Query 038893
Match_columns 235
No_of_seqs 249 out of 2106
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 04:18:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038893.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038893hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2025 FixB Electron transfer 100.0 3.4E-29 7.4E-34 230.1 5.2 106 6-138 189-302 (313)
2 PRK03363 fixB putative electro 99.9 2.4E-28 5.1E-33 224.8 4.5 107 5-138 188-303 (313)
3 PLN00022 electron transfer fla 99.9 1.3E-27 2.9E-32 223.1 4.1 107 5-138 230-344 (356)
4 PRK11916 electron transfer fla 99.9 2.2E-27 4.9E-32 218.2 4.8 106 6-138 188-302 (312)
5 KOG3954 Electron transfer flav 99.9 1.6E-24 3.5E-29 194.9 4.1 109 3-138 209-325 (336)
6 PF00766 ETF_alpha: Electron t 99.8 2.3E-19 4.9E-24 137.6 5.1 77 7-89 2-86 (86)
7 COG1773 Rubredoxin [Energy pro 99.6 1.6E-15 3.4E-20 107.3 3.4 43 158-200 1-54 (55)
8 cd00730 rubredoxin Rubredoxin; 99.5 4.1E-15 8.8E-20 103.5 2.1 39 160-198 1-50 (50)
9 PF00301 Rubredoxin: Rubredoxi 99.5 5.9E-15 1.3E-19 101.5 2.4 36 160-195 1-47 (47)
10 PRK05452 anaerobic nitric oxid 99.2 8.9E-12 1.9E-16 120.6 3.3 45 156-200 421-476 (479)
11 cd00350 rubredoxin_like Rubred 99.1 6.6E-11 1.4E-15 75.4 2.5 33 160-198 1-33 (33)
12 cd00729 rubredoxin_SM Rubredox 99.0 4.2E-10 9.2E-15 72.4 3.0 33 160-198 2-34 (34)
13 COG1592 Rubrerythrin [Energy p 98.4 1.3E-07 2.8E-12 80.7 1.9 32 160-198 134-165 (166)
14 PF09723 Zn-ribbon_8: Zinc rib 96.8 0.00097 2.1E-08 44.5 2.2 30 160-190 5-34 (42)
15 TIGR02605 CxxC_CxxC_SSSS putat 96.6 0.0016 3.4E-08 44.6 2.5 31 160-191 5-35 (52)
16 smart00834 CxxC_CXXC_SSSS Puta 96.6 0.0018 3.9E-08 41.9 2.4 31 160-191 5-35 (41)
17 PF00595 PDZ: PDZ domain (Also 95.9 0.017 3.7E-07 42.0 4.9 41 55-95 10-53 (81)
18 PRK03824 hypA hydrogenase nick 95.8 0.0079 1.7E-07 49.5 3.2 35 158-192 68-117 (135)
19 cd00136 PDZ PDZ domain, also c 95.8 0.018 3.8E-07 40.4 4.3 40 55-94 1-40 (70)
20 PF05191 ADK_lid: Adenylate ki 95.7 0.01 2.2E-07 38.7 2.8 30 160-191 1-30 (36)
21 PF13180 PDZ_2: PDZ domain; PD 95.6 0.02 4.4E-07 42.0 4.3 37 57-93 3-40 (82)
22 PRK12496 hypothetical protein; 95.4 0.0098 2.1E-07 50.5 2.4 30 160-195 127-156 (164)
23 PRK00398 rpoP DNA-directed RNA 95.1 0.019 4.1E-07 38.7 2.6 31 158-192 1-31 (46)
24 cd00992 PDZ_signaling PDZ doma 94.8 0.052 1.1E-06 38.8 4.3 40 55-94 12-53 (82)
25 smart00531 TFIIE Transcription 94.2 0.023 4.9E-07 47.1 1.4 38 157-194 96-135 (147)
26 smart00228 PDZ Domain present 93.9 0.098 2.1E-06 37.2 4.2 40 55-94 12-53 (85)
27 PRK06266 transcription initiat 93.7 0.027 5.9E-07 48.5 1.0 37 157-196 114-150 (178)
28 PRK03681 hypA hydrogenase nick 93.6 0.061 1.3E-06 43.1 2.8 30 158-192 68-97 (114)
29 cd00989 PDZ_metalloprotease PD 93.5 0.23 5E-06 35.3 5.5 54 58-118 4-57 (79)
30 TIGR00373 conserved hypothetic 93.5 0.023 5E-07 47.9 0.2 37 157-196 106-142 (158)
31 PF01155 HypA: Hydrogenase exp 93.4 0.024 5.1E-07 45.2 0.2 29 158-192 68-96 (113)
32 cd00990 PDZ_glycyl_aminopeptid 93.3 0.15 3.2E-06 36.6 4.2 37 57-94 3-39 (80)
33 PRK12380 hydrogenase nickel in 93.1 0.083 1.8E-06 42.3 2.9 29 158-192 68-96 (113)
34 COG3357 Predicted transcriptio 93.0 0.048 1E-06 42.7 1.3 29 158-190 56-84 (97)
35 TIGR00100 hypA hydrogenase nic 92.7 0.1 2.3E-06 41.8 2.9 29 158-192 68-96 (115)
36 PRK11823 DNA repair protein Ra 92.6 0.062 1.3E-06 52.1 1.8 26 158-191 5-30 (446)
37 cd00991 PDZ_archaeal_metallopr 92.6 0.36 7.7E-06 35.3 5.5 46 66-117 9-54 (79)
38 smart00659 RPOLCX RNA polymera 92.6 0.11 2.4E-06 35.2 2.5 27 160-191 2-28 (44)
39 TIGR00416 sms DNA repair prote 92.6 0.056 1.2E-06 52.6 1.4 25 159-191 6-30 (454)
40 COG1545 Predicted nucleic-acid 92.5 0.11 2.5E-06 42.9 3.0 34 158-199 27-61 (140)
41 COG2331 Uncharacterized protei 91.9 0.033 7.1E-07 42.4 -0.8 31 160-191 12-42 (82)
42 cd00988 PDZ_CTP_protease PDZ d 91.9 0.71 1.5E-05 33.3 6.3 37 57-94 4-40 (85)
43 PRK00564 hypA hydrogenase nick 91.9 0.11 2.5E-06 41.7 2.3 30 158-192 69-98 (117)
44 cd00987 PDZ_serine_protease PD 91.8 0.49 1.1E-05 34.3 5.4 59 66-130 23-83 (90)
45 COG1996 RPC10 DNA-directed RNA 91.6 0.12 2.6E-06 36.1 1.8 31 157-191 3-33 (49)
46 PF07295 DUF1451: Protein of u 90.8 0.24 5.2E-06 41.6 3.2 34 158-197 110-143 (146)
47 PF14311 DUF4379: Domain of un 90.7 0.19 4.2E-06 34.8 2.1 31 157-188 25-55 (55)
48 KOG2906 RNA polymerase III sub 90.6 0.27 5.9E-06 39.1 3.1 43 158-200 19-83 (105)
49 PF13248 zf-ribbon_3: zinc-rib 89.9 0.13 2.7E-06 30.9 0.6 23 161-191 3-25 (26)
50 PRK05978 hypothetical protein; 89.5 0.71 1.5E-05 39.0 5.0 27 160-191 33-61 (148)
51 PRK06260 threonine synthase; V 89.3 0.23 4.9E-06 47.2 2.1 27 158-190 1-27 (397)
52 PRK06450 threonine synthase; V 89.3 0.21 4.6E-06 46.6 1.9 25 160-191 3-27 (338)
53 COG1439 Predicted nucleic acid 89.1 0.27 5.9E-06 42.7 2.2 24 160-191 139-162 (177)
54 cd01121 Sms Sms (bacterial rad 88.7 0.15 3.2E-06 48.5 0.4 23 161-191 1-23 (372)
55 PF13397 DUF4109: Domain of un 88.2 0.53 1.2E-05 37.7 3.2 38 156-194 24-62 (105)
56 PF13240 zinc_ribbon_2: zinc-r 88.0 0.2 4.3E-06 29.5 0.5 22 162-191 1-22 (23)
57 PRK00762 hypA hydrogenase nick 87.9 0.39 8.5E-06 39.0 2.3 34 158-192 68-102 (124)
58 PRK10779 zinc metallopeptidase 87.3 2.8 6E-05 40.6 8.2 58 68-131 222-280 (449)
59 PRK08579 anaerobic ribonucleos 86.8 0.32 6.9E-06 49.5 1.5 25 159-191 567-591 (625)
60 PF09845 DUF2072: Zn-ribbon co 86.7 0.27 5.7E-06 40.8 0.7 36 161-200 2-37 (131)
61 PRK08271 anaerobic ribonucleos 86.6 0.34 7.4E-06 49.3 1.6 25 159-191 565-589 (623)
62 PF09538 FYDLN_acid: Protein o 86.3 0.41 9E-06 38.3 1.6 29 158-191 7-35 (108)
63 TIGR00686 phnA alkylphosphonat 86.1 0.4 8.6E-06 38.6 1.4 23 162-191 4-28 (109)
64 PF12172 DUF35_N: Rubredoxin-l 86.0 0.4 8.7E-06 30.6 1.1 26 158-191 9-34 (37)
65 PF04641 Rtf2: Rtf2 RING-finge 85.8 0.31 6.7E-06 43.9 0.7 25 166-191 135-159 (260)
66 PF03604 DNA_RNApol_7kD: DNA d 85.6 0.54 1.2E-05 29.9 1.5 26 161-191 1-26 (32)
67 TIGR01384 TFS_arch transcripti 85.5 1.2 2.6E-05 34.4 3.8 40 160-199 16-79 (104)
68 COG4640 Predicted membrane pro 85.1 0.36 7.9E-06 46.8 0.9 62 162-233 3-72 (465)
69 COG2093 DNA-directed RNA polym 84.8 0.44 9.5E-06 34.9 1.0 23 161-191 5-27 (64)
70 PF14803 Nudix_N_2: Nudix N-te 84.6 0.21 4.6E-06 32.2 -0.7 15 157-171 19-33 (34)
71 PRK07591 threonine synthase; V 84.5 0.59 1.3E-05 44.9 2.0 25 159-190 17-41 (421)
72 PRK11788 tetratricopeptide rep 84.5 0.44 9.6E-06 43.1 1.1 27 158-192 352-378 (389)
73 PRK10139 serine endoprotease; 84.3 1.8 3.9E-05 42.2 5.3 58 67-130 390-447 (455)
74 COG1066 Sms Predicted ATP-depe 84.0 0.88 1.9E-05 44.6 3.0 30 159-196 6-35 (456)
75 TIGR00054 RIP metalloprotease 83.7 7.3 0.00016 37.5 9.1 60 67-132 203-263 (420)
76 PRK10220 hypothetical protein; 83.6 1 2.3E-05 36.3 2.7 25 161-192 4-30 (111)
77 cd00986 PDZ_LON_protease PDZ d 82.8 3.2 7E-05 29.8 4.9 56 68-130 9-66 (79)
78 PRK14890 putative Zn-ribbon RN 82.6 1.3 2.7E-05 32.1 2.6 31 158-189 23-55 (59)
79 COG2260 Predicted Zn-ribbon RN 82.5 0.9 2E-05 32.8 1.8 21 160-191 5-26 (59)
80 PF07754 DUF1610: Domain of un 82.5 0.77 1.7E-05 27.5 1.2 8 160-167 16-23 (24)
81 TIGR02300 FYDLN_acid conserved 82.5 0.85 1.8E-05 37.8 1.9 29 158-191 7-35 (129)
82 PRK08270 anaerobic ribonucleos 82.4 0.75 1.6E-05 47.0 1.9 26 159-193 625-650 (656)
83 KOG3553 Tax interaction protei 81.6 1.4 3.1E-05 35.5 2.8 26 66-91 58-83 (124)
84 PF00641 zf-RanBP: Zn-finger i 81.1 1.7 3.7E-05 26.5 2.5 26 160-193 4-29 (30)
85 PRK12775 putative trifunctiona 81.0 0.85 1.8E-05 48.7 1.8 28 160-192 821-848 (1006)
86 TIGR02098 MJ0042_CXXC MJ0042 f 80.8 0.96 2.1E-05 28.8 1.3 30 160-191 2-34 (38)
87 COG3364 Zn-ribbon containing p 80.6 0.45 9.8E-06 38.1 -0.3 35 160-198 2-36 (112)
88 COG2956 Predicted N-acetylgluc 80.5 0.7 1.5E-05 44.1 0.8 25 158-190 352-376 (389)
89 PRK13130 H/ACA RNA-protein com 80.4 1.2 2.7E-05 31.8 1.9 22 160-191 5-26 (56)
90 cd01675 RNR_III Class III ribo 80.3 0.87 1.9E-05 45.5 1.5 23 161-191 519-541 (555)
91 PRK06393 rpoE DNA-directed RNA 79.6 0.93 2E-05 33.3 1.1 26 161-196 6-33 (64)
92 TIGR00375 conserved hypothetic 79.4 0.76 1.6E-05 44.1 0.7 26 162-191 242-267 (374)
93 PRK11032 hypothetical protein; 79.3 2 4.2E-05 36.8 3.1 35 158-198 122-156 (160)
94 PLN00049 carboxyl-terminal pro 79.1 2.5 5.3E-05 40.3 4.1 28 68-95 103-130 (389)
95 TIGR00225 prc C-terminal pepti 79.1 2.5 5.5E-05 39.0 4.0 37 57-94 53-89 (334)
96 PHA00626 hypothetical protein 78.4 1.4 3.1E-05 31.7 1.7 31 158-200 21-51 (59)
97 PRK08351 DNA-directed RNA poly 78.3 1.2 2.7E-05 32.3 1.4 21 162-192 5-25 (61)
98 PF14205 Cys_rich_KTR: Cystein 78.0 2.3 5E-05 30.4 2.6 28 161-190 5-36 (55)
99 COG1997 RPL43A Ribosomal prote 78.0 1.7 3.7E-05 33.8 2.1 15 158-172 51-65 (89)
100 PRK10942 serine endoprotease; 77.8 4.1 8.9E-05 39.9 5.3 58 67-130 408-465 (473)
101 TIGR03844 cysteate_syn cysteat 77.7 1.5 3.2E-05 42.1 2.2 24 160-190 2-25 (398)
102 TIGR02827 RNR_anaer_Bdell anae 77.6 1.4 3.1E-05 44.6 2.0 25 159-191 531-555 (586)
103 COG0028 IlvB Thiamine pyrophos 77.3 3 6.5E-05 41.7 4.2 100 23-138 207-320 (550)
104 PRK09263 anaerobic ribonucleos 77.2 1.9 4.2E-05 44.5 2.9 29 159-191 640-668 (711)
105 PRK11186 carboxy-terminal prot 77.0 2.8 6E-05 43.1 4.0 38 57-95 246-284 (667)
106 COG0793 Prc Periplasmic protea 77.0 2.7 5.8E-05 40.5 3.7 39 57-95 102-140 (406)
107 TIGR01206 lysW lysine biosynth 76.5 1.9 4.1E-05 30.5 1.9 29 161-191 3-31 (54)
108 CHL00174 accD acetyl-CoA carbo 76.5 0.64 1.4E-05 43.3 -0.7 27 160-190 37-65 (296)
109 TIGR02037 degP_htrA_DO peripla 76.4 4.4 9.5E-05 38.7 4.9 61 66-132 256-318 (428)
110 PF13719 zinc_ribbon_5: zinc-r 76.4 1.5 3.2E-05 28.4 1.2 30 161-190 3-33 (37)
111 PF05605 zf-Di19: Drought indu 76.2 1.1 2.3E-05 31.0 0.5 29 160-190 2-39 (54)
112 PF10571 UPF0547: Uncharacteri 76.2 1.5 3.2E-05 26.6 1.1 21 162-190 2-22 (26)
113 PRK00481 NAD-dependent deacety 76.1 1.6 3.5E-05 38.6 1.8 34 156-191 118-151 (242)
114 COG1675 TFA1 Transcription ini 75.4 0.73 1.6E-05 39.9 -0.6 38 156-196 109-146 (176)
115 TIGR02037 degP_htrA_DO peripla 75.3 5.5 0.00012 38.0 5.3 58 67-130 362-421 (428)
116 COG1110 Reverse gyrase [DNA re 75.2 0.98 2.1E-05 48.5 0.2 25 159-191 693-717 (1187)
117 COG0777 AccD Acetyl-CoA carbox 75.2 1.4 3.1E-05 40.9 1.3 29 158-190 25-55 (294)
118 PF13597 NRDD: Anaerobic ribon 74.8 0.85 1.8E-05 45.5 -0.4 24 159-191 490-513 (546)
119 TIGR00515 accD acetyl-CoA carb 74.5 0.79 1.7E-05 42.4 -0.6 27 161-191 27-54 (285)
120 TIGR03831 YgiT_finger YgiT-typ 74.4 1.6 3.6E-05 28.2 1.0 12 159-170 31-42 (46)
121 COG2888 Predicted Zn-ribbon RN 74.1 1.9 4.1E-05 31.4 1.3 32 158-189 25-57 (61)
122 PRK07111 anaerobic ribonucleos 74.0 1.6 3.6E-05 45.2 1.5 23 159-190 679-701 (735)
123 PRK05654 acetyl-CoA carboxylas 73.9 0.9 1.9E-05 42.1 -0.4 27 160-190 26-54 (292)
124 PF14446 Prok-RING_1: Prokaryo 73.4 1.5 3.2E-05 31.2 0.7 27 160-192 5-31 (54)
125 PF10263 SprT-like: SprT-like 73.3 2.1 4.5E-05 34.8 1.6 31 158-190 121-151 (157)
126 PRK08197 threonine synthase; V 73.0 2 4.4E-05 40.7 1.7 27 158-191 5-31 (394)
127 PF14169 YdjO: Cold-inducible 73.0 4.3 9.3E-05 29.4 3.0 32 156-191 14-48 (59)
128 PF13894 zf-C2H2_4: C2H2-type 72.9 2.3 5E-05 23.2 1.3 12 161-172 1-12 (24)
129 TIGR01713 typeII_sec_gspC gene 72.8 4.7 0.0001 36.6 4.0 62 67-134 191-254 (259)
130 PF01102 Glycophorin_A: Glycop 72.7 2.8 6.1E-05 34.3 2.2 22 213-234 67-88 (122)
131 PF13717 zinc_ribbon_4: zinc-r 72.6 2.4 5.2E-05 27.3 1.5 28 161-190 3-33 (36)
132 PRK14704 anaerobic ribonucleos 71.9 2.3 5E-05 43.3 1.9 24 159-191 558-581 (618)
133 PRK10139 serine endoprotease; 71.4 4.9 0.00011 39.2 4.0 59 66-130 289-349 (455)
134 TIGR02038 protease_degS peripl 71.2 6.5 0.00014 36.8 4.6 58 67-130 278-337 (351)
135 TIGR00354 polC DNA polymerase, 70.9 2.3 5.1E-05 45.4 1.7 24 158-191 623-646 (1095)
136 smart00661 RPOL9 RNA polymeras 70.8 2.2 4.7E-05 28.6 1.0 13 160-172 20-32 (52)
137 TIGR00595 priA primosomal prot 70.8 3 6.6E-05 41.1 2.4 10 182-191 253-262 (505)
138 PRK05638 threonine synthase; V 70.1 2.4 5.1E-05 40.9 1.5 23 161-191 2-24 (442)
139 PF08274 PhnA_Zn_Ribbon: PhnA 69.8 1.6 3.4E-05 27.4 0.1 22 162-190 4-27 (30)
140 PF00096 zf-C2H2: Zinc finger, 69.1 3.4 7.3E-05 23.0 1.4 12 161-172 1-12 (23)
141 COG0846 SIR2 NAD-dependent pro 69.1 2.8 6.1E-05 38.1 1.7 34 156-191 118-155 (250)
142 PRK14526 adenylate kinase; Pro 68.9 3.2 7E-05 36.3 1.9 33 156-190 118-150 (211)
143 PF14206 Cys_rich_CPCC: Cystei 68.8 5.1 0.00011 30.4 2.7 30 160-194 1-32 (78)
144 PRK10898 serine endoprotease; 68.4 11 0.00023 35.5 5.4 28 67-94 279-306 (353)
145 TIGR01031 rpmF_bact ribosomal 68.0 4.3 9.3E-05 28.7 2.1 38 145-191 9-48 (55)
146 PRK00420 hypothetical protein; 67.8 3 6.6E-05 33.7 1.4 29 158-191 21-49 (112)
147 KOG3550 Receptor targeting pro 67.5 4.3 9.4E-05 35.0 2.4 45 50-94 93-143 (207)
148 COG1594 RPB9 DNA-directed RNA 67.5 5.2 0.00011 32.1 2.7 42 158-199 20-89 (113)
149 COG1571 Predicted DNA-binding 66.8 29 0.00063 34.1 8.1 32 140-173 349-380 (421)
150 TIGR03279 cyano_FeS_chp putati 66.8 7.6 0.00017 38.1 4.2 49 71-127 2-50 (433)
151 COG0375 HybF Zn finger protein 66.6 3.4 7.4E-05 33.6 1.5 29 158-192 68-96 (115)
152 PRK12286 rpmF 50S ribosomal pr 66.4 5.1 0.00011 28.5 2.2 39 146-193 12-51 (57)
153 TIGR00155 pqiA_fam integral me 66.4 4.6 0.0001 39.0 2.6 30 161-192 14-43 (403)
154 TIGR02487 NrdD anaerobic ribon 66.3 3 6.6E-05 42.0 1.4 24 160-191 524-547 (579)
155 COG1503 eRF1 Peptide chain rel 66.0 3.4 7.4E-05 40.2 1.6 34 157-191 324-357 (411)
156 PRK15103 paraquat-inducible me 65.7 4.8 0.0001 39.1 2.6 30 161-192 11-40 (419)
157 COG1645 Uncharacterized Zn-fin 65.7 2.3 4.9E-05 35.4 0.3 25 157-190 25-52 (131)
158 PRK08322 acetolactate synthase 65.2 4.4 9.6E-05 39.6 2.3 109 23-138 203-316 (547)
159 PF04810 zf-Sec23_Sec24: Sec23 64.9 1.2 2.6E-05 29.3 -1.2 29 162-190 4-32 (40)
160 cd01412 SIRT5_Af1_CobB SIRT5_A 64.8 4.4 9.5E-05 35.3 2.0 36 155-191 104-139 (224)
161 KOG3532 Predicted protein kina 64.3 4.7 0.0001 42.0 2.3 40 53-92 384-423 (1051)
162 PRK08329 threonine synthase; V 64.1 3.3 7.1E-05 38.7 1.1 23 161-191 2-24 (347)
163 PRK04011 peptide chain release 63.8 5.3 0.00012 38.6 2.5 33 159-191 327-359 (411)
164 PRK05580 primosome assembly pr 63.6 4.7 0.0001 41.3 2.2 10 182-191 421-430 (679)
165 PF14353 CpXC: CpXC protein 63.5 3.6 7.8E-05 32.8 1.1 11 160-170 38-48 (128)
166 PF00205 TPP_enzyme_M: Thiamin 63.4 2.2 4.8E-05 33.9 -0.2 70 23-100 18-90 (137)
167 PF02146 SIR2: Sir2 family; I 62.9 3.1 6.6E-05 34.9 0.6 32 158-191 103-138 (178)
168 PRK10942 serine endoprotease; 62.5 5.4 0.00012 39.1 2.3 59 66-130 310-370 (473)
169 TIGR00627 tfb4 transcription f 61.4 5.4 0.00012 36.8 2.0 24 159-190 254-277 (279)
170 COG1867 TRM1 N2,N2-dimethylgua 61.2 6.2 0.00014 38.1 2.4 28 158-190 238-265 (380)
171 TIGR01504 glyox_carbo_lig glyo 60.7 4.6 9.9E-05 40.3 1.5 105 22-138 208-324 (588)
172 PRK14873 primosome assembly pr 60.6 5.5 0.00012 40.9 2.1 11 182-192 422-432 (665)
173 cd04718 BAH_plant_2 BAH, or Br 60.0 8.5 0.00018 32.6 2.8 20 175-194 10-30 (148)
174 PRK07979 acetolactate synthase 59.6 6.4 0.00014 39.0 2.3 106 22-138 212-327 (574)
175 PF04161 Arv1: Arv1-like famil 59.3 4.8 0.0001 35.2 1.2 39 161-200 1-42 (208)
176 PRK12860 transcriptional activ 59.0 7.8 0.00017 34.0 2.5 30 158-189 132-161 (189)
177 COG0675 Transposase and inacti 58.9 4.1 8.8E-05 36.0 0.7 21 161-190 310-330 (364)
178 PRK08979 acetolactate synthase 58.9 5.8 0.00013 39.3 1.9 110 22-137 212-326 (572)
179 COG1379 PHP family phosphoeste 58.7 2.9 6.2E-05 40.0 -0.3 26 162-190 248-273 (403)
180 TIGR01405 polC_Gram_pos DNA po 58.6 6 0.00013 43.4 2.0 31 160-191 683-717 (1213)
181 PRK12722 transcriptional activ 58.4 8 0.00017 33.9 2.4 32 158-191 132-163 (187)
182 TIGR03830 CxxCG_CxxCG_HTH puta 58.4 4.1 8.9E-05 31.8 0.6 8 183-190 32-39 (127)
183 PF14319 Zn_Tnp_IS91: Transpos 58.2 11 0.00024 30.0 3.0 31 157-191 39-69 (111)
184 PF06676 DUF1178: Protein of u 58.0 6.5 0.00014 33.2 1.8 33 161-194 6-44 (148)
185 PF12773 DZR: Double zinc ribb 57.9 9.5 0.00021 25.4 2.3 8 183-190 30-37 (50)
186 PF02132 RecR: RecR protein; 57.8 2.4 5.2E-05 27.9 -0.7 26 158-193 15-40 (41)
187 PRK04351 hypothetical protein; 57.5 4.9 0.00011 33.8 0.9 31 158-190 110-140 (149)
188 PF15499 Peptidase_C98: Ubiqui 57.1 6.8 0.00015 36.2 1.8 31 161-191 135-179 (275)
189 PRK08527 acetolactate synthase 56.9 6.8 0.00015 38.7 1.9 111 22-138 209-324 (563)
190 COG1198 PriA Primosomal protei 56.6 5.6 0.00012 41.4 1.4 30 161-192 436-485 (730)
191 cd01410 SIRT7 SIRT7: Eukaryoti 56.4 3.7 7.9E-05 35.8 -0.0 34 158-191 93-129 (206)
192 cd01411 SIR2H SIR2H: Uncharact 56.3 7.5 0.00016 34.2 1.9 30 158-191 116-145 (225)
193 PRK01110 rpmF 50S ribosomal pr 56.2 13 0.00028 26.7 2.8 25 158-192 25-49 (60)
194 PF08421 Methyltransf_13: Puta 56.1 7.9 0.00017 27.6 1.7 43 131-173 11-53 (62)
195 COG1655 Uncharacterized protei 55.3 1.9 4.1E-05 39.3 -2.0 44 159-202 18-84 (267)
196 PHA02942 putative transposase; 55.3 5.3 0.00011 38.2 0.9 26 161-191 326-351 (383)
197 KOG2691 RNA polymerase II subu 55.2 21 0.00046 28.9 4.1 39 160-198 26-89 (113)
198 COG0333 RpmF Ribosomal protein 55.0 11 0.00023 27.1 2.2 40 145-193 11-51 (57)
199 PF04135 Nop10p: Nucleolar RNA 54.5 9.6 0.00021 27.0 1.9 20 162-191 7-26 (53)
200 PF09943 DUF2175: Uncharacteri 53.8 3.5 7.6E-05 32.9 -0.5 26 160-185 2-30 (101)
201 PRK00432 30S ribosomal protein 53.7 13 0.00029 25.7 2.4 13 159-171 36-48 (50)
202 COG2824 PhnA Uncharacterized Z 53.7 7.3 0.00016 31.5 1.3 26 161-193 4-31 (112)
203 PRK14138 NAD-dependent deacety 53.6 6.9 0.00015 35.0 1.3 33 156-191 115-152 (244)
204 PF02439 Adeno_E3_CR2: Adenovi 53.5 16 0.00034 24.3 2.6 22 211-232 4-25 (38)
205 PTZ00408 NAD-dependent deacety 53.2 7.1 0.00015 35.0 1.3 41 157-200 114-158 (242)
206 PRK15103 paraquat-inducible me 53.0 7.8 0.00017 37.6 1.6 24 160-191 221-244 (419)
207 PF08271 TF_Zn_Ribbon: TFIIB z 52.9 16 0.00035 23.9 2.7 13 160-172 19-31 (43)
208 PF06397 Desulfoferrod_N: Desu 52.8 10 0.00022 24.8 1.6 14 158-171 4-17 (36)
209 smart00547 ZnF_RBZ Zinc finger 52.8 6.8 0.00015 22.8 0.8 24 160-191 2-25 (26)
210 PF13465 zf-H2C2_2: Zinc-finge 52.5 11 0.00023 22.2 1.6 12 159-170 13-24 (26)
211 PRK10779 zinc metallopeptidase 52.0 8.6 0.00019 37.2 1.8 27 68-94 127-153 (449)
212 PF13451 zf-trcl: Probable zin 52.0 8.1 0.00017 26.9 1.1 29 160-190 4-41 (49)
213 PF02150 RNA_POL_M_15KD: RNA p 51.8 9.9 0.00021 24.3 1.4 11 162-172 22-32 (35)
214 PF11682 DUF3279: Protein of u 51.6 8.7 0.00019 31.8 1.5 25 158-191 95-119 (128)
215 TIGR03037 anthran_nbaC 3-hydro 51.2 8.2 0.00018 33.0 1.3 36 155-190 109-159 (159)
216 PTZ00088 adenylate kinase 1; P 51.1 8.5 0.00018 34.1 1.4 34 156-190 126-166 (229)
217 COG5257 GCD11 Translation init 51.1 12 0.00027 36.0 2.5 28 159-195 56-85 (415)
218 cd01407 SIR2-fam SIR2 family o 51.1 8.1 0.00018 33.6 1.3 34 156-191 105-142 (218)
219 cd01408 SIRT1 SIRT1: Eukaryoti 50.9 3.3 7.1E-05 36.8 -1.2 43 158-200 114-159 (235)
220 PLN02674 adenylate kinase 50.7 10 0.00022 34.3 1.9 33 156-190 154-186 (244)
221 PRK00448 polC DNA polymerase I 50.6 9.6 0.00021 42.6 2.0 31 160-191 908-942 (1437)
222 PRK06725 acetolactate synthase 50.6 14 0.0003 36.8 3.0 107 21-138 219-335 (570)
223 PRK06456 acetolactate synthase 50.5 12 0.00025 37.0 2.4 112 21-138 212-329 (572)
224 PRK06154 hypothetical protein; 50.3 13 0.00029 36.8 2.8 111 22-138 220-333 (565)
225 COG2176 PolC DNA polymerase II 50.3 13 0.00029 40.9 3.0 32 159-191 913-948 (1444)
226 PRK14892 putative transcriptio 50.0 13 0.00028 29.4 2.1 36 158-194 19-54 (99)
227 PF04216 FdhE: Protein involve 49.6 15 0.00033 33.4 2.9 27 160-194 196-223 (290)
228 smart00350 MCM minichromosome 49.3 16 0.00035 36.0 3.2 35 158-192 35-71 (509)
229 PLN02573 pyruvate decarboxylas 49.3 18 0.00038 36.1 3.5 74 22-101 230-305 (578)
230 KOG0609 Calcium/calmodulin-dep 48.6 13 0.00027 37.5 2.3 38 54-91 133-171 (542)
231 TIGR00155 pqiA_fam integral me 48.6 11 0.00024 36.4 1.9 26 160-192 215-240 (403)
232 PTZ00382 Variant-specific surf 48.4 27 0.00058 27.2 3.7 19 213-231 69-87 (96)
233 PF07282 OrfB_Zn_ribbon: Putat 48.0 23 0.00051 25.0 3.1 26 161-190 29-54 (69)
234 TIGR00595 priA primosomal prot 47.5 8.8 0.00019 37.9 1.0 10 161-170 214-223 (505)
235 PRK07418 acetolactate synthase 47.4 17 0.00036 36.5 3.0 110 22-137 230-344 (616)
236 PLN02569 threonine synthase 47.4 11 0.00023 37.4 1.6 26 158-190 47-72 (484)
237 PRK08266 hypothetical protein; 47.2 13 0.00028 36.4 2.1 103 23-138 212-316 (542)
238 COG1198 PriA Primosomal protei 47.2 13 0.00028 38.8 2.3 11 159-169 461-471 (730)
239 TIGR00054 RIP metalloprotease 47.2 14 0.0003 35.6 2.3 28 67-94 128-155 (420)
240 COG3975 Predicted protease wit 47.1 30 0.00066 35.0 4.7 40 57-97 453-492 (558)
241 KOG3580 Tight junction protein 47.1 14 0.00031 38.2 2.4 40 54-93 416-455 (1027)
242 PRK07789 acetolactate synthase 47.0 12 0.00025 37.5 1.8 106 22-138 237-352 (612)
243 PRK06112 acetolactate synthase 47.0 14 0.00031 36.5 2.4 108 23-138 220-338 (578)
244 TIGR00615 recR recombination p 47.0 11 0.00023 33.3 1.4 28 158-195 51-78 (195)
245 PRK06965 acetolactate synthase 46.9 18 0.00038 36.1 3.1 109 22-138 227-343 (587)
246 cd01413 SIR2_Af2 SIR2_Af2: Arc 46.9 13 0.00028 32.6 1.9 35 156-191 109-145 (222)
247 PF02891 zf-MIZ: MIZ/SP-RING z 46.9 7.3 0.00016 26.8 0.3 8 183-190 42-49 (50)
248 KOG3113 Uncharacterized conser 46.6 9 0.0002 35.4 0.9 29 28-57 19-48 (293)
249 PRK07218 replication factor A; 46.0 13 0.00028 36.4 1.9 27 160-196 297-323 (423)
250 PRK06466 acetolactate synthase 45.9 17 0.00036 36.1 2.7 111 22-138 212-327 (574)
251 PRK14715 DNA polymerase II lar 45.8 11 0.00024 42.0 1.5 24 158-191 672-695 (1627)
252 PRK00464 nrdR transcriptional 45.4 16 0.00034 31.0 2.1 16 183-198 29-44 (154)
253 PF11023 DUF2614: Protein of u 45.3 9.8 0.00021 30.9 0.8 34 160-199 69-102 (114)
254 PF11238 DUF3039: Protein of u 44.7 15 0.00032 26.6 1.6 29 158-189 23-51 (58)
255 COG2051 RPS27A Ribosomal prote 44.6 8.6 0.00019 28.5 0.4 29 159-190 18-46 (67)
256 PF09788 Tmemb_55A: Transmembr 44.3 72 0.0016 29.4 6.3 30 158-189 155-184 (256)
257 PRK13264 3-hydroxyanthranilate 44.2 11 0.00024 32.8 1.1 36 155-190 115-165 (177)
258 PF01783 Ribosomal_L32p: Ribos 43.7 21 0.00045 25.0 2.2 24 158-190 24-47 (56)
259 PF05280 FlhC: Flagellar trans 43.5 19 0.0004 31.1 2.3 32 158-191 132-163 (175)
260 PF04438 zf-HIT: HIT zinc fing 43.3 8.5 0.00018 23.9 0.1 20 161-191 3-22 (30)
261 PRK13844 recombination protein 43.3 13 0.00029 32.9 1.4 27 158-194 55-81 (200)
262 PF01927 Mut7-C: Mut7-C RNAse 43.1 13 0.00028 30.6 1.3 14 159-172 123-136 (147)
263 TIGR00108 eRF peptide chain re 43.0 19 0.00041 34.8 2.6 33 159-192 323-356 (409)
264 PF09082 DUF1922: Domain of un 42.9 9.9 0.00021 28.3 0.5 12 160-172 3-15 (68)
265 PF01927 Mut7-C: Mut7-C RNAse 42.6 13 0.00029 30.5 1.3 31 160-190 91-132 (147)
266 PRK00076 recR recombination pr 42.6 14 0.00031 32.5 1.5 29 158-196 51-79 (196)
267 KOG2593 Transcription initiati 42.3 7.7 0.00017 38.1 -0.2 34 158-191 126-162 (436)
268 PTZ00409 Sir2 (Silent Informat 42.3 13 0.00028 34.0 1.2 16 158-173 135-150 (271)
269 KOG3129 26S proteasome regulat 42.2 23 0.00049 32.0 2.7 34 66-99 138-171 (231)
270 KOG3507 DNA-directed RNA polym 42.2 22 0.00048 25.9 2.1 28 158-190 18-45 (62)
271 PF03833 PolC_DP2: DNA polymer 41.5 8.8 0.00019 40.7 0.0 9 184-192 694-702 (900)
272 PRK06386 replication factor A; 41.4 21 0.00046 34.2 2.6 28 160-197 236-263 (358)
273 PF01780 Ribosomal_L37ae: Ribo 41.3 17 0.00037 28.4 1.6 15 158-172 51-65 (90)
274 COG2401 ABC-type ATPase fused 41.2 18 0.00038 36.3 2.0 49 157-213 127-193 (593)
275 PRK08155 acetolactate synthase 41.1 17 0.00037 35.9 1.9 105 21-138 216-332 (564)
276 TIGR03457 sulphoacet_xsc sulfo 41.0 27 0.00058 34.6 3.3 103 23-137 203-319 (579)
277 smart00504 Ubox Modified RING 40.9 4.8 0.0001 27.6 -1.4 27 162-191 15-44 (63)
278 TIGR00280 L37a ribosomal prote 40.8 20 0.00044 28.1 1.9 14 159-172 52-65 (91)
279 CHL00099 ilvB acetohydroxyacid 40.7 23 0.0005 35.2 2.8 110 22-137 223-337 (585)
280 PTZ00255 60S ribosomal protein 40.5 22 0.00047 27.8 2.1 14 159-172 53-66 (90)
281 PRK07282 acetolactate synthase 40.5 19 0.00042 35.6 2.2 67 22-100 216-289 (566)
282 KOG2462 C2H2-type Zn-finger pr 40.5 22 0.00048 33.1 2.4 32 158-190 128-169 (279)
283 PF13878 zf-C2H2_3: zinc-finge 40.0 11 0.00024 24.9 0.3 14 160-173 13-26 (41)
284 PRK14873 primosome assembly pr 39.4 14 0.0003 38.1 1.0 11 161-171 384-394 (665)
285 PF03850 Tfb4: Transcription f 39.3 17 0.00036 33.5 1.5 25 159-189 252-276 (276)
286 KOG3993 Transcription factor ( 38.3 4.3 9.3E-05 39.9 -2.6 31 159-189 266-302 (500)
287 TIGR02418 acolac_catab acetola 37.5 31 0.00067 33.8 3.1 112 21-138 200-316 (539)
288 PRK06546 pyruvate dehydrogenas 37.5 16 0.00034 36.4 1.1 104 23-137 208-313 (578)
289 PF08882 Acetone_carb_G: Aceto 37.4 12 0.00026 30.4 0.2 8 183-190 75-82 (112)
290 PF13909 zf-H2C2_5: C2H2-type 37.3 20 0.00044 20.2 1.1 11 161-171 1-11 (24)
291 PRK08402 replication factor A; 36.9 28 0.00061 33.2 2.6 33 160-196 212-246 (355)
292 cd00296 SIR2 SIR2 superfamily 36.8 19 0.00042 30.7 1.4 33 158-191 111-143 (222)
293 cd07973 Spt4 Transcription elo 36.5 20 0.00044 28.2 1.4 23 162-189 5-27 (98)
294 PF06044 DRP: Dam-replacing fa 36.4 6.8 0.00015 35.9 -1.5 38 160-200 31-68 (254)
295 PRK09107 acetolactate synthase 36.0 24 0.00051 35.4 2.1 110 23-138 219-335 (595)
296 COG1328 NrdD Oxygen-sensitive 36.0 19 0.00041 37.5 1.4 24 160-191 641-664 (700)
297 KOG0478 DNA replication licens 35.8 17 0.00036 38.1 0.9 33 158-190 262-294 (804)
298 KOG3571 Dishevelled 3 and rela 35.7 37 0.00081 34.4 3.3 44 57-100 263-312 (626)
299 PF13824 zf-Mss51: Zinc-finger 35.5 28 0.0006 24.9 1.8 10 182-191 14-23 (55)
300 PRK08978 acetolactate synthase 35.5 37 0.0008 33.3 3.3 111 22-138 202-317 (548)
301 KOG3134 Predicted membrane pro 35.4 9.7 0.00021 34.3 -0.7 39 161-200 1-42 (225)
302 COG1379 PHP family phosphoeste 35.4 12 0.00026 35.9 -0.1 61 107-170 215-275 (403)
303 COG1571 Predicted DNA-binding 35.2 31 0.00067 33.9 2.7 41 161-206 351-393 (421)
304 PRK05333 NAD-dependent deacety 35.1 32 0.00068 31.4 2.6 16 156-171 124-139 (285)
305 TIGR01562 FdhE formate dehydro 35.1 42 0.00092 31.5 3.4 24 162-193 212-235 (305)
306 PRK04023 DNA polymerase II lar 35.0 19 0.00041 39.0 1.3 11 159-169 625-635 (1121)
307 PF10122 Mu-like_Com: Mu-like 35.0 9.8 0.00021 26.8 -0.6 29 160-190 4-32 (51)
308 PF15135 UPF0515: Uncharacteri 34.7 20 0.00043 33.1 1.2 42 160-203 132-176 (278)
309 PRK14714 DNA polymerase II lar 34.7 21 0.00046 39.5 1.6 11 159-169 666-676 (1337)
310 TIGR00319 desulf_FeS4 desulfof 34.6 29 0.00064 21.6 1.6 15 158-172 5-19 (34)
311 TIGR03394 indol_phenyl_DC indo 34.5 47 0.001 32.8 3.8 75 22-102 207-283 (535)
312 cd00974 DSRD Desulforedoxin (D 34.3 30 0.00065 21.6 1.6 13 159-171 3-15 (34)
313 COG0353 RecR Recombinational D 34.2 23 0.0005 31.4 1.4 30 158-197 52-81 (198)
314 PF13453 zf-TFIIB: Transcripti 34.2 10 0.00022 24.6 -0.5 12 159-170 18-29 (41)
315 PRK10996 thioredoxin 2; Provis 33.9 36 0.00078 27.3 2.5 29 161-191 3-31 (139)
316 PRK04338 N(2),N(2)-dimethylgua 33.8 39 0.00085 32.3 3.1 28 158-190 242-269 (382)
317 smart00709 Zpr1 Duplicated dom 33.8 14 0.00031 31.3 0.1 16 159-174 28-43 (160)
318 PRK05580 primosome assembly pr 33.7 19 0.00042 36.9 1.0 10 161-170 382-391 (679)
319 PRK14529 adenylate kinase; Pro 33.6 27 0.00059 31.0 1.9 34 156-190 122-156 (223)
320 PF08792 A2L_zn_ribbon: A2L zi 33.5 30 0.00065 21.9 1.6 8 160-167 3-10 (33)
321 PRK07525 sulfoacetaldehyde ace 33.4 52 0.0011 32.8 4.0 66 23-100 207-279 (588)
322 PF12760 Zn_Tnp_IS1595: Transp 33.3 27 0.00059 23.2 1.4 11 181-191 17-27 (46)
323 smart00778 Prim_Zn_Ribbon Zinc 33.1 33 0.00071 22.5 1.7 17 184-202 5-21 (37)
324 PF13912 zf-C2H2_6: C2H2-type 33.0 28 0.00062 19.9 1.3 13 160-172 1-13 (27)
325 TIGR03254 oxalate_oxc oxalyl-C 32.9 32 0.00069 33.9 2.4 99 22-138 212-321 (554)
326 COG4332 Uncharacterized protei 32.7 11 0.00024 33.2 -0.7 33 159-198 48-80 (203)
327 smart00731 SprT SprT homologue 32.7 25 0.00054 28.7 1.4 31 159-190 111-141 (146)
328 KOG0320 Predicted E3 ubiquitin 32.6 19 0.00042 31.6 0.7 39 159-197 130-184 (187)
329 PF09332 Mcm10: Mcm10 replicat 32.6 30 0.00065 33.0 2.1 37 159-198 251-317 (344)
330 PRK00945 acetyl-CoA decarbonyl 32.6 38 0.00083 29.2 2.5 73 23-98 41-119 (171)
331 PF05876 Terminase_GpA: Phage 32.5 21 0.00045 35.8 1.1 32 161-192 201-239 (557)
332 TIGR00118 acolac_lg acetolacta 32.1 46 0.001 32.7 3.4 74 22-101 207-281 (558)
333 COG0265 DegQ Trypsin-like seri 31.8 44 0.00095 30.8 3.0 47 66-118 269-315 (347)
334 PRK00279 adk adenylate kinase; 31.8 37 0.00079 29.0 2.3 32 157-190 124-155 (215)
335 cd01409 SIRT4 SIRT4: Eukaryoti 31.7 30 0.00064 31.3 1.8 14 158-171 116-129 (260)
336 TIGR03676 aRF1/eRF1 peptide ch 31.6 37 0.0008 32.9 2.5 33 159-191 319-351 (403)
337 PF01096 TFIIS_C: Transcriptio 31.6 34 0.00074 22.2 1.6 12 159-170 27-38 (39)
338 PRK07524 hypothetical protein; 31.5 26 0.00055 34.3 1.5 105 24-138 209-320 (535)
339 COG0068 HypF Hydrogenase matur 31.1 28 0.00061 36.4 1.7 31 158-190 148-181 (750)
340 PTZ00410 NAD-dependent SIR2; P 30.9 21 0.00045 34.1 0.7 41 158-198 145-188 (349)
341 PF08273 Prim_Zn_Ribbon: Zinc- 30.9 35 0.00075 22.7 1.6 18 184-202 5-22 (40)
342 PF08772 NOB1_Zn_bind: Nin one 30.8 42 0.0009 25.1 2.2 25 160-191 9-33 (73)
343 TIGR00622 ssl1 transcription f 30.7 29 0.00063 28.1 1.4 10 161-170 2-11 (112)
344 TIGR00354 polC DNA polymerase, 30.6 32 0.0007 37.2 2.1 27 158-190 1010-1036(1095)
345 PF06221 zf-C2HC5: Putative zi 30.5 31 0.00068 24.7 1.4 27 160-191 18-44 (57)
346 PRK06457 pyruvate dehydrogenas 30.5 28 0.00061 34.2 1.6 106 23-138 202-309 (549)
347 smart00440 ZnF_C2C2 C2C2 Zinc 30.5 35 0.00077 22.3 1.6 13 159-171 27-39 (40)
348 COG5349 Uncharacterized protei 30.4 18 0.00038 29.9 0.1 27 160-191 21-49 (126)
349 PHA00732 hypothetical protein 30.2 30 0.00066 26.0 1.4 28 161-190 2-35 (79)
350 PF10609 ParA: ParA/MinD ATPas 30.2 34 0.00073 26.1 1.6 15 158-172 63-77 (81)
351 COG1241 MCM2 Predicted ATPase 30.1 52 0.0011 34.3 3.4 30 158-188 127-157 (682)
352 PRK06048 acetolactate synthase 30.1 59 0.0013 32.1 3.8 111 22-138 213-328 (561)
353 PF11931 DUF3449: Domain of un 29.8 17 0.00038 32.0 0.0 19 159-177 100-119 (196)
354 PF09855 DUF2082: Nucleic-acid 29.8 24 0.00051 25.8 0.7 8 161-168 1-8 (64)
355 PF06957 COPI_C: Coatomer (COP 29.7 33 0.00071 33.7 1.8 25 160-190 380-404 (422)
356 COG0178 UvrA Excinuclease ATPa 29.7 35 0.00076 36.5 2.1 32 159-190 244-277 (935)
357 PRK08199 thiamine pyrophosphat 29.6 43 0.00094 33.0 2.7 110 23-138 211-328 (557)
358 PRK06276 acetolactate synthase 29.5 58 0.0012 32.4 3.6 72 23-100 210-282 (586)
359 PRK14559 putative protein seri 29.4 25 0.00055 36.2 1.0 27 162-196 29-55 (645)
360 PRK04023 DNA polymerase II lar 29.3 35 0.00075 37.2 2.0 27 159-191 1036-1062(1121)
361 TIGR01351 adk adenylate kinase 29.2 34 0.00074 29.1 1.7 31 157-189 121-151 (210)
362 PRK03976 rpl37ae 50S ribosomal 29.2 32 0.00068 26.9 1.3 15 158-172 52-66 (90)
363 COG0675 Transposase and inacti 29.1 57 0.0012 28.7 3.2 16 158-173 320-335 (364)
364 PLN00162 transport protein sec 29.1 24 0.00053 36.8 0.9 31 160-190 53-83 (761)
365 TIGR00244 transcriptional regu 29.0 34 0.00073 29.0 1.6 39 162-200 2-46 (147)
366 PF03833 PolC_DP2: DNA polymer 29.0 18 0.0004 38.4 0.0 34 158-191 653-689 (900)
367 KOG2636 Splicing factor 3a, su 28.8 13 0.00028 36.8 -1.0 17 160-176 401-418 (497)
368 PRK09259 putative oxalyl-CoA d 28.7 43 0.00094 33.1 2.5 61 22-100 219-285 (569)
369 PF10058 DUF2296: Predicted in 28.4 33 0.00071 24.1 1.2 28 160-190 22-52 (54)
