-ILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFH 180 (269)
Q Consensus 125 ~m~~~L~~~~Gf~~~~-I~-lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfY 180 (269)
.+.+.+++.|.|..+. ++ .-.|++.|+-..-+-.++.+|++-+-.. .+..|.||
T Consensus 24 ~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~tiSS~~EL~EA~rl~~~n--~~~~l~ih 79 (83)
T cd06404 24 ELCNEVRDMCRFHNDQPFTLKWIDEEGDPCTISSQMELEEAFRLYELN--KDSELNIH 79 (83)
T ss_pred HHHHHHHHHhCCCCCCcEEEEEECCCCCceeecCHHHHHHHHHHHHhc--CcccEEEE
Confidence 3555555556665532 22 2347777888888999999999866433 34456655
No 178
>PRK05764 aspartate aminotransferase; Provisional
Probab=24.56 E-value=5.6e+02 Score=23.84 Aligned_cols=51 Identities=25% Similarity=0.292 Sum_probs=28.7
Q ss_pred HHHHHHHHHhhC--CCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Q 024329 124 KSMWFLLVRMLG--FPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGS 186 (269)
Q Consensus 124 ~~m~~~L~~~~G--f~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~ 186 (269)
+.+++++...+| +.+++|.+ ++. +...|...+..+ +++||.|++-=-+|+.
T Consensus 75 ~~ia~~~~~~~~~~~~~~~i~~-~~g--------~~~a~~~~~~~~---~~~gd~vl~~~p~y~~ 127 (393)
T PRK05764 75 EAIAAKLKRDNGLDYDPSQVIV-TTG--------AKQALYNAFMAL---LDPGDEVIIPAPYWVS 127 (393)
T ss_pred HHHHHHHHHHhCCCCCHHHEEE-eCC--------cHHHHHHHHHHh---cCCCCEEEecCCCCcc
Confidence 345556654444 45677754 432 345555555544 5688988876555543
No 179
>TIGR01977 am_tr_V_EF2568 cysteine desulfurase family protein. This model describes a subfamily of probable pyridoxal phosphate-dependent enzymes in the aminotransferase class V family. Related families contain members active as cysteine desulfurases, selenocysteine lyases, or both. The members of this family form a distinct clade and all are shorter at the N-terminus. The function of this subfamily is unknown.
Probab=24.56 E-value=5.5e+02 Score=23.55 Aligned_cols=54 Identities=26% Similarity=0.408 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHhhCCCCc-ceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Q 024329 121 NDVKSMWFLLVRMLGFPSD-CVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGS 186 (269)
Q Consensus 121 nDA~~m~~~L~~~~Gf~~~-~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~ 186 (269)
.-.+.+++.|.+.+|.+.. +|. ++.. ..+.+...+..+ +++||.|++--..|+.
T Consensus 44 ~~~~~~~~~la~~~~~~~~~~v~-~~~g--------~t~al~~~~~~~---~~~gd~vl~~~~~~~~ 98 (376)
T TIGR01977 44 REVEETRQLLAKLFNAPSSAHVV-FTNN--------ATTALNIALKGL---LKEGDHVITTPMEHNS 98 (376)
T ss_pred HHHHHHHHHHHHHhCcCCCCeEE-EeCC--------HHHHHHHHHHhc---cCCCCEEEECcchhhH
Confidence 4556677777777787654 554 4432 224444444332 4689999886666654
No 180
>PRK07309 aromatic amino acid aminotransferase; Validated
Probab=24.38 E-value=5.3e+02 Score=24.26 Aligned_cols=33 Identities=24% Similarity=0.315 Sum_probs=20.8
Q ss_pred CCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCCCC
Q 024329 211 EGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSGTV 245 (269)
Q Consensus 211 ~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~ 245 (269)
.|. ++.+++.+++ +.. +...+++|+|.+|+.-.
T Consensus 179 tG~~~s~~~~~~l~-~~~-~~~~~~ii~D~~y~~~~ 212 (391)
T PRK07309 179 TGVTYSREQIKALA-DVL-KKYDIFVISDEVYSELT 212 (391)
T ss_pred CCcCcCHHHHHHHH-HHH-HHcCcEEEEEcccccee
Confidence 454 4566776654 322 23478899999998543
No 181
>TIGR03235 DNA_S_dndA cysteine desulfurase DndA. This model describes DndA, a protein related to IscS and part of a larger family of cysteine desulfurases. It is encoded, typically, divergently from a conserved, sparsely distributed operon for sulfur modification of DNA. This modification system is designated dnd, after the phenotype of DNA degradation during electrophoresis. The system is sporadically distributed in bacteria, much like some restriction enzyme operons. DndB is described as a putative ATPase.
Probab=24.38 E-value=4.6e+02 Score=24.04 Aligned_cols=54 Identities=20% Similarity=0.207 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHh-CCCC-CEEEEEEecc
Q 024329 122 DVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQD-CQPG-DSLVFHYSGH 184 (269)
Q Consensus 122 DA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~-~~~g-D~lvfYFSGH 184 (269)
-.+.+++.|.+.+|.+.++|.+ +.. +.+.+..++.-+... -++| |.|++.-..|
T Consensus 43 ~~~~~r~~la~~~g~~~~~v~~-~~g--------~t~a~~~~l~~l~~~~~~~g~~~vi~~~~~~ 98 (353)
T TIGR03235 43 AVERARKQVAEALGADTEEVIF-TSG--------ATESNNLAILGLARAGEQKGKKHIITSAIEH 98 (353)
T ss_pred HHHHHHHHHHHHhCCCCCeEEE-eCC--------HHHHHHHHHHHHHHhcccCCCCeeeEccccc
Confidence 3566778887777888777654 442 233344444444322 2355 5555543333
No 182
>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=24.37 E-value=59 Score=32.67 Aligned_cols=32 Identities=22% Similarity=0.453 Sum_probs=24.0
Q ss_pred cccCCCCCCceecCCCCceeecccccceeecc
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVTSFP 36 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~~ 36 (269)
...|.+|..+|.+-......+|..|.....+.
T Consensus 222 ~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~ 253 (505)
T TIGR00595 222 ILCCPNCDVSLTYHKKEGKLRCHYCGYQEPIP 253 (505)
T ss_pred ccCCCCCCCceEEecCCCeEEcCCCcCcCCCC
Confidence 45688888888887777888888887655544
No 183
>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=24.20 E-value=4.4e+02 Score=22.27 Aligned_cols=59 Identities=17% Similarity=0.306 Sum_probs=31.0
Q ss_pred CCCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCChHHHHHHHHhccCCC-CCeEEEE
Q 024329 172 QPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPIIDDEINATIVRPLPR-GAKLHAI 236 (269)
Q Consensus 172 ~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~~deL~~~L~~~l~~-g~~l~vI 236 (269)
..+-.+++.|=||+............|..-.+ ...|.--|+.|.+++ ..+.. +.+++||
T Consensus 41 ~~~~~v~VVFDa~~~~~~~~~~~~~~gi~Vvf-----t~~~~tAD~~Ie~~v-~~~~~~~~~v~VV 100 (166)
T PF05991_consen 41 FSGYEVIVVFDAYKVPGGSEEREEYGGIEVVF-----TKEGETADDYIERLV-RELKNRPRQVTVV 100 (166)
T ss_pred ccCCEEEEEEeCCcCCCCCceeeeeCceEEEE-----CCCCCCHHHHHHHHH-HHhccCCCeEEEE
Confidence 35688999999988875432211222332111 123444566666655 44433 5566555
No 184
>PRK08636 aspartate aminotransferase; Provisional
Probab=24.17 E-value=4.3e+02 Score=25.01 Aligned_cols=115 Identities=16% Similarity=0.144 Sum_probs=60.0
Q ss_pred CChHHHHHHHHHHHHHhhCC--CCc-ceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEE---EE-------ec
Q 024329 117 TGSINDVKSMWFLLVRMLGF--PSD-CVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVF---HY-------SG 183 (269)
Q Consensus 117 ~g~~nDA~~m~~~L~~~~Gf--~~~-~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvf---YF-------SG 183 (269)
.|...=-+.++++|.+.+|+ ..+ +|. +|.. +.+.|...+.-| +++||.|++ .| .-
T Consensus 71 ~G~~~lR~~ia~~l~~~~~~~~~~~~~I~-it~G--------~~~al~~~~~~l---~~~gd~Vlv~~P~y~~~~~~~~~ 138 (403)
T PRK08636 71 KGIYKLRLAICNWYKRKYNVDLDPETEVV-ATMG--------SKEGYVHLVQAI---TNPGDVAIVPDPAYPIHSQAFIL 138 (403)
T ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCeEE-ECCC--------hHHHHHHHHHHh---CCCCCEEEEcCCCCcchHHHHHh
Confidence 34333335678888766674 445 564 4443 345555555544 468999886 22 22
Q ss_pred cccccCCC-----CCCCCC----------------CCcceeeccC-CCCCC-CChHHHHHHHHhccCCCCCeEEEEEeCC
Q 024329 184 HGSRQKDY-----NKDELD----------------GFDETICPLD-HETEG-PIIDDEINATIVRPLPRGAKLHAIIDSC 240 (269)
Q Consensus 184 HG~~~~d~-----~gde~d----------------G~de~L~p~D-~~~~g-~I~~deL~~~L~~~l~~g~~l~vIlD~C 240 (269)
+|...... ++...| ..-.++++.. ..+.| .++.+++.+++ +.. +..++++|.|-.