370 COG5047 SEC23 Vesicle coat com 28.2 42 0.00092 34.6 2.3 32 160-191 53-85 (755)
371 PF13167 GTP-bdg_N: GTP-bindin 28.0 74 0.0016 24.8 3.2 40 29-75 6-45 (95)
372 PF05290 Baculo_IE-1: Baculovi 28.0 32 0.00069 28.9 1.2 15 159-173 79-93 (140)
373 COG1656 Uncharacterized conser 27.8 28 0.0006 30.1 0.9 15 159-173 129-143 (165)
374 COG4888 Uncharacterized Zn rib 27.6 32 0.00068 27.6 1.1 11 159-169 21-31 (104)
375 PRK08273 thiamine pyrophosphat 27.1 35 0.00075 34.1 1.5 108 23-138 215-324 (597)
376 cd00924 Cyt_c_Oxidase_Vb Cytoc 27.1 34 0.00074 26.9 1.2 13 160-172 79-91 (97)
377 smart00249 PHD PHD zinc finger 27.0 47 0.001 20.5 1.7 29 160-188 14-47 (47)
378 PF05129 Elf1: Transcription e 27.0 29 0.00064 26.2 0.8 11 158-168 20-30 (81)
379 KOG2462 C2H2-type Zn-finger pr 26.9 38 0.00083 31.5 1.7 30 159-190 160-195 (279)
380 PF09986 DUF2225: Uncharacteri 26.6 33 0.00071 30.2 1.1 23 158-181 46-68 (214)
381 COG5188 PRP9 Splicing factor 3 26.5 18 0.0004 35.0 -0.5 14 160-173 374-388 (470)
382 KOG4602 Nanos and related prot 26.4 30 0.00065 32.2 0.9 13 182-194 268-280 (318)
383 PRK14714 DNA polymerase II lar 26.3 41 0.00088 37.4 2.0 26 159-190 1252-1277(1337)
384 smart00355 ZnF_C2H2 zinc finge 26.0 21 0.00046 19.2 -0.1 10 161-170 1-10 (26)
385 PF04423 Rad50_zn_hook: Rad50 25.8 20 0.00044 24.5 -0.2 8 184-191 22-29 (54)
386 PF05808 Podoplanin: Podoplani 25.7 23 0.0005 30.5 0.0 30 202-232 122-151 (162)
387 COG1096 Predicted RNA-binding 25.7 32 0.00069 30.3 0.9 26 160-191 149-174 (188)
388 PRK06882 acetolactate synthase 25.7 60 0.0013 32.1 2.9 110 22-137 212-326 (574)
389 PF07191 zinc-ribbons_6: zinc- 25.5 33 0.00071 25.6 0.8 29 159-196 16-44 (70)
390 PRK12366 replication factor A; 25.3 55 0.0012 33.5 2.6 26 160-191 532-557 (637)
391 KOG3623 Homeobox transcription 25.1 39 0.00085 35.7 1.5 25 159-190 280-317 (1007)
392 TIGR03393 indolpyr_decarb indo 25.0 1.1E+02 0.0023 30.2 4.5 82 9-100 202-285 (539)
393 PHA02942 putative transposase; 24.9 79 0.0017 30.3 3.5 15 159-173 341-355 (383)
394 PRK12495 hypothetical protein; 24.3 31 0.00068 31.1 0.6 28 157-190 39-66 (226)
395 COG4530 Uncharacterized protei 24.1 26 0.00057 28.7 0.1 34 159-197 8-43 (129)
396 KOG2041 WD40 repeat protein [G 24.0 81 0.0018 33.6 3.5 31 158-192 1154-1184(1189)
397 KOG2807 RNA polymerase II tran 23.9 58 0.0013 31.3 2.3 24 158-189 274-297 (378)
398 COG4031 Predicted metal-bindin 23.9 37 0.00079 30.3 0.9 20 162-191 2-21 (227)
399 KOG1986 Vesicle coat complex C 23.9 29 0.00063 36.2 0.3 34 157-190 50-83 (745)
400 PF05957 DUF883: Bacterial pro 23.4 75 0.0016 24.0 2.5 17 215-231 75-91 (94)
401 PF12874 zf-met: Zinc-finger o 23.3 58 0.0013 18.2 1.4 12 161-172 1-12 (25)
402 PRK09521 exosome complex RNA-b 23.3 62 0.0013 27.6 2.2 40 160-208 149-188 (189)
403 KOG3877 NADH:ubiquinone oxidor 23.0 67 0.0015 30.6 2.5 31 10-47 69-99 (393)
404 COG5270 PUA domain (predicted 23.0 59 0.0013 28.8 2.0 22 158-189 12-33 (202)
405 PHA00733 hypothetical protein 22.8 46 0.00099 27.1 1.2 31 159-191 72-108 (128)
406 PF04495 GRASP55_65: GRASP55/6 22.8 1.2E+02 0.0026 25.0 3.8 30 66-95 42-72 (138)
407 KOG3352 Cytochrome c oxidase, 22.7 58 0.0013 27.8 1.8 8 183-190 134-141 (153)
408 TIGR03826 YvyF flagellar opero 22.6 25 0.00054 29.3 -0.3 31 160-197 3-34 (137)
409 PHA02739 hypothetical protein; 22.5 96 0.0021 25.3 3.0 69 91-189 47-115 (116)
410 PF04502 DUF572: Family of unk 22.4 23 0.00051 33.1 -0.6 12 162-173 42-54 (324)
411 PRK05858 hypothetical protein; 22.3 1E+02 0.0022 30.3 3.8 104 23-138 210-315 (542)
412 KOG0477 DNA replication licens 22.0 33 0.00072 35.8 0.3 41 157-199 289-332 (854)
413 KOG4477 RING1 interactor RYBP 21.8 51 0.0011 29.3 1.4 29 158-194 22-50 (228)
414 COG5533 UBP5 Ubiquitin C-termi 21.7 47 0.001 31.9 1.2 18 179-196 281-298 (415)
415 PF09965 DUF2199: Uncharacteri 21.6 34 0.00073 28.8 0.2 26 161-196 1-26 (148)
416 PF12647 RNHCP: RNHCP domain; 21.3 64 0.0014 25.3 1.7 53 160-215 4-56 (92)
417 PRK14715 DNA polymerase II lar 21.1 60 0.0013 36.5 2.0 26 159-191 1541-1566(1627)
418 TIGR00630 uvra excinuclease AB 21.1 57 0.0012 35.0 1.9 32 159-190 249-282 (924)
419 PF09862 DUF2089: Protein of u 21.1 36 0.00078 27.6 0.3 15 159-173 11-25 (113)
420 COG3478 Predicted nucleic-acid 20.6 55 0.0012 24.3 1.1 7 161-167 5-11 (68)
421 KOG1100 Predicted E3 ubiquitin 20.6 53 0.0011 29.0 1.3 15 184-198 191-205 (207)
422 PHA00616 hypothetical protein 20.5 22 0.00047 24.3 -0.9 12 161-172 2-13 (44)
423 PHA02768 hypothetical protein; 20.4 39 0.00085 24.1 0.3 29 160-190 5-39 (55)
424 PRK05585 yajC preprotein trans 20.1 66 0.0014 25.5 1.6 42 83-138 51-92 (106)
425 PRK11269 glyoxylate carboligas 20.1 82 0.0018 31.4 2.6 108 22-137 209-324 (591)
426 KOG3606 Cell polarity protein 20.1 90 0.0019 29.5 2.7 38 54-91 170-219 (358)
No 1
>COG2025 FixB Electron transfer flavoprotein, alpha subunit [Energy production and conversion]
Probab=99.95 E-value=3.4e-29 Score=230.07 Aligned_cols=106 Identities=22% Similarity=0.230 Sum_probs=102.0
Q ss_pred cccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEeecc
Q 038893 6 GLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAVEGG 77 (235)
Q Consensus 6 ~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~isG 77 (235)
...|++|++|||+ |||++++|+|+++++||+.|||++++| ++.++|+|+ +|++++|+|||+.||||
T Consensus 189 ~~~L~~A~iVVsg-----GRG~gs~enf~~i~~LA~~LGa~VGaSRp~vd~gw~p~d~QVGq-TGk~V~P~LYIA~GISG 262 (313)
T COG2025 189 RVDLAEAKIVVSG-----GRGLGSKENFKLLEELADVLGAAVGASRPAVDAGWMPNDRQVGQ-TGKTVAPKLYIALGISG 262 (313)
T ss_pred CCccccceEEEEc-----CcccCChhhhHHHHHHHHHhCceeeccHHHHhcCCCCccceecC-CCcEecccEEEEEeccc
Confidence 5679999999998 999999999999999999999999999 778899999 99999999999999999
Q ss_pred hHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893 78 GNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL 138 (235)
Q Consensus 78 ~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~ 138 (235)
+.||++||+.+ ++|+|||+|++||||+++|||+++|++++
T Consensus 263 AiQHlaGm~~S---------------------k~IVAINkD~nAPIF~~ADyGiVgDl~~i 302 (313)
T COG2025 263 AIQHLAGMKDS---------------------KVIVAINKDPNAPIFQVADYGIVGDLFKI 302 (313)
T ss_pred HHHHHhhcccC---------------------cEEEEEcCCCCCCccccCCeeeeeeHHHH
Confidence 99999999999 57899999999999999999999999997
No 2
>PRK03363 fixB putative electron transfer flavoprotein FixB; Provisional
Probab=99.94 E-value=2.4e-28 Score=224.76 Aligned_cols=107 Identities=14% Similarity=0.144 Sum_probs=100.9
Q ss_pred ccccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE---------EeecCccceeeeeecCCcEEEEEee
Q 038893 5 QGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE---------VEVDKPLGLTLGQKPGGGVVITAVE 75 (235)
Q Consensus 5 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~---------v~~~kplGl~~g~~~~~~vyIa~~i 75 (235)
..++|++|++|||+ |||++++|||+++++||+.|||++++| ++.++|+|+ +|++++|+|||++||
T Consensus 188 ~~v~L~~A~vVVsg-----GRG~~~~E~~~l~eeLA~~LGaavg~SRp~vd~~gW~p~~~QIGq-TGk~V~P~lYiA~GI 261 (313)
T PRK03363 188 NSVDLDKARLVVSV-----GRGIGSKENIALAEQLCKAIGAELACSRPVAENEKWMEHERYVGI-SNLMLKPELYLAVGI 261 (313)
T ss_pred CCCCcccCCEEEEc-----CCCCCCHHHHHHHHHHHHHhCCeEEecHHHHccCCCCCHHheecC-CCCCcCccEEEEEcc
Confidence 36899999999999 999999999999999999999999999 344588998 899999999999999
Q ss_pred cchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893 76 GGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL 138 (235)
Q Consensus 76 sG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~ 138 (235)
||++||++||+.+ ++|+|||+||+||||+++|||+++|++++
T Consensus 262 SGaiQH~~Gm~~s---------------------~~IVAIN~Dp~APIF~~ADygiVgD~~ei 303 (313)
T PRK03363 262 SGQIQHMVGANAS---------------------QTIFAINKDKNAPIFQYADYGIVGDAVKI 303 (313)
T ss_pred ccHHHHHhhcccC---------------------CEEEEEcCCCCCCchhhCCeeEeeeHHHH
Confidence 9999999999999 47899999999999999999999999997
No 3
>PLN00022 electron transfer flavoprotein subunit alpha; Provisional
Probab=99.94 E-value=1.3e-27 Score=223.09 Aligned_cols=107 Identities=20% Similarity=0.172 Sum_probs=102.3
Q ss_pred ccccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEeec
Q 038893 5 QGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAVEG 76 (235)
Q Consensus 5 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~is 76 (235)
+.++|++|++||++ |||++++|||+++++||+.|||++++| ++.++|+|+ +|++++|+|||++|||
T Consensus 230 ~~~~L~~A~vVVsg-----GRGv~~~en~~l~eeLA~~LGaavGaSRp~vD~GW~p~~~QIGq-TGk~V~P~lYIA~GIS 303 (356)
T PLN00022 230 ERPDLGSAKVVVTG-----GRGLKSAENFKMLEKLADKLGGAVGASRAAVDAGFVPNDLQVGQ-TGKIVAPELYIAVGIS 303 (356)
T ss_pred CCCCcccCCEEEEC-----CCccCCHHHHHHHHHHHHHhCCceeccHHHHhCCCCChHheecc-CCCCcCCcEEEEEecc
Confidence 35889999999999 999999999999999999999999999 667799999 9999999999999999
Q ss_pred chHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893 77 GGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL 138 (235)
Q Consensus 77 G~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~ 138 (235)
|++||++||+.+ ++|+|||+||+||||+++|||+++|++++
T Consensus 304 GAiQH~~Gm~~s---------------------~~IVAIN~D~~APIF~~ADygIVgD~~ev 344 (356)
T PLN00022 304 GAIQHLAGMKDS---------------------KVIVAINKDADAPIFQVADYGLVADLFEA 344 (356)
T ss_pred hHHHHHhhcccC---------------------CEEEEECCCCCCCchhhcCeeEeeeHHHH
Confidence 999999999999 47899999999999999999999999997
No 4
>PRK11916 electron transfer flavoprotein subunit YdiR; Provisional
Probab=99.93 E-value=2.2e-27 Score=218.22 Aligned_cols=106 Identities=18% Similarity=0.139 Sum_probs=100.1
Q ss_pred cccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE---------EeecCccceeeeeecCCcEEEEEeec
Q 038893 6 GLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE---------VEVDKPLGLTLGQKPGGGVVITAVEG 76 (235)
Q Consensus 6 ~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~---------v~~~kplGl~~g~~~~~~vyIa~~is 76 (235)
.++|++|++||++ |||+++++||+++++||+.|||++++| ++.++|+|+ +|++++|+|||++|||
T Consensus 188 ~~~L~~A~vVV~~-----GrG~~~~e~~~~~~~LA~~LGaavG~SRp~vd~~gW~p~~~QIGq-TGk~V~P~lYiA~GIS 261 (312)
T PRK11916 188 SVDLSKAKRVVGV-----GRGLAAQDDLKMVHELAAVLNAEVGCSRPIAEGENWMERERYIGV-SGVLLKSDLYLTLGIS 261 (312)
T ss_pred CCCcccCCEEEEC-----CCCCCChHHHHHHHHHHHHhCCEEEecHHHHccCCCCChhcEECC-CCCCcCccEEEEeccc
Confidence 5799999999999 999999999999999999999999999 344588998 8999999999999999
Q ss_pred chHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893 77 GGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL 138 (235)
Q Consensus 77 G~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~ 138 (235)
|+.||++||+.+ ++|+|||+||+||||+++|||+++|++++
T Consensus 262 GAiQH~aGm~~s---------------------~~IVAIN~Dp~APIF~~ADygiVgD~~~v 302 (312)
T PRK11916 262 GQIQHMVGGNGA---------------------KVIVAINKDKNAPIFNYADYGLVGDIYKV 302 (312)
T ss_pred cHHHHHhhcccC---------------------CEEEEECCCCCCCchhhCCeeEeeeHHHH
Confidence 999999999999 57899999999999999999999999997
No 5
>KOG3954 consensus Electron transfer flavoprotein, alpha subunit [Energy production and conversion]
Probab=99.90 E-value=1.6e-24 Score=194.88 Aligned_cols=109 Identities=22% Similarity=0.184 Sum_probs=99.7
Q ss_pred ccccccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEe
Q 038893 3 TLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAV 74 (235)
Q Consensus 3 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~ 74 (235)
|-+--.|..|+++|+| |||+++.|+|+++..||++|||+++++ ++-+-|+|+ .|+.+.|+|||+.|
T Consensus 209 kseRPdL~sAkvVVsG-----GR~LKs~enFkll~~LAdklgaavGAtRaaVDaGyvpNdlQiGQ-TGKIVAPeLYiAvG 282 (336)
T KOG3954|consen 209 KSERPDLTSAKVVVSG-----GRGLKSGENFKLLYDLADKLGAAVGATRAAVDAGYVPNDLQIGQ-TGKIVAPELYIAVG 282 (336)
T ss_pred cccCCccccceEEEEC-----CcccCCcccceehHHHHHHhchhhchhhhhhccCcCCCcccccc-ccceeccceEEEEe
Confidence 3344578899999999 999999999999999999999999998 455577777 77789999999999
Q ss_pred ecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893 75 EGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL 138 (235)
Q Consensus 75 isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~ 138 (235)
|||++||.+|||.+ ++|+|||+||+||||+++|||+++|++++
T Consensus 283 isGAIQHLAGmKDS---------------------KvIvAINkDpdAPIFqvAD~GlvgDLfki 325 (336)
T KOG3954|consen 283 ISGAIQHLAGMKDS---------------------KVIVAINKDPDAPIFQVADYGLVGDLFKI 325 (336)
T ss_pred ccHHHHHhhcCccc---------------------eEEEEecCCCCCCceeeecccchhhHHHH
Confidence 99999999999999 68999999999999999999999999986
No 6
>PF00766 ETF_alpha: Electron transfer flavoprotein FAD-binding domain; InterPro: IPR014731 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the C-terminal domain of the alpha subunit of both Group I and Group II ETFs.; PDB: 1O96_D 3CLR_D 1O97_D 3CLT_D 3CLU_D 3CLS_D 2A1U_A 2A1T_R 1EFV_A 1EFP_C ....
Probab=99.77 E-value=2.3e-19 Score=137.55 Aligned_cols=77 Identities=17% Similarity=0.233 Sum_probs=60.5
Q ss_pred ccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEeecch
Q 038893 7 LSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAVEGGG 78 (235)
Q Consensus 7 ~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~isG~ 78 (235)
++|++|++||+. |||++++++|+++++||+.|||++++| ++.++++|+ +|++++|+|||+++|||+
T Consensus 2 v~L~~A~~VV~~-----GrG~~~~e~~~l~~~LA~~lga~vg~SRp~vd~gw~p~~~qIG~-sG~~v~P~lyia~GISGa 75 (86)
T PF00766_consen 2 VDLEEAEVVVAG-----GRGVGSKENFELIEELAEALGAAVGASRPVVDAGWIPRERQIGQ-SGKTVAPKLYIAFGISGA 75 (86)
T ss_dssp S-TCCSSEEEEE------GGG-STGGCHHHHHHHHHHT-EEEE-HHHHHTTSS-GGGBBST-TSB--T-SEEEEES----
T ss_pred CCcccCCEEEEc-----CCCCCCHHHHHHHHHHHHHhCCchhccHHHHhCCCCchhhhcCC-CCcEEeeeeeEeecchhh
Confidence 689999999998 999999999999999999999999999 788899999 999999999999999999
Q ss_pred HHHHhcCCcCc
Q 038893 79 NAAKAGLKSGD 89 (235)
Q Consensus 79 ~a~~~Gi~~gD 89 (235)
+||++||+.+|
T Consensus 76 ~qH~~Gi~~s~ 86 (86)
T PF00766_consen 76 IQHLAGIKDSK 86 (86)
T ss_dssp HHHHTTTTT-S
T ss_pred HHHHhhhhcCC
Confidence 99999998764
No 7
>COG1773 Rubredoxin [Energy production and conversion]
Probab=99.57 E-value=1.6e-15 Score=107.31 Aligned_cols=43 Identities=42% Similarity=0.929 Sum_probs=39.9
Q ss_pred cceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893 158 RATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDV 200 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~ 200 (235)
|.+|+|++||||||++ |+|+++|++|.||.|+++|+.|+.++.
T Consensus 1 m~~~~C~~CG~vYd~e~Gdp~~gi~pgT~fedlPd~w~CP~Cg~~K~~F~~~~~ 54 (55)
T COG1773 1 MKRWRCSVCGYVYDPEKGDPRCGIAPGTPFEDLPDDWVCPECGVGKKDFEMIDE 54 (55)
T ss_pred CCceEecCCceEeccccCCccCCCCCCCchhhCCCccCCCCCCCCHhHeeeccC
Confidence 3579999999999998 899999999999999999999998764
No 8
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=99.52 E-value=4.1e-15 Score=103.51 Aligned_cols=39 Identities=46% Similarity=0.971 Sum_probs=36.2
Q ss_pred eEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeec
Q 038893 160 THICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARY 198 (235)
Q Consensus 160 ~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~ 198 (235)
+|+|++|||+||++ |+|++||++|+||+|+++|++|+.+
T Consensus 1 ~y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~K~~F~~~ 50 (50)
T cd00730 1 KYECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGKDDFEPL 50 (50)
T ss_pred CcCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCcHHHcEeC
Confidence 49999999999986 7999999999999999999999864
No 9
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=99.51 E-value=5.9e-15 Score=101.48 Aligned_cols=36 Identities=50% Similarity=1.165 Sum_probs=29.9
Q ss_pred eEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCe
Q 038893 160 THICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRF 195 (235)
Q Consensus 160 ~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F 195 (235)
+|+|++||||||++ |+|++||++|+||+|+++|++|
T Consensus 1 ky~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a~K~~F 47 (47)
T PF00301_consen 1 KYQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGAPKSDF 47 (47)
T ss_dssp EEEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSSBGGGE
T ss_pred CcCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCCccccC
Confidence 59999999999998 6999999999999999999998
No 10
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=99.19 E-value=8.9e-12 Score=120.56 Aligned_cols=45 Identities=29% Similarity=0.705 Sum_probs=41.5
Q ss_pred cccceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893 156 KARATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDV 200 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~ 200 (235)
.....|+|+.|||+|||+ |+|+++|++|+||+|+++|++|+.+..
T Consensus 421 ~~~~~~~c~~c~~~yd~~~g~~~~~~~~gt~~~~lp~~~~cp~c~~~k~~f~~~~~ 476 (479)
T PRK05452 421 DLGPRMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLGKDVFDELAS 476 (479)
T ss_pred CCCCeEEECCCCeEECCCCCCcccCCCCCCChhhCCCCCcCcCCCCcHHHhEeccc
Confidence 356789999999999997 799999999999999999999999865
No 11
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=99.08 E-value=6.6e-11 Score=75.44 Aligned_cols=33 Identities=42% Similarity=1.014 Sum_probs=28.6
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY 198 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~ 198 (235)
.|+|++|||+|+++. ++|+||+|++++++|+.+
T Consensus 1 ~~~C~~CGy~y~~~~------~~~~CP~Cg~~~~~F~~~ 33 (33)
T cd00350 1 KYVCPVCGYIYDGEE------APWVCPVCGAPKDKFEKL 33 (33)
T ss_pred CEECCCCCCEECCCc------CCCcCcCCCCcHHHcEEC
Confidence 499999999999842 568999999999999863
No 12
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=98.96 E-value=4.2e-10 Score=72.38 Aligned_cols=33 Identities=42% Similarity=0.989 Sum_probs=28.8
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY 198 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~ 198 (235)
.|+|++|||+|+++ +.|+ +||+|+++++.|+.+
T Consensus 2 ~~~C~~CG~i~~g~----~~p~--~CP~Cg~~~~~F~~~ 34 (34)
T cd00729 2 VWVCPVCGYIHEGE----EAPE--KCPICGAPKEKFEEF 34 (34)
T ss_pred eEECCCCCCEeECC----cCCC--cCcCCCCchHHcEEC
Confidence 69999999999984 4566 999999999999863
No 13
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=98.38 E-value=1.3e-07 Score=80.73 Aligned_cols=32 Identities=44% Similarity=1.031 Sum_probs=28.4
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY 198 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~ 198 (235)
.|+|++|||+..+ +.|+ +||+|++|+..|+..
T Consensus 134 ~~vC~vCGy~~~g-----e~P~--~CPiCga~k~~F~~f 165 (166)
T COG1592 134 VWVCPVCGYTHEG-----EAPE--VCPICGAPKEKFEKF 165 (166)
T ss_pred EEEcCCCCCcccC-----CCCC--cCCCCCChHHHhhcc
Confidence 8999999999988 4556 999999999999864
No 14
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry 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=96.77 E-value=0.00097 Score=44.48 Aligned_cols=30 Identities=27% Similarity=0.688 Sum_probs=26.8
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.|+|..||+.++...+..+ ++...||.|+.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 5899999999999888888 77789999988
No 15
>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=96.62 E-value=0.0016 Score=44.64 Aligned_cols=31 Identities=19% Similarity=0.562 Sum_probs=24.6
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.|+|..||++|+...++++ ++...||.|++.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~ 35 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSD-DPLATCPECGGE 35 (52)
T ss_pred EEEeCCCCCEeEEEEecCC-CCCCCCCCCCCC
Confidence 5899999999988766555 444689999984
No 16
>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=96.57 E-value=0.0018 Score=41.94 Aligned_cols=31 Identities=23% Similarity=0.610 Sum_probs=24.1
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.|+|+.||++|+......+ ++...||.|++.
T Consensus 5 ~y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~ 35 (41)
T smart00834 5 EYRCEDCGHTFEVLQKISD-DPLATCPECGGD 35 (41)
T ss_pred EEEcCCCCCEEEEEEecCC-CCCCCCCCCCCc
Confidence 5899999999987655444 455689999983
No 17
>PF00595 PDZ: PDZ domain (Also known as DHR or GLGF) Coordinates are not yet available; InterPro: IPR001478 PDZ domains are found in diverse signalling proteins in bacteria, yeasts, plants, insects and vertebrates [, ]. PDZ domains can occur in one or multiple copies and are nearly always found in cytoplasmic proteins. They bind either the carboxyl-terminal sequences of proteins or internal peptide sequences []. In most cases, interaction between a PDZ domain and its target is constitutive, with a binding affinity of 1 to 10 microns. However, agonist-dependent activation of cell surface receptors is sometimes required to promote interaction with a PDZ protein. PDZ domain proteins are frequently associated with the plasma membrane, a compartment where high concentrations of phosphatidylinositol 4,5-bisphosphate (PIP2) are found. Direct interaction between PIP2 and a subset of class II PDZ domains (syntenin, CASK, Tiam-1) has been demonstrated. PDZ domains consist of 80 to 90 amino acids comprising six beta-strands (beta-A to beta-F) and two alpha-helices, A and B, compactly arranged in a globular structure. Peptide binding of the ligand takes place in an elongated surface groove as an anti-parallel beta-strand interacts with the beta-B strand and the B helix. The structure of PDZ domains allows binding to a free carboxylate group at the end of a peptide through a carboxylate-binding loop between the beta-A and beta-B strands.; GO: 0005515 protein binding; PDB: 3AXA_A 1WF8_A 1QAV_B 1QAU_A 1B8Q_A 1MC7_A 2KAW_A 1I16_A 1VB7_A 1WI4_A ....
Probab=95.89 E-value=0.017 Score=42.01 Aligned_cols=41 Identities=41% Similarity=0.663 Sum_probs=35.0
Q ss_pred CccceeeeeecC---CcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893 55 KPLGLTLGQKPG---GGVVITAVEGGGNAAKAGLKSGDQVLYTS 95 (235)
Q Consensus 55 kplGl~~g~~~~---~~vyIa~~isG~~a~~~Gi~~gD~i~~~s 95 (235)
.++|+.+....+ ..+||..+.+++.|+++|++.||.|..+.
T Consensus 10 ~~lG~~l~~~~~~~~~~~~V~~v~~~~~a~~~gl~~GD~Il~IN 53 (81)
T PF00595_consen 10 GPLGFTLRGGSDNDEKGVFVSSVVPGSPAERAGLKVGDRILEIN 53 (81)
T ss_dssp SBSSEEEEEESTSSSEEEEEEEECTTSHHHHHTSSTTEEEEEET
T ss_pred CCcCEEEEecCCCCcCCEEEEEEeCCChHHhcccchhhhhheeC
Confidence 689998777654 59999999999999999999999876553
No 18
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=95.83 E-value=0.0079 Score=49.54 Aligned_cols=35 Identities=26% Similarity=0.649 Sum_probs=23.9
Q ss_pred cceEEcCCCceEEeCC-----------CCCCCCC----CCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQ-----------KPFDELP----DTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~-----------tpfe~lp----ed~~CP~C~a~k 192 (235)
...|+|+.||+++... ++++-.| ..++||.||...
T Consensus 68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~ 117 (135)
T PRK03824 68 EAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRD 117 (135)
T ss_pred ceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCC
Confidence 4589999999999663 1222223 356899998753
No 19
>cd00136 PDZ PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(pos
Probab=95.76 E-value=0.018 Score=40.36 Aligned_cols=40 Identities=40% Similarity=0.669 Sum_probs=33.7
Q ss_pred CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893 55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 55 kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
.++|+.+....+++++|..+.+++.++.+|++.||.|..+
T Consensus 1 ~~~G~~~~~~~~~~~~V~~v~~~s~a~~~gl~~GD~I~~I 40 (70)
T cd00136 1 GGLGFSIRGGTEGGVVVLSVEPGSPAERAGLQAGDVILAV 40 (70)
T ss_pred CCccEEEecCCCCCEEEEEeCCCCHHHHcCCCCCCEEEEE
Confidence 3678877776566899999999999999999999987654
No 20
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=95.75 E-value=0.01 Score=38.65 Aligned_cols=30 Identities=30% Similarity=0.639 Sum_probs=22.1
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
+|.|+.||.+|.-...+.. .+..|..|+.+
T Consensus 1 Rr~C~~Cg~~Yh~~~~pP~--~~~~Cd~cg~~ 30 (36)
T PF05191_consen 1 RRICPKCGRIYHIEFNPPK--VEGVCDNCGGE 30 (36)
T ss_dssp EEEETTTTEEEETTTB--S--STTBCTTTTEB
T ss_pred CcCcCCCCCccccccCCCC--CCCccCCCCCe
Confidence 5899999999998643333 34599999873
No 21
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=95.58 E-value=0.02 Score=41.97 Aligned_cols=37 Identities=49% Similarity=0.723 Sum_probs=29.1
Q ss_pred cceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceee
Q 038893 57 LGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLY 93 (235)
Q Consensus 57 lGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~ 93 (235)
+|+.+.... ..+++|..+.+++.|+++|++.||+|..
T Consensus 3 lGv~~~~~~~~~g~~V~~V~~~spA~~aGl~~GD~I~~ 40 (82)
T PF13180_consen 3 LGVTVQNLSDTGGVVVVSVIPGSPAAKAGLQPGDIILA 40 (82)
T ss_dssp -SEEEEECSCSSSEEEEEESTTSHHHHTTS-TTEEEEE
T ss_pred ECeEEEEccCCCeEEEEEeCCCCcHHHCCCCCCcEEEE
Confidence 566666654 3699999999999999999999998744
No 22
>PRK12496 hypothetical protein; Provisional
Probab=95.44 E-value=0.0098 Score=50.52 Aligned_cols=30 Identities=30% Similarity=0.548 Sum_probs=22.2
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCe
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRF 195 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F 195 (235)
.|+|..||..|++. ++...||+||++-.+.
T Consensus 127 ~~~C~gC~~~~~~~------~~~~~C~~CG~~~~r~ 156 (164)
T PRK12496 127 RKVCKGCKKKYPED------YPDDVCEICGSPVKRK 156 (164)
T ss_pred eEECCCCCccccCC------CCCCcCCCCCChhhhc
Confidence 47999999999762 2334899999975443
No 23
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=95.12 E-value=0.019 Score=38.65 Aligned_cols=31 Identities=29% Similarity=0.434 Sum_probs=21.6
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
|..|+|+.||..+.-. +.-..++||-|+.+-
T Consensus 1 ~~~y~C~~CG~~~~~~----~~~~~~~Cp~CG~~~ 31 (46)
T PRK00398 1 MAEYKCARCGREVELD----EYGTGVRCPYCGYRI 31 (46)
T ss_pred CCEEECCCCCCEEEEC----CCCCceECCCCCCeE
Confidence 3479999999877552 111257999998753
No 24
>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.
Probab=94.81 E-value=0.052 Score=38.84 Aligned_cols=40 Identities=38% Similarity=0.709 Sum_probs=32.8
Q ss_pred CccceeeeeecC--CcEEEEEeecchHHHHhcCCcCcceeee
Q 038893 55 KPLGLTLGQKPG--GGVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 55 kplGl~~g~~~~--~~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
.++|+.+....+ .+++|..+.+++.++++|++.||+|..+
T Consensus 12 ~~~G~~~~~~~~~~~~~~V~~v~~~s~a~~~gl~~GD~I~~i 53 (82)
T cd00992 12 GGLGFSLRGGKDSGGGIFVSRVEPGGPAERGGLRVGDRILEV 53 (82)
T ss_pred CCcCEEEeCcccCCCCeEEEEECCCChHHhCCCCCCCEEEEE
Confidence 678887665432 6899999999999999999999987543
No 25
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=94.18 E-value=0.023 Score=47.15 Aligned_cols=38 Identities=21% Similarity=0.542 Sum_probs=25.7
Q ss_pred ccceEEcCCCceEEeCCC--CCCCCCCCCCCCCCCCCccC
Q 038893 157 ARATHICLDCGYIYFLQK--PFDELPDTYVCPQCQAPKKR 194 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~t--pfe~lped~~CP~C~a~k~~ 194 (235)
....|+|+.||..|.-.. ...+.+..+.||.|+..-..
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~ 135 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEE 135 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEE
Confidence 356899999998887641 12122334999999986433
No 26
>smart00228 PDZ Domain present in PSD-95, Dlg, and ZO-1/2. Also called DHR (Dlg homologous region) or GLGF (relatively well conserved tetrapeptide in these domains). Some PDZs have been shown to bind C-terminal polypeptides; others appear to bind internal (non-C-terminal) polypeptides. Different PDZs possess different binding specificities.
Probab=93.93 E-value=0.098 Score=37.24 Aligned_cols=40 Identities=48% Similarity=0.655 Sum_probs=32.2
Q ss_pred CccceeeeeecC--CcEEEEEeecchHHHHhcCCcCcceeee
Q 038893 55 KPLGLTLGQKPG--GGVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 55 kplGl~~g~~~~--~~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
..+|+.+..... ++++|..+.+++.++++|++.||.|..+
T Consensus 12 ~~~G~~~~~~~~~~~~~~i~~v~~~s~a~~~gl~~GD~I~~I 53 (85)
T smart00228 12 GGLGFSLVGGKDEGGGVVVSSVVPGSPAAKAGLKVGDVILEV 53 (85)
T ss_pred CcccEEEECCCCCCCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence 457776655433 6899999999999999999999987554
No 27
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=93.71 E-value=0.027 Score=48.47 Aligned_cols=37 Identities=16% Similarity=0.546 Sum_probs=26.9
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA 196 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~ 196 (235)
...-|+|+.|+..|.-. +....+|.||.|+..-..+.
T Consensus 114 ~~~~Y~Cp~C~~rytf~---eA~~~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFD---EAMEYGFRCPQCGEMLEEYD 150 (178)
T ss_pred CCCEEECCCCCcEEeHH---HHhhcCCcCCCCCCCCeecc
Confidence 34579999999777543 23445899999998766554
No 28
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=93.60 E-value=0.061 Score=43.10 Aligned_cols=30 Identities=27% Similarity=0.476 Sum_probs=21.4
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
....+|+.||+.|... ....+.||.|+...
T Consensus 68 p~~~~C~~Cg~~~~~~-----~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 68 EAECWCETCQQYVTLL-----TQRVRRCPQCHGDM 97 (114)
T ss_pred CcEEEcccCCCeeecC-----CccCCcCcCcCCCC
Confidence 4579999999988652 11226799998753
No 29
>cd00989 PDZ_metalloprotease PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=93.51 E-value=0.23 Score=35.33 Aligned_cols=54 Identities=33% Similarity=0.342 Sum_probs=36.0
Q ss_pred ceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC
Q 038893 58 GLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK 118 (235)
Q Consensus 58 Gl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~ 118 (235)
|..+|.. ...+.|..+.+++.++.+|++.||+|..+-. ++.........+++..
T Consensus 4 ~~~~g~~-~~~~~V~~v~~~s~a~~~gl~~GD~I~~ing------~~i~~~~~~~~~l~~~ 57 (79)
T cd00989 4 GFVPGGP-PIEPVIGEVVPGSPAAKAGLKAGDRILAING------QKIKSWEDLVDAVQEN 57 (79)
T ss_pred eEeccCC-ccCcEEEeECCCCHHHHcCCCCCCEEEEECC------EECCCHHHHHHHHHHC
Confidence 4444443 2458899999999999999999999876522 3444444444555443
No 30
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=93.46 E-value=0.023 Score=47.91 Aligned_cols=37 Identities=16% Similarity=0.430 Sum_probs=26.3
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA 196 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~ 196 (235)
...-|.|+.|+..|.-. +.+..+|.||.||.+-..+.
T Consensus 106 ~~~~Y~Cp~c~~r~tf~---eA~~~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFN---EAMELNFTCPRCGAMLDYLD 142 (158)
T ss_pred CCCeEECCCCCcEeeHH---HHHHcCCcCCCCCCEeeecc
Confidence 45679999999766443 23445899999998755443
No 31
>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=93.43 E-value=0.024 Score=45.24 Aligned_cols=29 Identities=34% Similarity=0.788 Sum_probs=19.2
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
....+|..||+.|... + ..+.||.|+...
T Consensus 68 p~~~~C~~Cg~~~~~~----~--~~~~CP~Cgs~~ 96 (113)
T PF01155_consen 68 PARARCRDCGHEFEPD----E--FDFSCPRCGSPD 96 (113)
T ss_dssp --EEEETTTS-EEECH----H--CCHH-SSSSSS-
T ss_pred CCcEECCCCCCEEecC----C--CCCCCcCCcCCC
Confidence 4579999999999884 1 225899998864
No 32
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=93.30 E-value=0.15 Score=36.63 Aligned_cols=37 Identities=41% Similarity=0.534 Sum_probs=31.0
Q ss_pred cceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893 57 LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 57 lGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
+|+.+... ++++.|..+.+++.+..+|++.||+|..+
T Consensus 3 ~G~~~~~~-~~~~~V~~V~~~s~a~~aGl~~GD~I~~I 39 (80)
T cd00990 3 LGLTLDKE-EGLGKVTFVRDDSPADKAGLVAGDELVAV 39 (80)
T ss_pred ccEEEEcc-CCcEEEEEECCCChHHHhCCCCCCEEEEE
Confidence 67766443 56799999999999999999999988665
No 33
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=93.12 E-value=0.083 Score=42.25 Aligned_cols=29 Identities=24% Similarity=0.699 Sum_probs=21.7
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
....+|+.||+.+... + ..+.||.|+.+.