T Consensus 139 ~g~~~~~v~~~~~~~~~~d~~~l~~~l~~~~~~~~~~~~~i~~~~P~NPTG~~~s~~~~~~l~-~~a-~~~~~~II~De~ 216 (403)
T PRK08636 139 AGGNVHKMPLEYNEDFELDEDQFFENLEKALRESSPKPKYVVVNFPHNPTTATVEKSFYERLV-ALA-KKERFYIISDIA 216 (403)
T ss_pred cCCEEEEEeccccccCccChhhhhhHHHHHHhhccCCceEEEEeCCCCCCCccCCHHHHHHHH-HHH-HHcCcEEEEecc
Confidence 34332110 110111 0012344443 23445 55777787755 332 345789999999
Q ss_pred CCCCC
Q 024329 241 YSGTV 245 (269)
Q Consensus 241 ~SG~~ 245 (269)
|+.-.
T Consensus 217 Y~~l~ 221 (403)
T PRK08636 217 YADIT 221 (403)
T ss_pred chhhc
Confidence 87554
No 185
>COG0657 Aes Esterase/lipase [Lipid metabolism]
Probab=24.14 E-value=4.4e+02 Score=23.81 Aligned_cols=48 Identities=15% Similarity=0.246 Sum_probs=37.5
Q ss_pred eEEEEEeeCCCC-CCCCCCChHHHHHHHHHHHHHh---hCCCCcceEEecCC
Q 024329 100 KKALLCGVTYND-TNYMLTGSINDVKSMWFLLVRM---LGFPSDCVVILTEE 147 (269)
Q Consensus 100 k~ALlIGInY~~-~~~~L~g~~nDA~~m~~~L~~~---~Gf~~~~I~lLtd~ 147 (269)
.-+.+|-++|.- .....+..+.|+.+...+|.++ +|++.++|.+.-++
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 456778888864 3457899999999998888864 68989999887765
No 186
>PLN02376 1-aminocyclopropane-1-carboxylate synthase
Probab=24.09 E-value=3.8e+02 Score=26.73 Aligned_cols=35 Identities=23% Similarity=0.471 Sum_probs=22.8
Q ss_pred CCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCCC
Q 024329 211 EGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSGTVLD 247 (269)
Q Consensus 211 ~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~d 247 (269)
.|. ++.+++.+++ +-. ....+++|.|=.|+...++
T Consensus 212 TG~~~s~e~l~~L~-~~a-~~~~i~lI~DEiY~~~~f~ 247 (496)
T PLN02376 212 LGTMLDKDTLTNLV-RFV-TRKNIHLVVDEIYAATVFA 247 (496)
T ss_pred CCccCCHHHHHHHH-HHH-HHcCCEEEEEcCccccccC
Confidence 454 4666776655 322 2356889999999987543
No 187
>PRK15244 virulence protein SpvB; Provisional
Probab=23.87 E-value=32 Score=35.39 Aligned_cols=33 Identities=15% Similarity=-0.141 Sum_probs=18.9
Q ss_pred CceEEEEEeeCCCCCCCCC-CChHHHHHHHHHHHHHh
Q 024329 98 GRKKALLCGVTYNDTNYML-TGSINDVKSMWFLLVRM 133 (269)
Q Consensus 98 ~~k~ALlIGInY~~~~~~L-~g~~nDA~~m~~~L~~~ 133 (269)
.+|||..+.-+. ...| .+.+.+=+.+.++|+..
T Consensus 383 ~~kw~~~~~~~q---~~Al~~ys~~gY~~iN~YLR~~ 416 (591)
T PRK15244 383 KSKWAIVEESKQ---IQALRYYSAQGYSVINKYLRGD 416 (591)
T ss_pred hhhhhhhcchhH---HHHHhhhhhccHHHHHHHHhcC
Confidence 456776665321 1233 35566677788888753
No 188
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=23.76 E-value=63 Score=23.45 Aligned_cols=29 Identities=31% Similarity=0.606 Sum_probs=23.9
Q ss_pred ccCCCCCCceecCCCCceeecccccceee
Q 024329 6 ERCSGCGRQLWLPPQAVAARCYACRSVTS 34 (269)
Q Consensus 6 ~~c~~c~~~~~~~~~~~~~~c~~c~~~~~ 34 (269)
..|..|+..|..-.++..+-|..|..+.-
T Consensus 10 ~~CtSCg~~i~p~e~~v~F~CPnCGe~~I 38 (61)
T COG2888 10 PVCTSCGREIAPGETAVKFPCPNCGEVEI 38 (61)
T ss_pred ceeccCCCEeccCCceeEeeCCCCCceee
Confidence 46999999998888888999999985543
No 189
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=23.59 E-value=1.3e+02 Score=27.91 Aligned_cols=44 Identities=11% Similarity=0.200 Sum_probs=30.0
Q ss_pred EEEEEeeCCCCCC-----CCCCChHHHHHHHHHHHHHhhCCCCcceEEec
Q 024329 101 KALLCGVTYNDTN-----YMLTGSINDVKSMWFLLVRMLGFPSDCVVILT 145 (269)
Q Consensus 101 ~ALlIGInY~~~~-----~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLt 145 (269)
..=+++-.|.+.. ..=++...|+++..++|++++| +++.|.+--
T Consensus 88 n~nv~~~DYSGyG~S~G~psE~n~y~Di~avye~Lr~~~g-~~~~Iil~G 136 (258)
T KOG1552|consen 88 NCNVVSYDYSGYGRSSGKPSERNLYADIKAVYEWLRNRYG-SPERIILYG 136 (258)
T ss_pred cceEEEEecccccccCCCcccccchhhHHHHHHHHHhhcC-CCceEEEEE
Confidence 3345666665421 2224888999999999999899 777776543
No 190
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=23.57 E-value=95 Score=27.17 Aligned_cols=59 Identities=24% Similarity=0.414 Sum_probs=37.1
Q ss_pred CcceeeccCCCCCCCChHHHHHHHHhccCCCCCeEEEEEeCCCC-----CCCCCCcccccccceeeccc
Q 024329 199 FDETICPLDHETEGPIIDDEINATIVRPLPRGAKLHAIIDSCYS-----GTVLDLPFVCKINGVQMGRS 262 (269)
Q Consensus 199 ~de~L~p~D~~~~g~I~~deL~~~L~~~l~~g~~l~vIlD~C~S-----G~~~dlp~~~~~~~~~~g~~ 262 (269)
+|++|+|+|.... ..|+.+|+.+.-.+|.+++++----.+ ..-++.||+++ -+++++++
T Consensus 35 lDNTLv~wd~~~~----tpe~~~W~~e~k~~gi~v~vvSNn~e~RV~~~~~~l~v~fi~~-A~KP~~~~ 98 (175)
T COG2179 35 LDNTLVPWDNPDA----TPELRAWLAELKEAGIKVVVVSNNKESRVARAAEKLGVPFIYR-AKKPFGRA 98 (175)
T ss_pred ccCceecccCCCC----CHHHHHHHHHHHhcCCEEEEEeCCCHHHHHhhhhhcCCceeec-ccCccHHH
Confidence 5789999986432 367888886554567777666543322 12356888877 45555553
No 191
>PRK13776 formimidoylglutamase; Provisional