T Consensus 68 p~~~~C~~Cg~~~~~~----~--~~~~CP~Cgs~~ 96 (113)
T PRK12380 68 PAQAWCWDCSQVVEIH----Q--HDAQCPHCHGER 96 (113)
T ss_pred CcEEEcccCCCEEecC----C--cCccCcCCCCCC
Confidence 4579999999888662 1 345799998753
No 34
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=92.98 E-value=0.048 Score=42.71 Aligned_cols=29 Identities=28% Similarity=0.722 Sum_probs=21.5
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
+..-+|+.|||+++.+. =..|. +||.|..
T Consensus 56 v~Pa~CkkCGfef~~~~--ik~pS--RCP~CKS 84 (97)
T COG3357 56 VRPARCKKCGFEFRDDK--IKKPS--RCPKCKS 84 (97)
T ss_pred ecChhhcccCccccccc--cCCcc--cCCcchh
Confidence 44569999999998841 13455 9999976
No 35
>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=92.68 E-value=0.1 Score=41.76 Aligned_cols=29 Identities=28% Similarity=0.539 Sum_probs=22.2
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
....+|+.||+.|... + ..+.||.|+.+.
T Consensus 68 p~~~~C~~Cg~~~~~~----~--~~~~CP~Cgs~~ 96 (115)
T TIGR00100 68 PVECECEDCSEEVSPE----I--DLYRCPKCHGIM 96 (115)
T ss_pred CcEEEcccCCCEEecC----C--cCccCcCCcCCC
Confidence 4478999999999773 1 246899998764
No 36
>PRK11823 DNA repair protein RadA; Provisional
Probab=92.63 E-value=0.062 Score=52.09 Aligned_cols=26 Identities=27% Similarity=0.501 Sum_probs=20.6
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
...|+|..|||.+-. =-|+||.|++-
T Consensus 5 ~~~y~C~~Cg~~~~~--------~~g~Cp~C~~w 30 (446)
T PRK11823 5 KTAYVCQECGAESPK--------WLGRCPECGAW 30 (446)
T ss_pred CCeEECCcCCCCCcc--------cCeeCcCCCCc
Confidence 347999999999854 25899999663
No 37
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=92.60 E-value=0.36 Score=35.26 Aligned_cols=46 Identities=30% Similarity=0.286 Sum_probs=33.5
Q ss_pred CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc
Q 038893 66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA 117 (235)
Q Consensus 66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~ 117 (235)
..+++|..+.+++.++.+|++.||+|..+ +-++.+.+.....++..
T Consensus 9 ~~Gv~V~~V~~~spa~~aGL~~GDiI~~I------ng~~v~~~~d~~~~l~~ 54 (79)
T cd00991 9 VAGVVIVGVIVGSPAENAVLHTGDVIYSI------NGTPITTLEDFMEALKP 54 (79)
T ss_pred CCcEEEEEECCCChHHhcCCCCCCEEEEE------CCEEcCCHHHHHHHHhc
Confidence 45799999999999999999999998765 33444444444444543
No 38
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=92.60 E-value=0.11 Score=35.21 Aligned_cols=27 Identities=26% Similarity=0.522 Sum_probs=21.3
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.|+|..||...+.. ..+.-+||.||+.
T Consensus 2 ~Y~C~~Cg~~~~~~-----~~~~irC~~CG~r 28 (44)
T smart00659 2 IYICGECGRENEIK-----SKDVVRCRECGYR 28 (44)
T ss_pred EEECCCCCCEeecC-----CCCceECCCCCce
Confidence 59999999988763 2345699999874
No 39
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=92.58 E-value=0.056 Score=52.59 Aligned_cols=25 Identities=28% Similarity=0.493 Sum_probs=20.2
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..|+|..|||.+-. =-|+||.|++-
T Consensus 6 ~~y~C~~Cg~~~~~--------~~g~Cp~C~~w 30 (454)
T TIGR00416 6 SKFVCQHCGADSPK--------WQGKCPACHAW 30 (454)
T ss_pred CeEECCcCCCCCcc--------ccEECcCCCCc
Confidence 47999999998854 25899999763
No 40
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=92.53 E-value=0.11 Score=42.94 Aligned_cols=34 Identities=24% Similarity=0.679 Sum_probs=24.4
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc-Ceeecc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK-RFARYD 199 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~-~F~~~~ 199 (235)
.-.-+|+.||++|-|- .-.||.|+.+.+ .+.++.
T Consensus 27 l~g~kC~~CG~v~~PP--------r~~Cp~C~~~~~~E~vels 61 (140)
T COG1545 27 LLGTKCKKCGRVYFPP--------RAYCPKCGSETELEWVELS 61 (140)
T ss_pred EEEEEcCCCCeEEcCC--------cccCCCCCCCCceEEEEeC
Confidence 3356999999999872 248999999853 444443
No 41
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=91.93 E-value=0.033 Score=42.35 Aligned_cols=31 Identities=23% Similarity=0.573 Sum_probs=26.0
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.|+|..|||.||--..+.|.|. -.||.|+++
T Consensus 12 ~Y~c~~cg~~~dvvq~~~ddpl-t~ce~c~a~ 42 (82)
T COG2331 12 SYECTECGNRFDVVQAMTDDPL-TTCEECGAR 42 (82)
T ss_pred EEeecccchHHHHHHhcccCcc-ccChhhChH
Confidence 6899999999988767777776 489999884
No 42
>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=91.90 E-value=0.71 Score=33.28 Aligned_cols=37 Identities=49% Similarity=0.726 Sum_probs=29.9
Q ss_pred cceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893 57 LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 57 lGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
+|+.+.. ...+++|..+.+++.++.+|++.||.|..+
T Consensus 4 lG~~~~~-~~~~~~V~~v~~~s~a~~~gl~~GD~I~~v 40 (85)
T cd00988 4 IGLELKY-DDGGLVITSVLPGSPAAKAGIKAGDIIVAI 40 (85)
T ss_pred EEEEEEE-cCCeEEEEEecCCCCHHHcCCCCCCEEEEE
Confidence 4555533 357799999999999999999999998765
No 43
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=91.90 E-value=0.11 Score=41.68 Aligned_cols=30 Identities=27% Similarity=0.644 Sum_probs=20.5
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
....+|..||+.+... +. ...+||.|+.+.
T Consensus 69 p~~~~C~~Cg~~~~~~----~~-~~~~CP~Cgs~~ 98 (117)
T PRK00564 69 KVELECKDCSHVFKPN----AL-DYGVCEKCHSKN 98 (117)
T ss_pred CCEEEhhhCCCccccC----Cc-cCCcCcCCCCCc
Confidence 4479999999877552 11 123599999764
No 44
>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=91.75 E-value=0.49 Score=34.26 Aligned_cols=59 Identities=37% Similarity=0.523 Sum_probs=38.9
Q ss_pred CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC--CCCceEEecCce
Q 038893 66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK--PDSVYFVVNRGG 130 (235)
Q Consensus 66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~--~~a~if~~~~~g 130 (235)
..+++|..+.+++.++.+|++.||+|..+ +-++..+......++... .+...+.+.+.|
T Consensus 23 ~~g~~V~~v~~~s~a~~~gl~~GD~I~~I------ng~~i~~~~~~~~~l~~~~~~~~i~l~v~r~g 83 (90)
T cd00987 23 TKGVLVASVDPGSPAAKAGLKPGDVILAV------NGKPVKSVADLRRALAELKPGDKVTLTVLRGG 83 (90)
T ss_pred CCEEEEEEECCCCHHHHcCCCcCCEEEEE------CCEECCCHHHHHHHHHhcCCCCEEEEEEEECC
Confidence 45799999999999999999999988655 233444444445555443 233445544433
No 45
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=91.63 E-value=0.12 Score=36.07 Aligned_cols=31 Identities=26% Similarity=0.454 Sum_probs=22.8
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
++..|+|..||-.++.. ..-..-+||-|++.
T Consensus 3 ~~~~Y~C~~Cg~~~~~~----~~~~~irCp~Cg~r 33 (49)
T COG1996 3 AMMEYKCARCGREVELD----QETRGIRCPYCGSR 33 (49)
T ss_pred ceEEEEhhhcCCeeehh----hccCceeCCCCCcE
Confidence 45689999999999642 22345699999873
No 46
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=90.83 E-value=0.24 Score=41.64 Aligned_cols=34 Identities=35% Similarity=0.787 Sum_probs=24.7
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeee
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFAR 197 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~ 197 (235)
...|+|..|||...=.+ ++.+|. ||.|++. .|.+
T Consensus 110 ~G~l~C~~Cg~~~~~~~-~~~l~~---Cp~C~~~--~F~R 143 (146)
T PF07295_consen 110 PGTLVCENCGHEVELTH-PERLPP---CPKCGHT--EFTR 143 (146)
T ss_pred CceEecccCCCEEEecC-CCcCCC---CCCCCCC--eeee
Confidence 56899999998765543 356776 9999874 4543
No 47
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=90.66 E-value=0.19 Score=34.83 Aligned_cols=31 Identities=23% Similarity=0.443 Sum_probs=20.8
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCC
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQC 188 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C 188 (235)
....|+|+.|||.|..... .-....-.||.|
T Consensus 25 ~~v~W~C~~Cgh~w~~~v~-~R~~~~~~CP~C 55 (55)
T PF14311_consen 25 KKVWWKCPKCGHEWKASVN-DRTRRGKGCPYC 55 (55)
T ss_pred CEEEEECCCCCCeeEccHh-hhccCCCCCCCC
Confidence 3557999999999988521 111234479988
No 48
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=90.64 E-value=0.27 Score=39.08 Aligned_cols=43 Identities=16% Similarity=0.587 Sum_probs=30.9
Q ss_pred cceEEcCCCceEEeCC---------------------CCCCCCCC-CCCCCCCCCCccCeeeccC
Q 038893 158 RATHICLDCGYIYFLQ---------------------KPFDELPD-TYVCPQCQAPKKRFARYDV 200 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~---------------------tpfe~lpe-d~~CP~C~a~k~~F~~~~~ 200 (235)
..++-|+.|+|+|.=+ ..|+.+.. +-.||.|++++.+|.++..
T Consensus 19 ~~rf~C~tCpY~~~I~~ei~~r~~~~~Kevd~vlgg~~a~~nv~~t~~~Cp~Cgh~rayF~qlQt 83 (105)
T KOG2906|consen 19 CNRFSCRTCPYVFPISREISSRKYPKLKEVDDVLGGDEAWENVDQTEATCPTCGHERAYFMQLQT 83 (105)
T ss_pred EeeEEcCCCCceeeEeeeeeccccCchhhhhhhcCCcccccchhhccCcCCCCCCCceEEEEeee
Confidence 4678999999998654 02222211 3489999999999998744
No 49
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=89.94 E-value=0.13 Score=30.92 Aligned_cols=23 Identities=35% Similarity=0.756 Sum_probs=17.8
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..|+.||...++ ++..||.||++
T Consensus 3 ~~Cp~Cg~~~~~--------~~~fC~~CG~~ 25 (26)
T PF13248_consen 3 MFCPNCGAEIDP--------DAKFCPNCGAK 25 (26)
T ss_pred CCCcccCCcCCc--------ccccChhhCCC
Confidence 579999996544 35689999975
No 50
>PRK05978 hypothetical protein; Provisional
Probab=89.54 E-value=0.71 Score=38.99 Aligned_cols=27 Identities=26% Similarity=0.600 Sum_probs=19.4
Q ss_pred eEEcCCCc--eEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCG--YIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CG--yvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.-+|+.|| ..|.+ |-++.+ .||.|+.+
T Consensus 33 ~grCP~CG~G~LF~g---~Lkv~~--~C~~CG~~ 61 (148)
T PRK05978 33 RGRCPACGEGKLFRA---FLKPVD--HCAACGED 61 (148)
T ss_pred cCcCCCCCCCccccc---ccccCC--CccccCCc
Confidence 46999999 55554 334545 89999874
No 51
>PRK06260 threonine synthase; Validated
Probab=89.34 E-value=0.23 Score=47.15 Aligned_cols=27 Identities=33% Similarity=0.817 Sum_probs=20.7
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
|..++|..||+.|+.. .. .|.||.|+.
T Consensus 1 ~~~~~C~~cg~~~~~~----~~--~~~Cp~cg~ 27 (397)
T PRK06260 1 MYWLKCIECGKEYDPD----EI--IYTCPECGG 27 (397)
T ss_pred CCEEEECCCCCCCCCC----Cc--cccCCCCCC
Confidence 3468999999999763 22 479999965
No 52
>PRK06450 threonine synthase; Validated
Probab=89.34 E-value=0.21 Score=46.65 Aligned_cols=25 Identities=24% Similarity=0.623 Sum_probs=19.6
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.++|..||+.|++ +..|+||.|+.+
T Consensus 3 ~~~C~~Cg~~~~~-------~~~~~C~~cg~~ 27 (338)
T PRK06450 3 KEVCMKCGKERES-------IYEIRCKKCGGP 27 (338)
T ss_pred eeEECCcCCcCCC-------cccccCCcCCCE
Confidence 5899999999954 224799999754
No 53
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=89.12 E-value=0.27 Score=42.68 Aligned_cols=24 Identities=29% Similarity=0.686 Sum_probs=19.9
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.|+|..|+.+|.+ +...||.||++
T Consensus 139 ~~rC~GC~~~f~~--------~~~~Cp~CG~~ 162 (177)
T COG1439 139 RLRCHGCKRIFPE--------PKDFCPICGSP 162 (177)
T ss_pred eEEEecCceecCC--------CCCcCCCCCCc
Confidence 5799999999974 23489999997
No 54
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=88.68 E-value=0.15 Score=48.52 Aligned_cols=23 Identities=30% Similarity=0.700 Sum_probs=18.2
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
|+|..|||.+-. =-|+||.|++-
T Consensus 1 ~~c~~cg~~~~~--------~~g~cp~c~~w 23 (372)
T cd01121 1 YVCSECGYVSPK--------WLGKCPECGEW 23 (372)
T ss_pred CCCCCCCCCCCC--------ccEECcCCCCc
Confidence 789999998844 24799999663
No 55
>PF13397 DUF4109: Domain of unknown function (DUF4109)
Probab=88.16 E-value=0.53 Score=37.70 Aligned_cols=38 Identities=29% Similarity=0.567 Sum_probs=28.4
Q ss_pred cccceEEcCCCceEEeCCC-CCCCCCCCCCCCCCCCCccC
Q 038893 156 KARATHICLDCGYIYFLQK-PFDELPDTYVCPQCQAPKKR 194 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~t-pfe~lped~~CP~C~a~k~~ 194 (235)
.....|.|.. ||.+.... .=.++|+.|-||.||.+...
T Consensus 24 R~~v~Y~C~~-Gh~~~v~Fa~eAevP~~WeC~~cG~~A~~ 62 (105)
T PF13397_consen 24 RQRVSYWCPN-GHETEVPFAAEAEVPATWECPRCGLPAGR 62 (105)
T ss_pred ceEEEEECCC-CCEEeccccccCCCCCceeCCCCCCcccc
Confidence 4456899999 99887741 11369999999999987543
No 56
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=88.02 E-value=0.2 Score=29.48 Aligned_cols=22 Identities=36% Similarity=0.865 Sum_probs=17.0
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.|+.||...++ +...||.||++
T Consensus 1 ~Cp~CG~~~~~--------~~~fC~~CG~~ 22 (23)
T PF13240_consen 1 YCPNCGAEIED--------DAKFCPNCGTP 22 (23)
T ss_pred CCcccCCCCCC--------cCcchhhhCCc
Confidence 48999988866 23479999975
No 57
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=87.93 E-value=0.39 Score=38.98 Aligned_cols=34 Identities=24% Similarity=0.633 Sum_probs=20.4
Q ss_pred cceEEcCCCceEEeCCC-CCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQK-PFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~t-pfe~lped~~CP~C~a~k 192 (235)
....+| .||+.|.... +....--.+.||.|+...
T Consensus 68 p~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~ 102 (124)
T PRK00762 68 PVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKR 102 (124)
T ss_pred CeeEEe-eCcCcccccccchhccccCCcCcCCCCCC
Confidence 457999 9998876521 000000125899998654
No 58
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=87.32 E-value=2.8 Score=40.58 Aligned_cols=58 Identities=24% Similarity=0.412 Sum_probs=41.7
Q ss_pred cEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCC-CceEEecCcee
Q 038893 68 GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD-SVYFVVNRGGA 131 (235)
Q Consensus 68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~-a~if~~~~~g~ 131 (235)
++.|..+.+|+.|+.+|++.||+|..+ +.++.++..+...++..+++ ...+.+.|.|.
T Consensus 222 ~~vV~~V~~~SpA~~AGL~~GDvIl~I------ng~~V~s~~dl~~~l~~~~~~~v~l~v~R~g~ 280 (449)
T PRK10779 222 EPVLAEVQPNSAASKAGLQAGDRIVKV------DGQPLTQWQTFVTLVRDNPGKPLALEIERQGS 280 (449)
T ss_pred CcEEEeeCCCCHHHHcCCCCCCEEEEE------CCEEcCCHHHHHHHHHhCCCCEEEEEEEECCE
Confidence 489999999999999999999999766 23455555555556655443 45667777663
No 59
>PRK08579 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=86.84 E-value=0.32 Score=49.49 Aligned_cols=25 Identities=28% Similarity=0.554 Sum_probs=19.5
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..-+|..|||.+.+ ..+.||.|+..
T Consensus 567 ~~~~C~~CG~~~~g--------~~~~CP~CGs~ 591 (625)
T PRK08579 567 AITVCNKCGRSTTG--------LYTRCPRCGSE 591 (625)
T ss_pred CCccCCCCCCccCC--------CCCcCcCCCCc
Confidence 35699999998755 25699999863
No 60
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=86.65 E-value=0.27 Score=40.83 Aligned_cols=36 Identities=25% Similarity=0.600 Sum_probs=26.0
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDV 200 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~~ 200 (235)
|+|..||.+|+... .++= -=||.||..|=+|.+-..
T Consensus 2 H~Ct~Cg~~f~dgs--~eil--~GCP~CGg~kF~yv~~~~ 37 (131)
T PF09845_consen 2 HQCTKCGRVFEDGS--KEIL--SGCPECGGNKFQYVPEEK 37 (131)
T ss_pred cccCcCCCCcCCCc--HHHH--ccCcccCCcceEEcCCCc
Confidence 79999999997631 0122 259999998888876544
No 61
>PRK08271 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=86.57 E-value=0.34 Score=49.25 Aligned_cols=25 Identities=32% Similarity=0.568 Sum_probs=19.2
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..-+|..|||+..+ +.+.||.|+..
T Consensus 565 ~~~iC~~CG~~~~g--------~~~~CP~CGs~ 589 (623)
T PRK08271 565 KITICNDCHHIDKR--------TGKRCPICGSE 589 (623)
T ss_pred CCccCCCCCCcCCC--------CCcCCcCCCCc
Confidence 34599999998654 35799999863
No 62
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=86.26 E-value=0.41 Score=38.29 Aligned_cols=29 Identities=28% Similarity=0.754 Sum_probs=21.3
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.+.+.|+.||..|+-. ..-|. +||-||+.
T Consensus 7 GtKR~Cp~CG~kFYDL---nk~Pi--vCP~CG~~ 35 (108)
T PF09538_consen 7 GTKRTCPSCGAKFYDL---NKDPI--VCPKCGTE 35 (108)
T ss_pred CCcccCCCCcchhccC---CCCCc--cCCCCCCc
Confidence 3468999999776653 34555 89999873
No 63
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=86.11 E-value=0.4 Score=38.62 Aligned_cols=23 Identities=30% Similarity=0.839 Sum_probs=16.5
Q ss_pred EcCCCc--eEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCG--YIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 162 ~C~~CG--yvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.|+.|+ |+|.. .+.|.||.|++.
T Consensus 4 ~CP~C~seytY~d-------g~~~iCpeC~~E 28 (109)
T TIGR00686 4 PCPKCNSEYTYHD-------GTQLICPSCLYE 28 (109)
T ss_pred cCCcCCCcceEec-------CCeeECcccccc
Confidence 588888 67744 356889999774
No 64
>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=86.01 E-value=0.4 Score=30.65 Aligned_cols=26 Identities=38% Similarity=0.892 Sum_probs=15.5
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
...-+|..||.++.+ | ...||.|++.
T Consensus 9 l~~~rC~~Cg~~~~p-------P-r~~Cp~C~s~ 34 (37)
T PF12172_consen 9 LLGQRCRDCGRVQFP-------P-RPVCPHCGSD 34 (37)
T ss_dssp EEEEE-TTT--EEES----------SEETTTT--
T ss_pred EEEEEcCCCCCEecC-------C-CcCCCCcCcc
Confidence 446799999999877 2 2589999753
No 65
>PF04641 Rtf2: Rtf2 RING-finger
Probab=85.78 E-value=0.31 Score=43.95 Aligned_cols=25 Identities=32% Similarity=0.866 Sum_probs=16.1
Q ss_pred CceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 166 CGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 166 CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
||+||.+. .++++..++.||+|+.+
T Consensus 135 cG~V~s~~-alke~k~~~~Cp~c~~~ 159 (260)
T PF04641_consen 135 CGCVFSEK-ALKELKKSKKCPVCGKP 159 (260)
T ss_pred CCCEeeHH-HHHhhcccccccccCCc
Confidence 44444332 45566557899999986
No 66
>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=85.60 E-value=0.54 Score=29.90 Aligned_cols=26 Identities=35% Similarity=0.681 Sum_probs=17.4
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
|+|..||...+-. ..+.-+||.||+.
T Consensus 1 Y~C~~Cg~~~~~~-----~~~~irC~~CG~R 26 (32)
T PF03604_consen 1 YICGECGAEVELK-----PGDPIRCPECGHR 26 (32)
T ss_dssp EBESSSSSSE-BS-----TSSTSSBSSSS-S
T ss_pred CCCCcCCCeeEcC-----CCCcEECCcCCCe
Confidence 7899999887642 2233599999874
No 67
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=85.48 E-value=1.2 Score=34.35 Aligned_cols=40 Identities=23% Similarity=0.531 Sum_probs=27.9
Q ss_pred eEEcCCCceEEeCC-----------------C------CCCCCCC-CCCCCCCCCCccCeeecc
Q 038893 160 THICLDCGYIYFLQ-----------------K------PFDELPD-TYVCPQCQAPKKRFARYD 199 (235)
Q Consensus 160 ~y~C~~CGyvyd~~-----------------t------pfe~lpe-d~~CP~C~a~k~~F~~~~ 199 (235)
.+.|+.|||.+... + ....+|. ++.||.|++....|..+.
T Consensus 16 ~~~C~~C~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cp~Cg~~~a~f~~~Q 79 (104)
T TIGR01384 16 VYVCPSCGYEKEKKPEDDYKVTEKVKHKIKETIIIREEDSETLPTTRVECPKCGHKEAYYWLLQ 79 (104)
T ss_pred eEECcCCCCccccccccccEEEEEeccccccceeeccccccCCCcccCCCCCCCCCeeEEEEec
Confidence 68999999877641 0 1112333 789999999998888653
No 68
>COG4640 Predicted membrane protein [Function unknown]
Probab=85.13 E-value=0.36 Score=46.76 Aligned_cols=62 Identities=19% Similarity=0.178 Sum_probs=34.3
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeeccC--------CCCCCCCCCCCchhhhhHHHHHHHHHHHHhHhc
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDV--------NTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYG 233 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~~--------~~~~~~g~~~~~~~~~~~~~~g~~~~~~~~~~~ 233 (235)
-|+.||.--.+ ++..||+||++-..|..-.- .....+-.- .|+.+.+++|+...|+.++++|
T Consensus 3 fC~kcG~qk~E--------d~~qC~qCG~~~t~~~sqan~~tn~i~~trrkniskK--~ii~was~a~~lIlii~~~~fg 72 (465)
T COG4640 3 FCPKCGSQKAE--------DDVQCTQCGHKFTSRQSQANKSTNEIIQTRRKNISKK--KIIPWASGAFILILIIILFFFG 72 (465)
T ss_pred ccccccccccc--------ccccccccCCcCCchhhhhhHHHHHHHHhhccCCccc--eeehhHHHHHHHHHHHHHHHHh
Confidence 39999954433 34579999998766654322 011111111 1455555566665555555554
No 69
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=84.82 E-value=0.44 Score=34.94 Aligned_cols=23 Identities=26% Similarity=0.687 Sum_probs=18.3
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
--|..|.|+-+++ ...||.|+.+
T Consensus 5 kAC~~Ck~l~~~d--------~e~CP~Cgs~ 27 (64)
T COG2093 5 KACKNCKRLTPED--------TEICPVCGST 27 (64)
T ss_pred HHHhhccccCCCC--------CccCCCCCCc
Confidence 3699999999773 3479999886
No 70
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=84.62 E-value=0.21 Score=32.17 Aligned_cols=15 Identities=33% Similarity=0.986 Sum_probs=10.2
Q ss_pred ccceEEcCCCceEEe
Q 038893 157 ARATHICLDCGYIYF 171 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd 171 (235)
...+++|+.||||+.
T Consensus 19 ~r~R~vC~~Cg~IhY 33 (34)
T PF14803_consen 19 DRERLVCPACGFIHY 33 (34)
T ss_dssp SS-EEEETTTTEEE-
T ss_pred CccceECCCCCCEEe
Confidence 355788888888874
No 71
>PRK07591 threonine synthase; Validated
Probab=84.52 E-value=0.59 Score=44.89 Aligned_cols=25 Identities=36% Similarity=0.747 Sum_probs=19.7
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
..++|..||..|+.. +. |+||.|+.
T Consensus 17 ~~l~C~~Cg~~~~~~------~~-~~C~~cg~ 41 (421)
T PRK07591 17 VALKCRECGAEYPLG------PI-HVCEECFG 41 (421)
T ss_pred eEEEeCCCCCcCCCC------CC-ccCCCCCC
Confidence 458999999999762 22 89999964
No 72
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=84.51 E-value=0.44 Score=43.13 Aligned_cols=27 Identities=26% Similarity=0.680 Sum_probs=21.1
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
...|.|..||+++..- -|.||.|++--
T Consensus 352 ~p~~~c~~cg~~~~~~--------~~~c~~c~~~~ 378 (389)
T PRK11788 352 KPRYRCRNCGFTARTL--------YWHCPSCKAWE 378 (389)
T ss_pred CCCEECCCCCCCCccc--------eeECcCCCCcc
Confidence 3469999999999662 35899998743
No 73
>PRK10139 serine endoprotease; Provisional
Probab=84.33 E-value=1.8 Score=42.16 Aligned_cols=58 Identities=26% Similarity=0.376 Sum_probs=42.0
Q ss_pred CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCce
Q 038893 67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGG 130 (235)
Q Consensus 67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g 130 (235)
.+++|..+.+++.|+++|++.||+|..+ -| ++.......+.++++.++...|.+.|.|
T Consensus 390 ~Gv~V~~V~~~spA~~aGL~~GD~I~~I---ng---~~v~~~~~~~~~l~~~~~~v~l~v~R~g 447 (455)
T PRK10139 390 KGIKIDEVVKGSPAAQAGLQKDDVIIGV---NR---DRVNSIAEMRKVLAAKPAIIALQIVRGN 447 (455)
T ss_pred CceEEEEeCCCChHHHcCCCCCCEEEEE---CC---EEcCCHHHHHHHHHhCCCeEEEEEEECC
Confidence 3699999999999999999999998655 33 3444455556666666655566666654
No 74
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=84.05 E-value=0.88 Score=44.58 Aligned_cols=30 Identities=27% Similarity=0.639 Sum_probs=21.1
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA 196 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~ 196 (235)
..|.|..|||++.- |- =+||.|++=-+.-+
T Consensus 6 t~f~C~~CG~~s~K---W~-----GkCp~Cg~Wns~vE 35 (456)
T COG1066 6 TAFVCQECGYVSPK---WL-----GKCPACGAWNTLVE 35 (456)
T ss_pred cEEEcccCCCCCcc---cc-----ccCCCCCCccceEE
Confidence 57999999999843 21 18999976443333
No 75
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=83.72 E-value=7.3 Score=37.45 Aligned_cols=60 Identities=28% Similarity=0.356 Sum_probs=41.5
Q ss_pred CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCC-CceEEecCceee
Q 038893 67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD-SVYFVVNRGGAD 132 (235)
Q Consensus 67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~-a~if~~~~~g~~ 132 (235)
.++.|..+.+++.|+.+|++.||+|..+. |. +..+..+...+++..++ ...+.+.|.|..
T Consensus 203 ~g~vV~~V~~~SpA~~aGL~~GD~Iv~Vn---g~---~V~s~~dl~~~l~~~~~~~v~l~v~R~g~~ 263 (420)
T TIGR00054 203 IEPVLSDVTPNSPAEKAGLKEGDYIQSIN---GE---KLRSWTDFVSAVKENPGKSMDIKVERNGET 263 (420)
T ss_pred cCcEEEEECCCCHHHHcCCCCCCEEEEEC---CE---ECCCHHHHHHHHHhCCCCceEEEEEECCEE
Confidence 36899999999999999999999997763 33 33444445555655433 356667776643
No 76
>PRK10220 hypothetical protein; Provisional
Probab=83.58 E-value=1 Score=36.33 Aligned_cols=25 Identities=32% Similarity=0.829 Sum_probs=17.5
Q ss_pred EEcCCCc--eEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 161 HICLDCG--YIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 161 y~C~~CG--yvyd~~tpfe~lped~~CP~C~a~k 192 (235)
-.|+.|+ |+|.. .+.|.||.|++.=
T Consensus 4 P~CP~C~seytY~d-------~~~~vCpeC~hEW 30 (111)
T PRK10220 4 PHCPKCNSEYTYED-------NGMYICPECAHEW 30 (111)
T ss_pred CcCCCCCCcceEcC-------CCeEECCcccCcC
Confidence 3588888 67744 3568899998753
No 77
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=82.85 E-value=3.2 Score=29.79 Aligned_cols=56 Identities=32% Similarity=0.340 Sum_probs=36.4
Q ss_pred cEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CCC-CceEEecCce
Q 038893 68 GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KPD-SVYFVVNRGG 130 (235)
Q Consensus 68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~~-a~if~~~~~g 130 (235)
+++|..+.+++.|+. |++.||+|..+ +-++.........++.. .++ ...+.+.+.|
T Consensus 9 Gv~V~~V~~~s~A~~-gL~~GD~I~~I------ng~~v~~~~~~~~~l~~~~~~~~v~l~v~r~g 66 (79)
T cd00986 9 GVYVTSVVEGMPAAG-KLKAGDHIIAV------DGKPFKEAEELIDYIQSKKEGDTVKLKVKREE 66 (79)
T ss_pred CEEEEEECCCCchhh-CCCCCCEEEEE------CCEECCCHHHHHHHHHhCCCCCEEEEEEEECC
Confidence 589999999998886 89999998766 33444544455556653 232 3344444433
No 78
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=82.58 E-value=1.3 Score=32.13 Aligned_cols=31 Identities=26% Similarity=0.822 Sum_probs=17.6
Q ss_pred cceEEcCCCceE--EeCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYI--YFLQKPFDELPDTYVCPQCQ 189 (235)
Q Consensus 158 ~~~y~C~~CGyv--yd~~tpfe~lped~~CP~C~ 189 (235)
...+.|++||.+ |-=+ .=.++...|+||.||
T Consensus 23 ~~~F~CPnCG~~~I~RC~-~CRk~~~~Y~CP~CG 55 (59)
T PRK14890 23 AVKFLCPNCGEVIIYRCE-KCRKQSNPYTCPKCG 55 (59)
T ss_pred cCEeeCCCCCCeeEeech-hHHhcCCceECCCCC
Confidence 357888888865 2211 111233457888886
No 79
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=82.53 E-value=0.9 Score=32.85 Aligned_cols=21 Identities=33% Similarity=0.841 Sum_probs=15.9
Q ss_pred eEEcCCCc-eEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCG-YIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CG-yvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..+|+.|| |+..+ .||.||..
T Consensus 5 ~rkC~~cg~YTLke-----------~Cp~CG~~ 26 (59)
T COG2260 5 IRKCPKCGRYTLKE-----------KCPVCGGD 26 (59)
T ss_pred hhcCcCCCceeecc-----------cCCCCCCc
Confidence 46899999 55533 89999864
No 80
>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=82.51 E-value=0.77 Score=27.55 Aligned_cols=8 Identities=38% Similarity=1.119 Sum_probs=4.3
Q ss_pred eEEcCCCc
Q 038893 160 THICLDCG 167 (235)
Q Consensus 160 ~y~C~~CG 167 (235)
.|.|++||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 45555555
No 81
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=82.50 E-value=0.85 Score=37.77 Aligned_cols=29 Identities=21% Similarity=0.435 Sum_probs=20.8
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.+++.|+.||..|+-. ..-|. +||-||..
T Consensus 7 GtKr~Cp~cg~kFYDL---nk~p~--vcP~cg~~ 35 (129)
T TIGR02300 7 GTKRICPNTGSKFYDL---NRRPA--VSPYTGEQ 35 (129)
T ss_pred CccccCCCcCcccccc---CCCCc--cCCCcCCc
Confidence 3468999999776653 24455 89999873
No 82
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=82.43 E-value=0.75 Score=47.04 Aligned_cols=26 Identities=27% Similarity=0.682 Sum_probs=19.1
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK 193 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~ 193 (235)
..-+|..|||+. + +.|.||.||.+-+
T Consensus 625 ~~~~C~~CG~~~-g--------~~~~CP~CG~~~~ 650 (656)
T PRK08270 625 TFSICPKHGYLS-G--------EHEFCPKCGEETE 650 (656)
T ss_pred CCcccCCCCCcC-C--------CCCCCcCCcCccc
Confidence 345999999963 4 2579999997633
No 83
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=81.63 E-value=1.4 Score=35.52 Aligned_cols=26 Identities=35% Similarity=0.560 Sum_probs=24.5
Q ss_pred CCcEEEEEeecchHHHHhcCCcCcce
Q 038893 66 GGGVVITAVEGGGNAAKAGLKSGDQV 91 (235)
Q Consensus 66 ~~~vyIa~~isG~~a~~~Gi~~gD~i 91 (235)
+-++||..+.+|+.|+.+|++..|+|
T Consensus 58 D~GiYvT~V~eGsPA~~AGLrihDKI 83 (124)
T KOG3553|consen 58 DKGIYVTRVSEGSPAEIAGLRIHDKI 83 (124)
T ss_pred CccEEEEEeccCChhhhhcceecceE
Confidence 66899999999999999999999986
No 84
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=81.08 E-value=1.7 Score=26.47 Aligned_cols=26 Identities=23% Similarity=0.605 Sum_probs=18.3
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK 193 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~ 193 (235)
.|.|..|.+.=.. ....|-.|++++.
T Consensus 4 ~W~C~~C~~~N~~--------~~~~C~~C~~~rp 29 (30)
T PF00641_consen 4 DWKCPSCTFMNPA--------SRSKCVACGAPRP 29 (30)
T ss_dssp SEEETTTTEEEES--------SSSB-TTT--BTT
T ss_pred CccCCCCcCCchH--------HhhhhhCcCCCCc
Confidence 6999999987655 3458999999875
No 85
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=81.00 E-value=0.85 Score=48.66 Aligned_cols=28 Identities=29% Similarity=0.559 Sum_probs=22.5
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
.|+|.+||.+|.+. +.|- -.||-|+...
T Consensus 821 ~~~~~~~~~~~~~~----~~~~-~~~~~~~~~~ 848 (1006)
T PRK12775 821 QWRCDDCGKVSEGF----AFPY-GMCPACGGKL 848 (1006)
T ss_pred eeehhhhccccccc----cCCc-CcCcccccch
Confidence 69999999999993 5562 2899998863
No 86
>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=80.83 E-value=0.96 Score=28.83 Aligned_cols=30 Identities=17% Similarity=0.413 Sum_probs=19.3
Q ss_pred eEEcCCCceEEeCCCCCCCCCC---CCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPD---TYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lpe---d~~CP~C~a~ 191 (235)
...|+.|+-.|.-.. +.+++ ..+||.|++.
T Consensus 2 ~~~CP~C~~~~~v~~--~~~~~~~~~v~C~~C~~~ 34 (38)
T TIGR02098 2 RIQCPNCKTSFRVVD--SQLGANGGKVRCGKCGHV 34 (38)
T ss_pred EEECCCCCCEEEeCH--HHcCCCCCEEECCCCCCE
Confidence 468999997765531 12222 3589999874
No 87
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=80.56 E-value=0.45 Score=38.13 Aligned_cols=35 Identities=26% Similarity=0.571 Sum_probs=23.5
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY 198 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~ 198 (235)
.|+|..||.+|+.-. +.+- .=||.||..|=.+.+-
T Consensus 2 pH~CtrCG~vf~~g~--~~il--~GCp~CG~nkF~yv~~ 36 (112)
T COG3364 2 PHQCTRCGEVFDDGS--EEIL--SGCPKCGCNKFLYVPE 36 (112)
T ss_pred Cceeccccccccccc--HHHH--ccCccccchheEeccc
Confidence 489999999997620 1121 2699998876555543
No 88
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=80.48 E-value=0.7 Score=44.12 Aligned_cols=25 Identities=28% Similarity=0.802 Sum_probs=19.5
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
...|+|..|||.-.- =.|.||.|..
T Consensus 352 ~~~YRC~~CGF~a~~--------l~W~CPsC~~ 376 (389)
T COG2956 352 KPRYRCQNCGFTAHT--------LYWHCPSCRA 376 (389)
T ss_pred cCCceecccCCccee--------eeeeCCCccc
Confidence 357999999986544 2699999965
No 89
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=80.39 E-value=1.2 Score=31.79 Aligned_cols=22 Identities=27% Similarity=0.843 Sum_probs=16.1
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.-+|..||-..-. + .||.||.+
T Consensus 5 mr~C~~CgvYTLk--------~--~CP~CG~~ 26 (56)
T PRK13130 5 IRKCPKCGVYTLK--------E--ICPVCGGK 26 (56)
T ss_pred ceECCCCCCEEcc--------c--cCcCCCCC
Confidence 4689999954422 2 89999876
No 90
>cd01675 RNR_III Class III ribonucleotide reductase. Ribonucleotide reductase (RNR) catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, and bacteriophage, use a diiron-tyrosyl radical. Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in strict or facultative anaerobic bacteria, bacteriophage, and archaea, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. All three RNRs have a ten-stranded alpha-beta barrel domain that is structurally similar to the domain of PFL (pyruvate formate lyase). The class III enzyme from phage T4 consists of two subunits, this model covers the larger subunit w
Probab=80.30 E-value=0.87 Score=45.54 Aligned_cols=23 Identities=43% Similarity=1.041 Sum_probs=18.1
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.+|..|||+..+ +.|.||.||..
T Consensus 519 ~~C~~CG~~~~~--------~~~~CP~CGs~ 541 (555)
T cd01675 519 DICNDCGYIGEG--------EGFKCPKCGSE 541 (555)
T ss_pred ccCCCCCCCCcC--------CCCCCcCCCCc
Confidence 499999997644 34799999864
No 91
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=79.63 E-value=0.93 Score=33.31 Aligned_cols=26 Identities=19% Similarity=0.386 Sum_probs=19.5
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc--cCee
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAPK--KRFA 196 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k--~~F~ 196 (235)
--|+.|.|+-++ ..||.|+... +.|+
T Consensus 6 ~AC~~C~~i~~~----------~~Cp~Cgs~~~S~~w~ 33 (64)
T PRK06393 6 RACKKCKRLTPE----------KTCPVHGDEKTTTEWF 33 (64)
T ss_pred hhHhhCCcccCC----------CcCCCCCCCcCCcCcc
Confidence 369999999955 2899998853 4454
No 92
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=79.38 E-value=0.76 Score=44.08 Aligned_cols=26 Identities=27% Similarity=0.563 Sum_probs=19.9
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
-|+.|+..++++ +...-.|+|| ||.+
T Consensus 242 ~c~~C~~~~~~~---~~~~~~~~Cp-CG~~ 267 (374)
T TIGR00375 242 ACEACGEPAVSE---DAETACANCP-CGGR 267 (374)
T ss_pred hhcccCCcCCch---hhhhcCCCCC-CCCc
Confidence 899999999884 1222369999 9876
No 93
>PRK11032 hypothetical protein; Provisional
Probab=79.28 E-value=2 Score=36.79 Aligned_cols=35 Identities=26% Similarity=0.557 Sum_probs=24.1
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY 198 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~ 198 (235)
....+|..|||...=. -++-+|. ||.|++. +|.+.
T Consensus 122 ~G~LvC~~Cg~~~~~~-~p~~i~p---Cp~C~~~--~F~R~ 156 (160)
T PRK11032 122 LGNLVCEKCHHHLAFY-TPEVLPL---CPKCGHD--QFQRR 156 (160)
T ss_pred cceEEecCCCCEEEec-CCCcCCC---CCCCCCC--eeeeC
Confidence 4578999999766442 2355665 9999874 66543
No 94
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=79.13 E-value=2.5 Score=40.26 Aligned_cols=28 Identities=43% Similarity=0.752 Sum_probs=25.7
Q ss_pred cEEEEEeecchHHHHhcCCcCcceeeec
Q 038893 68 GVVITAVEGGGNAAKAGLKSGDQVLYTS 95 (235)
Q Consensus 68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s 95 (235)
++.|..+.+|+.|+++||+.||+|+.+-
T Consensus 103 g~~V~~V~~~SPA~~aGl~~GD~Iv~In 130 (389)
T PLN00049 103 GLVVVAPAPGGPAARAGIRPGDVILAID 130 (389)
T ss_pred cEEEEEeCCCChHHHcCCCCCCEEEEEC
Confidence 7999999999999999999999997763
No 95
>TIGR00225 prc C-terminal peptidase (prc). A C-terminal peptidase with different substrates in different species including processing of D1 protein of the photosystem II reaction center in higher plants and cleavage of a peptide of 11 residues from the precursor form of penicillin-binding protein in E.coli E.coli and H influenza have the most distal branch of the tree and their proteins have an N-terminal 200 amino acids that show no homology to other proteins in the database.
Probab=79.07 E-value=2.5 Score=39.05 Aligned_cols=37 Identities=35% Similarity=0.658 Sum_probs=30.3
Q ss_pred cceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893 57 LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 57 lGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
+|+.+.. ...++.|..+.+++.|+++||+.||+|+.+
T Consensus 53 lG~~~~~-~~~~~~V~~V~~~spA~~aGL~~GD~I~~I 89 (334)
T TIGR00225 53 IGIQVGM-DDGEIVIVSPFEGSPAEKAGIKPGDKIIKI 89 (334)
T ss_pred EEEEEEE-ECCEEEEEEeCCCChHHHcCCCCCCEEEEE
Confidence 4554433 246899999999999999999999999876
No 96
>PHA00626 hypothetical protein
Probab=78.38 E-value=1.4 Score=31.71 Aligned_cols=31 Identities=26% Similarity=0.520 Sum_probs=21.5
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDV 200 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~~ 200 (235)
...|+|+.|||.|..+ ..-+ ..+..|..+..
T Consensus 21 snrYkCkdCGY~ft~~----~~~~--------~~~~~~~~~~~ 51 (59)
T PHA00626 21 SDDYVCCDCGYNDSKD----AFGE--------RGKNEFVRINK 51 (59)
T ss_pred CcceEcCCCCCeechh----hhhh--------ccccceEEech
Confidence 5679999999988663 2222 56778887754
No 97
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=78.26 E-value=1.2 Score=32.31 Aligned_cols=21 Identities=33% Similarity=0.819 Sum_probs=17.0
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
-|+.|.|+-+.+ +||.|+...
T Consensus 5 AC~~C~~i~~~~----------~CP~Cgs~~ 25 (61)
T PRK08351 5 ACRHCHYITTED----------RCPVCGSRD 25 (61)
T ss_pred hhhhCCcccCCC----------cCCCCcCCc
Confidence 699999999552 799998853
No 98
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=77.98 E-value=2.3 Score=30.37 Aligned_cols=28 Identities=25% Similarity=0.664 Sum_probs=22.2
Q ss_pred EEcCCCc----eEEeCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCG----YIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 161 y~C~~CG----yvyd~~tpfe~lped~~CP~C~a 190 (235)
..|++|| --.-++|..+..|- -||-|..
T Consensus 5 i~CP~CgnKTR~kir~DT~LkNfPl--yCpKCK~ 36 (55)
T PF14205_consen 5 ILCPICGNKTRLKIREDTVLKNFPL--YCPKCKQ 36 (55)
T ss_pred EECCCCCCccceeeecCceeccccc--cCCCCCc
Confidence 3899999 34556688888888 8999966
No 99
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=77.97 E-value=1.7 Score=33.82 Aligned_cols=15 Identities=20% Similarity=0.419 Sum_probs=6.8
Q ss_pred cceEEcCCCceEEeC
Q 038893 158 RATHICLDCGYIYFL 172 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~ 172 (235)
..+|+|+.|||.+-+
T Consensus 51 ~GIW~C~kCg~~fAG 65 (89)
T COG1997 51 TGIWKCRKCGAKFAG 65 (89)
T ss_pred cCeEEcCCCCCeecc
Confidence 334444444444433
No 100
>PRK10942 serine endoprotease; Provisional
Probab=77.85 E-value=4.1 Score=39.93 Aligned_cols=58 Identities=29% Similarity=0.497 Sum_probs=41.8
Q ss_pred CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCce
Q 038893 67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGG 130 (235)
Q Consensus 67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g 130 (235)
.+++|..+.+++.|+.+|++.||+|+.+ -| ++.........++.+.++...+.+.|.|
T Consensus 408 ~gvvV~~V~~~S~A~~aGL~~GDvIv~V---Ng---~~V~s~~dl~~~l~~~~~~v~l~V~R~g 465 (473)
T PRK10942 408 KGVVVDNVKPGTPAAQIGLKKGDVIIGA---NQ---QPVKNIAELRKILDSKPSVLALNIQRGD 465 (473)
T ss_pred CCeEEEEeCCCChHHHcCCCCCCEEEEE---CC---EEcCCHHHHHHHHHhCCCeEEEEEEECC
Confidence 4699999999999999999999998655 33 3444444555566665555566666654
No 101
>TIGR03844 cysteate_syn cysteate synthase. Members of this family are cysteate synthase, an enzyme of alternate pathway to sulfopyruvate, a precursor of coenzyme M.
Probab=77.75 E-value=1.5 Score=42.06 Aligned_cols=24 Identities=29% Similarity=0.452 Sum_probs=18.3
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.++|..||..|.. +. .|+||.|+.
T Consensus 2 ~l~C~~Cg~~~~~-----~~--~~~C~~c~g 25 (398)
T TIGR03844 2 TLRCPGCGEVLPD-----HY--TLSCPLDCG 25 (398)
T ss_pred EEEeCCCCCccCC-----cc--ccCCCCCCC
Confidence 4799999999953 22 479999863
No 102
>TIGR02827 RNR_anaer_Bdell anaerobic ribonucleoside-triphosphate reductase. Members of this family belong to the class III anaerobic ribonucleoside-triphosphate reductases (RNR). These glycine-radical-containing enzymes are oxygen-sensitive and operate under anaerobic conditions. The genes for this family are pair with genes for an acitivating protein that creates a glycine radical. Members of this family, though related, fall outside the scope of TIGR02487, a functionally equivalent protein set; no genome has members in both familes. Identification as RNR is supported by gene pairing with the activating protein, lack of other anaerobic RNR, and presence of an upstream regulatory element strongly conserved upstream of most RNR operons.
Probab=77.63 E-value=1.4 Score=44.60 Aligned_cols=25 Identities=32% Similarity=0.563 Sum_probs=17.7
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..-+|..|||+.-+ . .+.||.|+..
T Consensus 531 ~~siC~~CGy~~g~------~--~~~CP~CGs~ 555 (586)
T TIGR02827 531 KITICNDCHHIDKR------T--LHRCPVCGSA 555 (586)
T ss_pred CCeecCCCCCcCCC------c--CCcCcCCCCc
Confidence 35699999995322 1 3699999853
No 103
>COG0028 IlvB Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=77.28 E-value=3 Score=41.70 Aligned_cols=100 Identities=19% Similarity=0.170 Sum_probs=61.8
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEEeec-chHHHHhcCCcCcceeeec
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITAVEG-GGNAAKAGLKSGDQVLYTS 95 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~~is-G~~a~~~Gi~~gD~i~~~s 95 (235)
.|.|....+-.+.+.+||+++|+-+..+ ++-+.| +|+...-. |.-....-++..|.|..+.
T Consensus 207 ~G~G~~~a~a~~~l~~lae~~~~Pv~~t~~gkg~~p~~hp------------~~lG~~g~~g~~~a~~~~~~aDlll~vG 274 (550)
T COG0028 207 AGGGVRRAGASEELRELAEKLGAPVVTTLMGKGAVPEDHP------------LSLGMLGMHGTKAANEALEEADLLLAVG 274 (550)
T ss_pred ECCCccccccHHHHHHHHHHHCCCEEEccCcCccCCCCCc------------cccccccccccHHHHHHhhcCCEEEEec
Confidence 4888888888899999999999999655 223333 33332222 2223333478899999999
Q ss_pred cccCCCc------cccCccchhhhhhhcCCCCce-EEecCceeeeecccc
Q 038893 96 SFFGDEL------WPADKLGFTKTAIQAKPDSVY-FVVNRGGADVDVKRL 138 (235)
Q Consensus 96 ~~fG~~l------W~~~~~g~~i~AIn~~~~a~i-f~~~~~g~~~d~~~~ 138 (235)
+.|.+.. |+... ++=|+.||.... ..-.+.++++|.+..
T Consensus 275 ~rf~~~~~~~~~f~~~~~----ii~iDidp~ei~k~~~~~~~i~gD~~~~ 320 (550)
T COG0028 275 ARFDDRVTGYSGFAPPAA----IIHIDIDPAEIGKNYPVDVPIVGDAKAT 320 (550)
T ss_pred CCCcccccchhhhCCcCC----EEEEeCChHHhCCCCCCCeeEeccHHHH
Confidence 9999633 33322 344444432111 112566788888775
No 104
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=77.19 E-value=1.9 Score=44.49 Aligned_cols=29 Identities=21% Similarity=0.663 Sum_probs=19.0
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..-+|..||| .++... .-+.|.||.||..
T Consensus 640 ~~~~C~~CG~--~Ge~~~--~~~~~~CP~CG~~ 668 (711)
T PRK09263 640 PIDECYECGF--TGEFEC--TEKGFTCPKCGNH 668 (711)
T ss_pred CCcccCCCCC--CccccC--CCCCCcCcCCCCC
Confidence 3469999998 453211 1234799999853
No 105
>PRK11186 carboxy-terminal protease; Provisional
Probab=77.00 E-value=2.8 Score=43.13 Aligned_cols=38 Identities=32% Similarity=0.462 Sum_probs=30.8
Q ss_pred cceeeeeecCCcEEEEEeecchHHHHh-cCCcCcceeeec
Q 038893 57 LGLTLGQKPGGGVVITAVEGGGNAAKA-GLKSGDQVLYTS 95 (235)
Q Consensus 57 lGl~~g~~~~~~vyIa~~isG~~a~~~-Gi~~gD~i~~~s 95 (235)
+|..+.. .++.++|..+++|+.|+++ ||+.||+|+.+.
T Consensus 246 IGa~l~~-~~~~~~V~~vipGsPA~ka~gLk~GD~IlaVn 284 (667)
T PRK11186 246 IGAVLQM-DDDYTVINSLVAGGPAAKSKKLSVGDKIVGVG 284 (667)
T ss_pred EEEEEEE-eCCeEEEEEccCCChHHHhCCCCCCCEEEEEC
Confidence 3444433 3567999999999999998 899999999886
No 106
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=77.00 E-value=2.7 Score=40.54 Aligned_cols=39 Identities=36% Similarity=0.580 Sum_probs=32.4
Q ss_pred cceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893 57 LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS 95 (235)
Q Consensus 57 lGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s 95 (235)
+|+.+.......+.|.+.+.|+.|+++||+.||+|+.+-
T Consensus 102 iG~~i~~~~~~~~~V~s~~~~~PA~kagi~~GD~I~~Id 140 (406)
T COG0793 102 IGIELQMEDIGGVKVVSPIDGSPAAKAGIKPGDVIIKID 140 (406)
T ss_pred eeEEEEEecCCCcEEEecCCCChHHHcCCCCCCEEEEEC
Confidence 445455444489999999999999999999999998876
No 107
>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=76.50 E-value=1.9 Score=30.54 Aligned_cols=29 Identities=34% Similarity=0.697 Sum_probs=19.3
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.+|+.||....-.... ..+.-.||.|++.
T Consensus 3 ~~CP~CG~~iev~~~~--~GeiV~Cp~CGae 31 (54)
T TIGR01206 3 FECPDCGAEIELENPE--LGELVICDECGAE 31 (54)
T ss_pred cCCCCCCCEEecCCCc--cCCEEeCCCCCCE
Confidence 5899999877543211 2344589999884
No 108
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=76.49 E-value=0.64 Score=43.34 Aligned_cols=27 Identities=22% Similarity=0.487 Sum_probs=17.9
Q ss_pred eE-EcCCCceEEeCCCCCCCCCC-CCCCCCCCC
Q 038893 160 TH-ICLDCGYIYFLQKPFDELPD-TYVCPQCQA 190 (235)
Q Consensus 160 ~y-~C~~CGyvyd~~tpfe~lpe-d~~CP~C~a 190 (235)
.| +|+.|+.+...+ ++.+ .++||.|++
T Consensus 37 lw~kc~~C~~~~~~~----~l~~~~~vcp~c~~ 65 (296)
T CHL00174 37 LWVQCENCYGLNYKK----FLKSKMNICEQCGY 65 (296)
T ss_pred CeeECCCccchhhHH----HHHHcCCCCCCCCC
Confidence 35 899999766553 3433 468999955
No 109
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=76.45 E-value=4.4 Score=38.72 Aligned_cols=61 Identities=34% Similarity=0.513 Sum_probs=41.4
Q ss_pred CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CC-CCceEEecCceee
Q 038893 66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KP-DSVYFVVNRGGAD 132 (235)
Q Consensus 66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~-~a~if~~~~~g~~ 132 (235)
..+++|..+.+|+.|+++|++.||+|..+- | ++.+.......++.. ++ ....+.+.|.|-.
T Consensus 256 ~~Gv~V~~V~~~spA~~aGL~~GDvI~~Vn---g---~~i~~~~~~~~~l~~~~~g~~v~l~v~R~g~~ 318 (428)
T TIGR02037 256 QRGALVAQVLPGSPAEKAGLKAGDVILSVN---G---KPISSFADLRRAIGTLKPGKKVTLGILRKGKE 318 (428)
T ss_pred CCceEEEEccCCCChHHcCCCCCCEEEEEC---C---EEcCCHHHHHHHHHhcCCCCEEEEEEEECCEE
Confidence 367999999999999999999999987652 2 334444444445543 22 3456666666633
No 110
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=76.45 E-value=1.5 Score=28.38 Aligned_cols=30 Identities=17% Similarity=0.451 Sum_probs=17.6
Q ss_pred EEcCCCceEEeCCC-CCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQK-PFDELPDTYVCPQCQA 190 (235)
Q Consensus 161 y~C~~CGyvyd~~t-pfe~lped~~CP~C~a 190 (235)
-+|+.|+..|.=.- ...+....-+||.|++
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~ 33 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGH 33 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCc
Confidence 47888988886531 1111122458888876
No 111
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=76.23 E-value=1.1 Score=30.98 Aligned_cols=29 Identities=24% Similarity=0.595 Sum_probs=19.6
Q ss_pred eEEcCCCceEEeCC---------CCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQ---------KPFDELPDTYVCPQCQA 190 (235)
Q Consensus 160 ~y~C~~CGyvyd~~---------tpfe~lped~~CP~C~a 190 (235)
.|.|+.||.-++.. .+.+ +...+||+|..
T Consensus 2 ~f~CP~C~~~~~~~~L~~H~~~~H~~~--~~~v~CPiC~~ 39 (54)
T PF05605_consen 2 SFTCPYCGKGFSESSLVEHCEDEHRSE--SKNVVCPICSS 39 (54)
T ss_pred CcCCCCCCCccCHHHHHHHHHhHCcCC--CCCccCCCchh
Confidence 48999999954443 2332 33579999975
No 112
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=76.22 E-value=1.5 Score=26.61 Aligned_cols=21 Identities=29% Similarity=0.702 Sum_probs=12.8
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.|+.|+.+.... ...||.||.
T Consensus 2 ~CP~C~~~V~~~--------~~~Cp~CG~ 22 (26)
T PF10571_consen 2 TCPECGAEVPES--------AKFCPHCGY 22 (26)
T ss_pred cCCCCcCCchhh--------cCcCCCCCC
Confidence 477777666431 236777776
No 113
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=76.12 E-value=1.6 Score=38.65 Aligned_cols=34 Identities=24% Similarity=0.537 Sum_probs=21.9
Q ss_pred cccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 156 KARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.....++|..|++.|+-+..... +.-.||.|+..
T Consensus 118 G~~~~~~C~~C~~~~~~~~~~~~--~~p~C~~Cgg~ 151 (242)
T PRK00481 118 GSLLRARCTKCGQTYDLDEYLKP--EPPRCPKCGGI 151 (242)
T ss_pred CCcCceeeCCCCCCcChhhhccC--CCCCCCCCCCc
Confidence 33557899999999975422211 11249999764
No 114
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=75.38 E-value=0.73 Score=39.94 Aligned_cols=38 Identities=16% Similarity=0.560 Sum_probs=23.9
Q ss_pred cccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893 156 KARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA 196 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~ 196 (235)
.....|+|+.|..-|.=+.. ..-.|.||.||..-..+.
T Consensus 109 ~~~~~y~C~~~~~r~sfdeA---~~~~F~Cp~Cg~~L~~~d 146 (176)
T COG1675 109 TENNYYVCPNCHVKYSFDEA---MELGFTCPKCGEDLEEYD 146 (176)
T ss_pred ccCCceeCCCCCCcccHHHH---HHhCCCCCCCCchhhhcc
Confidence 34567999888744432211 223589999998755544
No 115
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=75.30 E-value=5.5 Score=38.02 Aligned_cols=58 Identities=34% Similarity=0.549 Sum_probs=39.4
Q ss_pred CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc--CCCCceEEecCce
Q 038893 67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA--KPDSVYFVVNRGG 130 (235)
Q Consensus 67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~--~~~a~if~~~~~g 130 (235)
.+++|..+.+++.|+++|++.||+|+.+ +-++.........++.. ..+...+.+.|.|
T Consensus 362 ~Gv~V~~V~~~SpA~~aGL~~GDvI~~I------ng~~V~s~~d~~~~l~~~~~g~~v~l~v~R~g 421 (428)
T TIGR02037 362 KGVVVTKVVSGSPAARAGLQPGDVILSV------NQQPVSSVAELRKVLDRAKKGGRVALLILRGG 421 (428)
T ss_pred CceEEEEeCCCCHHHHcCCCCCCEEEEE------CCEEcCCHHHHHHHHHhcCCCCEEEEEEEECC
Confidence 4799999999999999999999988665 23344444444555543 2334455555544
No 116
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=75.24 E-value=0.98 Score=48.50 Aligned_cols=25 Identities=28% Similarity=0.717 Sum_probs=19.8
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..++|+.|||.|-+ + ...||.|+..
T Consensus 693 tIKrC~dcg~q~~~-----~---~~~cP~Cgs~ 717 (1187)
T COG1110 693 TIKRCRDCGEQFVD-----S---EDKCPRCGSR 717 (1187)
T ss_pred HHHHHhhcCceecc-----c---cccCCCCCCc
Confidence 46799999999977 2 2389999874
No 117
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=75.22 E-value=1.4 Score=40.86 Aligned_cols=29 Identities=31% Similarity=0.765 Sum_probs=19.9
Q ss_pred cceE-EcCCCceEEeCCCCCCCCCC-CCCCCCCCC
Q 038893 158 RATH-ICLDCGYIYFLQKPFDELPD-TYVCPQCQA 190 (235)
Q Consensus 158 ~~~y-~C~~CGyvyd~~tpfe~lpe-d~~CP~C~a 190 (235)
...| +|+.|+.+-.-. |+.. -|+||.|++
T Consensus 25 e~lw~KCp~c~~~~y~~----eL~~n~~vcp~c~~ 55 (294)
T COG0777 25 EGLWTKCPSCGEMLYRK----ELESNLKVCPKCGH 55 (294)
T ss_pred CCceeECCCccceeeHH----HHHhhhhcccccCc
Confidence 4466 999999665442 4433 579999954
No 118
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=74.78 E-value=0.85 Score=45.55 Aligned_cols=24 Identities=42% Similarity=0.861 Sum_probs=11.7
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..-+|..|||+..+ .+.||.||.+
T Consensus 490 ~~~~C~~CG~~~~~---------~~~CP~CGs~ 513 (546)
T PF13597_consen 490 PIDICPDCGYIGGE---------GDKCPKCGSE 513 (546)
T ss_dssp -EEEETTT---S-----------EEE-CCC---
T ss_pred CcccccCCCcCCCC---------CCCCCCCCCc
Confidence 35699999997643 4589999887
No 119
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=74.49 E-value=0.79 Score=42.36 Aligned_cols=27 Identities=33% Similarity=0.856 Sum_probs=18.5
Q ss_pred EEcCCCceEEeCCCCCCCCCC-CCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPD-TYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lpe-d~~CP~C~a~ 191 (235)
.+|+.|+.+.... ++.+ -++||.|++-
T Consensus 27 ~~c~~c~~~~~~~----~l~~~~~vc~~c~~h 54 (285)
T TIGR00515 27 TKCPKCGQVLYTK----ELERNLEVCPKCDHH 54 (285)
T ss_pred eECCCCcchhhHH----HHHhhCCCCCCCCCc
Confidence 3999999766553 3322 4699999763
No 120
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=74.38 E-value=1.6 Score=28.23 Aligned_cols=12 Identities=33% Similarity=0.908 Sum_probs=6.8
Q ss_pred ceEEcCCCceEE
Q 038893 159 ATHICLDCGYIY 170 (235)
Q Consensus 159 ~~y~C~~CGyvy 170 (235)
..|+|+.||-.|
T Consensus 31 p~~~C~~CGE~~ 42 (46)
T TIGR03831 31 PALVCPQCGEEY 42 (46)
T ss_pred CccccccCCCEe
Confidence 455666666554
No 121
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=74.05 E-value=1.9 Score=31.39 Aligned_cols=32 Identities=25% Similarity=0.701 Sum_probs=18.5
Q ss_pred cceEEcCCCceEEeCC-CCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQ-KPFDELPDTYVCPQCQ 189 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~-tpfe~lped~~CP~C~ 189 (235)
...+.|++||.+-... ..=..+...|+||.||
T Consensus 25 ~v~F~CPnCGe~~I~Rc~~CRk~g~~Y~Cp~CG 57 (61)
T COG2888 25 AVKFPCPNCGEVEIYRCAKCRKLGNPYRCPKCG 57 (61)
T ss_pred eeEeeCCCCCceeeehhhhHHHcCCceECCCcC
Confidence 3478899998433222 1112344567888886
No 122
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=74.05 E-value=1.6 Score=45.18 Aligned_cols=23 Identities=30% Similarity=0.866 Sum_probs=16.8
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
..-+|..|||.-.. .|.||.||.
T Consensus 679 ~~~~C~~CG~~~~~---------~~~CP~CG~ 701 (735)
T PRK07111 679 PVDRCPVCGYLGVI---------EDKCPKCGS 701 (735)
T ss_pred CCeecCCCCCCCCc---------CccCcCCCC
Confidence 34599999964322 379999986
No 123
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=73.92 E-value=0.9 Score=42.12 Aligned_cols=27 Identities=33% Similarity=0.829 Sum_probs=18.4
Q ss_pred eE-EcCCCceEEeCCCCCCCCCC-CCCCCCCCC
Q 038893 160 TH-ICLDCGYIYFLQKPFDELPD-TYVCPQCQA 190 (235)
Q Consensus 160 ~y-~C~~CGyvyd~~tpfe~lpe-d~~CP~C~a 190 (235)
.| +|+.|+.+.... ++.+ .++||.|++
T Consensus 26 ~~~~c~~c~~~~~~~----~l~~~~~vc~~c~~ 54 (292)
T PRK05654 26 LWTKCPSCGQVLYRK----ELEANLNVCPKCGH 54 (292)
T ss_pred CeeECCCccchhhHH----HHHhcCCCCCCCCC
Confidence 45 999999766553 3433 359999965
No 124
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=73.35 E-value=1.5 Score=31.21 Aligned_cols=27 Identities=37% Similarity=0.709 Sum_probs=19.5
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
..+|..||-...+. .|--+||.|++|-
T Consensus 5 ~~~C~~Cg~~~~~~------dDiVvCp~Cgapy 31 (54)
T PF14446_consen 5 GCKCPVCGKKFKDG------DDIVVCPECGAPY 31 (54)
T ss_pred CccChhhCCcccCC------CCEEECCCCCCcc
Confidence 46899999888432 2345899999874
No 125
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=73.28 E-value=2.1 Score=34.83 Aligned_cols=31 Identities=23% Similarity=0.508 Sum_probs=22.4
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.-.|+|..||..+...... -...+.|+.|+.
T Consensus 121 ~~~~~C~~C~~~~~r~~~~--~~~~~~C~~C~~ 151 (157)
T PF10263_consen 121 KYVYRCPSCGREYKRHRRS--KRKRYRCGRCGG 151 (157)
T ss_pred ceEEEcCCCCCEeeeeccc--chhhEECCCCCC
Confidence 3479999999888665433 224578999984
No 126
>PRK08197 threonine synthase; Validated
Probab=72.97 E-value=2 Score=40.70 Aligned_cols=27 Identities=26% Similarity=0.636 Sum_probs=19.6
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
+..++|..||+.|+.+ + ..|+| .|+.+
T Consensus 5 ~~~~~C~~Cg~~~~~~----~--~~~~C-~cg~~ 31 (394)
T PRK08197 5 VSHLECSKCGETYDAD----Q--VHNLC-KCGKP 31 (394)
T ss_pred eeEEEECCCCCCCCCC----C--cceec-CCCCe
Confidence 3469999999999763 2 24789 79654
No 127
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=72.97 E-value=4.3 Score=29.38 Aligned_cols=32 Identities=31% Similarity=0.779 Sum_probs=21.0
Q ss_pred cccceEEcCC--Cc-eEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 156 KARATHICLD--CG-YIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 156 ~~~~~y~C~~--CG-yvyd~~tpfe~lped~~CP~C~a~ 191 (235)
....+|.|.. |- |.=+. ..|++.| .||.|+++
T Consensus 14 e~t~VW~Ct~e~C~gWmR~n-Fs~~~~p---~CPlC~s~ 48 (59)
T PF14169_consen 14 EETKVWECTSEDCNGWMRDN-FSFEEEP---VCPLCKSP 48 (59)
T ss_pred eeeeeEEeCCCCCCcccccc-cccCCCc---cCCCcCCc
Confidence 3467999998 74 44433 3444443 69999886
No 128
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=72.88 E-value=2.3 Score=23.22 Aligned_cols=12 Identities=25% Similarity=0.484 Sum_probs=7.7
Q ss_pred EEcCCCceEEeC
Q 038893 161 HICLDCGYIYFL 172 (235)
Q Consensus 161 y~C~~CGyvyd~ 172 (235)
|+|+.|++.|..
T Consensus 1 ~~C~~C~~~~~~ 12 (24)
T PF13894_consen 1 FQCPICGKSFRS 12 (24)
T ss_dssp EE-SSTS-EESS
T ss_pred CCCcCCCCcCCc
Confidence 788888888754
No 129
>TIGR01713 typeII_sec_gspC general secretion pathway protein C. This model represents GspC, protein C of the main terminal branch of the general secretion pathway, also called type II secretion. This system transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=72.78 E-value=4.7 Score=36.55 Aligned_cols=62 Identities=19% Similarity=0.171 Sum_probs=41.6
Q ss_pred CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC-C-CCceEEecCceeeee
Q 038893 67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK-P-DSVYFVVNRGGADVD 134 (235)
Q Consensus 67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~-~-~a~if~~~~~g~~~d 134 (235)
-++.|..+.+++.++++|++.||+|+.+ +..+..+....+.++++- + +...+.+.|.|-..+
T Consensus 191 ~G~~v~~v~~~s~a~~aGLr~GDvIv~I------NG~~i~~~~~~~~~l~~~~~~~~v~l~V~R~G~~~~ 254 (259)
T TIGR01713 191 EGYRLNPGKDPSLFYKSGLQDGDIAVAL------NGLDLRDPEQAFQALQMLREETNLTLTVERDGQRED 254 (259)
T ss_pred eEEEEEecCCCCHHHHcCCCCCCEEEEE------CCEEcCCHHHHHHHHHhcCCCCeEEEEEEECCEEEE
Confidence 4799999999999999999999987533 234444444555555542 3 355667777664433
No 130
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=72.70 E-value=2.8 Score=34.31 Aligned_cols=22 Identities=36% Similarity=0.750 Sum_probs=19.9
Q ss_pred hhhhhHHHHHHHHHHHHhHhcc
Q 038893 213 IGVIIGLIAGIGAVGALLVYGL 234 (235)
Q Consensus 213 ~~~~~~~~~g~~~~~~~~~~~~ 234 (235)
+++++|+++|+.++++|++|.+
T Consensus 67 ~~Ii~gv~aGvIg~Illi~y~i 88 (122)
T PF01102_consen 67 IGIIFGVMAGVIGIILLISYCI 88 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred eehhHHHHHHHHHHHHHHHHHH
Confidence 7889999999999999999964
No 131
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=72.62 E-value=2.4 Score=27.32 Aligned_cols=28 Identities=21% Similarity=0.615 Sum_probs=18.4
Q ss_pred EEcCCCceEEeCCCCCCCCCC---CCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPD---TYVCPQCQA 190 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lpe---d~~CP~C~a 190 (235)
-.|+.|+..|+=. -+.+|+ .-+||.|++
T Consensus 3 i~Cp~C~~~y~i~--d~~ip~~g~~v~C~~C~~ 33 (36)
T PF13717_consen 3 ITCPNCQAKYEID--DEKIPPKGRKVRCSKCGH 33 (36)
T ss_pred EECCCCCCEEeCC--HHHCCCCCcEEECCCCCC
Confidence 4799999888653 112333 258999976
No 132
>PRK14704 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=71.88 E-value=2.3 Score=43.28 Aligned_cols=24 Identities=25% Similarity=0.542 Sum_probs=17.4
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..-+|..||| .++ ..|.||.||..
T Consensus 558 ~~~~C~~CGy--~g~-------~~~~CP~CG~~ 581 (618)
T PRK14704 558 PVDRCKCCSY--HGV-------IGNECPSCGNE 581 (618)
T ss_pred CCeecCCCCC--CCC-------cCccCcCCCCC
Confidence 3569999998 442 13799999863
No 133
>PRK10139 serine endoprotease; Provisional
Probab=71.43 E-value=4.9 Score=39.20 Aligned_cols=59 Identities=27% Similarity=0.388 Sum_probs=40.1
Q ss_pred CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CCC-CceEEecCce
Q 038893 66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KPD-SVYFVVNRGG 130 (235)
Q Consensus 66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~~-a~if~~~~~g 130 (235)
..+++|..+.+++.|+++|++.||+|..+ -|..+-+.++ ...+|.. +++ ...+.+.|.|
T Consensus 289 ~~Gv~V~~V~~~SpA~~AGL~~GDvIl~I---nG~~V~s~~d---l~~~l~~~~~g~~v~l~V~R~G 349 (455)
T PRK10139 289 QRGAFVSEVLPNSGSAKAGVKAGDIITSL---NGKPLNSFAE---LRSRIATTEPGTKVKLGLLRNG 349 (455)
T ss_pred CCceEEEEECCCChHHHCCCCCCCEEEEE---CCEECCCHHH---HHHHHHhcCCCCEEEEEEEECC
Confidence 45899999999999999999999998654 4444444333 3444443 333 3456666666
No 134
>TIGR02038 protease_degS periplasmic serine pepetdase DegS. This family consists of the periplasmic serine protease DegS (HhoB), a shorter paralog of protease DO (HtrA, DegP) and DegQ (HhoA). It is found in E. coli and several other Proteobacteria of the gamma subdivision. It contains a trypsin domain and a single copy of PDZ domain (in contrast to DegP with two copies). A critical role of this DegS is to sense stress in the periplasm and partially degrade an inhibitor of sigma(E).
Probab=71.20 E-value=6.5 Score=36.84 Aligned_cols=58 Identities=33% Similarity=0.366 Sum_probs=38.5
Q ss_pred CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CCC-CceEEecCce
Q 038893 67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KPD-SVYFVVNRGG 130 (235)
Q Consensus 67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~~-a~if~~~~~g 130 (235)
.+++|..+.+++.++.+|++.||+|..+ -| ++.........++.+ +++ ...+.+.|.|
T Consensus 278 ~Gv~V~~V~~~spA~~aGL~~GDvI~~I---ng---~~V~s~~dl~~~l~~~~~g~~v~l~v~R~g 337 (351)
T TIGR02038 278 RGIVITGVDPNGPAARAGILVRDVILKY---DG---KDVIGAEELMDRIAETRPGSKVMVTVLRQG 337 (351)
T ss_pred ccceEeecCCCChHHHCCCCCCCEEEEE---CC---EEcCCHHHHHHHHHhcCCCCEEEEEEEECC
Confidence 5899999999999999999999998655 22 334444444445543 332 3445555544
No 135
>TIGR00354 polC DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.
Probab=70.92 E-value=2.3 Score=45.40 Aligned_cols=24 Identities=33% Similarity=0.692 Sum_probs=17.9
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
....+|+.||..-.. ++||.|+..
T Consensus 623 v~~RKCPkCG~yTlk----------~rCP~CG~~ 646 (1095)
T TIGR00354 623 IAIRKCPQCGKESFW----------LKCPVCGEL 646 (1095)
T ss_pred EEEEECCCCCccccc----------ccCCCCCCc
Confidence 567899999954222 389999986
No 136
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=70.84 E-value=2.2 Score=28.63 Aligned_cols=13 Identities=31% Similarity=0.823 Sum_probs=8.5
Q ss_pred eEEcCCCceEEeC
Q 038893 160 THICLDCGYIYFL 172 (235)
Q Consensus 160 ~y~C~~CGyvyd~ 172 (235)
.|.|+.|||++.-
T Consensus 20 ~~vC~~Cg~~~~~ 32 (52)
T smart00661 20 RFVCRKCGYEEPI 32 (52)
T ss_pred EEECCcCCCeEEC
Confidence 5677777766644
No 137
>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=70.80 E-value=3 Score=41.14 Aligned_cols=10 Identities=40% Similarity=1.029 Sum_probs=8.0
Q ss_pred CCCCCCCCCC
Q 038893 182 TYVCPQCQAP 191 (235)
Q Consensus 182 d~~CP~C~a~ 191 (235)
.|.||.|+..
T Consensus 253 ~~~Cp~C~s~ 262 (505)
T TIGR00595 253 PKTCPQCGSE 262 (505)
T ss_pred CCCCCCCCCC
Confidence 4599999875
No 138
>PRK05638 threonine synthase; Validated
Probab=70.12 E-value=2.4 Score=40.91 Aligned_cols=23 Identities=26% Similarity=0.544 Sum_probs=16.7
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
++|..||+.|+. +. .|.| .|+.+
T Consensus 2 l~C~~Cg~~~~~-----~~--~~~C-~c~~~ 24 (442)
T PRK05638 2 MKCPKCGREYNS-----YI--PPFC-ICGEL 24 (442)
T ss_pred eEeCCCCCCCCC-----CC--ceec-CCCCc
Confidence 789999999964 22 2789 79643
No 139
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=69.80 E-value=1.6 Score=27.43 Aligned_cols=22 Identities=41% Similarity=0.939 Sum_probs=10.0
Q ss_pred EcCCCc--eEEeCCCCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCG--YIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 162 ~C~~CG--yvyd~~tpfe~lped~~CP~C~a 190 (235)
+|+.|+ |.|.. -.-+.||.|++
T Consensus 4 ~Cp~C~se~~y~D-------~~~~vCp~C~~ 27 (30)
T PF08274_consen 4 KCPLCGSEYTYED-------GELLVCPECGH 27 (30)
T ss_dssp --TTT-----EE--------SSSEEETTTTE
T ss_pred CCCCCCCcceecc-------CCEEeCCcccc
Confidence 677777 44432 13467888865
No 140
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=69.13 E-value=3.4 Score=23.05 Aligned_cols=12 Identities=25% Similarity=0.431 Sum_probs=9.8
Q ss_pred EEcCCCceEEeC
Q 038893 161 HICLDCGYIYFL 172 (235)
Q Consensus 161 y~C~~CGyvyd~ 172 (235)
|+|+.|+..|..
T Consensus 1 y~C~~C~~~f~~ 12 (23)
T PF00096_consen 1 YKCPICGKSFSS 12 (23)
T ss_dssp EEETTTTEEESS
T ss_pred CCCCCCCCccCC
Confidence 789999988854
No 141
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=69.10 E-value=2.8 Score=38.08 Aligned_cols=34 Identities=26% Similarity=0.697 Sum_probs=22.7
Q ss_pred cccceEEcCCCceEEeCCCCC---CC-CCCCCCCCCCCCC
Q 038893 156 KARATHICLDCGYIYFLQKPF---DE-LPDTYVCPQCQAP 191 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~tpf---e~-lped~~CP~C~a~ 191 (235)
.....++|..||+.|+.+..+ ++ .+. +||.|+.+
T Consensus 118 Gsl~~~~C~~C~~~~~~~~~~~~~~~~~~p--~C~~Cg~~ 155 (250)
T COG0846 118 GSLKRVRCSKCGNQYYDEDVIKFIEDGLIP--RCPKCGGP 155 (250)
T ss_pred cceeeeEeCCCcCccchhhhhhhcccCCCC--cCccCCCc
Confidence 446679999999998854211 11 133 69999884
No 142
>PRK14526 adenylate kinase; Provisional
Probab=68.90 E-value=3.2 Score=36.26 Aligned_cols=33 Identities=18% Similarity=0.524 Sum_probs=23.4
Q ss_pred cccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 156 KARATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
+-..++.|+.||.+|.-...+. +..-.|+.|+.
T Consensus 118 Rl~~R~~~~~~g~~y~~~~~pp--~~~~~~~~~~~ 150 (211)
T PRK14526 118 RLSGRRICKSCNNIFNIYTLPT--KEKGICDVCKG 150 (211)
T ss_pred HHHCCCcccccCCccccccCCC--CccCcCCCCCC
Confidence 3356899999999998764332 23348999974
No 143
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=68.83 E-value=5.1 Score=30.44 Aligned_cols=30 Identities=23% Similarity=0.503 Sum_probs=19.9
Q ss_pred eEEcCCCceEEeCCCCCCCCCC--CCCCCCCCCCccC
Q 038893 160 THICLDCGYIYFLQKPFDELPD--TYVCPQCQAPKKR 194 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lpe--d~~CP~C~a~k~~ 194 (235)
.|.|+-|||.--++ -++ -..||+|.=.-+-
T Consensus 1 K~~CPCCg~~Tl~~-----~~~~~ydIC~VC~WEdD~ 32 (78)
T PF14206_consen 1 KYPCPCCGYYTLEE-----RGEGTYDICPVCFWEDDG 32 (78)
T ss_pred CccCCCCCcEEecc-----CCCcCceECCCCCcccCC
Confidence 37899999876553 222 4589999654333
No 144
>PRK10898 serine endoprotease; Provisional
Probab=68.41 E-value=11 Score=35.54 Aligned_cols=28 Identities=36% Similarity=0.611 Sum_probs=25.6
Q ss_pred CcEEEEEeecchHHHHhcCCcCcceeee
Q 038893 67 GGVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
.+++|..+.+++.++++|++.||+|..+
T Consensus 279 ~Gv~V~~V~~~spA~~aGL~~GDvI~~I 306 (353)
T PRK10898 279 QGIVVNEVSPDGPAAKAGIQVNDLIISV 306 (353)
T ss_pred CeEEEEEECCCChHHHcCCCCCCEEEEE
Confidence 6899999999999999999999988654
No 145
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=67.99 E-value=4.3 Score=28.66 Aligned_cols=38 Identities=26% Similarity=0.526 Sum_probs=24.7
Q ss_pred cccccccch-h-hcccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 145 PRFGRKLTE-A-QKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 145 ~~f~~k~~~-~-~~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.+.+++++. . ......-.|+.||...-+ ...||.||.-
T Consensus 9 sr~~~RRah~~kl~~p~l~~C~~cG~~~~~---------H~vc~~cG~Y 48 (55)
T TIGR01031 9 SRKRKRRSHDAKLTAPTLVVCPNCGEFKLP---------HRVCPSCGYY 48 (55)
T ss_pred ccccchhcCcccccCCcceECCCCCCcccC---------eeECCccCeE
Confidence 344455554 2 233556789999987755 4589999853
No 146
>PRK00420 hypothetical protein; Validated
Probab=67.77 E-value=3 Score=33.67 Aligned_cols=29 Identities=24% Similarity=0.461 Sum_probs=19.3
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
|-.-.|+.||+..... .+ ....||.|+..
T Consensus 21 ml~~~CP~Cg~pLf~l---k~--g~~~Cp~Cg~~ 49 (112)
T PRK00420 21 MLSKHCPVCGLPLFEL---KD--GEVVCPVHGKV 49 (112)
T ss_pred HccCCCCCCCCcceec---CC--CceECCCCCCe
Confidence 4457899999766441 12 23589999873
No 147
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=67.46 E-value=4.3 Score=35.04 Aligned_cols=45 Identities=38% Similarity=0.629 Sum_probs=32.7
Q ss_pred EEeecCc---cceee--eeecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893 50 EVEVDKP---LGLTL--GQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT 94 (235)
Q Consensus 50 ~v~~~kp---lGl~~--g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~ 94 (235)
-|+++|- +|..+ |+..+.-+||.-+|||++|++-| +|-||.|..+
T Consensus 93 vvelpktdeglgfnvmggkeqnspiyisriipggvadrhgglkrgdqllsv 143 (207)
T KOG3550|consen 93 VVELPKTDEGLGFNVMGGKEQNSPIYISRIIPGGVADRHGGLKRGDQLLSV 143 (207)
T ss_pred eeecCccccccceeeccCcccCCceEEEeecCCccccccCcccccceeEee
Confidence 3787754 44432 22346679999999999999987 9999977543
No 148
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=67.46 E-value=5.2 Score=32.08 Aligned_cols=42 Identities=19% Similarity=0.498 Sum_probs=27.9
Q ss_pred cceEEcCCCceEEeCCC--------------------CC--CCC-----CC-CCCCCCCCCCccCeeecc
Q 038893 158 RATHICLDCGYIYFLQK--------------------PF--DEL-----PD-TYVCPQCQAPKKRFARYD 199 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~t--------------------pf--e~l-----pe-d~~CP~C~a~k~~F~~~~ 199 (235)
...++|+.|||.++-.. .. +.. |. ...||.|++.+..|....
T Consensus 20 ~~~l~C~kCgye~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CpkCg~~ea~y~~~Q 89 (113)
T COG1594 20 GGKLVCRKCGYEEEASNKKVYRYSVKEAVEKKKEVVLVVEDETQGAKTLPTAKEKCPKCGNKEAYYWQLQ 89 (113)
T ss_pred CcEEECCCCCcchhccccceeEEEEeeccCCcceeeeeecccccCccccccccccCCCCCCceeEEEeee
Confidence 34899999999886550 00 111 12 256999999988888653
No 149
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=66.80 E-value=29 Score=34.07 Aligned_cols=32 Identities=25% Similarity=0.436 Sum_probs=22.0
Q ss_pred CCCCCcccccccchhhcccceEEcCCCceEEeCC
Q 038893 140 KRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQ 173 (235)
Q Consensus 140 ~~~a~~~f~~k~~~~~~~~~~y~C~~CGyvyd~~ 173 (235)
..|-+|+++.+--++.+. .|+|+.|||.+...
T Consensus 349 ~~p~Cp~Cg~~m~S~G~~--g~rC~kCg~~~~~~ 380 (421)
T COG1571 349 VNPVCPRCGGRMKSAGRN--GFRCKKCGTRARET 380 (421)
T ss_pred cCCCCCccCCchhhcCCC--CcccccccccCCcc
Confidence 556677777655555433 68888888888764
No 150
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=66.79 E-value=7.6 Score=38.11 Aligned_cols=49 Identities=20% Similarity=0.169 Sum_probs=31.6
Q ss_pred EEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEec
Q 038893 71 ITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVN 127 (235)
Q Consensus 71 Ia~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~ 127 (235)
|..+.+|+.|+.+|++.||+|..+ -|..+.+..+ ...++.. +...+.+.
T Consensus 2 I~~V~pgSpAe~AGLe~GD~IlsI---NG~~V~Dw~D---~~~~l~~--e~l~L~V~ 50 (433)
T TIGR03279 2 ISAVLPGSIAEELGFEPGDALVSI---NGVAPRDLID---YQFLCAD--EELELEVL 50 (433)
T ss_pred cCCcCCCCHHHHcCCCCCCEEEEE---CCEECCCHHH---HHHHhcC--CcEEEEEE
Confidence 456789999999999999998655 5554443333 3444432 33445553
No 151
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=66.65 E-value=3.4 Score=33.59 Aligned_cols=29 Identities=38% Similarity=0.736 Sum_probs=21.2
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
....+|..|+..+..+ .. ++.||.|+.+.
T Consensus 68 p~~~~C~~C~~~~~~e-----~~-~~~CP~C~s~~ 96 (115)
T COG0375 68 PAECWCLDCGQEVELE-----EL-DYRCPKCGSIN 96 (115)
T ss_pred ccEEEeccCCCeecch-----hh-eeECCCCCCCc
Confidence 3468999999888773 22 35699998754
No 152
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=66.45 E-value=5.1 Score=28.53 Aligned_cols=39 Identities=28% Similarity=0.425 Sum_probs=25.2
Q ss_pred ccccccchh-hcccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc
Q 038893 146 RFGRKLTEA-QKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK 193 (235)
Q Consensus 146 ~f~~k~~~~-~~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~ 193 (235)
+.+++++.. -.......|+.||..--+ ...||.||.-+.