Probab=23.55 E-value=1.6e+02 Score=27.63 Aligned_cols=64 Identities=14% Similarity=0.133 Sum_probs=37.2
Q ss_pred HHHHHHHHHhCCCCCEEEEEEeccccccCCCCCCCCCCCcceeecc-CCCCCCCChHHHHHHHHhccCCCCCeEEEEEeC
Q 024329 161 RTAMRWLAQDCQPGDSLVFHYSGHGSRQKDYNKDELDGFDETICPL-DHETEGPIIDDEINATIVRPLPRGAKLHAIIDS 239 (269)
Q Consensus 161 ~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~-D~~~~g~I~~deL~~~L~~~l~~g~~l~vIlD~ 239 (269)
...++++.+.+...|.++|-| | .|.+|..+.|- .....|.++..|+.++| +.+....++ +-+|-
T Consensus 226 ~~v~~~~~~~~~~~~~vyvS~--------D-----iD~lDps~aPGtgtP~pgGLt~~e~~~il-~~l~~~~~v-vg~Dv 290 (318)
T PRK13776 226 ARILAFLDDFIANVDHIYLTI--------C-----LDVLPAAVAPGVSAPAARGVSLWVIEPLV-KRIIASGKL-RLADI 290 (318)
T ss_pred HHHHHHHHHHHhcCCeEEEEE--------E-----eCCcCcccCCCCCCCCCCCCCHHHHHHHH-HHHHccCCE-EEEEE
Confidence 334444433333457777777 2 35677788884 44455778999998877 444223343 34553
No 192
>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=23.52 E-value=98 Score=25.96 Aligned_cols=47 Identities=17% Similarity=0.395 Sum_probs=35.4
Q ss_pred EEEEEeeCCCC-CCCCCCChHHHHHHHHHHHHHh---hCCCCcceEEecCC
Q 024329 101 KALLCGVTYND-TNYMLTGSINDVKSMWFLLVRM---LGFPSDCVVILTEE 147 (269)
Q Consensus 101 ~ALlIGInY~~-~~~~L~g~~nDA~~m~~~L~~~---~Gf~~~~I~lLtd~ 147 (269)
-+.++.++|.- .....+-+..|+...-++|.++ +|++.++|.+.-++
T Consensus 29 g~~v~~~~Yrl~p~~~~p~~~~D~~~a~~~l~~~~~~~~~d~~~i~l~G~S 79 (211)
T PF07859_consen 29 GFVVVSIDYRLAPEAPFPAALEDVKAAYRWLLKNADKLGIDPERIVLIGDS 79 (211)
T ss_dssp TSEEEEEE---TTTSSTTHHHHHHHHHHHHHHHTHHHHTEEEEEEEEEEET
T ss_pred cEEEEEeeccccccccccccccccccceeeeccccccccccccceEEeecc
Confidence 34688888863 3457899999999999999876 78988898877664
No 193
>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=23.45 E-value=4.2e+02 Score=24.37 Aligned_cols=80 Identities=9% Similarity=0.032 Sum_probs=43.0
Q ss_pred ccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccCC-CC-CCCCCCCcceeeccCCCC---CCCChHHHHHHHHhccCCC
Q 024329 155 PTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQKD-YN-KDELDGFDETICPLDHET---EGPIIDDEINATIVRPLPR 229 (269)
Q Consensus 155 pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~d-~~-gde~dG~de~L~p~D~~~---~g~I~~deL~~~L~~~l~~ 229 (269)
-+.+++++.++.+++ ..|+++|++.|-=+.....+ .. --+..|+..++++.+... ...-+ |.+++ ..
T Consensus 76 ~~~~d~L~~i~~fL~-~nP~EvV~l~l~~~~~~~~~~~~~~~~~~gl~~~~y~p~~~~~~~~~WPT---L~emi----~~ 147 (270)
T cd08588 76 GPLSDVLREVVDFLD-ANPNEVVTLFLEDYVSPGPLLRSKLFRVAGLTDLVYVPDAMPWAGSDWPT---LGEMI----DA 147 (270)
T ss_pred ccHHHHHHHHHHHHH-hCCCcEEEEEEEeCCCcchHHHHHHhhhcCccceEEcCCCCcCCCCCCCC---HHHHH----hc
Confidence 356677777754443 36888888887543332210 00 011246666666554322 12233 44444 25
Q ss_pred CCeEEEEEeCCCC
Q 024329 230 GAKLHAIIDSCYS 242 (269)
Q Consensus 230 g~~l~vIlD~C~S 242 (269)
+++|+++.|-...
T Consensus 148 gkRlvvf~~~~~~ 160 (270)
T cd08588 148 NKRLLVFTDNEDV 160 (270)
T ss_pred CCEEEEEEecCCC
Confidence 7899999888654
No 194
>PF09822 ABC_transp_aux: ABC-type uncharacterized transport system; InterPro: IPR019196 This domain is found in various eukaryotic and prokaryotic intra-flagellar transport proteins involved in gliding motility, as well as in several hypothetical proteins.
Probab=23.35 E-value=2.5e+02 Score=25.27 Aligned_cols=29 Identities=24% Similarity=0.367 Sum_probs=19.8
Q ss_pred CCChHHHHHHHHhccCCCCCeEEEEEeCCC
Q 024329 212 GPIIDDEINATIVRPLPRGAKLHAIIDSCY 241 (269)
Q Consensus 212 g~I~~deL~~~L~~~l~~g~~l~vIlD~C~ 241 (269)
..+++.|+.. |.+=+..|-++++++|.=.
T Consensus 208 ~~ls~~e~~~-l~~yl~~GG~ll~~~d~~~ 236 (271)
T PF09822_consen 208 TDLSEEELYA-LDQYLMNGGKLLILLDPFS 236 (271)
T ss_pred CCCCHHHHHH-HHHHHHcCCeEEEEECCcc
Confidence 3477778754 3343447889999999863
No 195
>TIGR03576 pyridox_MJ0158 pyridoxal phosphate enzyme, MJ0158 family. Members of this archaeal protein family are pyridoxal phosphate enzymes of unknown function. Sequence similarity to SelA, a bacterial enzyme of selenocysteine biosynthesis, has led to some members being misannotated as functionally equivalent, but selenocysteine is made on tRNA in Archaea by a two-step process that does not involve a SelA homolog.
Probab=23.20 E-value=1.8e+02 Score=27.40 Aligned_cols=50 Identities=20% Similarity=0.184 Sum_probs=33.2
Q ss_pred hHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEE
Q 024329 119 SINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFH 180 (269)
Q Consensus 119 ~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfY 180 (269)
...=-+.+.+.|.+.+|++++++.+... ....+...+..| +++||.|++.