T Consensus 12 rr~~RRsh~~l~~~~l~~C~~CG~~~~~---------H~vC~~CG~Y~g 51 (57)
T PRK12286 12 RKRKRRAHFKLKAPGLVECPNCGEPKLP---------HRVCPSCGYYKG 51 (57)
T ss_pred hcchhcccccccCCcceECCCCCCccCC---------eEECCCCCcCCC
Confidence 344444442 223557799999987755 458999986443
No 153
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=66.41 E-value=4.6 Score=38.95 Aligned_cols=30 Identities=23% Similarity=0.523 Sum_probs=20.1
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
-.|+.|+.+++.. .-+..+.-.||.|++.-
T Consensus 14 ~~C~~Cd~l~~~~--~l~~g~~a~CpRCg~~L 43 (403)
T TIGR00155 14 ILCSQCDMLVALP--RIESGQKAACPRCGTTL 43 (403)
T ss_pred eeCCCCCCccccc--CCCCCCeeECCCCCCCC
Confidence 4699999999763 11122334799999854
No 154
>TIGR02487 NrdD anaerobic ribonucleoside-triphosphate reductase. This model represents the oxygen-sensitive (anaerobic, class III) ribonucleotide reductase. The mechanism of the enzyme involves a glycine-centered radical, a C-terminal zinc binding site, and a set of conserved active site cysteines and asparagines. This enzyme requires an activating component, NrdG, a radical-SAM domain containing enzyme (TIGR02491). Together the two form an alpha-2/beta-2 heterodimer.
Probab=66.30 E-value=3 Score=41.96 Aligned_cols=24 Identities=38% Similarity=0.969 Sum_probs=16.5
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.-+|..|||+ ++ .. .+.||.||..
T Consensus 524 ~~~C~~CG~~--g~----~~--~~~CP~Cgs~ 547 (579)
T TIGR02487 524 VDVCEDCGYT--GE----GL--NDKCPKCGSH 547 (579)
T ss_pred CccCCCCCCC--CC----CC--CCcCcCCCCc
Confidence 4599999983 32 11 2689999863
No 155
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=65.99 E-value=3.4 Score=40.23 Aligned_cols=34 Identities=32% Similarity=0.629 Sum_probs=25.1
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.+..|+|+.|||.++-.+.+.+.+. ++||.|+.+
T Consensus 324 ~r~~~~c~~~~~e~~~t~~~~~~~~-~~~~~~~~e 357 (411)
T COG1503 324 ERVTYKCPTCGYENLKSKREFEQKR-FRCPECGSE 357 (411)
T ss_pred cceeecCCCcchhhhhccccccccc-ccCcccccc
Confidence 3457999999999977644444444 499999873
No 156
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=65.71 E-value=4.8 Score=39.05 Aligned_cols=30 Identities=23% Similarity=0.586 Sum_probs=19.7
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
-.|+.||.++.-.. -+..+...||.|++.-
T Consensus 11 ~~C~~Cd~l~~~~~--l~~g~~a~CpRCg~~L 40 (419)
T PRK15103 11 ILCPQCDMLVALPR--LEHGQKAACPRCGTTL 40 (419)
T ss_pred ccCCCCCceeecCC--CCCCCeeECCCCCCCC
Confidence 46999999996521 0111234799999853
No 157
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=65.66 E-value=2.3 Score=35.38 Aligned_cols=25 Identities=24% Similarity=0.558 Sum_probs=19.2
Q ss_pred ccceEEcCCCc---eEEeCCCCCCCCCCCCCCCCCCC
Q 038893 157 ARATHICLDCG---YIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 157 ~~~~y~C~~CG---yvyd~~tpfe~lped~~CP~C~a 190 (235)
.|-.+-|+.|| +-+|+. -.||+|+.
T Consensus 25 kML~~hCp~Cg~PLF~KdG~---------v~CPvC~~ 52 (131)
T COG1645 25 KMLAKHCPKCGTPLFRKDGE---------VFCPVCGY 52 (131)
T ss_pred HHHHhhCcccCCcceeeCCe---------EECCCCCc
Confidence 36678999999 556662 38999985
No 158
>PRK08322 acetolactate synthase; Reviewed
Probab=65.24 E-value=4.4 Score=39.61 Aligned_cols=109 Identities=8% Similarity=0.014 Sum_probs=59.3
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCCC
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGDE 101 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~~ 101 (235)
.|.|....+..+.+.+||+++|+.+-.+. .. .|. +-. +-.+|+.. +..|......-++..|.|..+.+.+.+.
T Consensus 203 ~G~g~~~~~a~~~l~~lae~~~~pv~tt~-~g--kg~-~~~--~hp~~~G~~G~~~~~~~~~~l~~aDlil~lG~~l~~~ 276 (547)
T PRK08322 203 IGAGANRKTASKALTEFVDKTGIPFFTTQ-MG--KGV-IPE--THPLSLGTAGLSQGDYVHCAIEHADLIINVGHDVIEK 276 (547)
T ss_pred ECCCcchhcHHHHHHHHHHHhCCCEEEcc-cc--CCc-CCC--CCchhccCCCCCCCHHHHHHHHhCCEEEEECCCCccc
Confidence 47887766778999999999999985431 00 111 111 11122211 2223332233478899999988776642
Q ss_pred ---ccccCccchhhhhhhcCCCCceE-EecCceeeeecccc
Q 038893 102 ---LWPADKLGFTKTAIQAKPDSVYF-VVNRGGADVDVKRL 138 (235)
Q Consensus 102 ---lW~~~~~g~~i~AIn~~~~a~if-~~~~~g~~~d~~~~ 138 (235)
.|.- .....++-|+.|+...-. ...+..+..|+...
T Consensus 277 ~~~~~~~-~~~~~~i~id~d~~~~~~~~~~~~~i~~D~~~~ 316 (547)
T PRK08322 277 PPFFMNP-NGDKKVIHINFLPAEVDPVYFPQVEVVGDIANS 316 (547)
T ss_pred cccccCC-CCCCeEEEEeCCHHHcCCCcCCCeEEecCHHHH
Confidence 2431 112345666777654221 12345677776553
No 159
>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=64.95 E-value=1.2 Score=29.27 Aligned_cols=29 Identities=24% Similarity=0.471 Sum_probs=14.3
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
+|+.|+-...+-..|++-...|+|+.|+.
T Consensus 4 rC~~C~aylNp~~~~~~~~~~w~C~~C~~ 32 (40)
T PF04810_consen 4 RCRRCRAYLNPFCQFDDGGKTWICNFCGT 32 (40)
T ss_dssp B-TTT--BS-TTSEEETTTTEEEETTT--
T ss_pred ccCCCCCEECCcceEcCCCCEEECcCCCC
Confidence 57777765555544444445677777765
No 160
>cd01412 SIRT5_Af1_CobB SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. CobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase at an active site lysine to stimulate its enzymatic activity.
Probab=64.84 E-value=4.4 Score=35.31 Aligned_cols=36 Identities=19% Similarity=0.409 Sum_probs=22.8
Q ss_pred hcccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 155 QKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 155 ~~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
......++|..|++.|+...... ......||.|+..
T Consensus 104 HG~~~~~~C~~C~~~~~~~~~~~-~~~~p~C~~Cgg~ 139 (224)
T cd01412 104 HGSLFRVRCSSCGYVGENNEEIP-EEELPRCPKCGGL 139 (224)
T ss_pred CCCcCccccCCCCCCCCcchhhh-ccCCCCCCCCCCc
Confidence 34456789999999987641111 1112479999874
No 161
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=64.27 E-value=4.7 Score=42.04 Aligned_cols=40 Identities=33% Similarity=0.554 Sum_probs=35.8
Q ss_pred ecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCccee
Q 038893 53 VDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92 (235)
Q Consensus 53 ~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~ 92 (235)
...|+|+.|.+..+.-|-|..+-+...|.++-++.||+|+
T Consensus 384 ~s~~ig~vf~~~~~~~v~v~tv~~ns~a~k~~~~~gdvlv 423 (1051)
T KOG3532|consen 384 VSSPIGLVFDKNTNRAVKVCTVEDNSLADKAAFKPGDVLV 423 (1051)
T ss_pred ccCceeEEEecCCceEEEEEEecCCChhhHhcCCCcceEE
Confidence 3479999999988889999999999999999999999653
No 162
>PRK08329 threonine synthase; Validated
Probab=64.07 E-value=3.3 Score=38.68 Aligned_cols=23 Identities=26% Similarity=0.696 Sum_probs=16.4
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
++|..||+.|+. +. .|+| .|+.+
T Consensus 2 l~C~~Cg~~~~~-----~~--~~~C-~c~~~ 24 (347)
T PRK08329 2 LRCTKCGRTYEE-----KF--KLRC-DCGGT 24 (347)
T ss_pred cCcCCCCCCcCC-----CC--ceec-CCCCc
Confidence 689999999965 22 2689 58654
No 163
>PRK04011 peptide chain release factor 1; Provisional
Probab=63.77 E-value=5.3 Score=38.58 Aligned_cols=33 Identities=27% Similarity=0.462 Sum_probs=23.1
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..|+|+.||+.-..-...++.++...||.|+.+
T Consensus 327 ~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~~ 359 (411)
T PRK04011 327 VTYKCPNCGYEEEKTVKRREELPEKTCPKCGSE 359 (411)
T ss_pred EEEEcCCCCcceeeecccccccccccCcccCcc
Confidence 468999999876543333344556799999865
No 164
>PRK05580 primosome assembly protein PriA; Validated
Probab=63.61 E-value=4.7 Score=41.26 Aligned_cols=10 Identities=30% Similarity=1.019 Sum_probs=7.9
Q ss_pred CCCCCCCCCC
Q 038893 182 TYVCPQCQAP 191 (235)
Q Consensus 182 d~~CP~C~a~ 191 (235)
.|.||.|+..
T Consensus 421 ~~~Cp~Cg~~ 430 (679)
T PRK05580 421 PKACPECGST 430 (679)
T ss_pred CCCCCCCcCC
Confidence 4699999775
No 165
>PF14353 CpXC: CpXC protein
Probab=63.54 E-value=3.6 Score=32.84 Aligned_cols=11 Identities=27% Similarity=0.890 Sum_probs=5.2
Q ss_pred eEEcCCCceEE
Q 038893 160 THICLDCGYIY 170 (235)
Q Consensus 160 ~y~C~~CGyvy 170 (235)
.|.|+.||+..
T Consensus 38 ~~~CP~Cg~~~ 48 (128)
T PF14353_consen 38 SFTCPSCGHKF 48 (128)
T ss_pred EEECCCCCCce
Confidence 34444444444
No 166
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=63.36 E-value=2.2 Score=33.86 Aligned_cols=70 Identities=16% Similarity=0.173 Sum_probs=42.7
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEeecchH---HHHhcCCcCcceeeeccccC
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGN---AAKAGLKSGDQVLYTSSFFG 99 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~isG~~---a~~~Gi~~gD~i~~~s~~fG 99 (235)
.|.|....+..+.+.+||+++|+.+..+ ... .|. +.. +--.|+. ..|.. ....-|+..|.|..+.+.|.
T Consensus 18 ~G~g~~~~~a~~~l~~lae~~~~Pv~~t-~~~--kg~-i~~--~hp~~~G--~~g~~~~~~~~~~l~~aDlvl~iG~~~~ 89 (137)
T PF00205_consen 18 AGRGARRSGAAEELRELAEKLGIPVATT-PMG--KGV-IPE--DHPLFLG--YLGLFGSPAANEALEQADLVLAIGTRLS 89 (137)
T ss_dssp E-HHHHHTTCHHHHHHHHHHHTSEEEEE-GGG--TTS-STT--TSTTEEE--ESCGGSCHHHHHHHHHSSEEEEESSSSS
T ss_pred EcCCcChhhHHHHHHHHHHHHCCCEEec-Ccc--ccc-cCC--CCchhcc--cCCccCCHHHHHHhcCCCEEEEECCCCc
Confidence 4788887788899999999999999433 221 222 221 1123333 22332 22233788999998887766
Q ss_pred C
Q 038893 100 D 100 (235)
Q Consensus 100 ~ 100 (235)
+
T Consensus 90 ~ 90 (137)
T PF00205_consen 90 D 90 (137)
T ss_dssp T
T ss_pred c
Confidence 5
No 167
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=62.85 E-value=3.1 Score=34.94 Aligned_cols=32 Identities=28% Similarity=0.477 Sum_probs=21.4
Q ss_pred cceEEcCCCceEEeCCCC----CCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKP----FDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tp----fe~lped~~CP~C~a~ 191 (235)
....+|..|++.|+.... ....+ .+||.|+..
T Consensus 103 l~~~~C~~C~~~~~~~~~~~~~~~~~~--~~C~~C~~~ 138 (178)
T PF02146_consen 103 LFRLRCSKCGKEYDREDIVDSIDEEEP--PRCPKCGGL 138 (178)
T ss_dssp EEEEEETTTSBEEEGHHHHHHHHTTSS--CBCTTTSCB
T ss_pred hceeeecCCCccccchhhccccccccc--ccccccCcc
Confidence 456899999999977521 11111 289999873
No 168
>PRK10942 serine endoprotease; Provisional
Probab=62.49 E-value=5.4 Score=39.09 Aligned_cols=59 Identities=24% Similarity=0.367 Sum_probs=38.9
Q ss_pred CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC-C-CCceEEecCce
Q 038893 66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK-P-DSVYFVVNRGG 130 (235)
Q Consensus 66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~-~-~a~if~~~~~g 130 (235)
..+++|..+.+++.++++|++.||+|..+ -|. +.........++... + +..-+.+.|.|
T Consensus 310 ~~GvlV~~V~~~SpA~~AGL~~GDvIl~I---nG~---~V~s~~dl~~~l~~~~~g~~v~l~v~R~G 370 (473)
T PRK10942 310 QRGAFVSQVLPNSSAAKAGIKAGDVITSL---NGK---PISSFAALRAQVGTMPVGSKLTLGLLRDG 370 (473)
T ss_pred CCceEEEEECCCChHHHcCCCCCCEEEEE---CCE---ECCCHHHHHHHHHhcCCCCEEEEEEEECC
Confidence 45899999999999999999999998655 233 333343444444332 2 23455555655
No 169
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=61.42 E-value=5.4 Score=36.85 Aligned_cols=24 Identities=17% Similarity=0.563 Sum_probs=19.9
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
..|+|+.|--+|-+ +|. .||+|++
T Consensus 254 ~GyvCs~Clsi~C~------~p~--~C~~Cgt 277 (279)
T TIGR00627 254 IGFVCSVCLSVLCQ------YTP--ICKTCKT 277 (279)
T ss_pred ceEECCCccCCcCC------CCC--CCCCCCC
Confidence 45999999999966 455 7999986
No 170
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=61.21 E-value=6.2 Score=38.08 Aligned_cols=28 Identities=29% Similarity=0.437 Sum_probs=20.9
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.-.|.|+.||+++... .+ -+..||.||.
T Consensus 238 g~~~~c~~cg~~~~~~---~~--~~~~c~~Cg~ 265 (380)
T COG1867 238 GYIYHCSRCGEIVGSF---RE--VDEKCPHCGG 265 (380)
T ss_pred CcEEEcccccceeccc---cc--ccccCCcccc
Confidence 3469999999888773 33 3448999986
No 171
>TIGR01504 glyox_carbo_lig glyoxylate carboligase. Glyoxylate carboligase, also called tartronate-semialdehyde synthase, releases CO2 while synthesizing a single molecule of tartronate semialdehyde from two molecules of glyoxylate. It is a thiamine pyrophosphate-dependent enzyme, closely related in sequence to the large subunit of acetolactate synthase. In the D-glycerate pathway, part of allantoin degradation in the Enterobacteriaceae, tartronate semialdehyde is converted to D-glycerate and then 3-phosphoglycerate, a product of glycolysis and entry point in the general metabolism.
Probab=60.67 E-value=4.6 Score=40.32 Aligned_cols=105 Identities=14% Similarity=0.024 Sum_probs=60.0
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEE-eecch-HHHHhcCCcCcceee
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITA-VEGGG-NAAKAGLKSGDQVLY 93 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~-~isG~-~a~~~Gi~~gD~i~~ 93 (235)
..|.|....+..+.+.+||+++|+.+..+ ++-++|+ |+.. +..++ .....-++..|+|..
T Consensus 208 l~G~g~~~~~a~~~l~~lae~~g~PV~tt~~gkg~~p~~hpl------------~~G~~g~~~~~~~a~~~l~~aD~iL~ 275 (588)
T TIGR01504 208 VAGGGVINADAADLLQEFAELTGVPVIPTLMGWGCIPDDHEL------------MAGMVGLQTSHRYGNATLLESDFVFG 275 (588)
T ss_pred EECCCcchhhhHHHHHHHHHHhCCCeEEcCccCCCCCCCChh------------hCcCCCCCCCcHHHHHHHHhCCEEEE
Confidence 35888887788899999999999998544 2223332 2111 11111 111223678999999
Q ss_pred eccccCCCc---cccCccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 94 TSSFFGDEL---WPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 94 ~s~~fG~~l---W~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
+.+.|.+.. |+.-.-+..++-|+.|+...--. ..+..+..|++..
T Consensus 276 lG~~l~~~~t~~~~~~~~~~~~I~id~d~~~i~~~~~~~~~i~~D~~~~ 324 (588)
T TIGR01504 276 IGNRWANRHTGSVDVYTEGRKFVHVDIEPTQIGRVFAPDLGIVSDAKAA 324 (588)
T ss_pred ECCCCCccccCcccccCCCCeEEEeeCCHHHhcCcCCCCeEEEeCHHHH
Confidence 998886522 32211222345566665442111 1456777887664
No 172
>PRK14873 primosome assembly protein PriA; Provisional
Probab=60.59 E-value=5.5 Score=40.92 Aligned_cols=11 Identities=27% Similarity=1.099 Sum_probs=8.5
Q ss_pred CCCCCCCCCCc
Q 038893 182 TYVCPQCQAPK 192 (235)
Q Consensus 182 d~~CP~C~a~k 192 (235)
.|.||.|+...
T Consensus 422 p~~Cp~Cgs~~ 432 (665)
T PRK14873 422 DWRCPRCGSDR 432 (665)
T ss_pred CccCCCCcCCc
Confidence 46999998753
No 173
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=60.05 E-value=8.5 Score=32.61 Aligned_cols=20 Identities=35% Similarity=1.076 Sum_probs=14.7
Q ss_pred CCCCCCC-CCCCCCCCCCccC
Q 038893 175 PFDELPD-TYVCPQCQAPKKR 194 (235)
Q Consensus 175 pfe~lpe-d~~CP~C~a~k~~ 194 (235)
|...+|+ +|.||.|...+..
T Consensus 10 pl~~~P~g~W~Cp~C~~~~~~ 30 (148)
T cd04718 10 PLKEVPEGDWICPFCEVEKSG 30 (148)
T ss_pred CCCCCCCCCcCCCCCcCCCCC
Confidence 5567777 8999999765443
No 174
>PRK07979 acetolactate synthase 3 catalytic subunit; Validated
Probab=59.62 E-value=6.4 Score=38.96 Aligned_cols=106 Identities=13% Similarity=0.037 Sum_probs=59.4
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS 95 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s 95 (235)
..|.|....+..+.+.+||+++|+.+-.+ ++-+.|+-+ ++ .+..|......-++..|.|..+.
T Consensus 212 ~~G~g~~~~~a~~~l~~lae~~~~pv~tt~~gkg~~p~~hp~~~--------G~---~G~~~~~~~~~~l~~aDlvl~vG 280 (574)
T PRK07979 212 YVGGGAINAACHQQLKELVEKLNLPVVSSLMGLGAFPATHRQSL--------GM---LGMHGTYEANMTMHNADVIFAVG 280 (574)
T ss_pred EECCCccccchHHHHHHHHHHhCCCEEEccccCCCCCCCCcccc--------cC---CcCCCCHHHHHHHHhCCEEEEeC
Confidence 34888876777889999999999998544 222233211 01 12223333333467899999998
Q ss_pred cccCCCc---cccCccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 96 SFFGDEL---WPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 96 ~~fG~~l---W~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
+.|++.. |+.-.-...++-|+.|+...--. ..+..+.+|+...
T Consensus 281 ~~~~~~~~~~~~~~~~~~~~i~id~d~~~i~~~~~~~~~i~~D~~~~ 327 (574)
T PRK07979 281 VRFDDRTTNNLAKYCPNATVLHIDIDPTSISKTVTADIPIVGDARQV 327 (574)
T ss_pred CCCcccccCChhhcCCCCeEEEEECCHHHhCCcccCCeEEecCHHHH
Confidence 8876532 11101112355566665543211 1345677776554
No 175
>PF04161 Arv1: Arv1-like family ; InterPro: IPR007290 Arv1 is a transmembrane protein, with potential zinc-binding motifs, that mediates sterol homeostasis. Its action is important in lipid homeostasis, which prevents free sterol toxicity []. Arv1 contains a homology domain (AHD), which consists of an N-terminal cysteine-rich subdomain with a putative zinc-binding motif, followed by a C-terminal subdomain of 33 amino acids. The C-terminal subdomain of the AHD is critical for the protein's function []. In yeast, Arv1p is important for the delivery of an early glycosylphosphatidylinositol GPI intermediate, GlcN-acylPI, to the first mannosyltransferase of GPI synthesis in the ER lumen []. It is important for the traffic of sterol in yeast and in humans. In eukaryotic cells, it may fuction in the sphingolipid metabolic pathway as a transporter of ceramides between the ER and Golgi [].
Probab=59.26 E-value=4.8 Score=35.16 Aligned_cols=39 Identities=23% Similarity=0.653 Sum_probs=25.1
Q ss_pred EEcCCCceEEeCC-CCC--CCCCCCCCCCCCCCCccCeeeccC
Q 038893 161 HICLDCGYIYFLQ-KPF--DELPDTYVCPQCQAPKKRFARYDV 200 (235)
Q Consensus 161 y~C~~CGyvyd~~-tpf--e~lped~~CP~C~a~k~~F~~~~~ 200 (235)
++|..||+.-+.. +.. +-+. =-.||.|+...+.+.+++.
T Consensus 1 miCIeCg~~v~~Ly~~Ys~~~ir-Lt~C~~C~~vaDkYiE~d~ 42 (208)
T PF04161_consen 1 MICIECGHPVKSLYRQYSPGNIR-LTKCPNCGKVADKYIEYDN 42 (208)
T ss_pred CEeccCCCcchhhhhccCCCcEE-EeeccccCCcccceecccc
Confidence 5899999653321 100 1111 1379999999999998876
No 176
>PRK12860 transcriptional activator FlhC; Provisional
Probab=58.96 E-value=7.8 Score=34.04 Aligned_cols=30 Identities=27% Similarity=0.594 Sum_probs=22.1
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQ 189 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~ 189 (235)
...+.|+.||--|-- ...++...++||.|.
T Consensus 132 L~l~~C~~Cgg~fv~--~~~e~~~~f~CplC~ 161 (189)
T PRK12860 132 LQLARCCRCGGKFVT--HAHDLRHNFVCGLCQ 161 (189)
T ss_pred eeeccCCCCCCCeec--cccccCCCCcCCCCC
Confidence 457999999955543 234666789999996
No 177
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=58.94 E-value=4.1 Score=35.97 Aligned_cols=21 Identities=33% Similarity=0.879 Sum_probs=15.6
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
=.|+.||+ . . ...|.||.|+.
T Consensus 310 ~~C~~cg~---~----~--~r~~~C~~cg~ 330 (364)
T COG0675 310 KTCPCCGH---L----S--GRLFKCPRCGF 330 (364)
T ss_pred ccccccCC---c----c--ceeEECCCCCC
Confidence 48999999 1 0 24589999986
No 178
>PRK08979 acetolactate synthase 3 catalytic subunit; Validated
Probab=58.94 E-value=5.8 Score=39.30 Aligned_cols=110 Identities=12% Similarity=-0.028 Sum_probs=58.0
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
..|.|....+..+.+.+||+++|+.+-.+.. . -|+ +..+ .| +|+.. +..|......-++..|.|..+.+.|++
T Consensus 212 l~G~g~~~~~a~~~l~~lae~~~~pv~tt~~-g--kg~-~~~~-hp-~~~G~~G~~~~~~~~~~~~~aD~vl~vG~~~~~ 285 (572)
T PRK08979 212 YVGGGAIISGADKQILQLAEKLNLPVVSTLM-G--LGA-FPGT-HK-NSLGMLGMHGRYEANMAMHNADLIFGIGVRFDD 285 (572)
T ss_pred EECCCccccChHHHHHHHHHHhCCCEEEccc-c--ccc-CCCC-Cc-ccccCCccCCCHHHHHHHHhCCEEEEEcCCCCc
Confidence 3478877667778899999999999854411 1 122 1111 11 22211 222333333346789999999988876
Q ss_pred Cc---cccCccchhhhhhhcCCCCceEE-ecCceeeeeccc
Q 038893 101 EL---WPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKR 137 (235)
Q Consensus 101 ~l---W~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~ 137 (235)
.. |..-.-...++-|+.|+...--. ..+..+..|.+.
T Consensus 286 ~~~~~~~~~~~~~~~i~id~d~~~i~~~~~~~~~i~~D~~~ 326 (572)
T PRK08979 286 RTTNNLEKYCPNATILHIDIDPSSISKTVRVDIPIVGSADK 326 (572)
T ss_pred cccCchhhcCCCCeEEEEECCHHHhCCccCCceEEecCHHH
Confidence 42 21111112345566665432211 124456666655
No 179
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=58.74 E-value=2.9 Score=40.00 Aligned_cols=26 Identities=27% Similarity=0.676 Sum_probs=19.9
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
-|.-|...|..+ +...-+|+||.||.
T Consensus 248 AC~rC~t~y~le---~A~~~~wrCpkCGg 273 (403)
T COG1379 248 ACSRCYTRYSLE---EAKSLRWRCPKCGG 273 (403)
T ss_pred HHHHhhhccCcc---hhhhhcccCccccc
Confidence 699999888663 23444799999976
No 180
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=58.60 E-value=6 Score=43.41 Aligned_cols=31 Identities=39% Similarity=0.859 Sum_probs=21.0
Q ss_pred eEEcCCCceEEeCC----CCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQ----KPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~----tpfe~lped~~CP~C~a~ 191 (235)
-|+|+.|.|.-.-+ ..-=|+|+ ..||.|+.+
T Consensus 683 hy~c~~c~~~ef~~~~~~~sg~dlp~-k~cp~c~~~ 717 (1213)
T TIGR01405 683 HYLCPNCKYSEFITDGSVGSGFDLPD-KDCPKCGAP 717 (1213)
T ss_pred cccCcccccccccccccccccccCcc-ccCcccccc
Confidence 59999999854332 11225666 699999874
No 181
>PRK12722 transcriptional activator FlhC; Provisional
Probab=58.44 E-value=8 Score=33.92 Aligned_cols=32 Identities=25% Similarity=0.537 Sum_probs=22.7
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
...+.|+.||--|-- ...++...++||.|.-|
T Consensus 132 L~l~~C~~Cgg~fv~--~~~e~~~~f~CplC~~p 163 (187)
T PRK12722 132 LQLSSCNCCGGHFVT--HAHDPVGSFVCGLCQPP 163 (187)
T ss_pred EeeccCCCCCCCeec--cccccCCCCcCCCCCCc
Confidence 457899999955542 23466678999999653
No 182
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=58.40 E-value=4.1 Score=31.81 Aligned_cols=8 Identities=38% Similarity=1.348 Sum_probs=4.1
Q ss_pred CCCCCCCC
Q 038893 183 YVCPQCQA 190 (235)
Q Consensus 183 ~~CP~C~a 190 (235)
|.||.|+.
T Consensus 32 ~~C~~CGe 39 (127)
T TIGR03830 32 WYCPACGE 39 (127)
T ss_pred eECCCCCC
Confidence 45555543
No 183
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=58.25 E-value=11 Score=29.98 Aligned_cols=31 Identities=29% Similarity=0.546 Sum_probs=20.8
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
....|+|..||+...-- -+= ....||.|+..
T Consensus 39 G~~~~~C~~Cg~~~~~~---~SC-k~R~CP~C~~~ 69 (111)
T PF14319_consen 39 GFHRYRCEDCGHEKIVY---NSC-KNRHCPSCQAK 69 (111)
T ss_pred CcceeecCCCCceEEec---Ccc-cCcCCCCCCCh
Confidence 35689999999776432 111 13489999874
No 184
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=58.05 E-value=6.5 Score=33.23 Aligned_cols=33 Identities=21% Similarity=0.344 Sum_probs=19.1
Q ss_pred EEcCCCceEEeCC----CCCCCCC--CCCCCCCCCCCccC
Q 038893 161 HICLDCGYIYFLQ----KPFDELP--DTYVCPQCQAPKKR 194 (235)
Q Consensus 161 y~C~~CGyvyd~~----tpfe~lp--ed~~CP~C~a~k~~ 194 (235)
.+|. |||.+++= ..|+++- .--.||+|+..+-.
T Consensus 6 L~C~-~gH~FEgWF~ss~~fd~Q~~~glv~CP~Cgs~~V~ 44 (148)
T PF06676_consen 6 LRCE-NGHEFEGWFRSSAAFDRQQARGLVSCPVCGSTEVS 44 (148)
T ss_pred EecC-CCCccceecCCHHHHHHHHHcCCccCCCCCCCeEe
Confidence 4888 99999873 0111100 11379999875433
No 185
>PF12773 DZR: Double zinc ribbon
Probab=57.92 E-value=9.5 Score=25.40 Aligned_cols=8 Identities=50% Similarity=1.402 Sum_probs=3.8
Q ss_pred CCCCCCCC
Q 038893 183 YVCPQCQA 190 (235)
Q Consensus 183 ~~CP~C~a 190 (235)
+.||.|++
T Consensus 30 ~~C~~Cg~ 37 (50)
T PF12773_consen 30 KICPNCGA 37 (50)
T ss_pred CCCcCCcC
Confidence 34555544
No 186
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=57.76 E-value=2.4 Score=27.92 Aligned_cols=26 Identities=27% Similarity=0.650 Sum_probs=15.0
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK 193 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~ 193 (235)
.....|..||.+-+.+ .|++|..++.
T Consensus 15 ~~i~~C~~C~nlse~~----------~C~IC~d~~R 40 (41)
T PF02132_consen 15 ENIKFCSICGNLSEED----------PCEICSDPKR 40 (41)
T ss_dssp HH-EE-SSS--EESSS----------S-HHHH-TTS
T ss_pred HcCCccCCCCCcCCCC----------cCcCCCCCCC
Confidence 3478999999998762 8999977653
No 187
>PRK04351 hypothetical protein; Provisional
Probab=57.47 E-value=4.9 Score=33.77 Aligned_cols=31 Identities=23% Similarity=0.611 Sum_probs=23.2
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.-.|+|..||+.|-..... .+..++|-.|+.
T Consensus 110 ~y~Y~C~~Cg~~~~r~Rr~--n~~~yrCg~C~g 140 (149)
T PRK04351 110 NYLYECQSCGQQYLRKRRI--NTKRYRCGKCRG 140 (149)
T ss_pred eEEEECCCCCCEeeeeeec--CCCcEEeCCCCc
Confidence 3579999999988664322 357799999975
No 188
>PF15499 Peptidase_C98: Ubiquitin-specific peptidase-like, SUMO isopeptidase
Probab=57.10 E-value=6.8 Score=36.22 Aligned_cols=31 Identities=23% Similarity=0.598 Sum_probs=24.7
Q ss_pred EEcCCCceEEeCC-----CCCCCCCCCC---------CCCCCCCC
Q 038893 161 HICLDCGYIYFLQ-----KPFDELPDTY---------VCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~-----tpfe~lped~---------~CP~C~a~ 191 (235)
+.|..|||.|... +.|..+..|| .|+.|+++
T Consensus 135 FeC~~Cg~~~~~R~~K~L~TFtnv~pdwhPLnA~h~~pCn~C~~k 179 (275)
T PF15499_consen 135 FECSQCGHKYQNRCTKTLVTFTNVIPDWHPLNAVHFGPCNSCNSK 179 (275)
T ss_pred EEccccCChhhhhheeeecccCCCCCCCCcccccccCCCcccCCh
Confidence 5999999999887 4566666666 79999775
No 189
>PRK08527 acetolactate synthase 3 catalytic subunit; Validated
Probab=56.87 E-value=6.8 Score=38.69 Aligned_cols=111 Identities=13% Similarity=0.129 Sum_probs=60.3
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
..|.|....+..+.+++||+.+|+.+- +....| |. +..+ . .+|+.. +..|..+...-++..|+|..+.+.|+.
T Consensus 209 v~G~g~~~~~a~~~l~~lae~~~~pV~-tt~~~k--g~-~~~~-h-pl~~G~~g~~~~~~~~~~l~~aD~vl~lG~~l~~ 282 (563)
T PRK08527 209 YLGGGAILSNASEEIRELVKKTGIPAV-ETLMAR--GV-LRSD-D-PLLLGMLGMHGSYAANMAMSECDLLISLGARFDD 282 (563)
T ss_pred EECCCccccchHHHHHHHHHHHCCCEE-EccccC--CC-CCCC-C-hhhcCCCcccCCHHHHHHHHhCCEEEEeCCCCCc
Confidence 348888777778999999999999884 322222 32 2111 1 233222 122223333347889999999998865
Q ss_pred Cc---cccCccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 101 EL---WPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 101 ~l---W~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
.. |+...-...++-|+.|+...-.. -.+..+..|....
T Consensus 283 ~~~~~~~~~~~~~~~i~id~d~~~~~~~~~~~~~i~~D~~~~ 324 (563)
T PRK08527 283 RVTGKLSEFAKHAKIIHVDIDPSSISKIVNADYPIVGDLKNV 324 (563)
T ss_pred cccCChhhcCCCCeEEEEECCHHHhCCCCCCCeEEecCHHHH
Confidence 31 22111112345566665421111 1345677777764
No 190
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=56.58 E-value=5.6 Score=41.41 Aligned_cols=30 Identities=33% Similarity=0.835 Sum_probs=19.5
Q ss_pred EEcCCCceEEeCC--------------------CCCCCCCCCCCCCCCCCCc
Q 038893 161 HICLDCGYIYFLQ--------------------KPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 161 y~C~~CGyvyd~~--------------------tpfe~lped~~CP~C~a~k 192 (235)
-.|+.|||+..=. -.-+..|. .||.|+...
T Consensus 436 l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~--~Cp~Cgs~~ 485 (730)
T COG1198 436 LLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQ--SCPECGSEH 485 (730)
T ss_pred eecccCCCcccCCCCCcceEEecCCCeeEeCCCCCCCCCCC--CCCCCCCCe
Confidence 4888888876432 01135555 899998863
No 191
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=56.45 E-value=3.7 Score=35.83 Aligned_cols=34 Identities=18% Similarity=0.394 Sum_probs=21.1
Q ss_pred cceEEcCCCceEEeCCCCCCCC---CCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDEL---PDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~l---ped~~CP~C~a~ 191 (235)
...++|..|++.|+-+...+.+ .....||.|+..
T Consensus 93 ~~~~~C~~C~~~~~~~~~~~~~~~~~~~p~C~~Cgg~ 129 (206)
T cd01410 93 MFIEVCKSCGPEYVRDDVVETRGDKETGRRCHACGGI 129 (206)
T ss_pred cCcccCCCCCCccchHHHHHHhhcCCCCCcCCCCcCc
Confidence 5567999999988654211111 112369999764
No 192
>cd01411 SIR2H SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=56.28 E-value=7.5 Score=34.23 Aligned_cols=30 Identities=17% Similarity=0.217 Sum_probs=20.8
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
....+|..|+..|+-+ +....-.||.|+..
T Consensus 116 ~~~~~C~~C~~~~~~~----~~~~~p~C~~Cgg~ 145 (225)
T cd01411 116 LYRIYCTVCGKTVDWE----EYLKSPYHAKCGGV 145 (225)
T ss_pred cCeeEeCCCCCccchh----hcCCCCCCCCCCCE
Confidence 4568999999988653 22122369999874
No 193
>PRK01110 rpmF 50S ribosomal protein L32; Validated
Probab=56.25 E-value=13 Score=26.68 Aligned_cols=25 Identities=16% Similarity=-0.012 Sum_probs=18.8
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
...-+|+.||..--+ ...|| ||.-+
T Consensus 25 ~~~~~c~~cg~~~~p---------H~vc~-cG~Y~ 49 (60)
T PRK01110 25 PTLSVDKTTGEYHLP---------HHVSP-KGYYK 49 (60)
T ss_pred CceeEcCCCCceecc---------ceecC-CcccC
Confidence 446799999988766 35899 98643
No 194
>PF08421 Methyltransf_13: Putative zinc binding domain; InterPro: IPR013630 This domain is found at the N terminus of bacterial methyltransferases. ; PDB: 4E2X_A 3NDJ_A 3NDI_A 4E32_A 4E33_A 4E31_A 4E2Y_A 4E2W_A 4E2Z_A 4E30_A.
Probab=56.08 E-value=7.9 Score=27.60 Aligned_cols=43 Identities=16% Similarity=0.233 Sum_probs=21.2
Q ss_pred eeeeccccCCCCCCcccccccchhhcccceEEcCCCceEEeCC
Q 038893 131 ADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQ 173 (235)
Q Consensus 131 ~~~d~~~~p~~~a~~~f~~k~~~~~~~~~~y~C~~CGyvyd~~ 173 (235)
.+.|+..+|...........+.+..-....|.|..||++--.+
T Consensus 11 ~vldLG~~Pl~~~f~~~~~~~~e~~~pL~l~~C~~CglvQl~~ 53 (62)
T PF08421_consen 11 PVLDLGDQPLANSFLKPELDEPEPRYPLDLYVCEDCGLVQLEE 53 (62)
T ss_dssp EEEEEEEEE-TT--B-TTS-S---EEEEEEEEETTT--EEESS
T ss_pred eEeecCCCCccccccChhhCCCceEECCEEEECCCCCchhcCC
Confidence 4677888887555432211111122235789999999987663
No 195
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.33 E-value=1.9 Score=39.25 Aligned_cols=44 Identities=25% Similarity=0.464 Sum_probs=29.1
Q ss_pred ceEEcCCCceEEeCCC-----------------CCCC----CCCCCCCCCCC--CCccCeeeccCCC
Q 038893 159 ATHICLDCGYIYFLQK-----------------PFDE----LPDTYVCPQCQ--APKKRFARYDVNT 202 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~t-----------------pfe~----lped~~CP~C~--a~k~~F~~~~~~~ 202 (235)
....|++|+.++.-++ .+++ .=+-|+||.|. +=+++|+.+...+
T Consensus 18 k~ieCPvC~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~yAaf~sDFe~I~~~~ 84 (267)
T COG1655 18 KTIECPVCNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYYAAFKSDFEKIKSYQ 84 (267)
T ss_pred ceeccCcccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhHHHhhHHHHhhhhcc
Confidence 3579999998887661 1222 11347999994 4578888776544
No 196
>PHA02942 putative transposase; Provisional
Probab=55.26 E-value=5.3 Score=38.21 Aligned_cols=26 Identities=23% Similarity=0.558 Sum_probs=17.9
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
-.|+.||++... . -...|.||.||..
T Consensus 326 q~Cs~CG~~~~~---l--~~r~f~C~~CG~~ 351 (383)
T PHA02942 326 VSCPKCGHKMVE---I--AHRYFHCPSCGYE 351 (383)
T ss_pred ccCCCCCCccCc---C--CCCEEECCCCCCE
Confidence 479999997632 1 1135899999874
No 197
>KOG2691 consensus RNA polymerase II subunit 9 [Transcription]
Probab=55.22 E-value=21 Score=28.92 Aligned_cols=39 Identities=23% Similarity=0.501 Sum_probs=27.8
Q ss_pred eEEcCCCceEEeCCC-----------------------CCCCCC--CCCCCCCCCCCccCeeec
Q 038893 160 THICLDCGYIYFLQK-----------------------PFDELP--DTYVCPQCQAPKKRFARY 198 (235)
Q Consensus 160 ~y~C~~CGyvyd~~t-----------------------pfe~lp--ed~~CP~C~a~k~~F~~~ 198 (235)
.|-|+.|.|+..... +=..+| ++..||.|++.+.-|-+.
T Consensus 26 ~laCrnCd~ve~A~s~~vY~~~~~~e~dE~t~ii~Dl~~DPTLPrts~~~C~~C~~~eavffQ~ 89 (113)
T KOG2691|consen 26 LLACRNCDYVEEADSSRVYVNELSHEHDELTQIIMDLASDPTLPRTSDKHCPKCGHREAVFFQA 89 (113)
T ss_pred EEEecCCcceEecCCcceEcCCcccchhhHHHHHHhhccCCCcCccccccCCccCCcceEEEec
Confidence 689999999987760 000122 356899999988888765
No 198
>COG0333 RpmF Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=55.04 E-value=11 Score=27.14 Aligned_cols=40 Identities=25% Similarity=0.414 Sum_probs=26.1
Q ss_pred cccccccchh-hcccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc
Q 038893 145 PRFGRKLTEA-QKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK 193 (235)
Q Consensus 145 ~~f~~k~~~~-~~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~ 193 (235)
.+.+++++-- -+....-+|+.||...-+ ...|+.|+.-+.
T Consensus 11 srr~~RRsh~~l~~~~~~~c~~cG~~~l~---------Hrvc~~cg~Y~g 51 (57)
T COG0333 11 SRRRMRRSHDALKAPTLSVCPNCGEYKLP---------HRVCLKCGYYKG 51 (57)
T ss_pred hhhhhhhhhHhhhCccceeccCCCCcccC---------ceEcCCCCCccC
Confidence 4445555543 233446799999987755 358999986543
No 199
>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=54.47 E-value=9.6 Score=26.95 Aligned_cols=20 Identities=45% Similarity=1.170 Sum_probs=14.4
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.|..|+ +|-- -+ .||.||.+
T Consensus 7 ~c~~~~-~YTL-------k~--~cp~cG~~ 26 (53)
T PF04135_consen 7 KCPGCR-VYTL-------KD--KCPPCGGP 26 (53)
T ss_dssp ECTTTC-EEES-------SS--BBTTTSSB
T ss_pred cCCCCC-cEeC-------CC--ccCCCCCC
Confidence 599998 6633 23 89999874
No 200
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=53.77 E-value=3.5 Score=32.85 Aligned_cols=26 Identities=35% Similarity=0.505 Sum_probs=17.4
Q ss_pred eEEcCCCc-eEEeCC--CCCCCCCCCCCC
Q 038893 160 THICLDCG-YIYFLQ--KPFDELPDTYVC 185 (235)
Q Consensus 160 ~y~C~~CG-yvyd~~--tpfe~lped~~C 185 (235)
.|+|-+|| -||.++ |-...-|-.|.|
T Consensus 2 kWkC~iCg~~I~~gqlFTF~~kG~VH~~C 30 (101)
T PF09943_consen 2 KWKCYICGKPIYEGQLFTFTKKGPVHYEC 30 (101)
T ss_pred ceEEEecCCeeeecceEEEecCCcEeHHH
Confidence 69999999 567666 323345566666
No 201
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=53.72 E-value=13 Score=25.67 Aligned_cols=13 Identities=38% Similarity=0.864 Sum_probs=9.1
Q ss_pred ceEEcCCCceEEe
Q 038893 159 ATHICLDCGYIYF 171 (235)
Q Consensus 159 ~~y~C~~CGyvyd 171 (235)
.+|.|..|||+|.