T Consensus 52 ~~~~~~~Le~~lA~~~g~~~e~ilv~~g---------g~~a~~~~~~al---~~~gd~Vli~ 101 (346)
T TIGR03576 52 PAIFEEKVQELGREHLGGPEEKILVFNR---------TSSAILATILAL---EPPGRKVVHY 101 (346)
T ss_pred CHHHHHHHHHHHHHHcCCCcceEEEECC---------HHHHHHHHHHHh---CCCCCEEEEC
Confidence 3344556777887777998888766543 345555666555 3689998864
No 196
>PLN02618 tryptophan synthase, beta chain
Probab=23.20 E-value=2.4e+02 Score=27.82 Aligned_cols=26 Identities=23% Similarity=0.410 Sum_probs=20.0
Q ss_pred HHHHHHHHhCCCCCEEEEEEeccccc
Q 024329 162 TAMRWLAQDCQPGDSLVFHYSGHGSR 187 (269)
Q Consensus 162 ~aL~~L~~~~~~gD~lvfYFSGHG~~ 187 (269)
.+..++.+...+++.+|+-+||||..
T Consensus 372 a~a~~~a~~l~~~~~iVv~lsgrG~K 397 (410)
T PLN02618 372 AYLEKLCPTLPDGTKVVVNCSGRGDK 397 (410)
T ss_pred HHHHHHhHhcCCCCEEEEEeCCCCcC
Confidence 33445556678899999999999975
No 197
>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=23.18 E-value=40 Score=23.79 Aligned_cols=31 Identities=23% Similarity=0.518 Sum_probs=21.8
Q ss_pred CcccccCCCCCCceecCCCCceeecccccceeeccCC
Q 024329 2 TSRVERCSGCGRQLWLPPQAVAARCYACRSVTSFPSS 38 (269)
Q Consensus 2 ~~~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~~~~ 38 (269)
-+.+..|.+|+.+ .|- -.|..|...|.++.|
T Consensus 2 ~~~~r~c~~~~~Y-TLk-----~~cp~cG~~T~~ahP 32 (53)
T PF04135_consen 2 RYYIRKCPGCRVY-TLK-----DKCPPCGGPTESAHP 32 (53)
T ss_dssp EEEEEECTTTCEE-ESS-----SBBTTTSSBSEESSS
T ss_pred CcccccCCCCCcE-eCC-----CccCCCCCCCcCCcC
Confidence 3445589999975 221 259999999988865
No 198
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=22.87 E-value=55 Score=25.35 Aligned_cols=28 Identities=25% Similarity=0.528 Sum_probs=19.7
Q ss_pred ccccCCCCCCceecCCCC-------ceeecccccc
Q 024329 4 RVERCSGCGRQLWLPPQA-------VAARCYACRS 31 (269)
Q Consensus 4 ~~~~c~~c~~~~~~~~~~-------~~~~c~~c~~ 31 (269)
....|.+|+++|..-.-. ...||..|++
T Consensus 32 ~rS~C~~C~~~L~~~~lIPi~S~l~lrGrCr~C~~ 66 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLIPILSYLLLRGRCRYCGA 66 (92)
T ss_pred CCCcCcCCCCcCcccccchHHHHHHhCCCCcccCC
Confidence 346799999987655433 2568999984
No 199
>TIGR01573 cas2 CRISPR-associated endoribonuclease Cas2. This model describes most members of the family of Cas2, one of the first four protein families found to mark prokaryotic genomes that contain multiple CRISPR elements. It is an endoribonuclease, capable of cleaving single-stranded RNA. CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeats. The cas genes are found near the repeats. A distinct branch of the Cas2 family shows a very low level of sequence identity and is modeled by TIGR01873 instead.
Probab=22.76 E-value=3.2e+02 Score=20.90 Aligned_cols=54 Identities=9% Similarity=-0.030 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHhhCCCC--cceEEecCCCCCCCCCccHHHHHHHH-HHHHHhCCCCCEEEEEEec
Q 024329 120 INDVKSMWFLLVRMLGFPS--DCVVILTEEEKNPYRIPTKQNIRTAM-RWLAQDCQPGDSLVFHYSG 183 (269)
Q Consensus 120 ~nDA~~m~~~L~~~~Gf~~--~~I~lLtd~e~~~~~~pTk~nI~~aL-~~L~~~~~~gD~lvfYFSG 183 (269)
-.....+++.|. .+||.. .+|..- + .|..++.+.| +.+.+-..+.|+|.||--+
T Consensus 15 ~k~r~kv~k~L~-~~G~~rvQ~SVf~~-~--------~~~~~~~~~l~~~l~~~i~~~dsv~i~~l~ 71 (95)
T TIGR01573 15 RKRRRKLRKLLE-KYGLQRVQYSVFEG-I--------LEPNQLARKLIERLKRIIPDEGDIRIYPLT 71 (95)
T ss_pred HHHHHHHHHHHH-HcchhheeccEEEE-E--------cCHHHHHHHHHHHHHHhCCCCCeEEEEEeC
Confidence 356778999996 588543 223221 1 2444444222 3333334456777777644
No 200
>PF01960 ArgJ: ArgJ family; InterPro: IPR002813 ArgJ is a bifunctional protein that catalyses the first 2.3.1.35 from EC and fifth steps 2.3.1.1 from EC in arginine biosynthesis []. The structure has been determined for glutamate N-acetyltransferase 2 (ornithine acetyltransferase; 2.3.1.35 from EC), an ArgJ-like protein from Streptomyces clavuligerus [].; GO: 0004358 glutamate N-acetyltransferase activity, 0006526 arginine biosynthetic process; PDB: 1VRA_A 1VZ7_A 1VZ8_D 2VZK_H 2V4I_A 2YEP_E 1VZ6_A 3IT4_A 3IT6_D.
Probab=22.73 E-value=2e+02 Score=28.31 Aligned_cols=75 Identities=19% Similarity=0.248 Sum_probs=47.6
Q ss_pred CCCceEEEEEeeCCCCCCCCCCChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCC
Q 024329 96 VYGRKKALLCGVTYNDTNYMLTGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQP 173 (269)
Q Consensus 96 ~~~~k~ALlIGInY~~~~~~L~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~ 173 (269)
..++-+||||=-.-.+-. .=+.-..|+..|.+.+-+.+|.++++|++...-- =..+.| -+.|++.+..+.+.+.+
T Consensus 52 ~~~~~ravvvNSGnANA~-TG~~G~~da~~~~~~~A~~l~~~~~~VlvaSTGV-IG~~lp-~~~i~~~i~~l~~~L~~ 126 (388)
T PF01960_consen 52 KGGRIRAVVVNSGNANAC-TGEQGLEDAEAMAEAVAEALGIPPEEVLVASTGV-IGEPLP-MDKIRAGIPALAESLSS 126 (388)
T ss_dssp CCSBEEEEEEEESE---S--HHHHHHHHHHHHHHHHHHHTCHGGGEEEEEESE-SS-----HHHHHHHHHHHHHCSSS
T ss_pred cCCceEEEEEccCCCCCC-CcHHHHHHHHHHHHHHHHHhCCCcccEEEecccc-ccCcCC-HHHHHHhHHHHHHHhCC
Confidence 457789999833111100 0033469999999999999999999987754320 011234 47799999988887654
No 201
>PRK13912 nuclease NucT; Provisional
Probab=22.65 E-value=3.6e+02 Score=22.80 Aligned_cols=26 Identities=23% Similarity=0.322 Sum_probs=17.6
Q ss_pred HHHHHHHhccCCCCCeEEEEEeCCCC
Q 024329 217 DEINATIVRPLPRGAKLHAIIDSCYS 242 (269)
Q Consensus 217 deL~~~L~~~l~~g~~l~vIlD~C~S 242 (269)
.+|.+.|.+....|++|-+|+|.=.+
T Consensus 59 ~~i~~aL~~Aa~RGV~VrIlld~~~~ 84 (177)
T PRK13912 59 KDIAKALKSAAKRGVKISIIYDYESN 84 (177)
T ss_pred HHHHHHHHHHHHCCCEEEEEEeCccc
Confidence 34555555555689999999997543
No 202
>PLN02672 methionine S-methyltransferase
Probab=22.64 E-value=4.4e+02 Score=29.49 Aligned_cols=37 Identities=24% Similarity=0.333 Sum_probs=24.3
Q ss_pred CCCCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCCC
Q 024329 209 ETEGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSGTVLD 247 (269)
Q Consensus 209 ~~~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~d 247 (269)
.+.|. ++.+++.+++ +.. ....+++|.|-+|++-..+
T Consensus 840 NPTG~v~S~eeLe~Ll-ela-~k~di~VIsDEaYsdL~Fd 877 (1082)
T PLN02672 840 NPTGLLYSNSEIEEIL-SVC-AKYGARVIIDTSFSGLEYD 877 (1082)
T ss_pred CCcCccCCHHHHHHHH-HHH-HHcCCEEEEeCCCCccccC
Confidence 45564 5677777755 333 2246789999999865543
No 203
>PRK06260 threonine synthase; Validated
Probab=22.51 E-value=2.5e+02 Score=27.08 Aligned_cols=34 Identities=15% Similarity=0.235 Sum_probs=25.9
Q ss_pred ccHHHHHHHHHHHHHh--CCCCCEEEEEEecccccc
Q 024329 155 PTKQNIRTAMRWLAQD--CQPGDSLVFHYSGHGSRQ 188 (269)
Q Consensus 155 pTk~nI~~aL~~L~~~--~~~gD~lvfYFSGHG~~~ 188 (269)
|+-..-..++.++.+. ..+++.+++.++|||...
T Consensus 335 pssaaalAa~~~l~~~g~i~~~~~VV~i~tG~glK~ 370 (397)
T PRK06260 335 PASAASVAGLIKLVEEGVIDKDERVVCITTGHLLKD 370 (397)
T ss_pred chHHHHHHHHHHHHHcCCCCCCCeEEEEeCCCccCc
Confidence 5566666777777665 467899999999999854
No 204
>PRK11827 hypothetical protein; Provisional
Probab=22.35 E-value=96 Score=22.38 Aligned_cols=33 Identities=15% Similarity=0.377 Sum_probs=26.8
Q ss_pred cccCCCCCCceecCCCCceeecccccceeeccC
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVTSFPS 37 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~~~ 37 (269)
...|+.|+.+|..-.++....|..|+-+-.|..
T Consensus 8 ILaCP~ckg~L~~~~~~~~Lic~~~~laYPI~d 40 (60)
T PRK11827 8 IIACPVCNGKLWYNQEKQELICKLDNLAFPLRD 40 (60)
T ss_pred heECCCCCCcCeEcCCCCeEECCccCeeccccC
Confidence 456999999999888888888999986666653
No 205
>cd03071 PDI_b'_NRX PDIb' family, NRX subgroup, redox inactive TRX-like domain b'; composed of vertebrate nucleoredoxins (NRX). NRX is a 400-amino acid nuclear protein with one redox active TRX domain followed by one redox inactive TRX-like domain homologous to the b' domain of PDI. In vitro studies show that NRX has thiol oxidoreductase activity and that it may be involved in the redox regulation of transcription, in a manner different from that of TRX or glutaredoxin. NRX enhances the activation of NF-kB by TNFalpha, as well as PMA-1 induced AP-1 and FK-induced CREB activation. Mouse NRX transcripts are expressed in all adult tissues but is restricted to the nervous system and limb buds in embryos. The mouse NRX gene is implicated in streptozotocin-induced diabetes. Similar to PDI, the b' domain of NRX is likely involved in substrate recognition.
Probab=22.31 E-value=3.3e+02 Score=22.19 Aligned_cols=46 Identities=20% Similarity=0.377 Sum_probs=20.7
Q ss_pred ceEEecCCCCCCCCCccHHHHHHHHHHHHHhC--CCCC-EEEEEEeccc
Q 024329 140 CVVILTEEEKNPYRIPTKQNIRTAMRWLAQDC--QPGD-SLVFHYSGHG 185 (269)
Q Consensus 140 ~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~--~~gD-~lvfYFSGHG 185 (269)
.+.++.|.+......+-++-|+..-+...++. +-.| .++|+++|-+
T Consensus 17 ~lvlf~D~Edeg~l~~A~~llQpiAd~~~aka~~k~~dap~~f~~a~ed 65 (116)
T cd03071 17 CLVLFVDSEDEGESEAAKQLIQPIAEKIIAKYKAKEEEAPLLFFVAGED 65 (116)
T ss_pred eEEEEecccchhhHHHHHHHHHHHHHHHHHHhhccCCCcceeeeeeccc
Confidence 46677765532222233333333334444443 3334 4555555543
No 206
>TIGR03812 tyr_de_CO2_Arch tyrosine decarboxylase MnfA. Members of this protein family are the archaeal form, MnfA, of tyrosine decarboxylase, and are involved in methanofuran biosynthesis. Members show clear homology to the Enterococcus form, Tdc, that is involved in tyrosine decarboxylation for resistance to acidic conditions.
Probab=22.05 E-value=5.1e+02 Score=23.79 Aligned_cols=61 Identities=20% Similarity=0.120 Sum_probs=35.2
Q ss_pred ChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHH---HHHHHHhCCCCCEEEEEEeccccc
Q 024329 118 GSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTA---MRWLAQDCQPGDSLVFHYSGHGSR 187 (269)
Q Consensus 118 g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~a---L~~L~~~~~~gD~lvfYFSGHG~~ 187 (269)
+...-.+.+++.|.+.+|.+..++.+... .|-. +..+ +.++...-++||.|++--.+|...
T Consensus 56 ~~~~~~~~~~~~la~~~g~~~~~~~~~~g--------~~~~-~~~~~~~~~~~~~~~~~g~~vl~~~~~h~~~ 119 (373)
T TIGR03812 56 GTKKIEEEVVGSLGNLLHLPDAYGYIVSG--------GTEA-NIQAVRAAKNLAREEKRTPNIIVPESAHFSF 119 (373)
T ss_pred cHHHHHHHHHHHHHHHhCCCCCCeEEecc--------HHHH-HHHHHHHHHHHHhccCCCcEEEECCcchHHH
Confidence 33333466778887778998777655443 2322 3333 333322235678888877777654
No 207
>PRK05638 threonine synthase; Validated
Probab=22.03 E-value=3e+02 Score=26.93 Aligned_cols=39 Identities=18% Similarity=0.267 Sum_probs=29.8
Q ss_pred ccHHHHHHHHHHHHHh--CCCCCEEEEEEeccccccCCCCC
Q 024329 155 PTKQNIRTAMRWLAQD--CQPGDSLVFHYSGHGSRQKDYNK 193 (269)
Q Consensus 155 pTk~nI~~aL~~L~~~--~~~gD~lvfYFSGHG~~~~d~~g 193 (269)
|+...-..++.++.+. ..+++.|++.++|||......-|
T Consensus 323 pssaaa~Aa~~~~~~~g~i~~~~~Vv~i~tG~g~k~~~~~~ 363 (442)
T PRK05638 323 LSSAVVMPALLKLGEEGYIEKGDKVVLVVTGSGLKGYGEGG 363 (442)
T ss_pred chHHHHHHHHHHHHHcCCCCCCCeEEEEeCCCCCCCCCCCc
Confidence 5666677777777765 57889999999999998764444
No 208
>TIGR03538 DapC_gpp succinyldiaminopimelate transaminase. This family of succinyldiaminopimelate transaminases (DapC) includes the experimentally characterized enzyme from Bordatella pertussis. The majority of genes in this family are proximal to genes encoding components of the lysine biosynthesis via diaminopimelate pathway (GenProp0125).
Probab=21.98 E-value=6.1e+02 Score=23.77 Aligned_cols=33 Identities=21% Similarity=0.245 Sum_probs=21.5
Q ss_pred CC-CChHHHHHHHHhccCCCCCeEEEEEeCCCCCCC
Q 024329 211 EG-PIIDDEINATIVRPLPRGAKLHAIIDSCYSGTV 245 (269)
Q Consensus 211 ~g-~I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~ 245 (269)
.| .++.+++.+++ +.. +...+++|.|-+|+.-.