T Consensus 36 ~r~~C~~Cgyt~~ 48 (50)
T PRK00432 36 DRWHCGKCGYTEF 48 (50)
T ss_pred CcEECCCcCCEEe
Confidence 4677777777763
No 202
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=53.72 E-value=7.3 Score=31.48 Aligned_cols=26 Identities=27% Similarity=0.709 Sum_probs=18.7
Q ss_pred EEcCCCc--eEEeCCCCCCCCCCCCCCCCCCCCcc
Q 038893 161 HICLDCG--YIYFLQKPFDELPDTYVCPQCQAPKK 193 (235)
Q Consensus 161 y~C~~CG--yvyd~~tpfe~lped~~CP~C~a~k~ 193 (235)
-.|+.|. |+|+.. .-+.||.|.++-+
T Consensus 4 p~cp~c~sEytYed~-------~~~~cpec~~ew~ 31 (112)
T COG2824 4 PPCPKCNSEYTYEDG-------GQLICPECAHEWN 31 (112)
T ss_pred CCCCccCCceEEecC-------ceEeCchhccccc
Confidence 3688887 888663 2468999988655
No 203
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=53.64 E-value=6.9 Score=34.99 Aligned_cols=33 Identities=21% Similarity=0.619 Sum_probs=21.9
Q ss_pred cccceEEcCCCceEEeCCCCC-----CCCCCCCCCCCCCCC
Q 038893 156 KARATHICLDCGYIYFLQKPF-----DELPDTYVCPQCQAP 191 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~tpf-----e~lped~~CP~C~a~ 191 (235)
.....++|..|++.|+-+... .++| .||.|+.+
T Consensus 115 G~~~~~~C~~C~~~~~~~~~~~~~~~~~~p---~Cp~Cgg~ 152 (244)
T PRK14138 115 GNVEEYYCVRCGKRYTVEDVIEKLEKSDVP---RCDDCSGL 152 (244)
T ss_pred CCcCeeEECCCCCcccHHHHHHHHhcCCCC---CCCCCCCe
Confidence 345678999999999754111 1223 59999764
No 204
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=53.54 E-value=16 Score=24.30 Aligned_cols=22 Identities=18% Similarity=0.554 Sum_probs=18.4
Q ss_pred CchhhhhHHHHHHHHHHHHhHh
Q 038893 211 PPIGVIIGLIAGIGAVGALLVY 232 (235)
Q Consensus 211 ~~~~~~~~~~~g~~~~~~~~~~ 232 (235)
+++++++|++.|+..++...+|
T Consensus 4 s~IaIIv~V~vg~~iiii~~~~ 25 (38)
T PF02439_consen 4 STIAIIVAVVVGMAIIIICMFY 25 (38)
T ss_pred chhhHHHHHHHHHHHHHHHHHH
Confidence 3588999999999998887765
No 205
>PTZ00408 NAD-dependent deacetylase; Provisional
Probab=53.23 E-value=7.1 Score=35.04 Aligned_cols=41 Identities=10% Similarity=0.274 Sum_probs=25.2
Q ss_pred ccceEEcCCCceEEeCCCCCCCCC-CCCCCCCCC---CCccCeeeccC
Q 038893 157 ARATHICLDCGYIYFLQKPFDELP-DTYVCPQCQ---APKKRFARYDV 200 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lp-ed~~CP~C~---a~k~~F~~~~~ 200 (235)
....++|..|++.|+-.. +.+ ....||.|+ .=|....-+.+
T Consensus 114 ~~~~~~C~~C~~~~~~~~---~~~~~~p~C~~Cg~~g~lrP~vV~FGE 158 (242)
T PTZ00408 114 ELLKVRCTATGHVFDWTE---DVVHGSSRCKCCGCVGTLRPHIVWFGE 158 (242)
T ss_pred ccceEEECCCCcccCchh---hhhcCCCccccCCCCCCCCCCEEEcCC
Confidence 345689999999886421 111 113699996 24556555554
No 206
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=53.05 E-value=7.8 Score=37.61 Aligned_cols=24 Identities=29% Similarity=0.631 Sum_probs=18.2
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.-.|+.|+.++.++ ...||.|++.
T Consensus 221 l~~C~~Cd~l~~~~--------~a~CpRC~~~ 244 (419)
T PRK15103 221 LRSCSCCTAILPAD--------QPVCPRCHTK 244 (419)
T ss_pred CCcCCCCCCCCCCC--------CCCCCCCCCc
Confidence 34699999997542 2389999985
No 207
>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=52.90 E-value=16 Score=23.93 Aligned_cols=13 Identities=23% Similarity=0.692 Sum_probs=5.3
Q ss_pred eEEcCCCceEEeC
Q 038893 160 THICLDCGYIYFL 172 (235)
Q Consensus 160 ~y~C~~CGyvyd~ 172 (235)
.++|+.||+|-++
T Consensus 19 ~~vC~~CG~Vl~e 31 (43)
T PF08271_consen 19 ELVCPNCGLVLEE 31 (43)
T ss_dssp EEEETTT-BBEE-
T ss_pred eEECCCCCCEeec
Confidence 3455555554444
No 208
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=52.82 E-value=10 Score=24.83 Aligned_cols=14 Identities=29% Similarity=0.413 Sum_probs=8.7
Q ss_pred cceEEcCCCceEEe
Q 038893 158 RATHICLDCGYIYF 171 (235)
Q Consensus 158 ~~~y~C~~CGyvyd 171 (235)
...|+|..||-+..
T Consensus 4 ~~~YkC~~CGniVe 17 (36)
T PF06397_consen 4 GEFYKCEHCGNIVE 17 (36)
T ss_dssp TEEEE-TTT--EEE
T ss_pred ccEEEccCCCCEEE
Confidence 45899999998774
No 209
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=52.80 E-value=6.8 Score=22.75 Aligned_cols=24 Identities=29% Similarity=0.733 Sum_probs=17.1
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.|+|..|++.=.. ....|-.|+.+
T Consensus 2 ~W~C~~C~~~N~~--------~~~~C~~C~~p 25 (26)
T smart00547 2 DWECPACTFLNFA--------SRSKCFACGAP 25 (26)
T ss_pred cccCCCCCCcChh--------hhccccccCCc
Confidence 4889999876544 34478888765
No 210
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=52.52 E-value=11 Score=22.23 Aligned_cols=12 Identities=25% Similarity=0.586 Sum_probs=10.2
Q ss_pred ceEEcCCCceEE
Q 038893 159 ATHICLDCGYIY 170 (235)
Q Consensus 159 ~~y~C~~CGyvy 170 (235)
..|.|+.|++.|
T Consensus 13 k~~~C~~C~k~F 24 (26)
T PF13465_consen 13 KPYKCPYCGKSF 24 (26)
T ss_dssp SSEEESSSSEEE
T ss_pred CCCCCCCCcCee
Confidence 459999999887
No 211
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=52.01 E-value=8.6 Score=37.20 Aligned_cols=27 Identities=19% Similarity=0.229 Sum_probs=24.0
Q ss_pred cEEEEEeecchHHHHhcCCcCcceeee
Q 038893 68 GVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
..+|..+.+++.|+++|++.||+|..+
T Consensus 127 ~~lV~~V~~~SpA~kAGLk~GDvI~~v 153 (449)
T PRK10779 127 RPVVGEIAPNSIAAQAQIAPGTELKAV 153 (449)
T ss_pred CccccccCCCCHHHHcCCCCCCEEEEE
Confidence 347999999999999999999998765
No 212
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=51.98 E-value=8.1 Score=26.94 Aligned_cols=29 Identities=41% Similarity=0.958 Sum_probs=19.8
Q ss_pred eEEcCCCce--EEeCC-------CCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGY--IYFLQ-------KPFDELPDTYVCPQCQA 190 (235)
Q Consensus 160 ~y~C~~CGy--vyd~~-------tpfe~lped~~CP~C~a 190 (235)
...|..||- ++... .-|+..|. +||.|..
T Consensus 4 ~l~C~dCg~~FvfTa~EQ~fy~eKgf~n~p~--RC~~CR~ 41 (49)
T PF13451_consen 4 TLTCKDCGAEFVFTAGEQKFYAEKGFDNEPK--RCPSCRQ 41 (49)
T ss_pred eEEcccCCCeEEEehhHHHHHHhcCCcCCCc--cCHHHHH
Confidence 579999992 32221 45766777 9999954
No 213
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=51.81 E-value=9.9 Score=24.34 Aligned_cols=11 Identities=36% Similarity=0.848 Sum_probs=8.0
Q ss_pred EcCCCceEEeC
Q 038893 162 ICLDCGYIYFL 172 (235)
Q Consensus 162 ~C~~CGyvyd~ 172 (235)
.|+.|||+|.-
T Consensus 22 ~C~~C~Y~~~~ 32 (35)
T PF02150_consen 22 ACRTCGYEEPI 32 (35)
T ss_dssp EESSSS-EEE-
T ss_pred CCCCCCCccCC
Confidence 89999999864
No 214
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=51.56 E-value=8.7 Score=31.78 Aligned_cols=25 Identities=28% Similarity=0.760 Sum_probs=21.1
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
...|.|.-|+.-|.++ -.||.|+.+
T Consensus 95 ~~~W~Cv~C~~~Y~Ge---------K~C~~C~tG 119 (128)
T PF11682_consen 95 KTDWHCVMCGNHYHGE---------KYCPKCGTG 119 (128)
T ss_pred CceEEEecCCCccCcC---------EecCCCCCc
Confidence 4579999999999994 389999874
No 215
>TIGR03037 anthran_nbaC 3-hydroxyanthranilate 3,4-dioxygenase. Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase. This enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.
Probab=51.18 E-value=8.2 Score=33.02 Aligned_cols=36 Identities=19% Similarity=0.403 Sum_probs=24.7
Q ss_pred hcccceEEcCCCceEEeCC---------------CCCCCCCCCCCCCCCCC
Q 038893 155 QKARATHICLDCGYIYFLQ---------------KPFDELPDTYVCPQCQA 190 (235)
Q Consensus 155 ~~~~~~y~C~~CGyvyd~~---------------tpfe~lped~~CP~C~a 190 (235)
+...-+|-|..|..+-.+. ..|-.-.+..+|+.||+
T Consensus 109 ~~d~~~wyc~~c~~~~~e~~f~~~d~~~~~~~~~~~f~~~~~~rtC~~Cg~ 159 (159)
T TIGR03037 109 ELDGFQWFCPQCGHKLHRAEVQLENIVTDLPPVFEHFYSNEDARTCKNCGH 159 (159)
T ss_pred CCcceEEECCCCCCeEEEEEEEecChhhhhHHHHHHHhCChhhccCCccCC
Confidence 3445589999999654443 14555566679999984
No 216
>PTZ00088 adenylate kinase 1; Provisional
Probab=51.11 E-value=8.5 Score=34.13 Aligned_cols=34 Identities=24% Similarity=0.454 Sum_probs=22.6
Q ss_pred cccceEEcCCCceEEeCCC-------CCCCCCCCCCCCCCCC
Q 038893 156 KARATHICLDCGYIYFLQK-------PFDELPDTYVCPQCQA 190 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~t-------pfe~lped~~CP~C~a 190 (235)
+-..++.|+.||.+|.-.. .+...| ...|..|+.
T Consensus 126 Rl~~Rr~~~~~g~~y~~~~~~~~~~~~pp~~~-~~~c~~~~~ 166 (229)
T PTZ00088 126 KLLGRRICNTCNRNFNIAHIRSDPYDMPPILP-PADCEGCKG 166 (229)
T ss_pred HHHcCcCCCccCCcceecccccccccCCCCCC-CCcccccCC
Confidence 3456899999999997642 111222 358999975
No 217
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=51.07 E-value=12 Score=36.05 Aligned_cols=28 Identities=25% Similarity=0.501 Sum_probs=19.9
Q ss_pred ceEEcCCCce--EEeCCCCCCCCCCCCCCCCCCCCccCe
Q 038893 159 ATHICLDCGY--IYFLQKPFDELPDTYVCPQCQAPKKRF 195 (235)
Q Consensus 159 ~~y~C~~CGy--vyd~~tpfe~lped~~CP~C~a~k~~F 195 (235)
..|+|..|++ .|.- +..||.|+++.+.-
T Consensus 56 ~i~kC~~c~~~~~y~~---------~~~C~~cg~~~~l~ 85 (415)
T COG5257 56 KIYKCPECYRPECYTT---------EPKCPNCGAETELV 85 (415)
T ss_pred ceEeCCCCCCCccccc---------CCCCCCCCCCccEE
Confidence 4799999996 3322 34899999977433
No 218
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=51.06 E-value=8.1 Score=33.61 Aligned_cols=34 Identities=24% Similarity=0.343 Sum_probs=21.5
Q ss_pred cccceEEcCCCceEEeCCCC----CCCCCCCCCCCCCCCC
Q 038893 156 KARATHICLDCGYIYFLQKP----FDELPDTYVCPQCQAP 191 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~tp----fe~lped~~CP~C~a~ 191 (235)
.....++|..|++.|..+.. .+... -.||.|+..
T Consensus 105 G~~~~~~C~~C~~~~~~~~~~~~~~~~~~--p~C~~Cg~~ 142 (218)
T cd01407 105 GSLFRVRCTKCGKEYPRDELQADIDREEV--PRCPKCGGL 142 (218)
T ss_pred CCcCcceeCCCcCCCcHHHHhHhhccCCC--CcCCCCCCc
Confidence 34556899999998865321 11211 269999764
No 219
>cd01408 SIRT1 SIRT1: Eukaryotic group (class1) which includes human sirtuins SIRT1-3 and yeast Hst1-4; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The nuclear SIRT1 has been shown to target the p53 tumor suppressor protein for deacetylation to suppress DNA damage, and the cytoplasmic SIRT2 homolog has been shown to target alpha-tubulin for deacetylation for the maintenance of cell integrity.
Probab=50.92 E-value=3.3 Score=36.80 Aligned_cols=43 Identities=21% Similarity=0.359 Sum_probs=24.1
Q ss_pred cceEEcCCCceEEeCCCCCCCCC--CCCCCCCCCCC-ccCeeeccC
Q 038893 158 RATHICLDCGYIYFLQKPFDELP--DTYVCPQCQAP-KKRFARYDV 200 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lp--ed~~CP~C~a~-k~~F~~~~~ 200 (235)
....+|..|++.|+-+.....+. +.-+||.|+.. +....-+.+
T Consensus 114 l~~~~C~~C~~~~~~~~~~~~~~~~~~p~C~~Cgg~lrP~Vv~FGE 159 (235)
T cd01408 114 FATAHCIKCKHKYPGDWMREDIFNQEVPKCPRCGGLVKPDIVFFGE 159 (235)
T ss_pred CCccccccCCCcCCHHHHHHHHhCCCCccCCCCCCCccCcEEECCC
Confidence 45679999999987531000100 11369999763 444443333
No 220
>PLN02674 adenylate kinase
Probab=50.69 E-value=10 Score=34.26 Aligned_cols=33 Identities=12% Similarity=-0.021 Sum_probs=22.9
Q ss_pred cccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 156 KARATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
+-..++.|+.||.+|.-...+.. ....|..|+.
T Consensus 154 Rl~gR~~~~~~g~~yn~~~~pp~--~~~~~~~~g~ 186 (244)
T PLN02674 154 RITGRWIHPSSGRTYHTKFAPPK--VPGVDDVTGE 186 (244)
T ss_pred HHhccccccccCCccccccCCCc--ccCcccccCC
Confidence 34568999999999988632222 3347888864
No 221
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=50.62 E-value=9.6 Score=42.60 Aligned_cols=31 Identities=32% Similarity=0.746 Sum_probs=21.5
Q ss_pred eEEcCCCceEEeCC----CCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQ----KPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~----tpfe~lped~~CP~C~a~ 191 (235)
-|+|+.|.|.--.. ..-=|+|+ -.||.|+.+
T Consensus 908 hy~C~~C~~~ef~~~~~~~sG~Dlpd-k~Cp~Cg~~ 942 (1437)
T PRK00448 908 HYVCPNCKYSEFFTDGSVGSGFDLPD-KDCPKCGTK 942 (1437)
T ss_pred cccCcccccccccccccccccccCcc-ccCcccccc
Confidence 59999999765432 12235776 599999874
No 222
>PRK06725 acetolactate synthase 3 catalytic subunit; Validated
Probab=50.56 E-value=14 Score=36.76 Aligned_cols=107 Identities=19% Similarity=0.071 Sum_probs=60.2
Q ss_pred ccccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893 21 LAVSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
|.+|.|....+..+.+.+||+++|+.+..+ ++-++|+-+ ++| +..|..+...-++..|.|..+
T Consensus 219 Il~G~g~~~~~a~~~l~~lae~~~~PV~tt~~~kg~~p~~hp~~~--------G~~---G~~~~~~~~~~l~~aDlil~v 287 (570)
T PRK06725 219 LYIGGGVIHSGGSEELIEFARENRIPVVSTLMGLGAYPPGDPLFL--------GML---GMHGTYAANMAVTECDLLLAL 287 (570)
T ss_pred EEECCCccccchHHHHHHHHHHhCCCEEECCccCcCCCCCChhhc--------CCC---CCCCCHHHHHHHHhCCEEEEe
Confidence 345888877777889999999999998544 222233211 111 223333334447889999999
Q ss_pred ccccCCCc---cccCccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 95 SSFFGDEL---WPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 95 s~~fG~~l---W~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
.+.|.... |+.-.....++-|+.|+...-.. -.+..+.+|+...
T Consensus 288 G~~~~~~~~~~~~~~~~~~~~i~id~d~~~i~~~~~~~~~i~gD~~~~ 335 (570)
T PRK06725 288 GVRFDDRVTGKLELFSPHSKKVHIDIDPSEFHKNVAVEYPVVGDVKKA 335 (570)
T ss_pred CCCCCccccCcccccCCCCeEEEEeCCHHHhCCCCCCCeEEecCHHHH
Confidence 88876532 11101112345566665442111 1345677777654
No 223
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=50.49 E-value=12 Score=37.05 Aligned_cols=112 Identities=10% Similarity=-0.052 Sum_probs=60.6
Q ss_pred ccccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccC
Q 038893 21 LAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFG 99 (235)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG 99 (235)
|..|.|....+..+.+++||+.+|+.+-.+. .. -|. +..+ -.+|+.. +..|......-++..|.|..+.+.|.
T Consensus 212 il~G~g~~~~~a~~~l~~lae~~~~pv~tt~-~g--kg~-i~~~--hp~~~G~~g~~~~~~~~~~~~~aDlvl~lG~~~~ 285 (572)
T PRK06456 212 ILVGTGVVWSNATPEVLELAELLHIPIVSTF-PG--KTA-IPHD--HPLYFGPMGYYGRAEASMAALESDAMLVVGARFS 285 (572)
T ss_pred EEECCCCcccchHHHHHHHHHHhCCCEEEcC-cc--CcC-CCCC--CccccccCCCCCCHHHHHHHHhCCEEEEECCCCc
Confidence 3458888766777899999999999984331 11 122 2111 1233322 22222222223677999999999887
Q ss_pred CCcc---ccCc-cchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 100 DELW---PADK-LGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 100 ~~lW---~~~~-~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
+..| +... -...++-|+.|+...-.. -.+..+..|....
T Consensus 286 ~~~~~~~~~~~~~~~~~i~id~d~~~~~~~~~~~~~i~~D~~~~ 329 (572)
T PRK06456 286 DRTFTSYDEMVETRKKFIMVNIDPTDGEKAIKVDVGIYGNAKII 329 (572)
T ss_pred hhhccccccccCCCCeEEEEeCChHHhCCccCCCeEEecCHHHH
Confidence 6543 2111 123345566665542211 1345677775543
No 224
>PRK06154 hypothetical protein; Provisional
Probab=50.32 E-value=13 Score=36.85 Aligned_cols=111 Identities=7% Similarity=-0.077 Sum_probs=59.1
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEe-ecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAV-EGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~-isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
..|.|....+..+.+.+||+++|+-+-.+. .--|. +..+ .| +|+... ..+......=++..|.|..+.+.|+.
T Consensus 220 l~G~g~~~~~a~~~l~~lae~l~~PV~tt~---~gkg~-~~~~-hp-l~~G~~g~~~~~~~~~~~~~aDlvL~lG~~l~~ 293 (565)
T PRK06154 220 YAGQGVLYAQATPELKELAELLEIPVMTTL---NGKSA-FPED-HP-LALGSGGRARPATVAHFLREADVLFGIGCSLTR 293 (565)
T ss_pred EECCCccccChHHHHHHHHHHhCCCEEECC---CcccC-CCCC-Cc-cccCCCCCCCcHHHHHHHHhCCEEEEECCCCcc
Confidence 348888777778899999999999885331 11122 1111 11 222111 11111112226889999999999886
Q ss_pred CccccC-ccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 101 ELWPAD-KLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 101 ~lW~~~-~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
..|... .....++-|+.|+...--. -.+.+++.|....
T Consensus 294 ~~~~~~~~~~~~vI~id~d~~~~~~~~~~~~~i~~D~~~~ 333 (565)
T PRK06154 294 SYYGLPMPEGKTIIHSTLDDADLNKDYPIDHGLVGDAALV 333 (565)
T ss_pred cccCccCCCCCeEEEEECCHHHhccccCCCeeEEcCHHHH
Confidence 444221 1123445566665532111 1245677777553
No 225
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=50.31 E-value=13 Score=40.88 Aligned_cols=32 Identities=34% Similarity=0.749 Sum_probs=21.1
Q ss_pred ceEEcCCCceEEe---CC-CCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYF---LQ-KPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd---~~-tpfe~lped~~CP~C~a~ 191 (235)
.-|+|+.|.|-.- +. -.-=|+|+ -.||.|++|
T Consensus 913 PHY~Cp~Cky~Ef~~d~svgsGfDLpd-K~CPkCg~p 948 (1444)
T COG2176 913 PHYLCPECKYSEFIDDGSVGSGFDLPD-KDCPKCGTP 948 (1444)
T ss_pred ccccCCCCceeeeecCCCcCCCCCCCC-CCCCcCCCc
Confidence 3599999997432 22 11224666 499999987
No 226
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=50.01 E-value=13 Score=29.41 Aligned_cols=36 Identities=14% Similarity=0.264 Sum_probs=20.4
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKR 194 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~ 194 (235)
.+.+.|+.||..--+ .++..--..-.||.|+.....
T Consensus 19 pt~f~CP~Cge~~v~-v~~~k~~~h~~C~~CG~y~~~ 54 (99)
T PRK14892 19 PKIFECPRCGKVSIS-VKIKKNIAIITCGNCGLYTEF 54 (99)
T ss_pred CcEeECCCCCCeEee-eecCCCcceEECCCCCCccCE
Confidence 467899999942211 011111124589999886544
No 227
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=49.63 E-value=15 Score=33.37 Aligned_cols=27 Identities=22% Similarity=0.506 Sum_probs=13.0
Q ss_pred eE-EcCCCceEEeCCCCCCCCCCCCCCCCCCCCccC
Q 038893 160 TH-ICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKR 194 (235)
Q Consensus 160 ~y-~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~ 194 (235)
+| .|..||+.+.- ....||.|+..+..
T Consensus 196 R~L~Cs~C~t~W~~--------~R~~Cp~Cg~~~~~ 223 (290)
T PF04216_consen 196 RYLHCSLCGTEWRF--------VRIKCPYCGNTDHE 223 (290)
T ss_dssp EEEEETTT--EEE----------TTS-TTT---SS-
T ss_pred EEEEcCCCCCeeee--------cCCCCcCCCCCCCc
Confidence 44 89999977744 23489999885443
No 228
>smart00350 MCM minichromosome maintenance proteins.
Probab=49.34 E-value=16 Score=35.98 Aligned_cols=35 Identities=31% Similarity=0.624 Sum_probs=20.7
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCC--CCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQ--CQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~--C~a~k 192 (235)
...|+|..||+................||. |+...
T Consensus 35 ~~~f~C~~C~~~~~~~~~~~~~~~p~~C~~~~C~~~~ 71 (509)
T smart00350 35 RASFTCEKCGATLGPEIQSGRETEPTVCPPRECQSPT 71 (509)
T ss_pred EEEEEecCCCCEEeEEecCCcccCCCcCCCCcCCCCC
Confidence 457999999976543311111112248998 97653
No 229
>PLN02573 pyruvate decarboxylase
Probab=49.27 E-value=18 Score=36.14 Aligned_cols=74 Identities=15% Similarity=0.120 Sum_probs=46.2
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE--eecchHHHHhcCCcCcceeeeccccC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA--VEGGGNAAKAGLKSGDQVLYTSSFFG 99 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~--~isG~~a~~~Gi~~gD~i~~~s~~fG 99 (235)
..|.|+...+..+.+.+||+++|+.+-.+ ...| |. +..+ .| +|+.. +..+......-++.+|.|..+.+.|.
T Consensus 230 l~G~g~~~~~a~~~l~~lae~~~~PV~tt-~~gk--g~-~pe~-hp-l~~G~~~G~~~~~~~~~~~~~aDlvl~lG~~l~ 303 (578)
T PLN02573 230 VGGPKLRVAKACKAFVELADASGYPVAVM-PSAK--GL-VPEH-HP-HFIGTYWGAVSTPFCAEIVESADAYLFAGPIFN 303 (578)
T ss_pred EEChhhcccchHHHHHHHHHHhCCCEEEC-cccC--CC-CCCc-CC-CceEEeeCCCCCHHHHHHHHhCCEEEEECCccC
Confidence 34888877777889999999999998433 2222 33 2222 22 34332 22333333334788999999998887
Q ss_pred CC
Q 038893 100 DE 101 (235)
Q Consensus 100 ~~ 101 (235)
+.
T Consensus 304 ~~ 305 (578)
T PLN02573 304 DY 305 (578)
T ss_pred Cc
Confidence 63
No 230
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=48.64 E-value=13 Score=37.54 Aligned_cols=38 Identities=34% Similarity=0.625 Sum_probs=30.6
Q ss_pred cCccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcce
Q 038893 54 DKPLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQV 91 (235)
Q Consensus 54 ~kplGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i 91 (235)
+-|+|..+-.....+++|+-+..||.+|++| +.+||.|
T Consensus 133 ~eplG~Tik~~e~~~~~vARI~~GG~~~r~glL~~GD~i 171 (542)
T KOG0609|consen 133 GEPLGATIRVEEDTKVVVARIMHGGMADRQGLLHVGDEI 171 (542)
T ss_pred CCccceEEEeccCCccEEeeeccCCcchhccceeeccch
Confidence 3577775554445589999999999999999 7999865
No 231
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=48.56 E-value=11 Score=36.35 Aligned_cols=26 Identities=27% Similarity=0.680 Sum_probs=18.7
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
.-.|+.|+.+..+ .+..+||.|++.-
T Consensus 215 ~~~C~~Cd~~~~~-------~~~a~CpRC~~~L 240 (403)
T TIGR00155 215 LRSCSACHTTILP-------AQEPVCPRCSTPL 240 (403)
T ss_pred CCcCCCCCCccCC-------CCCcCCcCCCCcc
Confidence 4469999997743 2345899999853
No 232
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=48.39 E-value=27 Score=27.21 Aligned_cols=19 Identities=21% Similarity=0.525 Sum_probs=10.1
Q ss_pred hhhhhHHHHHHHHHHHHhH
Q 038893 213 IGVIIGLIAGIGAVGALLV 231 (235)
Q Consensus 213 ~~~~~~~~~g~~~~~~~~~ 231 (235)
.++.+|.++.+++|..+|+
T Consensus 69 agi~vg~~~~v~~lv~~l~ 87 (96)
T PTZ00382 69 AGISVAVVAVVGGLVGFLC 87 (96)
T ss_pred EEEEeehhhHHHHHHHHHh
Confidence 3445555656656655443
No 233
>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=48.03 E-value=23 Score=24.98 Aligned_cols=26 Identities=23% Similarity=0.605 Sum_probs=14.5
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
-.|+.||+..... .-...|.||.|+.
T Consensus 29 q~C~~CG~~~~~~----~~~r~~~C~~Cg~ 54 (69)
T PF07282_consen 29 QTCPRCGHRNKKR----RSGRVFTCPNCGF 54 (69)
T ss_pred cCccCcccccccc----cccceEEcCCCCC
Confidence 3577777666441 1223566777765
No 234
>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=47.54 E-value=8.8 Score=37.94 Aligned_cols=10 Identities=50% Similarity=1.351 Sum_probs=8.3
Q ss_pred EEcCCCceEE
Q 038893 161 HICLDCGYIY 170 (235)
Q Consensus 161 y~C~~CGyvy 170 (235)
..|..|||+.
T Consensus 214 ~~C~~Cg~~~ 223 (505)
T TIGR00595 214 LLCRSCGYIL 223 (505)
T ss_pred eEhhhCcCcc
Confidence 4899999886
No 235
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=47.39 E-value=17 Score=36.47 Aligned_cols=110 Identities=15% Similarity=0.042 Sum_probs=57.0
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
.+|.|....+..+.+.+||+++|+.+-.+. ..| |. +..+ . .+|+.. +..|......-++..|+|..+.+.|.+
T Consensus 230 ~~G~g~~~~~a~~~l~~lae~l~~pV~tt~-~gk--g~-~p~~-h-pl~~G~~G~~g~~~~~~~l~~aDlvL~vG~~~~~ 303 (616)
T PRK07418 230 YVGGGAISAGAHAELKELAERFQIPVTTTL-MGK--GA-FDEH-H-PLSVGMLGMHGTAYANFAVTECDLLIAVGARFDD 303 (616)
T ss_pred EECCCcCcccHHHHHHHHHHHHCCCEEEcc-CCC--cC-CCCC-C-cccccCCCCCCCHHHHHHHHhCCEEEEEcCCCCc
Confidence 358888766778899999999999985431 111 21 1111 1 122221 112222222236889999999988874
Q ss_pred Cc---cccCccchhhhhhhcCCCCceE-EecCceeeeeccc
Q 038893 101 EL---WPADKLGFTKTAIQAKPDSVYF-VVNRGGADVDVKR 137 (235)
Q Consensus 101 ~l---W~~~~~g~~i~AIn~~~~a~if-~~~~~g~~~d~~~ 137 (235)
.. |+.-.-...++=|+.|+...-- ...+.++..|.+.
T Consensus 304 ~~~~~~~~~~~~~~~i~id~d~~~ig~~~~~~~~i~~D~~~ 344 (616)
T PRK07418 304 RVTGKLDEFASRAKVIHIDIDPAEVGKNRRPDVPIVGDVRK 344 (616)
T ss_pred cccCChhhcCCCCeEEEEeCCHHHhCCccCCCeEEecCHHH
Confidence 22 2111111223445555432110 1235567777654
No 236
>PLN02569 threonine synthase
Probab=47.35 E-value=11 Score=37.38 Aligned_cols=26 Identities=23% Similarity=0.202 Sum_probs=18.9
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
+..++|..||..|+.. + -.|+| .|+.
T Consensus 47 ~~~l~C~~Cg~~y~~~----~--~~~~C-~cgg 72 (484)
T PLN02569 47 VPFLECPLTGEKYSLD----E--VVYRS-KSGG 72 (484)
T ss_pred ccccEeCCCCCcCCCc----c--ccccC-CCCC
Confidence 3468999999999763 2 24799 5954
No 237
>PRK08266 hypothetical protein; Provisional
Probab=47.18 E-value=13 Score=36.43 Aligned_cols=103 Identities=14% Similarity=0.037 Sum_probs=54.1
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCC-
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDE- 101 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~- 101 (235)
+|.|. .+..+.+.+||+++|+.+-.+. .. -|. +..+ -.+|+ +..+. ..-++..|.|..+.+.|.+.
T Consensus 212 ~G~g~--~~a~~~l~~lae~~g~pv~tt~-~~--kg~-~~~~--hp~~~--g~~~~---~~~~~~aDlvl~lG~~~~~~~ 278 (542)
T PRK08266 212 VGGGA--AGAGEEIRELAEMLQAPVVAFR-SG--RGI-VSDR--HPLGL--NFAAA---YELWPQTDVVIGIGSRLELPT 278 (542)
T ss_pred ECCCh--hhHHHHHHHHHHHHCCCEEEec-cc--ccc-CCCC--Ccccc--CCHHH---HHHHHhCCEEEEeCCCcCccc
Confidence 36663 3457889999999999885441 11 132 1111 11222 11122 22357899999988887765
Q ss_pred -ccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893 102 -LWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL 138 (235)
Q Consensus 102 -lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~ 138 (235)
-|+.......++-|+.|+........+..+..|.+..
T Consensus 279 ~~~~~~~~~~~~i~id~d~~~~~~~~~~~~i~~D~~~~ 316 (542)
T PRK08266 279 FRWPWRPDGLKVIRIDIDPTEMRRLKPDVAIVADAKAG 316 (542)
T ss_pred ccccccCCCCcEEEEECCHHHhCCcCCCceEecCHHHH
Confidence 2432222233555565544321112355677777643
No 238
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=47.17 E-value=13 Score=38.79 Aligned_cols=11 Identities=36% Similarity=0.818 Sum_probs=7.1
Q ss_pred ceEEcCCCceE
Q 038893 159 ATHICLDCGYI 169 (235)
Q Consensus 159 ~~y~C~~CGyv 169 (235)
...+|.-|||.
T Consensus 461 ~~L~CH~Cg~~ 471 (730)
T COG1198 461 GQLRCHYCGYQ 471 (730)
T ss_pred CeeEeCCCCCC
Confidence 35667777766
No 239
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=47.16 E-value=14 Score=35.58 Aligned_cols=28 Identities=32% Similarity=0.513 Sum_probs=25.3
Q ss_pred CcEEEEEeecchHHHHhcCCcCcceeee
Q 038893 67 GGVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
.+.+|+.+.+++.|+++|++.||+|..+
T Consensus 128 ~g~~V~~V~~~SpA~~AGL~~GDvI~~v 155 (420)
T TIGR00054 128 VGPVIELLDKNSIALEAGIEPGDEILSV 155 (420)
T ss_pred CCceeeccCCCCHHHHcCCCCCCEEEEE
Confidence 5778999999999999999999998764
No 240
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=47.11 E-value=30 Score=34.99 Aligned_cols=40 Identities=43% Similarity=0.613 Sum_probs=31.8
Q ss_pred cceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccc
Q 038893 57 LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSF 97 (235)
Q Consensus 57 lGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~ 97 (235)
+|+.+.+. .+..-|..+-+|+.|.++||..||+|+++--.
T Consensus 453 LGl~v~~~-~g~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~ 492 (558)
T COG3975 453 LGLKVKSE-GGHEKITFVFPGGPAYKAGLSPGDKIVAINGI 492 (558)
T ss_pred cceEeccc-CCeeEEEecCCCChhHhccCCCccEEEEEcCc
Confidence 77755554 67789999999999999999999987555433
No 241
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=47.10 E-value=14 Score=38.18 Aligned_cols=40 Identities=33% Similarity=0.593 Sum_probs=35.8
Q ss_pred cCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceee
Q 038893 54 DKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLY 93 (235)
Q Consensus 54 ~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~ 93 (235)
.+.+||.++-.++=++||+.+-.|..|+..|++.||.|..
T Consensus 416 GdSvGLRLAGGNDVGIFVaGvqegspA~~eGlqEGDQIL~ 455 (1027)
T KOG3580|consen 416 GDSVGLRLAGGNDVGIFVAGVQEGSPAEQEGLQEGDQILK 455 (1027)
T ss_pred CCeeeeEeccCCceeEEEeecccCCchhhccccccceeEE
Confidence 3679999999999999999999999999999999997533
No 242
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=47.00 E-value=12 Score=37.54 Aligned_cols=106 Identities=17% Similarity=0.070 Sum_probs=57.9
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS 95 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s 95 (235)
..|.|....+..+.+.+||+.+|+.+-.+ ++-+.|+-+ | ++ +..|......-++..|+|..+.
T Consensus 237 l~G~g~~~~~a~~~l~~lae~l~~PV~tt~~~kg~~p~~hpl~~--G------~~---G~~~~~~~~~~l~~aDlvL~lG 305 (612)
T PRK07789 237 YVGGGVIRAEASAELRELAELTGIPVVTTLMARGAFPDSHPQHL--G------MP---GMHGTVAAVAALQRSDLLIALG 305 (612)
T ss_pred EECCCccccCHHHHHHHHHHHHCCCEEEcccccccCCCCChhhc--c------CC---cccCcHHHHHHHHhCCEEEEEC
Confidence 34888877777899999999999998654 222233211 0 11 2222222223367899999988
Q ss_pred cccCCCc---cccCccchhhhhhhcCCCCceE-EecCceeeeecccc
Q 038893 96 SFFGDEL---WPADKLGFTKTAIQAKPDSVYF-VVNRGGADVDVKRL 138 (235)
Q Consensus 96 ~~fG~~l---W~~~~~g~~i~AIn~~~~a~if-~~~~~g~~~d~~~~ 138 (235)
+.|.+.. |+.-.....++-||.|+...-. ...+..+.+|....
T Consensus 306 ~~l~~~~t~~~~~~~~~~~~i~Id~d~~~i~~~~~~~~~i~gD~~~~ 352 (612)
T PRK07789 306 ARFDDRVTGKLDSFAPDAKVIHADIDPAEIGKNRHADVPIVGDVKEV 352 (612)
T ss_pred CCCCccccCChhhcCCCCcEEEEECCHHHhCCCCCCCeEEecCHHHH
Confidence 8776421 1110011224556666532111 11355677776554
No 243
>PRK06112 acetolactate synthase catalytic subunit; Validated
Probab=46.99 E-value=14 Score=36.50 Aligned_cols=108 Identities=14% Similarity=0.112 Sum_probs=57.8
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEE------EeecCcc--ceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPL--GLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kpl--Gl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~ 94 (235)
.|.|....+..+.+.+||+++|+-+-.+ ++-+.|+ |. ++. +.... +.......=++..|.|..+
T Consensus 220 ~G~g~~~~~a~~~l~~lae~lg~pV~~t~~~kg~~p~~hp~~~G~-~g~------~~~~~-~~~~~~~~~l~~aDlvl~l 291 (578)
T PRK06112 220 AGGGVHISGASAALAALQSLAGLPVATTNMGKGAVDETHPLSLGV-VGS------LMGPR-SPGRHLRDLVREADVVLLV 291 (578)
T ss_pred ECCCccccchHHHHHHHHHHhCCCEEEcccccccCCCCCcccccc-ccc------cCCCc-cchHHHHHHHHhCCEEEEE
Confidence 4778777777889999999999998554 2222332 21 110 00000 0001122236789999999
Q ss_pred ccccCCC---ccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893 95 SSFFGDE---LWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL 138 (235)
Q Consensus 95 s~~fG~~---lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~ 138 (235)
.+.|++. -|........++-|+.|+...-....+..+..|....
T Consensus 292 G~~~~~~~~~~~~~~~~~~~~i~id~d~~~~~~~~~~~~i~~D~~~~ 338 (578)
T PRK06112 292 GTRTNQNGTDSWSLYPEQAQYIHIDVDGEEVGRNYEALRLVGDARLT 338 (578)
T ss_pred CCCCCccccccccccCCCCeEEEEECChHHhCccccceEEEeCHHHH
Confidence 8887752 3533222233555666653322112234566676553
No 244
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=46.95 E-value=11 Score=33.27 Aligned_cols=28 Identities=25% Similarity=0.471 Sum_probs=21.3
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCe
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRF 195 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F 195 (235)
.....|+.||..-+. ..|++|..++.+-
T Consensus 51 ~~i~~C~~C~~lse~----------~~C~IC~d~~Rd~ 78 (195)
T TIGR00615 51 ENLRTCSVCGAISDQ----------EVCNICSDERRDN 78 (195)
T ss_pred HcCCcCCCCCCCCCC----------CcCCCCCCCCCCC
Confidence 457899999977654 3799998876654
No 245
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=46.94 E-value=18 Score=36.09 Aligned_cols=109 Identities=16% Similarity=0.065 Sum_probs=57.9
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
..|.|....+..+.+.+||+++|+.+-.+.. . -|. +..+ .| +|+.. +..|......-++..|.|..+.+.|.+
T Consensus 227 l~G~g~~~~~a~~~l~~lae~~g~pv~tt~~-g--kg~-~~~~-hp-l~~G~~G~~~~~~a~~~~~~aDlvl~lG~~~~~ 300 (587)
T PRK06965 227 YTGGGVILANASRELRQLADLLGYPVTNTLM-G--LGA-YPAS-DK-KFLGMLGMHGTYEANMAMQHCDVLIAIGARFDD 300 (587)
T ss_pred EECCCccccchHHHHHHHHHHhCCCEEEccc-c--CCC-CCCC-Ch-hhcCCCCCCCCHHHHHHHHhCCEEEEECCCCcc
Confidence 4588888778889999999999999854411 1 111 1111 11 22211 222222222236789999999988765
Q ss_pred C------ccccCccchhhhhhhcCCCCceE-EecCceeeeecccc
Q 038893 101 E------LWPADKLGFTKTAIQAKPDSVYF-VVNRGGADVDVKRL 138 (235)
Q Consensus 101 ~------lW~~~~~g~~i~AIn~~~~a~if-~~~~~g~~~d~~~~ 138 (235)
. .|..+ ...++-|+.|+....- ...+..+.+|+...
T Consensus 301 ~~~~~~~~~~~~--~~~~i~id~d~~~~~~~~~~~~~i~~D~~~~ 343 (587)
T PRK06965 301 RVIGNPAHFASR--PRKIIHIDIDPSSISKRVKVDIPIVGDVKEV 343 (587)
T ss_pred cccCChhhcCCC--CceEEEEeCCHHHhCCcCCCCeEEecCHHHH
Confidence 3 22211 1234455555432111 11245677777653
No 246
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=46.92 E-value=13 Score=32.64 Aligned_cols=35 Identities=26% Similarity=0.569 Sum_probs=21.4
Q ss_pred cccceEEcCCCceEEeCCC--CCCCCCCCCCCCCCCCC
Q 038893 156 KARATHICLDCGYIYFLQK--PFDELPDTYVCPQCQAP 191 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~t--pfe~lped~~CP~C~a~ 191 (235)
.....++|..|+..|+-+. .... ...-.||.|+..
T Consensus 109 G~l~~~~C~~C~~~~~~~~~~~~~~-~~~p~C~~Cgg~ 145 (222)
T cd01413 109 GTLQTAYCVNCGSKYDLEEVKYAKK-HEVPRCPKCGGI 145 (222)
T ss_pred CCcCcceECCCCCCcchhHHHHhcc-CCCCcCCCCCCc
Confidence 3456789999999886531 0010 112369999764
No 247
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=46.89 E-value=7.3 Score=26.76 Aligned_cols=8 Identities=38% Similarity=1.306 Sum_probs=2.5
Q ss_pred CCCCCCCC
Q 038893 183 YVCPQCQA 190 (235)
Q Consensus 183 ~~CP~C~a 190 (235)
|.||+|+.
T Consensus 42 W~CPiC~~ 49 (50)
T PF02891_consen 42 WKCPICNK 49 (50)
T ss_dssp -B-TTT--
T ss_pred eECcCCcC
Confidence 66666653
No 248
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=46.63 E-value=9 Score=35.41 Aligned_cols=29 Identities=3% Similarity=0.181 Sum_probs=18.1
Q ss_pred ccccCc-hhHHHHHHHhCCeeEEEEeecCcc
Q 038893 28 NATRSL-DNNKITARTAGASKTIEVEVDKPL 57 (235)
Q Consensus 28 ~~~~~~-~~~~~lA~~lg~~~~~~v~~~kpl 57 (235)
+..+.+ +.++++++=..++. ...+|.+|+
T Consensus 19 kK~ek~Dkd~~r~sqw~~CaL-tqepL~~Pi 48 (293)
T KOG3113|consen 19 KKVEKVDKDAERVSQWRNCAL-TQEPLRRPI 48 (293)
T ss_pred CCcCccChhHHHHHHHhhccc-ccCccccce
Confidence 334445 35677777777777 346677775
No 249
>PRK07218 replication factor A; Provisional
Probab=45.99 E-value=13 Score=36.37 Aligned_cols=27 Identities=19% Similarity=0.281 Sum_probs=21.5
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA 196 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~ 196 (235)
..+|+.|+.+-+. |.||.|+.....+.