T Consensus 178 tG~~~s~~~~~~l~-~~a-~~~~~~ii~De~Y~~~~ 211 (393)
T TIGR03538 178 TGAVLSLDTLKKLI-ELA-DQYGFIIASDECYSELY 211 (393)
T ss_pred cCcccCHHHHHHHH-HHH-HHCCEEEEECcchhhcc
Confidence 45 45667777654 333 23578999999997544
No 209
>PRK07591 threonine synthase; Validated
Probab=21.91 E-value=2.4e+02 Score=27.57 Aligned_cols=35 Identities=14% Similarity=0.258 Sum_probs=26.0
Q ss_pred ccHHHHHHHHHHHHH--hCCCCCEEEEEEeccccccC
Q 024329 155 PTKQNIRTAMRWLAQ--DCQPGDSLVFHYSGHGSRQK 189 (269)
Q Consensus 155 pTk~nI~~aL~~L~~--~~~~gD~lvfYFSGHG~~~~ 189 (269)
|+-..-..++..+.+ ..++++.|++..+|||....
T Consensus 358 pssaaalAal~~l~~~g~i~~~~~VV~i~tG~G~kd~ 394 (421)
T PRK07591 358 TAGGVTVAVLKKLVEAGKIDPDEETVVYITGNGLKTL 394 (421)
T ss_pred chHHHHHHHHHHHHHhCCCCCCCeEEEEeCCCccCCH
Confidence 455555666777766 36789999999999998743
No 210
>PRK05580 primosome assembly protein PriA; Validated
Probab=21.77 E-value=68 Score=33.47 Aligned_cols=31 Identities=26% Similarity=0.463 Sum_probs=23.4
Q ss_pred cccCCCCCCceecCCCCceeecccccceeec
Q 024329 5 VERCSGCGRQLWLPPQAVAARCYACRSVTSF 35 (269)
Q Consensus 5 ~~~c~~c~~~~~~~~~~~~~~c~~c~~~~~~ 35 (269)
..+|.+|..+|......+...|..|.....+
T Consensus 390 ~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~ 420 (679)
T PRK05580 390 VAECPHCDASLTLHRFQRRLRCHHCGYQEPI 420 (679)
T ss_pred ccCCCCCCCceeEECCCCeEECCCCcCCCCC
Confidence 4568888888888877778888888765443
No 211
>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=21.73 E-value=2.9e+02 Score=25.76 Aligned_cols=62 Identities=13% Similarity=0.150 Sum_probs=39.0
Q ss_pred CChHHHHHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEeccccc
Q 024329 117 TGSINDVKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSR 187 (269)
Q Consensus 117 ~g~~nDA~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~ 187 (269)
.|...-.+.+++.|.+.+|.+.+++.++.+. +. ....++..+.....+||.|++.=..||..
T Consensus 60 ~g~~~~~~~~~~~la~~~g~~~~~v~~~~~g--------~~-~~~~~~~~~~~~~~~gd~Vl~~~~~h~~~ 121 (398)
T cd00613 60 QGRLQALFELQTMLCELTGMDVANASLQDEA--------TA-AAEAAGLAAIRAYHKRNKVLVPDSAHPTN 121 (398)
T ss_pred hhHHHHHHHHHHHHHHHHCCCccceeccCch--------HH-HHHHHHHHHHhcccCCCEEEEcCccCcch
Confidence 5556666788899988888876666554331 33 33434433333323599999877788764
No 212
>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=21.53 E-value=3.5e+02 Score=24.69 Aligned_cols=36 Identities=17% Similarity=0.234 Sum_probs=22.3
Q ss_pred CC-CChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCCCC
Q 024329 211 EG-PIIDDEINATIVRPLPRGAKLHAIIDSCYSGTVLDL 248 (269)
Q Consensus 211 ~g-~I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~dl 248 (269)
.| .++.+++.+++ +... ...+++|+|-+|+......
T Consensus 161 tG~~~~~~~l~~l~-~~~~-~~~~~ii~De~y~~~~~~~ 197 (363)
T PF00155_consen 161 TGSVLSLEELRELA-ELAR-EYNIIIIVDEAYSDLIFGD 197 (363)
T ss_dssp TTBB--HHHHHHHH-HHHH-HTTSEEEEEETTTTGBSSS
T ss_pred cccccccccccchh-hhhc-ccccceeeeeceeccccCC
Confidence 45 45677777754 2221 2367889999998887763
No 213
>PRK10717 cysteine synthase A; Provisional
Probab=21.35 E-value=2.9e+02 Score=25.75 Aligned_cols=35 Identities=23% Similarity=0.261 Sum_probs=24.4
Q ss_pred ccHHHHHHHHHHHHHhCCCCCEEEEEEeccccccC
Q 024329 155 PTKQNIRTAMRWLAQDCQPGDSLVFHYSGHGSRQK 189 (269)
Q Consensus 155 pTk~nI~~aL~~L~~~~~~gD~lvfYFSGHG~~~~ 189 (269)
|+-..-..++.++.+...+++.+++.++|+|....
T Consensus 278 pssga~laa~~~l~~~~~~~~~Vv~v~~g~g~ky~ 312 (330)
T PRK10717 278 GSSGINVAAALRLARELGPGHTIVTILCDSGERYQ 312 (330)
T ss_pred ecHHHHHHHHHHHHHhcCCCCEEEEEECCCchhhc
Confidence 34444455555555556678999999999998743
No 214
>PTZ00376 aspartate aminotransferase; Provisional
Probab=21.30 E-value=5.7e+02 Score=24.22 Aligned_cols=56 Identities=11% Similarity=0.119 Sum_probs=26.8
Q ss_pred CChHHHHHHHHHHHHHhhC--CCCcceEE-ecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEE
Q 024329 117 TGSINDVKSMWFLLVRMLG--FPSDCVVI-LTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFH 180 (269)
Q Consensus 117 ~g~~nDA~~m~~~L~~~~G--f~~~~I~l-Ltd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfY 180 (269)
.|-..=-++++++|.+..+ +.+++|.. .+.- +...+...+.-+..-+++||.|++-
T Consensus 72 ~G~~~lR~aia~~~~~~~~~~~~~~~v~~~~t~G--------~~~al~~~~~~l~~~~~~Gd~Vlv~ 130 (404)
T PTZ00376 72 EGLQSFIEAAQKLLFGEASYALAEKRIATVQALS--------GTGALRLGFEFLKRFLPAGTTVYVS 130 (404)
T ss_pred CCCHHHHHHHHHHhcCCCccccccCeEEEeeccC--------cchHHHHHHHHHHHhcCCCCEEEEc
Confidence 4433334567777754433 45667653 2221 2222222222121225789988864
No 215
>PRK00950 histidinol-phosphate aminotransferase; Validated
Probab=21.28 E-value=5.1e+02 Score=23.72 Aligned_cols=45 Identities=22% Similarity=0.420 Sum_probs=27.3
Q ss_pred HHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEE
Q 024329 124 KSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVF 179 (269)
Q Consensus 124 ~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvf 179 (269)
..+++.+.+.+|.+.++|.+.+.. +.+.|...+..+ +++||.|++
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 667777877778888887553432 333333333333 468898775
No 216
>PLN00175 aminotransferase family protein; Provisional
Probab=21.02 E-value=5.4e+02 Score=24.64 Aligned_cols=35 Identities=14% Similarity=0.285 Sum_probs=21.4
Q ss_pred CCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCCC
Q 024329 211 EGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSGTVLD 247 (269)
Q Consensus 211 ~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~d 247 (269)
.|. ++.+++.+++ +.. +...+++|+|-+|+.-..+
T Consensus 200 tG~~~s~~~l~~l~-~~a-~~~~~~ii~De~Y~~l~~~ 235 (413)
T PLN00175 200 TGKMFTREELELIA-SLC-KENDVLAFTDEVYDKLAFE 235 (413)
T ss_pred CCcCCCHHHHHHHH-HHH-HHcCcEEEEecccCccccC
Confidence 454 3556666644 322 2346889999999775443
No 217
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=20.99 E-value=60 Score=21.82 Aligned_cols=30 Identities=23% Similarity=0.503 Sum_probs=19.9
Q ss_pred CcccccCCCCCCceec--CCC-Cceeecccccc
Q 024329 2 TSRVERCSGCGRQLWL--PPQ-AVAARCYACRS 31 (269)
Q Consensus 2 ~~~~~~c~~c~~~~~~--~~~-~~~~~c~~c~~ 31 (269)
-.-.-+|..|+..+.+ +-+ ...+.|..|.+
T Consensus 2 P~Yey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 2 PIYEYRCTACGHRFEVLQKMSDDPLATCPECGG 34 (52)
T ss_pred CCEEEEeCCCCCEeEEEEecCCCCCCCCCCCCC
Confidence 3344579999995433 323 25678999986
No 218
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=20.91 E-value=2.2e+02 Score=22.01 Aligned_cols=53 Identities=17% Similarity=0.246 Sum_probs=27.0
Q ss_pred HHHHHHHHHhhCCC-CcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEec
Q 024329 124 KSMWFLLVRMLGFP-SDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSG 183 (269)
Q Consensus 124 ~~m~~~L~~~~Gf~-~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSG 183 (269)
..+-++|+++++.+ .+++.+-.+..--|...-+-.++-+.+ +.++.|+++||.