T Consensus 297 i~rCP~C~r~v~~----------~~C~~hG~ve~~~d 323 (423)
T PRK07218 297 IERCPECGRVIQK----------GQCRSHGAVEGEDD 323 (423)
T ss_pred eecCcCccccccC----------CcCCCCCCcCCeee
Confidence 5799999988833 69999998766555
No 250
>PRK06466 acetolactate synthase 3 catalytic subunit; Validated
Probab=45.86 E-value=17 Score=36.07 Aligned_cols=111 Identities=12% Similarity=-0.044 Sum_probs=58.0
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
.+|.|....+..+.+.+||+++|+.+-.+. ..| |. +..+ .| +|+.. +..+......-++.+|.|..+.+.|.+
T Consensus 212 l~G~g~~~~~a~~~l~~lae~~g~pv~tt~-~~k--g~-~~~~-hp-~~~G~~G~~~~~~~~~~l~~aD~il~vG~~~~~ 285 (574)
T PRK06466 212 YSGGGVVLGNASALLTELAHLLNLPVTNTL-MGL--GG-FPGT-DR-QFLGMLGMHGTYEANMAMHHADVILAVGARFDD 285 (574)
T ss_pred EECCCccccChHHHHHHHHHHhCCCEEEcC-ccC--CC-CCCC-Ch-hhcCCCccccCHHHHHHHHhCCEEEEECCCCCc
Confidence 347877666667899999999999985331 111 22 1111 11 22111 222222233347889999999888776
Q ss_pred Cc---cccCccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 101 EL---WPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 101 ~l---W~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
.. |+.-.-...++-|+.|+...--. ..+..+..|....
T Consensus 286 ~~~~~~~~~~~~~~vi~id~d~~~i~~~~~~~~~i~~D~~~~ 327 (574)
T PRK06466 286 RVTNGPAKFCPNAKIIHIDIDPASISKTIKADIPIVGPVESV 327 (574)
T ss_pred cccCchhhcCCCCeEEEEECCHHHhCCccCCCeEEecCHHHH
Confidence 32 21111112345566665432211 1244666776543
No 251
>PRK14715 DNA polymerase II large subunit; Provisional
Probab=45.81 E-value=11 Score=41.96 Aligned_cols=24 Identities=33% Similarity=0.699 Sum_probs=19.2
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
....+|+.||++-.. .+||.||..
T Consensus 672 i~~~~Cp~Cg~~~~~----------~~Cp~CG~~ 695 (1627)
T PRK14715 672 IAFFKCPKCGKVGLY----------HVCPFCGTR 695 (1627)
T ss_pred EEeeeCCCCCCcccc----------ccCcccCCc
Confidence 457899999987543 489999976
No 252
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=45.44 E-value=16 Score=31.00 Aligned_cols=16 Identities=25% Similarity=0.453 Sum_probs=8.5
Q ss_pred CCCCCCCCCccCeeec
Q 038893 183 YVCPQCQAPKKRFARY 198 (235)
Q Consensus 183 ~~CP~C~a~k~~F~~~ 198 (235)
+.||.|+-.-.-++.+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 5677666544444433
No 253
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=45.31 E-value=9.8 Score=30.95 Aligned_cols=34 Identities=21% Similarity=0.421 Sum_probs=23.2
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeecc
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYD 199 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~ 199 (235)
..+|+.|+..--- +-..+.|+-|+.|-.-....+
T Consensus 69 ~V~CP~C~K~TKm------LGr~D~CM~C~~pLTLd~~le 102 (114)
T PF11023_consen 69 QVECPNCGKQTKM------LGRVDACMHCKEPLTLDPSLE 102 (114)
T ss_pred eeECCCCCChHhh------hchhhccCcCCCcCccCchhh
Confidence 5789999987633 122348999999866555443
No 254
>PF11238 DUF3039: Protein of unknown function (DUF3039); InterPro: IPR021400 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=44.73 E-value=15 Score=26.56 Aligned_cols=29 Identities=28% Similarity=0.737 Sum_probs=20.8
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQ 189 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~ 189 (235)
+...+=-.||.++-+...++..| +||.|.
T Consensus 23 ~G~pVvALCGk~wvp~rdp~~~P---VCP~Ck 51 (58)
T PF11238_consen 23 MGTPVVALCGKVWVPTRDPKPFP---VCPECK 51 (58)
T ss_pred cCceeEeeeCceeCCCCCCCCCC---CCcCHH
Confidence 34556668999998876556554 599994
No 255
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=44.60 E-value=8.6 Score=28.52 Aligned_cols=29 Identities=24% Similarity=0.479 Sum_probs=19.1
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
-.-+|+.||.+- +.|....-.-+|++|+.
T Consensus 18 l~VkCpdC~N~q---~vFshast~V~C~~CG~ 46 (67)
T COG2051 18 LRVKCPDCGNEQ---VVFSHASTVVTCLICGT 46 (67)
T ss_pred EEEECCCCCCEE---EEeccCceEEEeccccc
Confidence 356999999643 22333344558999987
No 256
>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=44.35 E-value=72 Score=29.41 Aligned_cols=30 Identities=20% Similarity=0.601 Sum_probs=19.8
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQ 189 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~ 189 (235)
+.+..|..|.+++--.+.-+. ..-+||.|.
T Consensus 155 ~~rv~CghC~~~Fl~~~~~~~--tlARCPHCr 184 (256)
T PF09788_consen 155 SCRVICGHCSNTFLFNTLTSN--TLARCPHCR 184 (256)
T ss_pred ceeEECCCCCCcEeccCCCCC--ccccCCCCc
Confidence 567899999988765422111 123999995
No 257
>PRK13264 3-hydroxyanthranilate 3,4-dioxygenase; Provisional
Probab=44.18 E-value=11 Score=32.75 Aligned_cols=36 Identities=14% Similarity=0.284 Sum_probs=25.0
Q ss_pred hcccceEEcCCCceEEeCC---------------CCCCCCCCCCCCCCCCC
Q 038893 155 QKARATHICLDCGYIYFLQ---------------KPFDELPDTYVCPQCQA 190 (235)
Q Consensus 155 ~~~~~~y~C~~CGyvyd~~---------------tpfe~lped~~CP~C~a 190 (235)
+...-+|-|..|..+-.+. ..|-.-.+..+|+.||+
T Consensus 115 ~~d~~~wyc~~c~~~~~e~~f~~~d~~~~~~~~~~~f~~~~e~rtC~~CG~ 165 (177)
T PRK13264 115 ELDGFQWYCDECNHKVHEVEVQLTDIETDLPPVFAAFYASEELRTCDNCGT 165 (177)
T ss_pred CccceEEECCCCCCeEEEEEEEecChhhhhHHHHHHHhcCHhhccCCcCCc
Confidence 3445589999999655443 14555556679999987
No 258
>PF01783 Ribosomal_L32p: Ribosomal L32p protein family; InterPro: IPR002677 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 [, ]. Ribosomal protein L32p is part of the 50S ribosomal subunit. This family is found in both prokaryotes and eukaryotes. Ribosomal protein L32 of yeast binds to and regulates the splicing and the translation of the transcript of its own gene [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3PYT_2 3F1F_5 3PYV_2 3D5B_5 3MRZ_2 3D5D_5 3F1H_5 1VSP_Y 3PYR_2 3MS1_2 ....
Probab=43.71 E-value=21 Score=25.03 Aligned_cols=24 Identities=29% Similarity=0.613 Sum_probs=18.8
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
...-.|+.||..--+ ...||.||.
T Consensus 24 ~~l~~c~~cg~~~~~---------H~vc~~cG~ 47 (56)
T PF01783_consen 24 PNLVKCPNCGEPKLP---------HRVCPSCGY 47 (56)
T ss_dssp TSEEESSSSSSEEST---------TSBCTTTBB
T ss_pred cceeeeccCCCEecc---------cEeeCCCCe
Confidence 467899999977755 359999974
No 259
>PF05280 FlhC: Flagellar transcriptional activator (FlhC); InterPro: IPR007944 This family consists of several bacterial flagellar transcriptional activator (FlhC) proteins. FlhC combines with FlhD to form a regulatory complex in Escherichia coli, this complex has been shown to be a global regulator involved in many cellular processes as well as a flagellar transcriptional activator [].; GO: 0003677 DNA binding, 0030092 regulation of flagellum assembly, 0045893 positive regulation of transcription, DNA-dependent; PDB: 2AVU_E.
Probab=43.47 E-value=19 Score=31.12 Aligned_cols=32 Identities=28% Similarity=0.682 Sum_probs=11.7
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.....|+.||-.|--. ..++..++.||.|.-|
T Consensus 132 l~l~~C~~C~~~fv~~--~~~~~~~~~Cp~C~~p 163 (175)
T PF05280_consen 132 LQLAPCRRCGGHFVTH--AHDPRHSFVCPFCQPP 163 (175)
T ss_dssp EEEEE-TTT--EEEEE--SS--SS----TT----
T ss_pred ccccCCCCCCCCeECc--CCCCCcCcCCCCCCCc
Confidence 4578999999444321 1244457899999643
No 260
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=43.29 E-value=8.5 Score=23.94 Aligned_cols=20 Identities=40% Similarity=1.001 Sum_probs=11.0
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..|.+||. .. .++||.|+.+
T Consensus 3 ~~C~vC~~--~~---------kY~Cp~C~~~ 22 (30)
T PF04438_consen 3 KLCSVCGN--PA---------KYRCPRCGAR 22 (30)
T ss_dssp EEETSSSS--EE---------SEE-TTT--E
T ss_pred CCCccCcC--CC---------EEECCCcCCc
Confidence 46778877 22 3678888653
No 261
>PRK13844 recombination protein RecR; Provisional
Probab=43.28 E-value=13 Score=32.87 Aligned_cols=27 Identities=19% Similarity=0.406 Sum_probs=20.5
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKR 194 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~ 194 (235)
.....|+.||..-+. ..|++|..++.+
T Consensus 55 ~~i~~C~~C~~lte~----------~~C~IC~d~~Rd 81 (200)
T PRK13844 55 ANIKKCVYCQALTED----------DVCNICSNTNRD 81 (200)
T ss_pred HhCCcCCCCCCCCCC----------CCCCCCCCCCCC
Confidence 457899999987754 279999876543
No 262
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=43.10 E-value=13 Score=30.61 Aligned_cols=14 Identities=36% Similarity=0.774 Sum_probs=12.0
Q ss_pred ceEEcCCCceEEeC
Q 038893 159 ATHICLDCGYIYFL 172 (235)
Q Consensus 159 ~~y~C~~CGyvyd~ 172 (235)
.-|+|+.||.+|=+
T Consensus 123 ~f~~C~~C~kiyW~ 136 (147)
T PF01927_consen 123 EFWRCPGCGKIYWE 136 (147)
T ss_pred eEEECCCCCCEecc
Confidence 47999999999955
No 263
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=42.96 E-value=19 Score=34.79 Aligned_cols=33 Identities=21% Similarity=0.489 Sum_probs=21.1
Q ss_pred ceEEcCCCceEEeCCCCCCCC-CCCCCCCCCCCCc
Q 038893 159 ATHICLDCGYIYFLQKPFDEL-PDTYVCPQCQAPK 192 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~l-ped~~CP~C~a~k 192 (235)
..|+|+.||++ ...++.+.. .....||.|+.+.
T Consensus 323 ~~~r~~~~~~~-~~~~~~~~~~~~~~~c~~~~~~~ 356 (409)
T TIGR00108 323 VTYKCAECGEV-IEKTVRELKDKKFAICPACGQEM 356 (409)
T ss_pred EEEEcCCCCce-eecccccccccccccCcccCccc
Confidence 35999999996 433333221 1235899998764
No 264
>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=42.92 E-value=9.9 Score=28.29 Aligned_cols=12 Identities=50% Similarity=1.254 Sum_probs=5.6
Q ss_pred eEEcCCCc-eEEeC
Q 038893 160 THICLDCG-YIYFL 172 (235)
Q Consensus 160 ~y~C~~CG-yvyd~ 172 (235)
+++| .|| |.|..
T Consensus 3 ifrC-~Cgr~lya~ 15 (68)
T PF09082_consen 3 IFRC-DCGRYLYAK 15 (68)
T ss_dssp EEEE-TTS--EEEE
T ss_pred EEEe-cCCCEEEec
Confidence 3566 466 44443
No 265
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=42.62 E-value=13 Score=30.53 Aligned_cols=31 Identities=16% Similarity=0.400 Sum_probs=19.5
Q ss_pred eEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQA 190 (235)
Q Consensus 160 ~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a 190 (235)
--+|..|+-...+. ..++...+-|.||.|+.
T Consensus 91 ~sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~k 132 (147)
T PF01927_consen 91 FSRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGK 132 (147)
T ss_pred CCccCCCCcEeeechhhccccccCccccccCCeEEECCCCCC
Confidence 35899999655443 12223345689999974
No 266
>PRK00076 recR recombination protein RecR; Reviewed
Probab=42.57 E-value=14 Score=32.49 Aligned_cols=29 Identities=21% Similarity=0.501 Sum_probs=21.5
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA 196 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~ 196 (235)
.....|..||..-+. ..|++|..++.+-.
T Consensus 51 ~~i~~C~~C~~lse~----------~~C~IC~d~~Rd~~ 79 (196)
T PRK00076 51 EKIKHCSVCGNLTEQ----------DPCEICSDPRRDQS 79 (196)
T ss_pred HcCCcCCCCCCcCCC----------CcCCCCCCCCCCCC
Confidence 357899999987654 38999987765443
No 267
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=42.35 E-value=7.7 Score=38.06 Aligned_cols=34 Identities=21% Similarity=0.483 Sum_probs=24.8
Q ss_pred cceEEcCCCceEEeCC---CCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQ---KPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~---tpfe~lped~~CP~C~a~ 191 (235)
++.|+|++|...|... .-+.-....|.|-.|+.+
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGE 162 (436)
T ss_pred cccccCCccccchhhhHHHHhhcccCceEEEecCCCc
Confidence 5679999999999875 122222357899999764
No 268
>PTZ00409 Sir2 (Silent Information Regulator) protein; Provisional
Probab=42.26 E-value=13 Score=34.05 Aligned_cols=16 Identities=19% Similarity=0.243 Sum_probs=12.4
Q ss_pred cceEEcCCCceEEeCC
Q 038893 158 RATHICLDCGYIYFLQ 173 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~ 173 (235)
...++|..|++.|+..
T Consensus 135 l~~~~C~~C~~~~~~~ 150 (271)
T PTZ00409 135 VFEARCCTCRKTIQLN 150 (271)
T ss_pred cCcceeCCCCCCcccC
Confidence 4567999999888743
No 269
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=42.20 E-value=23 Score=32.00 Aligned_cols=34 Identities=29% Similarity=0.353 Sum_probs=29.6
Q ss_pred CCcEEEEEeecchHHHHhcCCcCcceeeeccccC
Q 038893 66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFG 99 (235)
Q Consensus 66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG 99 (235)
+|=+.|.++.+++.|+.+|++.||.|....++-+
T Consensus 138 ~~Fa~V~sV~~~SPA~~aGl~~gD~il~fGnV~s 171 (231)
T KOG3129|consen 138 RPFAVVDSVVPGSPADEAGLCVGDEILKFGNVHS 171 (231)
T ss_pred cceEEEeecCCCChhhhhCcccCceEEEeccccc
Confidence 6789999999999999999999999987666543
No 270
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7.0 [Transcription]
Probab=42.17 E-value=22 Score=25.90 Aligned_cols=28 Identities=32% Similarity=0.551 Sum_probs=18.3
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
...|+|-.||-.-.- .--|-.+|-.||.
T Consensus 18 ~miYiCgdC~~en~l-----k~~D~irCReCG~ 45 (62)
T KOG3507|consen 18 TMIYICGDCGQENTL-----KRGDVIRCRECGY 45 (62)
T ss_pred cEEEEeccccccccc-----cCCCcEehhhcch
Confidence 458999999854332 1224468988976
No 271
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=41.46 E-value=8.8 Score=40.70 Aligned_cols=9 Identities=33% Similarity=1.043 Sum_probs=0.0
Q ss_pred CCCCCCCCc
Q 038893 184 VCPQCQAPK 192 (235)
Q Consensus 184 ~CP~C~a~k 192 (235)
.||.|+.+.
T Consensus 694 ~C~~C~~~~ 702 (900)
T PF03833_consen 694 ECPKCGRET 702 (900)
T ss_dssp ---------
T ss_pred ccccccccC
Confidence 555555443
No 272
>PRK06386 replication factor A; Reviewed
Probab=41.36 E-value=21 Score=34.17 Aligned_cols=28 Identities=18% Similarity=0.145 Sum_probs=22.2
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeee
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFAR 197 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~ 197 (235)
..+|+.|+.+-+. +.||.|+.....+.-
T Consensus 236 i~rCP~C~R~l~~----------g~C~~HG~v~~~~dl 263 (358)
T PRK06386 236 FTKCSVCNKIIED----------GVCKDHPDAPVYLDI 263 (358)
T ss_pred EecCcCCCeEccC----------CcCCCCCCCCCeeEE
Confidence 5799999999853 699999986666553
No 273
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=41.29 E-value=17 Score=28.38 Aligned_cols=15 Identities=20% Similarity=0.423 Sum_probs=7.1
Q ss_pred cceEEcCCCceEEeC
Q 038893 158 RATHICLDCGYIYFL 172 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~ 172 (235)
..+|+|..||+++-+
T Consensus 51 ~GIW~C~~C~~~~AG 65 (90)
T PF01780_consen 51 TGIWKCKKCGKKFAG 65 (90)
T ss_dssp TTEEEETTTTEEEE-
T ss_pred eEEeecCCCCCEEeC
Confidence 334555555555444
No 274
>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]
Probab=41.20 E-value=18 Score=36.27 Aligned_cols=49 Identities=29% Similarity=0.544 Sum_probs=30.5
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCC-----------CCccCeeeccC-----CCCCCCC--CCCCch
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQ-----------APKKRFARYDV-----NTGKPIG--SGLPPI 213 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~-----------a~k~~F~~~~~-----~~~~~~g--~~~~~~ 213 (235)
..+.|+|..||-+-...|. | .| .|+ .|.++|..++. -+|.-++ ..+|||
T Consensus 127 ~va~w~c~~cg~~iean~k----p---~c-~cg~~~~~~ei~gs~pasrf~i~el~~r~~yep~i~ayvrvdppi 193 (593)
T COG2401 127 KVALWRCEKCGTIIEANTK----P---EC-KCGSHVHILEIKGSTPASRFLIVELVKREEYEPRILAYVRVDPPI 193 (593)
T ss_pred eEEEEecchhchhhhhcCC----c---cc-CCCCceEEEEeecCCcchheeeeehhcCCcCCcceEEEEecCCCc
Confidence 3678999999988776542 2 37 773 46777775533 2444444 335664
No 275
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=41.10 E-value=17 Score=35.87 Aligned_cols=105 Identities=15% Similarity=0.135 Sum_probs=57.0
Q ss_pred ccccCCcccccCchhHHHHHHHhCCeeEEE------EeecCcc--ceeeeeecCCcEEEEEeecchHHHHhcCCcCccee
Q 038893 21 LAVSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPL--GLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92 (235)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kpl--Gl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~ 92 (235)
|.+|.|....+..+.+.+||+++|+.+-.+ ++-+.|+ |. ++ ..+......=++..|+|.
T Consensus 216 Il~G~g~~~~~a~~~l~~lae~~~~pv~tt~~~kg~i~~~hp~~~G~-~g------------~~~~~~~~~~l~~aDlvl 282 (564)
T PRK08155 216 LYLGGGVINSGAPARARELAEKAQLPTTMTLMALGMLPKAHPLSLGM-LG------------MHGARSTNYILQEADLLI 282 (564)
T ss_pred EEECCCccccchHHHHHHHHHHHCCCEEEcccccccCCCCChhhccC-CC------------CCCCHHHHHHHHhCCEEE
Confidence 334788776667889999999999998544 2333332 22 11 112221122267899999
Q ss_pred eeccccCCCc---cccCccchhhhhhhcCCCCce-EEecCceeeeecccc
Q 038893 93 YTSSFFGDEL---WPADKLGFTKTAIQAKPDSVY-FVVNRGGADVDVKRL 138 (235)
Q Consensus 93 ~~s~~fG~~l---W~~~~~g~~i~AIn~~~~a~i-f~~~~~g~~~d~~~~ 138 (235)
.+.+.|.+.. |+.-.-...++-|+.|+.... ..-.+..+..|+...
T Consensus 283 ~lG~~~~~~~~~~~~~~~~~~~~I~id~d~~~~~~~~~~~~~i~~D~~~~ 332 (564)
T PRK08155 283 VLGARFDDRAIGKTEQFCPNAKIIHVDIDRAELGKIKQPHVAIQADVDDV 332 (564)
T ss_pred EECCCCCccccCCHhhcCCCCeEEEEECCHHHhCCCcCCCeEEecCHHHH
Confidence 9888877632 211111112344555554321 111345667777654
No 276
>TIGR03457 sulphoacet_xsc sulfoacetaldehyde acetyltransferase. Members of this protein family are sulfoacetaldehyde acetyltransferase, an enzyme of taurine utilization. Taurine, or 2-aminoethanesulfonate, can be used by bacteria as a source of carbon, nitrogen, and sulfur.
Probab=40.98 E-value=27 Score=34.63 Aligned_cols=103 Identities=18% Similarity=0.082 Sum_probs=56.6
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeec
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTS 95 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s 95 (235)
.|.|....+..+.+.+||+++|+.+..+ ++-+.|+ |+.. +..|......-++..|.|..+.
T Consensus 203 ~G~g~~~~~a~~~l~~lae~~~~PV~tt~~gkg~~p~~hp~------------~~G~~g~~g~~~~~~~l~~aDlil~lG 270 (579)
T TIGR03457 203 SGGGVVMGDAVEECKALAERLGAPVVNSYLHNDSFPASHPL------------WVGPLGYQGSKAAMKLISDADVVLALG 270 (579)
T ss_pred ECcCccccChHHHHHHHHHHhCCCEEEcccccccCCCCCch------------hccCCcCcchHHHHHHHHhCCEEEEEC
Confidence 4778777777889999999999998544 2222332 2111 1112222222378899999999
Q ss_pred cccCCCcc----ccCc--cchhhhhhhcCCCCceEE-ecCceeeeeccc
Q 038893 96 SFFGDELW----PADK--LGFTKTAIQAKPDSVYFV-VNRGGADVDVKR 137 (235)
Q Consensus 96 ~~fG~~lW----~~~~--~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~ 137 (235)
+.|++..| .... -+..++-|+.|+...-.. ..+..+..|...
T Consensus 271 ~~~~~~~~~~~~~~~~~~~~~~~I~id~d~~~~~~~~~~~~~i~~D~~~ 319 (579)
T TIGR03457 271 TRLGPFGTLPQYGIDYWPKNAKIIQVDANAKMIGLVKKVTVGICGDAKA 319 (579)
T ss_pred CCCcccccccccccccCCCCCeEEEEeCCHHHhCCCCCCCeeEecCHHH
Confidence 88875422 1111 122344455554331100 134457777754
No 277
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=40.87 E-value=4.8 Score=27.59 Aligned_cols=27 Identities=19% Similarity=0.128 Sum_probs=17.5
Q ss_pred EcCCCceEEeCCC---CCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCGYIYFLQK---PFDELPDTYVCPQCQAP 191 (235)
Q Consensus 162 ~C~~CGyvyd~~t---pfe~lped~~CP~C~a~ 191 (235)
+...|||+|+.+. -+.+ ...||.|+.+
T Consensus 15 v~~~~G~v~~~~~i~~~~~~---~~~cP~~~~~ 44 (63)
T smart00504 15 VILPSGQTYERRAIEKWLLS---HGTDPVTGQP 44 (63)
T ss_pred EECCCCCEEeHHHHHHHHHH---CCCCCCCcCC
Confidence 4557899998761 1111 3489999865
No 278
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=40.77 E-value=20 Score=28.05 Aligned_cols=14 Identities=21% Similarity=0.489 Sum_probs=6.8
Q ss_pred ceEEcCCCceEEeC
Q 038893 159 ATHICLDCGYIYFL 172 (235)
Q Consensus 159 ~~y~C~~CGyvyd~ 172 (235)
.+|+|..||+++.+
T Consensus 52 GIW~C~~C~~~~AG 65 (91)
T TIGR00280 52 GIWTCRKCGAKFAG 65 (91)
T ss_pred EEEEcCCCCCEEeC
Confidence 34555555554444
No 279
>CHL00099 ilvB acetohydroxyacid synthase large subunit
Probab=40.70 E-value=23 Score=35.24 Aligned_cols=110 Identities=13% Similarity=0.061 Sum_probs=56.6
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
..|.|....+..+.+++||+++|+.+-.+. .. -|. +..+ . .+|+.. +..|......-++..|+|..+.+.|.+
T Consensus 223 l~G~g~~~~~a~~~l~~lae~lg~PV~tt~-~~--kg~-~~~~-h-pl~~G~~G~~~~~~~~~~l~~aDlvL~lG~~~~~ 296 (585)
T CHL00099 223 YVGGGAIISDAHQEITELAELYKIPVTTTL-MG--KGI-FDED-H-PLCLGMLGMHGTAYANFAVSECDLLIALGARFDD 296 (585)
T ss_pred EECCCCchhchHHHHHHHHHHHCCCEEEcc-cc--CcC-CCCC-C-CcccCCCCCCCCHHHHHHHHhCCEEEEECCCCcc
Confidence 348888766778899999999999985441 11 111 1111 1 122211 111212222236889999999988875
Q ss_pred Cc---cccCccchhhhhhhcCCCCce-EEecCceeeeeccc
Q 038893 101 EL---WPADKLGFTKTAIQAKPDSVY-FVVNRGGADVDVKR 137 (235)
Q Consensus 101 ~l---W~~~~~g~~i~AIn~~~~a~i-f~~~~~g~~~d~~~ 137 (235)
.. |+.-.-...++-|+.|+...- ....+..+..|...
T Consensus 297 ~~~~~~~~~~~~~~~i~id~d~~~i~~~~~~~~~i~~D~~~ 337 (585)
T CHL00099 297 RVTGKLDEFACNAQVIHIDIDPAEIGKNRIPQVAIVGDVKK 337 (585)
T ss_pred cccCCHhHcCCCCeEEEEECCHHHhCCCCCCCeEEecCHHH
Confidence 32 211111223455666553211 11123456667664
No 280
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=40.53 E-value=22 Score=27.80 Aligned_cols=14 Identities=14% Similarity=0.147 Sum_probs=6.5
Q ss_pred ceEEcCCCceEEeC
Q 038893 159 ATHICLDCGYIYFL 172 (235)
Q Consensus 159 ~~y~C~~CGyvyd~ 172 (235)
.+|.|..|++++.+
T Consensus 53 GIW~C~~C~~~~AG 66 (90)
T PTZ00255 53 GIWRCKGCKKTVAG 66 (90)
T ss_pred EEEEcCCCCCEEeC
Confidence 34455555444443
No 281
>PRK07282 acetolactate synthase catalytic subunit; Reviewed
Probab=40.51 E-value=19 Score=35.63 Aligned_cols=67 Identities=16% Similarity=0.152 Sum_probs=42.1
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeee
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYT 94 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~ 94 (235)
..|.|....+..+.+.+||+++|+.+-.+ ++-+.|+ |+.. +..|..+...-++.+|+|..+
T Consensus 216 l~G~g~~~~~a~~~l~~lae~l~~pv~tt~~gkg~ip~~hpl------------~~G~~G~~~~~~~~~~~~~aD~vl~l 283 (566)
T PRK07282 216 LAGGGINYAEAATELNAFAERYQIPVVTTLLGQGTIATSHPL------------FLGMGGMHGSYAANIAMTEADFMINI 283 (566)
T ss_pred EECCCcCcccHHHHHHHHHHHhCCCEEeccccCCCCCCCChh------------hcCCCCCCCCHHHHHHHHhCCEEEEE
Confidence 34778776666788999999999988655 2223332 2111 111222222236889999999
Q ss_pred ccccCC
Q 038893 95 SSFFGD 100 (235)
Q Consensus 95 s~~fG~ 100 (235)
.+.|.+
T Consensus 284 G~~l~~ 289 (566)
T PRK07282 284 GSRFDD 289 (566)
T ss_pred CCCCCc
Confidence 888865
No 282
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=40.48 E-value=22 Score=33.06 Aligned_cols=32 Identities=22% Similarity=0.601 Sum_probs=19.8
Q ss_pred cceEEcCCCceEEeCCC----------CCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQK----------PFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~t----------pfe~lped~~CP~C~a 190 (235)
..+|+|..||..|.-.. +.++ +..+.|+.|+-
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s-~ka~~C~~C~K 169 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDS-KKAFSCKYCGK 169 (279)
T ss_pred CCceeccccccccccccccchhhcccccccc-cccccCCCCCc
Confidence 45788888888876652 2333 44567777743
No 283
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=40.04 E-value=11 Score=24.86 Aligned_cols=14 Identities=29% Similarity=0.745 Sum_probs=11.7
Q ss_pred eEEcCCCceEEeCC
Q 038893 160 THICLDCGYIYFLQ 173 (235)
Q Consensus 160 ~y~C~~CGyvyd~~ 173 (235)
.-+|+.||-+|.+.
T Consensus 13 ~~~C~~CgM~Y~~~ 26 (41)
T PF13878_consen 13 ATTCPTCGMLYSPG 26 (41)
T ss_pred CcCCCCCCCEECCC
Confidence 45999999999883
No 284
>PRK14873 primosome assembly protein PriA; Provisional
Probab=39.42 E-value=14 Score=38.07 Aligned_cols=11 Identities=18% Similarity=0.241 Sum_probs=8.2
Q ss_pred EEcCCCceEEe
Q 038893 161 HICLDCGYIYF 171 (235)
Q Consensus 161 y~C~~CGyvyd 171 (235)
-.|..|||+..
T Consensus 384 l~C~~Cg~~~~ 394 (665)
T PRK14873 384 LACARCRTPAR 394 (665)
T ss_pred eEhhhCcCeeE
Confidence 48888888763
No 285
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=39.26 E-value=17 Score=33.46 Aligned_cols=25 Identities=32% Similarity=0.774 Sum_probs=20.2
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQ 189 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~ 189 (235)
..|+|.+|=-||-. .|+.-.||.|+
T Consensus 252 ~g~vCsvCLsIfc~------~p~~~~C~tC~ 276 (276)
T PF03850_consen 252 IGYVCSVCLSIFCE------FPDGGICPTCG 276 (276)
T ss_pred ceeEchhhhhhhhC------CCCCCCCCCCC
Confidence 36999999999977 26555899996
No 286
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=38.32 E-value=4.3 Score=39.93 Aligned_cols=31 Identities=26% Similarity=0.463 Sum_probs=23.5
Q ss_pred ceEEcCCCceEEeCC------CCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQ------KPFDELPDTYVCPQCQ 189 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~------tpfe~lped~~CP~C~ 189 (235)
.-|+|+.|--.|+.. .+..-+-.+|+||.|+
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~ 302 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECD 302 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCccc
Confidence 359999999999876 3444556678999993
No 287
>TIGR02418 acolac_catab acetolactate synthase, catabolic. Acetolactate synthase (EC 2.2.1.6) combines two molecules of pyruvate to yield 2-acetolactate with the release of CO2. This reaction may be involved in either valine biosynthesis (biosynthetic) or conversion of pyruvate to acetoin and possibly to 2,3-butanediol (catabolic). The biosynthetic type, described by TIGR00118, is also capable of forming acetohydroxybutyrate from pyruvate and 2-oxobutyrate for isoleucine biosynthesis. The family described here, part of the same larger family of thiamine pyrophosphate-dependent enzymes (pfam00205, pfam02776) is the catabolic form, generally found associated with in species with acetolactate decarboxylase and usually found in the same operon. The model may not encompass all catabolic acetolactate synthases, but rather one particular clade in the larger TPP-dependent enzyme family.
Probab=37.53 E-value=31 Score=33.77 Aligned_cols=112 Identities=10% Similarity=-0.008 Sum_probs=61.1
Q ss_pred ccccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccC
Q 038893 21 LAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFG 99 (235)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG 99 (235)
|.+|.|....+..+.+++||+++|+.+-.+ ... .|. +-.+ .+.+|+.. +..|......-++..|.|..+.+.|.
T Consensus 200 i~~G~g~~~~~a~~~l~~lae~~g~pv~tt-~~g--kg~-i~~~-~~~~~~G~~G~~~~~~~~~~~~~aDlvl~lG~~~~ 274 (539)
T TIGR02418 200 LLLGLRASSPETTEAVRRLLKKTQLPVVET-FQG--AGA-VSRE-LEDHFFGRVGLFRNQPGDRLLKQADLVITIGYDPI 274 (539)
T ss_pred EEECCCcCcccHHHHHHHHHHHhCCCEEEc-ccc--CcC-CCCC-CChhhcccCcCCCcHHHHHHHHhCCEEEEecCccc
Confidence 335888877777899999999999988533 111 122 1111 12223321 12222222233788999999887765
Q ss_pred C---CccccCccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 100 D---ELWPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 100 ~---~lW~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
+ ..|.... ...++-|+.|+...--. ..+..++.|+...
T Consensus 275 ~~~~~~~~~~~-~~~~i~id~d~~~~~~~~~~~~~i~~D~~~~ 316 (539)
T TIGR02418 275 EYEPRNWNSEN-DATIVHIDVEPAQIDNNYQPDLELVGDIAST 316 (539)
T ss_pred ccCccccCcCC-CCeEEEEeCChHHcCCccCCCeEEecCHHHH
Confidence 3 2354321 22345577776542211 1245677777643
No 288
>PRK06546 pyruvate dehydrogenase; Provisional
Probab=37.50 E-value=16 Score=36.37 Aligned_cols=104 Identities=12% Similarity=0.036 Sum_probs=55.8
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEE-EeecchHHHHhcCCcCcceeeeccccCCC
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVIT-AVEGGGNAAKAGLKSGDQVLYTSSFFGDE 101 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa-~~isG~~a~~~Gi~~gD~i~~~s~~fG~~ 101 (235)
+|.|.. +..+.+.+||+++|..+..+. ..| |. +..+ .| +|+. .|..|......-++..|.|..+.+.|...
T Consensus 208 ~G~g~~--~a~~~l~~lae~~g~Pv~~t~-~gk--g~-~~~~-hp-~~~G~~G~~~~~~~~~~l~~aDlvl~lG~~~~~~ 279 (578)
T PRK06546 208 AGAGVR--GAHAEVLALAEKIKAPVGHSL-RGK--EW-IQYD-NP-FDVGMSGLLGYGAAHEAMHEADLLILLGTDFPYD 279 (578)
T ss_pred ECcchH--HHHHHHHHHHHHhCcceEECc-ccc--cC-CCCC-Cc-cccCCCCCCCCHHHHHHHHhCCEEEEEcCCCChh
Confidence 366654 345789999999999985431 111 11 1111 11 2221 12223333333478999999999888754
Q ss_pred ccccCccchhhhhhhcCCCCceEE-ecCceeeeeccc
Q 038893 102 LWPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKR 137 (235)
Q Consensus 102 lW~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~ 137 (235)
.|..+ ..++-||.|+...--. ..+..+..|+..
T Consensus 280 ~~~~~---~~~I~vd~d~~~~~~~~~~~~~i~~D~~~ 313 (578)
T PRK06546 280 QFLPD---VRTAQVDIDPEHLGRRTRVDLAVHGDVAE 313 (578)
T ss_pred hcCCC---CcEEEEeCCHHHhCCCCCCCeEEEcCHHH
Confidence 55432 2355566665542111 134466677654
No 289
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=37.39 E-value=12 Score=30.38 Aligned_cols=8 Identities=50% Similarity=1.493 Sum_probs=6.6
Q ss_pred CCCCCCCC
Q 038893 183 YVCPQCQA 190 (235)
Q Consensus 183 ~~CP~C~a 190 (235)
+-||.|+.
T Consensus 75 yyCP~Cgt 82 (112)
T PF08882_consen 75 YYCPGCGT 82 (112)
T ss_pred EECCCCcc
Confidence 47999986
No 290
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=37.35 E-value=20 Score=20.17 Aligned_cols=11 Identities=27% Similarity=0.561 Sum_probs=6.8
Q ss_pred EEcCCCceEEe
Q 038893 161 HICLDCGYIYF 171 (235)
Q Consensus 161 y~C~~CGyvyd 171 (235)
|+|+.|.|...
T Consensus 1 y~C~~C~y~t~ 11 (24)
T PF13909_consen 1 YKCPHCSYSTS 11 (24)
T ss_dssp EE-SSSS-EES
T ss_pred CCCCCCCCcCC
Confidence 68889988763
No 291
>PRK08402 replication factor A; Reviewed
Probab=36.95 E-value=28 Score=33.22 Aligned_cols=33 Identities=24% Similarity=0.466 Sum_probs=22.7
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCC--CCccCee
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQ--APKKRFA 196 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~--a~k~~F~ 196 (235)
...|+.|......+ +.+..|+|+.|+ .|..++.
T Consensus 212 y~aCp~CnKkv~~~----~~~~~~~Ce~~~~v~p~~ryi 246 (355)
T PRK08402 212 YDACPECRRKVDYD----PATDTWICPEHGEVEPIKITI 246 (355)
T ss_pred EecCCCCCeEEEEe----cCCCCEeCCCCCCcCcceeEE
Confidence 34999999888621 334679999998 4544433
No 292
>cd00296 SIR2 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer. Also included in this superfamily is a group of uncharacterized Sir2-like proteins which lack certain key catalytic
Probab=36.83 E-value=19 Score=30.75 Aligned_cols=33 Identities=21% Similarity=0.490 Sum_probs=21.2
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
....+|..|++.|+-...... +..-.||.|+..
T Consensus 111 ~~~~~C~~C~~~~~~~~~~~~-~~~p~C~~C~~~ 143 (222)
T cd00296 111 LDRVRCTSCGKEYPRDEVLER-EKPPRCPKCGGL 143 (222)
T ss_pred CCccEECCCCCCcchhhhhhc-cCCCCCCCCCCc
Confidence 345799999988876422211 123479999764
No 293
>cd07973 Spt4 Transcription elongation factor Spt4. Spt4 is a transcription elongation factor. Three transcription-elongation factors Spt4, Spt5, and Spt6, are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles. Spt4 functions entirely in the context of the Spt4-Spt5 heterodimer and it has been found only as a complex to Spt5 in Yeast and Human. Spt4 is a small protein that has zinc finger at the N-terminus. Spt5 is a large protein that has several interesting structural features of an acidic N-terminus, a single NGN domain, five or six KOW domains, and a set of simple C-termianl repeats. Spt4 binds to Spt5 NGN domain. Unlike Spt5, Spt4 is not essential for viability in yeast, however Spt4 is critical for normal function of the Spt4-Spt5 compl
Probab=36.49 E-value=20 Score=28.22 Aligned_cols=23 Identities=35% Similarity=0.820 Sum_probs=16.4
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQ 189 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~ 189 (235)
-|..|+++-..+ .|. ...||.|+
T Consensus 5 AC~~C~~I~~~~-qf~----~~gCpnC~ 27 (98)
T cd07973 5 ACLLCSLIKTED-QFE----RDGCPNCE 27 (98)
T ss_pred hhccCCcccccc-ccc----CCCCCCCc
Confidence 699999998552 122 34899995
No 294
>PF06044 DRP: Dam-replacing family; InterPro: IPR010324 Dam-replacing protein (DRP) is a restriction endonuclease that is flanked by pseudo-transposable small repeat elements. The replacement of Dam-methylase by DRP allows phase variation through slippage-like mechanisms in several pathogenic isolates of Neisseria meningitidis [].; PDB: 4ESJ_A.
Probab=36.44 E-value=6.8 Score=35.85 Aligned_cols=38 Identities=16% Similarity=0.436 Sum_probs=14.1
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDV 200 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~~ 200 (235)
-.-|+.||..+-...+=-..-.|+.||.|+. +|+....
T Consensus 31 n~yCP~Cg~~~L~~f~NN~PVaDF~C~~C~e---eyELKSk 68 (254)
T PF06044_consen 31 NMYCPNCGSKPLSKFENNRPVADFYCPNCNE---EYELKSK 68 (254)
T ss_dssp H---TTT--SS-EE--------EEE-TTT-----EEEEEEE
T ss_pred CCcCCCCCChhHhhccCCCccceeECCCCch---HHhhhhh
Confidence 4689999976433211112345789999965 5554433
No 295
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=36.02 E-value=24 Score=35.36 Aligned_cols=110 Identities=16% Similarity=0.045 Sum_probs=56.1
Q ss_pred ccCCcccc--cCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccC
Q 038893 23 VSKTKNAT--RSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFG 99 (235)
Q Consensus 23 ~~~~~~~~--~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG 99 (235)
.|.|.... +..+.+.+||+++|+.+-.+.. . -|. +..+ .| +|+.. +..|......-++..|.|..+.+.|.
T Consensus 219 ~G~g~~~~~~~a~~~l~~lae~lg~pv~tt~~-g--kg~-~p~~-hp-l~~G~~G~~~~~~~~~~l~~aDlvL~lG~~~~ 292 (595)
T PRK09107 219 SGGGVINSGPEASRLLRELVELTGFPITSTLM-G--LGA-YPAS-GK-NWLGMLGMHGTYEANMAMHDCDVMLCVGARFD 292 (595)
T ss_pred ECCcccccchhHHHHHHHHHHHHCCCEEECcc-c--ccc-CCCC-CC-cccCCCCCCccHHHHHHHHhCCEEEEECCCCC
Confidence 47776544 3578999999999999854411 1 121 1111 11 22221 22233333334788999999988875
Q ss_pred CC---ccccCccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 100 DE---LWPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 100 ~~---lW~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
.. .|..-.....++-|+.|+...-.. -.+.++++|....
T Consensus 293 ~~~~~~~~~~~~~~~~I~id~d~~~i~~~~~~~~~i~~D~~~~ 335 (595)
T PRK09107 293 DRITGRLDAFSPNSKKIHIDIDPSSINKNVRVDVPIIGDVGHV 335 (595)
T ss_pred ccccCchhhcCCCCeEEEEECCHHHhCCCCCCCeEEecCHHHH
Confidence 42 121111112244456555432221 1345677775543
No 296
>COG1328 NrdD Oxygen-sensitive ribonucleoside-triphosphate reductase [Nucleotide transport and metabolism]
Probab=35.99 E-value=19 Score=37.51 Aligned_cols=24 Identities=29% Similarity=0.688 Sum_probs=18.6
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.-.|..|||.++.. .. .||.||..