T Consensus 29 ~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f-------~~~~~Liv~Ys~ 82 (87)
T PF04110_consen 29 ATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCF-------GTNGELIVSYSK 82 (87)
T ss_dssp HHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH--------BTTBEEEEEES
T ss_pred HHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHh-------CCCCEEEEEEec
Confidence 44777888777773 355666665532222222333333333 267888899985
No 219
>PF01690 PLRV_ORF5: Potato leaf roll virus readthrough protein; InterPro: IPR002929 This family consists mainly of the Potato leafroll virus (PLrV) read through protein otherwise known as the minor capsid protein. This is generated via a readthrough of open reading frame 3, the coat protein, allowing transcription of open reading frame 5 to give an extended coat protein with a large C-terminal addition or read through domain []. The read through protein is essential for the circulative aphid transmission of PLrV [] and Beet western yellows virus []. The N-terminal region of the luteovirus readthrough domain determines virus binding to Buchnera GroEL and is essential for virus persistence in the aphid [].; GO: 0019028 viral capsid
Probab=20.91 E-value=1.2e+02 Score=30.54 Aligned_cols=36 Identities=14% Similarity=0.081 Sum_probs=28.7
Q ss_pred CEEEEEEeccccccCCCCCCCCCCCcceeeccCCCC
Q 024329 175 DSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHET 210 (269)
Q Consensus 175 D~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~ 210 (269)
-..-+|.|--|.+.-+.-|+..||+-..|+.+|...
T Consensus 99 G~~sV~isceG~q~v~~~gg~~dg~~~GlIAY~~~~ 134 (465)
T PF01690_consen 99 GKWSVEISCEGYQAVSSIGGPNDGKWDGLIAYDNSS 134 (465)
T ss_pred ceEEEEEEecceecccccCCCCCCceeeeEEecCcc
Confidence 345678899999988877888888877888888654
No 220
>PRK09105 putative aminotransferase; Provisional
Probab=20.90 E-value=2.4e+02 Score=26.62 Aligned_cols=47 Identities=19% Similarity=0.241 Sum_probs=31.1
Q ss_pred HHHHHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEE
Q 024329 123 VKSMWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHY 181 (269)
Q Consensus 123 A~~m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYF 181 (269)
...+++.+.+.+|+++++|.+ +.. +.+.|...+..+ +++||.|++.-
T Consensus 80 ~~~Lr~aia~~~~v~~e~I~i-t~G--------s~~ai~~~~~~l---~~~gd~Vli~~ 126 (370)
T PRK09105 80 EDDLRTLFAAQEGLPADHVMA-YAG--------SSEPLNYAVLAF---TSPTAGLVTAD 126 (370)
T ss_pred HHHHHHHHHHHhCcChhhEEE-cCC--------hHHHHHHHHHHH---cCCCCEEEEeC
Confidence 556777787778999888765 332 345555555555 45889888643
No 221
>PRK04870 histidinol-phosphate aminotransferase; Provisional
Probab=20.79 E-value=4e+02 Score=24.53 Aligned_cols=45 Identities=18% Similarity=0.252 Sum_probs=26.7
Q ss_pred HHHHHHHHHhhCCCCc-ceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEE
Q 024329 124 KSMWFLLVRMLGFPSD-CVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFH 180 (269)
Q Consensus 124 ~~m~~~L~~~~Gf~~~-~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfY 180 (269)
..+++.|.+.+|++.+ +|. +++. +.+.|...+..+ +++||.|++-
T Consensus 66 ~~lr~~ia~~~~~~~~~~I~-~t~G--------~~~~i~~~~~~~---~~~gd~vlv~ 111 (356)
T PRK04870 66 AALKAALRAAMGVPAGADVL-LGNG--------SDELIQLLALAC---AKPGATVLAP 111 (356)
T ss_pred HHHHHHHHHHhCcCCCCcEE-EcCC--------HHHHHHHHHHHh---cCCCCEEEEC
Confidence 5677778777787653 554 4432 344444444433 4688988764
No 222
>TIGR03540 DapC_direct LL-diaminopimelate aminotransferase. This clade of the pfam00155 superfamily of aminotransferases includes several which are adjacent to elements of the lysine biosynthesis via diaminopimelate pathway (GenProp0125). Every member of this clade is from a genome which possesses most of the lysine biosynthesis pathway but lacks any of the known aminotransferases, succinylases, desuccinylases, acetylases or deacetylases typical of the acylated versions of this pathway nor do they have the direct, NADPH-dependent enzyme (ddh). Although there is no experimental characterization of any of the sequences in this clade, a direct pathway is known in plants and Chlamydia, so it seems quite reasonable that these enzymes catalyze the same transformation.
Probab=20.72 E-value=6.4e+02 Score=23.42 Aligned_cols=33 Identities=12% Similarity=0.119 Sum_probs=20.5
Q ss_pred CCCCC-hHHHHHHHHhccCCCCCeEEEEEeCCCCCC
Q 024329 210 TEGPI-IDDEINATIVRPLPRGAKLHAIIDSCYSGT 244 (269)
Q Consensus 210 ~~g~I-~~deL~~~L~~~l~~g~~l~vIlD~C~SG~ 244 (269)
+.|.+ +.+++.+++ +.. +...+++|+|.+|+.-
T Consensus 176 PtG~~~~~~~~~~i~-~~a-~~~~~~ii~De~y~~l 209 (383)
T TIGR03540 176 PTGAVAPLKFFKELV-EFA-KEYNIIVCHDNAYSEI 209 (383)
T ss_pred CcCccCCHHHHHHHH-HHH-HHcCEEEEEecchhhh
Confidence 34544 566666654 333 2346889999999743
No 223
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=20.66 E-value=96 Score=21.10 Aligned_cols=30 Identities=13% Similarity=0.398 Sum_probs=23.5
Q ss_pred ccccCC--CCCCceecCC--CCceeeccccccee
Q 024329 4 RVERCS--GCGRQLWLPP--QAVAARCYACRSVT 33 (269)
Q Consensus 4 ~~~~c~--~c~~~~~~~~--~~~~~~c~~c~~~~ 33 (269)
...+|+ +|+..+.... +...++|..|+...
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~f 50 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSF 50 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeE
Confidence 345799 9999888864 88899999897544
No 224
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=20.59 E-value=2e+02 Score=25.10 Aligned_cols=54 Identities=15% Similarity=0.219 Sum_probs=33.7
Q ss_pred cHHHHHHHHHHHHHhCC--CCCEEEEEEeccccccCCCCCCCCCCCcceeeccCCCCCCCChHHHHHHHHhccCCCCCeE
Q 024329 156 TKQNIRTAMRWLAQDCQ--PGDSLVFHYSGHGSRQKDYNKDELDGFDETICPLDHETEGPIIDDEINATIVRPLPRGAKL 233 (269)
Q Consensus 156 Tk~nI~~aL~~L~~~~~--~gD~lvfYFSGHG~~~~d~~gde~dG~de~L~p~D~~~~g~I~~deL~~~L~~~l~~g~~l 233 (269)
.++++++.+++..+.+. .-|.|+ +||.+...+. |.|..+++.++| +..|.+..+
T Consensus 96 ~~~~~~~~~~~a~~~l~~~~~dlvV--------------------LDEi~~Al~~---gli~~eeVl~~L-~~rp~~~ev 151 (178)
T PRK07414 96 EKKALQELWQYTQAVVDEGRYSLVV--------------------LDELSLAIQF---GLIPETEVLEFL-EKRPSHVDV 151 (178)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCEEE--------------------EehhHHHHHC---CCccHHHHHHHH-HhCCCCCEE
Confidence 35667777776666553 345554 2455555554 789999999988 445554444
No 225
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=20.44 E-value=4.8e+02 Score=24.85 Aligned_cols=54 Identities=24% Similarity=0.246 Sum_probs=35.4
Q ss_pred HHHHHHHHhhCCC----------CcceEEecCCC---CC---CCCCccHHHHHHHHHHHHHhCCCCCEEEE
Q 024329 125 SMWFLLVRMLGFP----------SDCVVILTEEE---KN---PYRIPTKQNIRTAMRWLAQDCQPGDSLVF 179 (269)
Q Consensus 125 ~m~~~L~~~~Gf~----------~~~I~lLtd~e---~~---~~~~pTk~nI~~aL~~L~~~~~~gD~lvf 179 (269)
.+.++|.+ .|++ ..||.++.+++ ++ +-...+.+++..-++.+.+.++++|.|++
T Consensus 66 ~~~~~l~~-~gi~~~fv~v~g~TRinvki~~~~~~~~Tein~~Gp~is~~~~~~~l~~~~~~l~~~d~Vvl 135 (310)
T COG1105 66 FFVALLKD-EGIPDAFVEVKGDTRINVKILDEEDGEETEINFPGPEISEAELEQFLEQLKALLESDDIVVL 135 (310)
T ss_pred HHHHHHHh-cCCCceEEEccCCCeeeEEEEecCCCcEEEecCCCCCCCHHHHHHHHHHHHHhcccCCEEEE
Confidence 36666754 3332 35777776642 22 33556788888888888888999998653
No 226
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=20.30 E-value=68 Score=25.62 Aligned_cols=31 Identities=19% Similarity=0.486 Sum_probs=22.3
Q ss_pred cccccCCCCCCceecCCCCceeeccccccee
Q 024329 3 SRVERCSGCGRQLWLPPQAVAARCYACRSVT 33 (269)
Q Consensus 3 ~~~~~c~~c~~~~~~~~~~~~~~c~~c~~~~ 33 (269)
.....|.+|+..-.++-.=+.--|..|+...
T Consensus 40 ~~~~~C~~Cg~~~~~~~SCk~R~CP~C~~~~ 70 (111)
T PF14319_consen 40 FHRYRCEDCGHEKIVYNSCKNRHCPSCQAKA 70 (111)
T ss_pred cceeecCCCCceEEecCcccCcCCCCCCChH
Confidence 3456788888877777777666788887554
No 227
>KOG4044 consensus Mitochondrial associated endoribonuclease MAR1 (isochorismatase superfamily) [General function prediction only]
Probab=20.30 E-value=78 Score=27.84 Aligned_cols=25 Identities=28% Similarity=0.521 Sum_probs=19.9
Q ss_pred CCCeEEEEEeCCCCCCCCCCccccc
Q 024329 229 RGAKLHAIIDSCYSGTVLDLPFVCK 253 (269)
Q Consensus 229 ~g~~l~vIlD~C~SG~~~dlp~~~~ 253 (269)
.|.+++++.|||.|-...|--|...
T Consensus 127 rgl~VhvVaDacSSRs~~DR~~Al~ 151 (201)
T KOG4044|consen 127 RGLNVHVVADACSSRSNQDRDLALE 151 (201)
T ss_pred CCceEEEEeehhccccchhHHHHHH
Confidence 5788999999999998877655443
No 228
>PRK07682 hypothetical protein; Validated
Probab=20.29 E-value=6.3e+02 Score=23.45 Aligned_cols=35 Identities=17% Similarity=0.269 Sum_probs=21.9
Q ss_pred CCC-ChHHHHHHHHhccCCCCCeEEEEEeCCCCCCCCC
Q 024329 211 EGP-IIDDEINATIVRPLPRGAKLHAIIDSCYSGTVLD 247 (269)
Q Consensus 211 ~g~-I~~deL~~~L~~~l~~g~~l~vIlD~C~SG~~~d 247 (269)
.|. ++.+++.+++ +.. +...+++|+|-+|+.-..+
T Consensus 167 tG~~~s~~~~~~l~-~~~-~~~~~~ii~De~y~~~~~~ 202 (378)
T PRK07682 167 TGAVLNKSELEEIA-VIV-EKHDLIVLSDEIYAELTYD 202 (378)
T ss_pred cCcCcCHHHHHHHH-HHH-HHcCcEEEEehhhhhcccC
Confidence 443 4566676654 333 2346899999999865543
No 229
>PRK11598 putative metal dependent hydrolase; Provisional
Probab=20.11 E-value=1.5e+02 Score=30.27 Aligned_cols=17 Identities=18% Similarity=0.217 Sum_probs=14.3
Q ss_pred CCEEEEEEeccccccCC
Q 024329 174 GDSLVFHYSGHGSRQKD 190 (269)
Q Consensus 174 gD~lvfYFSGHG~~~~d 190 (269)
.|+++||+|=||....+
T Consensus 445 ~nT~iIy~SDHGe~lge 461 (545)
T PRK11598 445 FNTSLVYLSDHGESLGE 461 (545)
T ss_pred CCeEEEEECcCCCcccc
Confidence 57999999999997644
No 230
>cd00378 SHMT Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl group of N5, N10-methylene tetrahydrofolate to glycine resulting in the formation of serine and tetrahydrofolate. Both eukaryotic and prokaryotic SHMT enzymes form tight obligate homodimers; the mammalian enzyme forms a homotetramer comprising four pyridoxal phosphate-bound active sites.
Probab=20.04 E-value=7.2e+02 Score=23.18 Aligned_cols=45 Identities=16% Similarity=0.030 Sum_probs=25.1
Q ss_pred HHHHHHHhhCCCCcceEEecCCCCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEec
Q 024329 126 MWFLLVRMLGFPSDCVVILTEEEKNPYRIPTKQNIRTAMRWLAQDCQPGDSLVFHYSG 183 (269)
Q Consensus 126 m~~~L~~~~Gf~~~~I~lLtd~e~~~~~~pTk~nI~~aL~~L~~~~~~gD~lvfYFSG 183 (269)
.++.+.+.+|.+..+|. .+. .| ..+..++..+ +++||.|++--..
T Consensus 70 ~~~~~~~~~g~~~~~v~-~~s--------gt-~a~~~~l~~l---~~~Gd~Vl~~~~~ 114 (402)
T cd00378 70 AIERAKKLFGAEYANVQ-PHS--------GS-QANLAVYFAL---LEPGDTIMGLDLS 114 (402)
T ss_pred HHHHHHHHhCCCceeee-cCC--------cH-HHHHHHHHHh---cCCCCEEEEecCc
Confidence 33445555677654332 222 23 5555666666 4689998885333
Done!