T Consensus 641 i~~C~~cg~~~~~~------~~--~Cp~CG~~ 664 (700)
T COG1328 641 ISVCNRCGYSGEGL------RT--RCPKCGSE 664 (700)
T ss_pred ceeeccCCcccccc------cc--cCCCCCCc
Confidence 45899999999763 23 49999865
No 297
>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]
Probab=35.77 E-value=17 Score=38.09 Aligned_cols=33 Identities=18% Similarity=0.458 Sum_probs=23.7
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.+.++|.+|+|.-..+..-.-+++...|+.|++
T Consensus 262 ~afFrC~vC~~~~~ve~drg~i~eP~~C~~C~~ 294 (804)
T KOG0478|consen 262 EAFFRCSVCGHEIAVESDRGRIKEPMLCKECGT 294 (804)
T ss_pred hHhhhhhhcCceEEEEeecCccCCCcccccccC
Confidence 456899999987766533334566679999954
No 298
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=35.73 E-value=37 Score=34.38 Aligned_cols=44 Identities=32% Similarity=0.699 Sum_probs=35.8
Q ss_pred ccee-eeee---cCCcEEEEEeecchHHHHhc-CCcCcceeeeccc-cCC
Q 038893 57 LGLT-LGQK---PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSF-FGD 100 (235)
Q Consensus 57 lGl~-~g~~---~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~-fG~ 100 (235)
||+. .||+ .++++||..+-+||.-+..| |.+||-|.-+-.+ |++
T Consensus 263 LGiSivgqsn~rgDggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFEN 312 (626)
T KOG3571|consen 263 LGISIVGQSNARGDGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFEN 312 (626)
T ss_pred ceeEeecccCcCCCCceEEeeeccCceeeccCccCccceEEEeeecchhh
Confidence 7864 5654 58999999999999999999 9999998777665 443
No 299
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=35.49 E-value=28 Score=24.86 Aligned_cols=10 Identities=40% Similarity=1.364 Sum_probs=4.9
Q ss_pred CCCCCCCCCC
Q 038893 182 TYVCPQCQAP 191 (235)
Q Consensus 182 d~~CP~C~a~ 191 (235)
.+.||.||-|
T Consensus 14 ~~~Cp~cGip 23 (55)
T PF13824_consen 14 NFECPDCGIP 23 (55)
T ss_pred CCcCCCCCCc
Confidence 3455555443
No 300
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=35.48 E-value=37 Score=33.35 Aligned_cols=111 Identities=12% Similarity=0.077 Sum_probs=58.2
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
..|.|....+..+.+.+||+.+|+.+-.+ ... .|. +..+ .| +|+.. +..|......-++..|+|..+.+.|.+
T Consensus 202 l~G~g~~~~~a~~~l~~lae~l~~Pv~tt-~~g--kg~-~~~~-hp-~~~G~~g~~~~~~~~~~l~~aD~vl~lG~~~~~ 275 (548)
T PRK08978 202 YVGGGVGMAGAVPALREFLAATGMPAVAT-LKG--LGA-VEAD-HP-YYLGMLGMHGTKAANLAVQECDLLIAVGARFDD 275 (548)
T ss_pred EECCCccccchHHHHHHHHHHHCCCEEEc-ccc--CCC-CCCC-Cc-cccCCCCCCCCHHHHHHHHhCCEEEEEcCCCCc
Confidence 34788877777889999999999998533 111 233 2211 12 22211 222333333346789999998887755
Q ss_pred Cc---cccCccchhhhhhhcCCCCce-EEecCceeeeecccc
Q 038893 101 EL---WPADKLGFTKTAIQAKPDSVY-FVVNRGGADVDVKRL 138 (235)
Q Consensus 101 ~l---W~~~~~g~~i~AIn~~~~a~i-f~~~~~g~~~d~~~~ 138 (235)
.. |..-.....++-|+.|+...- ....+..+..|++..
T Consensus 276 ~~~~~~~~~~~~~~~i~id~d~~~~~~~~~~~~~i~~d~~~~ 317 (548)
T PRK08978 276 RVTGKLNTFAPHAKVIHLDIDPAEINKLRQAHVALQGDLNAL 317 (548)
T ss_pred cccCCccccCCCCeEEEEECCHHHhCCCCCCCeEEecCHHHH
Confidence 21 111011123455555553211 011345677777654
No 301
>KOG3134 consensus Predicted membrane protein [Function unknown]
Probab=35.45 E-value=9.7 Score=34.31 Aligned_cols=39 Identities=23% Similarity=0.496 Sum_probs=23.7
Q ss_pred EEcCCCceEEeCC-CC--CCCCCCCCCCCCCCCCccCeeeccC
Q 038893 161 HICLDCGYIYFLQ-KP--FDELPDTYVCPQCQAPKKRFARYDV 200 (235)
Q Consensus 161 y~C~~CGyvyd~~-tp--fe~lped~~CP~C~a~k~~F~~~~~ 200 (235)
|+|..||..-+.. +. ..-+ .--.||.|+...+++.+++.
T Consensus 1 ~~CVeCg~~vksLy~~Ys~g~i-rlt~C~nC~e~vDkYiE~d~ 42 (225)
T KOG3134|consen 1 YRCVECGSEVKSLYTQYSPGNI-RLTKCPNCQEVVDKYIELDV 42 (225)
T ss_pred CcccccCchHHHHHHhcCCCcE-EEeeCCchhhHHHhHeehhh
Confidence 6899999432221 00 0101 01269999999999888765
No 302
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=35.39 E-value=12 Score=35.92 Aligned_cols=61 Identities=18% Similarity=0.183 Sum_probs=38.1
Q ss_pred ccchhhhhhhcCCCCceEEecCceeeeeccccCCCCCCcccccccchhhcccceEEcCCCceEE
Q 038893 107 KLGFTKTAIQAKPDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIY 170 (235)
Q Consensus 107 ~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~p~~~a~~~f~~k~~~~~~~~~~y~C~~CGyvy 170 (235)
.+.....||..+.+--| ++.||...-+.+.- .-++.++..+-+..+.....|+|+.||-..
T Consensus 215 sF~~~r~Ai~~~~g~~i--vaNyGLdP~LGKY~-~TAC~rC~t~y~le~A~~~~wrCpkCGg~i 275 (403)
T COG1379 215 SFEELRKAIKGKDGCKI--VANYGLDPRLGKYH-LTACSRCYTRYSLEEAKSLRWRCPKCGGKI 275 (403)
T ss_pred CHHHHHHHHhcCCCceE--EEecCcCccccchh-HHHHHHhhhccCcchhhhhcccCcccccch
Confidence 35556788888766543 56667665555542 125566665544444445579999999643
No 303
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=35.24 E-value=31 Score=33.86 Aligned_cols=41 Identities=12% Similarity=0.310 Sum_probs=25.8
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCC--CccCeeeccCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQA--PKKRFARYDVNTGKPI 206 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a--~k~~F~~~~~~~~~~~ 206 (235)
-+|+.||-.-..+ -- ..|+||.|+. +...+.+++-+-..|+
T Consensus 351 p~Cp~Cg~~m~S~----G~-~g~rC~kCg~~~~~~~~~~v~r~l~~g~ 393 (421)
T COG1571 351 PVCPRCGGRMKSA----GR-NGFRCKKCGTRARETLIKEVPRDLEPGV 393 (421)
T ss_pred CCCCccCCchhhc----CC-CCcccccccccCCcccccccccccCCCC
Confidence 4899999887664 11 2899999976 4444444433333333
No 304
>PRK05333 NAD-dependent deacetylase; Provisional
Probab=35.10 E-value=32 Score=31.40 Aligned_cols=16 Identities=19% Similarity=0.256 Sum_probs=12.3
Q ss_pred cccceEEcCCCceEEe
Q 038893 156 KARATHICLDCGYIYF 171 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd 171 (235)
.....++|..|++.|.
T Consensus 124 G~~~~~~C~~C~~~~~ 139 (285)
T PRK05333 124 GRLDGVRCMGCGARHP 139 (285)
T ss_pred CCcCEEEECCCCCcCC
Confidence 3355789999998875
No 305
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=35.06 E-value=42 Score=31.46 Aligned_cols=24 Identities=21% Similarity=0.616 Sum_probs=14.2
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK 193 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~ 193 (235)
.|..|++.+.- . .-.||-|+..+.
T Consensus 212 ~CslC~teW~~------~--R~~C~~Cg~~~~ 235 (305)
T TIGR01562 212 SCSLCATEWHY------V--RVKCSHCEESKH 235 (305)
T ss_pred EcCCCCCcccc------c--CccCCCCCCCCc
Confidence 67777655432 1 237888877543
No 306
>PRK04023 DNA polymerase II large subunit; Validated
Probab=35.02 E-value=19 Score=39.04 Aligned_cols=11 Identities=27% Similarity=0.661 Sum_probs=6.7
Q ss_pred ceEEcCCCceE
Q 038893 159 ATHICLDCGYI 169 (235)
Q Consensus 159 ~~y~C~~CGyv 169 (235)
....|+.||..
T Consensus 625 g~RfCpsCG~~ 635 (1121)
T PRK04023 625 GRRKCPSCGKE 635 (1121)
T ss_pred cCccCCCCCCc
Confidence 34566666665
No 307
>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=34.97 E-value=9.8 Score=26.81 Aligned_cols=29 Identities=24% Similarity=0.511 Sum_probs=17.5
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
..+|..|+..--....+..+. -+||.|+.
T Consensus 4 eiRC~~CnklLa~~g~~~~le--IKCpRC~t 32 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIELE--IKCPRCKT 32 (51)
T ss_pred ceeccchhHHHhhhcCccEEE--EECCCCCc
Confidence 478999985544322233332 38999965
No 308
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=34.72 E-value=20 Score=33.11 Aligned_cols=42 Identities=24% Similarity=0.483 Sum_probs=27.5
Q ss_pred eEEcCCCceEEeCC---CCCCCCCCCCCCCCCCCCccCeeeccCCCC
Q 038893 160 THICLDCGYIYFLQ---KPFDELPDTYVCPQCQAPKKRFARYDVNTG 203 (235)
Q Consensus 160 ~y~C~~CGyvyd~~---tpfe~lped~~CP~C~a~k~~F~~~~~~~~ 203 (235)
..+|+.|..-||+- ..|.- .+|.||.|++.=.-|..+..++|
T Consensus 132 VSRCr~C~~rYDPVP~dkmwG~--aef~C~~C~h~F~G~~qm~v~sP 176 (278)
T PF15135_consen 132 VSRCRKCRKRYDPVPCDKMWGI--AEFHCPKCRHNFRGFAQMGVPSP 176 (278)
T ss_pred cccccccccccCCCccccccce--eeeecccccccchhhhhcCCCCC
Confidence 46888888888883 11211 25799999986556666655544
No 309
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=34.69 E-value=21 Score=39.46 Aligned_cols=11 Identities=27% Similarity=0.658 Sum_probs=7.8
Q ss_pred ceEEcCCCceE
Q 038893 159 ATHICLDCGYI 169 (235)
Q Consensus 159 ~~y~C~~CGyv 169 (235)
...+|+.||..
T Consensus 666 ~~rkCPkCG~~ 676 (1337)
T PRK14714 666 GRRRCPSCGTE 676 (1337)
T ss_pred EEEECCCCCCc
Confidence 45788888853
No 310
>TIGR00319 desulf_FeS4 desulfoferrodoxin FeS4 iron-binding domain. Neelaredoxin, a monomeric blue non-heme iron protein, lacks this domain.
Probab=34.57 E-value=29 Score=21.56 Aligned_cols=15 Identities=27% Similarity=0.397 Sum_probs=12.2
Q ss_pred cceEEcCCCceEEeC
Q 038893 158 RATHICLDCGYIYFL 172 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~ 172 (235)
...|+|..||.++.-
T Consensus 5 ~~~ykC~~Cgniv~v 19 (34)
T TIGR00319 5 GQVYKCEVCGNIVEV 19 (34)
T ss_pred CcEEEcCCCCcEEEE
Confidence 457999999988853
No 311
>TIGR03394 indol_phenyl_DC indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family. A family of closely related, thiamine pyrophosphate-dependent enzymes includes indolepyruvate decarboxylase (EC 4.1.1.74), phenylpyruvate decarboxylase (EC 4.1.1.43), pyruvate decarboxylase (EC 4.1.1.1), branched-chain alpha-ketoacid decarboxylase, etc.. Members of this group of homologs may overlap in specificity. This model represents a clade that includes a Azospirillum brasilense member active as both phenylpyruvate decarboxylase and indolepyruvate decarboxylase.
Probab=34.45 E-value=47 Score=32.80 Aligned_cols=75 Identities=13% Similarity=0.070 Sum_probs=44.7
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEE--EeecchHHHHhcCCcCcceeeeccccC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVIT--AVEGGGNAAKAGLKSGDQVLYTSSFFG 99 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa--~~isG~~a~~~Gi~~gD~i~~~s~~fG 99 (235)
..|.|....+-.+.+.+||+++|+.+-.| ...| |+ +-. +-.+|+. .+..+..+...-++..|+|..+.+.|+
T Consensus 207 ~~G~g~~~~~a~~~l~~lae~~~~pv~tT-~~gk--g~-~pe--~hpl~~G~~~G~~~~~~~~~~l~~aDliL~iG~~l~ 280 (535)
T TIGR03394 207 MVCVEVRRYGLEAKVAELAQRLGVPVVTT-FMGR--GL-LAD--APTPPLGTYLGVAGDAELSRLVEESDGLLLLGVILS 280 (535)
T ss_pred EEChhhcccCcHHHHHHHHHHhCCCEEEc-cccC--cC-CCC--CCccccccccCCCCCHHHHHHHHhCCEEEEECCccc
Confidence 34788776677889999999999998543 1111 21 111 1112322 111233333334788999999998888
Q ss_pred CCc
Q 038893 100 DEL 102 (235)
Q Consensus 100 ~~l 102 (235)
+.-
T Consensus 281 ~~~ 283 (535)
T TIGR03394 281 DTN 283 (535)
T ss_pred ccc
Confidence 753
No 312
>cd00974 DSRD Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small, single-domain homodimeric protein; each subunit contains an iron atom bound to four cysteinyl sulfur atoms, Fe(S-Cys)4, in a distorted tetrahedral coordination. Its metal center is similar to that found in rubredoxin type proteins. Desulforedoxin is regarded as a potential redox partner for rubredoxin. Desulfoferrodoxin forms a homodimeric protein, with each protomer comprised of two domains, the N-terminal DSRD domain and C-terminal superoxide reductase-like (SORL) domain. Each domain has a distinct iron center: the DSRD iron center I, Fe(S-Cys)4; and the SORL iron center II, Fe[His4Cys(Glu)].
Probab=34.34 E-value=30 Score=21.58 Aligned_cols=13 Identities=31% Similarity=0.419 Sum_probs=11.2
Q ss_pred ceEEcCCCceEEe
Q 038893 159 ATHICLDCGYIYF 171 (235)
Q Consensus 159 ~~y~C~~CGyvyd 171 (235)
..|+|..||.+..
T Consensus 3 ~~ykC~~CGniv~ 15 (34)
T cd00974 3 EVYKCEICGNIVE 15 (34)
T ss_pred cEEEcCCCCcEEE
Confidence 4799999998885
No 313
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=34.23 E-value=23 Score=31.43 Aligned_cols=30 Identities=17% Similarity=0.368 Sum_probs=22.8
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeee
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFAR 197 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~ 197 (235)
.....|..||..-+. ..|.+|..+..+...
T Consensus 52 ~~i~~C~~C~~~te~----------d~C~ICsd~~Rd~~~ 81 (198)
T COG0353 52 ENIKHCSVCGNLTES----------DPCDICSDESRDKSQ 81 (198)
T ss_pred hcCccccccCCcCCC----------CcCcCcCCcccCCce
Confidence 457899999988755 289999877666553
No 314
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=34.21 E-value=10 Score=24.64 Aligned_cols=12 Identities=33% Similarity=0.966 Sum_probs=6.0
Q ss_pred ceEEcCCCceEE
Q 038893 159 ATHICLDCGYIY 170 (235)
Q Consensus 159 ~~y~C~~CGyvy 170 (235)
..+.|+.||-+.
T Consensus 18 ~id~C~~C~G~W 29 (41)
T PF13453_consen 18 EIDVCPSCGGIW 29 (41)
T ss_pred EEEECCCCCeEE
Confidence 345555555443
No 315
>PRK10996 thioredoxin 2; Provisional
Probab=33.93 E-value=36 Score=27.35 Aligned_cols=29 Identities=28% Similarity=0.638 Sum_probs=19.2
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
-+|+.|.-+|.- |.+-..+.-.||.|+..
T Consensus 3 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~ 31 (139)
T PRK10996 3 TVCTSCQAINRL--PDERIEDAAKCGRCGHD 31 (139)
T ss_pred EECCCCCCcCCC--CCccccCCCcCCCCCCc
Confidence 479999988865 33334444589888653
No 316
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=33.83 E-value=39 Score=32.28 Aligned_cols=28 Identities=21% Similarity=0.345 Sum_probs=19.2
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.-.|.|..||+.+.-. + +....||.|+.
T Consensus 242 g~~~~C~~c~~~~~~~--~---~~~~~C~~c~~ 269 (382)
T PRK04338 242 GYVYYCPKCLYREEVE--G---LPPEECPVCGG 269 (382)
T ss_pred eeEEECCCCCcEEEec--C---CCCCCCCCCCC
Confidence 3478999999876542 1 22348999976
No 317
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=33.80 E-value=14 Score=31.30 Aligned_cols=16 Identities=31% Similarity=0.522 Sum_probs=12.2
Q ss_pred ceEEcCCCceEEeCCC
Q 038893 159 ATHICLDCGYIYFLQK 174 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~t 174 (235)
..+.|..|||.+.+-.
T Consensus 28 ~sf~C~~CGyk~~ev~ 43 (160)
T smart00709 28 MSFECEHCGYRNNEVK 43 (160)
T ss_pred EEEECCCCCCccceEE
Confidence 4688999998887743
No 318
>PRK05580 primosome assembly protein PriA; Validated
Probab=33.65 E-value=19 Score=36.86 Aligned_cols=10 Identities=40% Similarity=1.265 Sum_probs=8.0
Q ss_pred EEcCCCceEE
Q 038893 161 HICLDCGYIY 170 (235)
Q Consensus 161 y~C~~CGyvy 170 (235)
..|..|||+.
T Consensus 382 ~~C~~Cg~~~ 391 (679)
T PRK05580 382 LLCRDCGWVA 391 (679)
T ss_pred eEhhhCcCcc
Confidence 4799998876
No 319
>PRK14529 adenylate kinase; Provisional
Probab=33.65 E-value=27 Score=30.98 Aligned_cols=34 Identities=18% Similarity=0.208 Sum_probs=20.7
Q ss_pred cccceEEcCCCceEEeCCC-CCCCCCCCCCCCCCCC
Q 038893 156 KARATHICLDCGYIYFLQK-PFDELPDTYVCPQCQA 190 (235)
Q Consensus 156 ~~~~~y~C~~CGyvyd~~t-pfe~lped~~CP~C~a 190 (235)
+-..++.|+.||.+|.-.. ++.. ++.-.|+.|+.
T Consensus 122 Rl~~R~~c~~~~~~~~~~~~~~p~-~~~~~cd~~~~ 156 (223)
T PRK14529 122 RIMGRRLCKNDNNHPNNIFIDAIK-PDGDVCRVCGG 156 (223)
T ss_pred HhhCCccccccCCcccccccCCCc-ccCCcCcCcCC
Confidence 3456899999986665432 1111 22337999975
No 320
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=33.54 E-value=30 Score=21.95 Aligned_cols=8 Identities=38% Similarity=1.049 Sum_probs=4.1
Q ss_pred eEEcCCCc
Q 038893 160 THICLDCG 167 (235)
Q Consensus 160 ~y~C~~CG 167 (235)
.|+|..|+
T Consensus 3 ~~~C~~C~ 10 (33)
T PF08792_consen 3 LKKCSKCG 10 (33)
T ss_pred ceEcCCCC
Confidence 34555555
No 321
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=33.40 E-value=52 Score=32.77 Aligned_cols=66 Identities=17% Similarity=0.109 Sum_probs=42.9
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeec
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTS 95 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s 95 (235)
+|.|....+..+.+.+||+.+|+.+-.+ ++-+.|+- +.. +-.|..+...-++..|.|..+.
T Consensus 207 ~G~g~~~~~a~~~l~~lae~~~~pv~tT~~gkg~~p~~hpl~------------~G~~g~~g~~~~~~~~~~aDlvl~lG 274 (588)
T PRK07525 207 SGAGVVLSDAIEECKALAERLDAPVACGYLHNDAFPGSHPLW------------VGPLGYNGSKAAMELIAKADVVLALG 274 (588)
T ss_pred ECCCccccChHHHHHHHHHHhCCCeEEcccccccCCCCCccc------------cccCcccCcHHHHHHHHhCCEEEEEC
Confidence 4788777777899999999999988544 23333332 211 1122233333378899999998
Q ss_pred cccCC
Q 038893 96 SFFGD 100 (235)
Q Consensus 96 ~~fG~ 100 (235)
+.|++
T Consensus 275 ~~l~~ 279 (588)
T PRK07525 275 TRLNP 279 (588)
T ss_pred CCCch
Confidence 87764
No 322
>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=33.26 E-value=27 Score=23.20 Aligned_cols=11 Identities=45% Similarity=1.334 Sum_probs=6.7
Q ss_pred CCCCCCCCCCC
Q 038893 181 DTYVCPQCQAP 191 (235)
Q Consensus 181 ed~~CP~C~a~ 191 (235)
+..+||-|+..
T Consensus 17 ~g~~CP~Cg~~ 27 (46)
T PF12760_consen 17 DGFVCPHCGST 27 (46)
T ss_pred CCCCCCCCCCe
Confidence 34567777665
No 323
>smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase. This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Probab=33.10 E-value=33 Score=22.46 Aligned_cols=17 Identities=35% Similarity=0.948 Sum_probs=12.4
Q ss_pred CCCCCCCCccCeeeccCCC
Q 038893 184 VCPQCQAPKKRFARYDVNT 202 (235)
Q Consensus 184 ~CP~C~a~k~~F~~~~~~~ 202 (235)
.||.|+. +++|. +.+.+
T Consensus 5 pCP~CGG-~DrFr-~~d~~ 21 (37)
T smart00778 5 PCPNCGG-SDRFR-FDDKD 21 (37)
T ss_pred CCCCCCC-ccccc-cccCC
Confidence 7999964 78888 65533
No 324
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=33.02 E-value=28 Score=19.91 Aligned_cols=13 Identities=23% Similarity=0.593 Sum_probs=10.5
Q ss_pred eEEcCCCceEEeC
Q 038893 160 THICLDCGYIYFL 172 (235)
Q Consensus 160 ~y~C~~CGyvyd~ 172 (235)
.|+|..|+-.|..
T Consensus 1 ~~~C~~C~~~F~~ 13 (27)
T PF13912_consen 1 PFECDECGKTFSS 13 (27)
T ss_dssp SEEETTTTEEESS
T ss_pred CCCCCccCCccCC
Confidence 3789999988854
No 325
>TIGR03254 oxalate_oxc oxalyl-CoA decarboxylase. In a number of bacteria, including Oxalobacter formigenes from the human gut, a two-gene operon of oxc (oxalyl-CoA decarboxylase) and frc (formyl-CoA transferase) encodes a system for degrading and therefore detoxifying oxalate. Members of this family are the thiamine pyrophosphate (TPP)-containing enzyme oxalyl-CoA decarboxylase.
Probab=32.93 E-value=32 Score=33.88 Aligned_cols=99 Identities=10% Similarity=-0.020 Sum_probs=55.3
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS 95 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s 95 (235)
..|.|....+..+.+.+||+++|+.+-.+ ++-++|+-+ | .....-++..|.|..+.
T Consensus 212 ~~G~g~~~~~a~~~l~~lae~~~~pv~tt~~gkg~~p~~hp~~~-----------------g-~~~~~~~~~aDlvl~lG 273 (554)
T TIGR03254 212 LLGKGAAYAQADEEIREFVEKTGIPFLPMSMAKGLLPDTHPQSA-----------------A-AARSFALAEADVVMLVG 273 (554)
T ss_pred EECCCccccChHHHHHHHHHHHCCCEEEcCCcceeCCCCCchhh-----------------h-HHHHHHHhcCCEEEEEC
Confidence 34777776677889999999999988544 232334321 1 11122367899999999
Q ss_pred cccCCCc---cccC-ccchhhhhhhcCCCCceEEe-cCceeeeecccc
Q 038893 96 SFFGDEL---WPAD-KLGFTKTAIQAKPDSVYFVV-NRGGADVDVKRL 138 (235)
Q Consensus 96 ~~fG~~l---W~~~-~~g~~i~AIn~~~~a~if~~-~~~g~~~d~~~~ 138 (235)
+.|.+.. |+.. .....++=|+.|++...... .+..+..|+...
T Consensus 274 ~~~~~~~~~~~~~~~~~~~~vI~id~d~~~~~~~~~~~~~i~~D~~~~ 321 (554)
T TIGR03254 274 ARLNWLLSHGKGKLWGEDAKFIQVDIEPTEMDSNRPIAAPVVGDIGSV 321 (554)
T ss_pred CCCchhhccCchhhcCCCCcEEEcCCCHHHhCCCcCCceEEecCHHHH
Confidence 8887432 3211 11233444555543322111 234566676654
No 326
>COG4332 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.73 E-value=11 Score=33.21 Aligned_cols=33 Identities=9% Similarity=0.223 Sum_probs=22.6
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY 198 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~ 198 (235)
-.|+|.+|.|..+- .+-+ +||.|.-...-.+.+
T Consensus 48 lIYkC~~Cd~tWN~-----~Ife--R~~~~~Iep~lleal 80 (203)
T COG4332 48 LIYKCTHCDYTWNI-----SIFE--RLNVSDIEPDLLEAL 80 (203)
T ss_pred EEEEeeccCCccch-----hhhh--ccCcccCCHHHHHHH
Confidence 36899999999977 2323 888886655444433
No 327
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=32.68 E-value=25 Score=28.75 Aligned_cols=31 Identities=23% Similarity=0.565 Sum_probs=21.9
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
-.|+|..||..|-..+...+ +..++|-.|+.
T Consensus 111 ~~y~C~~C~~~~~~~rr~~~-~~~y~C~~C~g 141 (146)
T smart00731 111 YPYRCTGCGQRYLRVRRSNN-VSRYRCGKCGG 141 (146)
T ss_pred EEEECCCCCCCCceEccccC-cceEEcCCCCC
Confidence 47999999987754433333 26689999975
No 328
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.60 E-value=19 Score=31.58 Aligned_cols=39 Identities=33% Similarity=0.554 Sum_probs=22.1
Q ss_pred ceEEcCCCceEEeCCCCC--------------CCCCCCCCCCCCC--CCccCeee
Q 038893 159 ATHICLDCGYIYFLQKPF--------------DELPDTYVCPQCQ--APKKRFAR 197 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpf--------------e~lped~~CP~C~--a~k~~F~~ 197 (235)
..|.|++|=--|.+..++ +.+....+||+|+ -.+.+|-.
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~r 184 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHR 184 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhhee
Confidence 358888876555554222 1233355899998 34444443
No 329
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=32.60 E-value=30 Score=33.03 Aligned_cols=37 Identities=24% Similarity=0.659 Sum_probs=18.7
Q ss_pred ceEEcCCCceEEeCC------------------------------CCCCCCCCCCCCCCCCCCccCeeec
Q 038893 159 ATHICLDCGYIYFLQ------------------------------KPFDELPDTYVCPQCQAPKKRFARY 198 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~------------------------------tpfe~lped~~CP~C~a~k~~F~~~ 198 (235)
..|.|..|-|+|.-. +.++.+|. ..|+.|+.. .|+..
T Consensus 251 kav~C~~C~yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~C~~Rt~sl~r~P~-~~C~~Cg~~--~wer~ 317 (344)
T PF09332_consen 251 KAVTCKQCKYTAFKPSDRCKEEGHPLKWHDAVKRFFKCKDCGNRTISLERLPK-KHCSNCGSS--KWERT 317 (344)
T ss_dssp EEEEETTT--EESS--HHHHHTT--EEEEEEE-EEEE-T-TS-EEEESSSS---S--TTT-S-----EEE
T ss_pred EEEEcCCCCCcccCcchhHHhcCCceEEeeeeeeeEECCCCCCeeeecccCCC-CCCCcCCcC--ceeeh
Confidence 467888888888765 35677776 489999864 57764
No 330
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=32.56 E-value=38 Score=29.16 Aligned_cols=73 Identities=15% Similarity=0.104 Sum_probs=44.8
Q ss_pred ccCCccc-ccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCc-EEE-EEeecchHHHHhcC---CcCcceeeecc
Q 038893 23 VSKTKNA-TRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGG-VVI-TAVEGGGNAAKAGL---KSGDQVLYTSS 96 (235)
Q Consensus 23 ~~~~~~~-~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~-vyI-a~~isG~~a~~~Gi---~~gD~i~~~s~ 96 (235)
.|.|... .+..+.+.++|+.++..+..+.. --.|+ +++.+.++ .++ ..+.-+....+-|+ ...|.|.++.+
T Consensus 41 vG~ga~~~~ea~e~l~elaEkl~iPVvtT~~--~~~~~-~~kgv~~~~~~lg~lg~~~~~p~~e~~~g~~~~DlvlfvG~ 117 (171)
T PRK00945 41 VGSLLLDDEELLDRAVKIAKKANIPVAATGG--SYKGL-IDKGVDAKYINLHELTNYLKDPNWKGLDGNGNYDLVIFIGV 117 (171)
T ss_pred ECcCccccchHHHHHHHHHHHHCCCEEEccc--ccccc-ccCCccCCcccHHHHHhhccCchhhhhcCCCCcCEEEEecC
Confidence 4777665 77788999999999998854432 12223 44444443 222 23333344455566 67888887777
Q ss_pred cc
Q 038893 97 FF 98 (235)
Q Consensus 97 ~f 98 (235)
.|
T Consensus 118 ~~ 119 (171)
T PRK00945 118 TY 119 (171)
T ss_pred Cc
Confidence 76
No 331
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=32.54 E-value=21 Score=35.81 Aligned_cols=32 Identities=38% Similarity=0.800 Sum_probs=20.6
Q ss_pred EEcCCCceEEeCC---CCCC--CCC--CCCCCCCCCCCc
Q 038893 161 HICLDCGYIYFLQ---KPFD--ELP--DTYVCPQCQAPK 192 (235)
Q Consensus 161 y~C~~CGyvyd~~---tpfe--~lp--ed~~CP~C~a~k 192 (235)
+.|+.||+-+..+ ..|+ +.| ..+.||.|+..-
T Consensus 201 vpCPhCg~~~~l~~~~l~w~~~~~~~~a~y~C~~Cg~~i 239 (557)
T PF05876_consen 201 VPCPHCGEEQVLEWENLKWDKGEAPETARYVCPHCGCEI 239 (557)
T ss_pred ccCCCCCCCccccccceeecCCCCccceEEECCCCcCCC
Confidence 4999999877664 1221 122 257999998753
No 332
>TIGR00118 acolac_lg acetolactate synthase, large subunit, biosynthetic type. Several isozymes of this enzyme are found in E. coli K12, one of which contains a frameshift in the large subunit gene and is not expressed.
Probab=32.09 E-value=46 Score=32.73 Aligned_cols=74 Identities=15% Similarity=0.121 Sum_probs=43.9
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
..|.|....+..+.+.+||+.+|+.+-.+. . --|. +..+ .| +|+.. +..|......-++..|+|..+.+.|++
T Consensus 207 ~~G~g~~~~~a~~~l~~lae~l~~pv~tt~-~--~kg~-~~e~-hp-~~~G~~g~~~~~~~~~~l~~aD~vl~lG~~~~~ 280 (558)
T TIGR00118 207 LVGGGVIIAGASEELKELAERIQIPVTTTL-M--GLGS-FPED-HP-LSLGMLGMHGTKTANLAVHECDLIIAVGARFDD 280 (558)
T ss_pred EECCCccccchHHHHHHHHHHhCCCEEEcc-c--cCCC-CCCC-Cc-cccCCCCCCCCHHHHHHHHhCCEEEEECCCCCc
Confidence 347777766678899999999999985441 1 1122 1111 11 23221 222222222336889999999988876
Q ss_pred C
Q 038893 101 E 101 (235)
Q Consensus 101 ~ 101 (235)
.
T Consensus 281 ~ 281 (558)
T TIGR00118 281 R 281 (558)
T ss_pred c
Confidence 4
No 333
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=31.84 E-value=44 Score=30.81 Aligned_cols=47 Identities=32% Similarity=0.404 Sum_probs=32.8
Q ss_pred CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC
Q 038893 66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK 118 (235)
Q Consensus 66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~ 118 (235)
..+++|....+++.++++|++.||+|+.+. .++.......+.++...
T Consensus 269 ~~G~~V~~v~~~spa~~agi~~Gdii~~vn------g~~v~~~~~l~~~v~~~ 315 (347)
T COG0265 269 AAGAVVLGVLPGSPAAKAGIKAGDIITAVN------GKPVASLSDLVAAVASN 315 (347)
T ss_pred CCceEEEecCCCChHHHcCCCCCCEEEEEC------CEEccCHHHHHHHHhcc
Confidence 445999999999999999999999874433 33444444444444433
No 334
>PRK00279 adk adenylate kinase; Reviewed
Probab=31.76 E-value=37 Score=29.00 Aligned_cols=32 Identities=22% Similarity=0.446 Sum_probs=22.2
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
...+..|+.||.+|.-...+.. ..-.|..|+.
T Consensus 124 l~~R~~~~~~g~~~~~~~~~p~--~~~~~~~~~~ 155 (215)
T PRK00279 124 LSGRRICPACGRTYHVKFNPPK--VEGKCDVCGE 155 (215)
T ss_pred HhCCcccCccCCcccccCCCCC--CcCcCcCCCC
Confidence 3457899999999988632222 3347888873
No 335
>cd01409 SIRT4 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=31.73 E-value=30 Score=31.28 Aligned_cols=14 Identities=29% Similarity=0.690 Sum_probs=11.6
Q ss_pred cceEEcCCCceEEe
Q 038893 158 RATHICLDCGYIYF 171 (235)
Q Consensus 158 ~~~y~C~~CGyvyd 171 (235)
....+|..|++.|+
T Consensus 116 ~~~~~C~~C~~~~~ 129 (260)
T cd01409 116 LHRVVCLSCGFRTP 129 (260)
T ss_pred cCEEEeCCCcCccC
Confidence 45689999999985
No 336
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms. Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.
Probab=31.57 E-value=37 Score=32.85 Aligned_cols=33 Identities=27% Similarity=0.531 Sum_probs=19.7
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..|+|+.||+.-.--..++...+...||.|+.+
T Consensus 319 ~~~rc~~c~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (403)
T TIGR03676 319 VTFKCPNCGYEEEKTVKPEEGDKSEACPKCGSE 351 (403)
T ss_pred EEEEcCCCCcceeeecccccccccccCcccCcc
Confidence 459999999864321111222222579999876
No 337
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 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 IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (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 eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=31.56 E-value=34 Score=22.20 Aligned_cols=12 Identities=25% Similarity=0.758 Sum_probs=10.2
Q ss_pred ceEEcCCCceEE
Q 038893 159 ATHICLDCGYIY 170 (235)
Q Consensus 159 ~~y~C~~CGyvy 170 (235)
..|+|..||+.+
T Consensus 27 ~fy~C~~C~~~w 38 (39)
T PF01096_consen 27 LFYVCCNCGHRW 38 (39)
T ss_dssp EEEEESSSTEEE
T ss_pred EEEEeCCCCCee
Confidence 468999999976
No 338
>PRK07524 hypothetical protein; Provisional
Probab=31.54 E-value=26 Score=34.33 Aligned_cols=105 Identities=14% Similarity=0.069 Sum_probs=53.7
Q ss_pred cCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEeecchHH-HHhcCCcCcceeeeccccCCCc
Q 038893 24 SKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNA-AKAGLKSGDQVLYTSSFFGDEL 102 (235)
Q Consensus 24 ~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~isG~~a-~~~Gi~~gD~i~~~s~~fG~~l 102 (235)
|.|.. +..+.+.+||+++|+.+-.+. .. -|. +..+ .| +|+ |..|+.. ...=++..|.|..+.+.|+..-
T Consensus 209 G~g~~--~a~~~l~~lae~l~~pV~tt~-~~--kg~-~p~~-hp-~~~--G~~~~~~~~~~~~~~aDlvl~vG~~~~~~~ 278 (535)
T PRK07524 209 GGGAL--AAAAALRALAERLDAPVALTI-NA--KGL-LPAG-HP-LLL--GASQSLPAVRALIAEADVVLAVGTELGETD 278 (535)
T ss_pred CCChH--HHHHHHHHHHHHHCCCEEEcc-cc--ccc-CCCC-Ch-hhc--cCCCCCHHHHHHHHhCCEEEEeCCCcCccc
Confidence 66654 345789999999999985441 11 111 1111 11 222 1223221 1122678999999988776432
Q ss_pred ----cccC-ccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 103 ----WPAD-KLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 103 ----W~~~-~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
|... .....++-|+.|+....-. -.+..+.+|.+..
T Consensus 279 ~~~~~~~~~~~~~~~i~id~d~~~~~~~~~~~~~i~~D~~~~ 320 (535)
T PRK07524 279 YDVYFDGGFPLPGELIRIDIDPDQLARNYPPALALVGDARAA 320 (535)
T ss_pred cccccccccCCCCCEEEEECCHHHhCCCcCCCceEecCHHHH
Confidence 1111 1123356667666432111 1344677776554
No 339
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=31.11 E-value=28 Score=36.39 Aligned_cols=31 Identities=29% Similarity=0.625 Sum_probs=24.1
Q ss_pred cceE-EcCCCceEEeCC--CCCCCCCCCCCCCCCCC
Q 038893 158 RATH-ICLDCGYIYFLQ--KPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y-~C~~CGyvyd~~--tpfe~lped~~CP~C~a 190 (235)
|..+ .|+.|-..|..- ..|...|- .||.||-
T Consensus 148 M~~F~lC~~C~~EY~dP~nRRfHAQp~--aCp~CGP 181 (750)
T COG0068 148 MADFPLCPFCDKEYKDPLNRRFHAQPI--ACPKCGP 181 (750)
T ss_pred cccCcCCHHHHHHhcCccccccccccc--cCcccCC
Confidence 4445 899999888654 68888888 9999964
No 340
>PTZ00410 NAD-dependent SIR2; Provisional
Probab=30.94 E-value=21 Score=34.14 Aligned_cols=41 Identities=17% Similarity=0.408 Sum_probs=23.1
Q ss_pred cceEEcCCCceEEeCCCCCCCC--CCCCCCCCCCCC-ccCeeec
Q 038893 158 RATHICLDCGYIYFLQKPFDEL--PDTYVCPQCQAP-KKRFARY 198 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~l--ped~~CP~C~a~-k~~F~~~ 198 (235)
....+|..|+..|+-+...... ..-..||.|+.. |....-+
T Consensus 145 l~~~~C~~C~~~~~~~~~~~~~~~~~vP~C~~CgG~lRPdVVlF 188 (349)
T PTZ00410 145 FSAASCIECHTPYDIEQAYLEARSGKVPHCSTCGGIVKPDVVFF 188 (349)
T ss_pred CCeeEeCCCCCCcchhHHHHHhhcCCCCCCCCCCCccCCcEEec
Confidence 4568999999988754211110 011369999753 4443333
No 341
>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.
Probab=30.90 E-value=35 Score=22.69 Aligned_cols=18 Identities=39% Similarity=0.861 Sum_probs=10.5
Q ss_pred CCCCCCCCccCeeeccCCC
Q 038893 184 VCPQCQAPKKRFARYDVNT 202 (235)
Q Consensus 184 ~CP~C~a~k~~F~~~~~~~ 202 (235)
.||.|+. +++|..+.+..
T Consensus 5 pCP~CGG-~DrFri~~d~~ 22 (40)
T PF08273_consen 5 PCPICGG-KDRFRIFDDKD 22 (40)
T ss_dssp --TTTT--TTTEEEETT--
T ss_pred CCCCCcC-ccccccCcCcc
Confidence 6999954 88998666543
No 342
>PF08772 NOB1_Zn_bind: Nin one binding (NOB1) Zn-ribbon like; InterPro: IPR014881 This entry corresponds to a zinc ribbon and is found on the RNA binding protein NOB1. ; PDB: 2CON_A.
Probab=30.77 E-value=42 Score=25.14 Aligned_cols=25 Identities=24% Similarity=0.436 Sum_probs=12.7
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
..+|-.|-.++... ...-||.||..
T Consensus 9 vlrC~aCf~~t~~~-------~k~FCp~CGn~ 33 (73)
T PF08772_consen 9 VLRCHACFKITKDM-------TKQFCPKCGNA 33 (73)
T ss_dssp EEE-SSS--EES-S-------S--S-SSS--S
T ss_pred eEEccccccCcCCC-------CceeCcccCCC
Confidence 45999999999652 34689999876
No 343
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.69 E-value=29 Score=28.12 Aligned_cols=10 Identities=20% Similarity=0.467 Sum_probs=5.1
Q ss_pred EEcCCCceEE
Q 038893 161 HICLDCGYIY 170 (235)
Q Consensus 161 y~C~~CGyvy 170 (235)
|.|+.|+--|
T Consensus 2 Y~CPrC~skv 11 (112)
T TIGR00622 2 YFCPQCRAKV 11 (112)
T ss_pred ccCCCCCCCc
Confidence 4555555444
No 344
>TIGR00354 polC DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.
Probab=30.57 E-value=32 Score=37.20 Aligned_cols=27 Identities=26% Similarity=0.527 Sum_probs=21.8
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.+.++|..||--|.. .|-.-+||.||.
T Consensus 1010 rQ~fRC~kC~~kYRR------~PL~G~C~kCGg 1036 (1095)
T TIGR00354 1010 RQEVRCTKCNTKYRR------IPLVGKCLKCGN 1036 (1095)
T ss_pred ccceeecccCCcccc------CCCCCcccccCC
Confidence 346999999999966 455669999987
No 345
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=30.50 E-value=31 Score=24.67 Aligned_cols=27 Identities=44% Similarity=0.835 Sum_probs=20.7
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.-.|..||.|+=.. +-| ...||-|+.+
T Consensus 18 ~~NCl~CGkIiC~~----Eg~-~~pC~fCg~~ 44 (57)
T PF06221_consen 18 APNCLNCGKIICEQ----EGP-LGPCPFCGTP 44 (57)
T ss_pred cccccccChhhccc----ccC-cCcCCCCCCc
Confidence 45899999999874 443 3589999865
No 346
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=30.50 E-value=28 Score=34.24 Aligned_cols=106 Identities=9% Similarity=0.020 Sum_probs=53.9
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCCC
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGDE 101 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~~ 101 (235)
.|.|.. +.-+.+++||+++|+.+-.+. .-.|. +-.+ .| +|+.. +..|......-++..|.|..+.+.|+..
T Consensus 202 ~G~g~~--~a~~~l~~lAe~~~~PV~tt~---~gkg~-~~~~-hp-~~~G~~g~~~~~~~~~~l~~aDlvl~lG~~~~~~ 273 (549)
T PRK06457 202 IGGGTR--GLGKEINRFAEKIGAPIIYTL---NGKGI-LPDL-DP-KVMGGIGLLGTKPSIEAMDKADLLIMLGTSFPYV 273 (549)
T ss_pred ECcchh--hHHHHHHHHHHHHCCCEEEcc---ccccc-CCCC-Ch-hhccCCCCCCCHHHHHHHHhCCEEEEECCCCChh
Confidence 366654 234789999999999985441 11121 1111 11 22211 1112222222367899999999888754
Q ss_pred ccccCccchhhhhhhcCCCCceE-EecCceeeeecccc
Q 038893 102 LWPADKLGFTKTAIQAKPDSVYF-VVNRGGADVDVKRL 138 (235)
Q Consensus 102 lW~~~~~g~~i~AIn~~~~a~if-~~~~~g~~~d~~~~ 138 (235)
-|... +..++-|+.|+....- ...+..+..|++..
T Consensus 274 ~~~~~--~~~ii~id~d~~~~~~~~~~~~~i~~d~~~~ 309 (549)
T PRK06457 274 NFLNK--SAKVIQVDIDNSNIGKRLDVDLSYPIPVAEF 309 (549)
T ss_pred hcCCC--CCcEEEEeCCHHHhCCCCCCCeEEecCHHHH
Confidence 44222 2234556666543211 12344566676654
No 347
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=30.46 E-value=35 Score=22.29 Aligned_cols=13 Identities=23% Similarity=0.613 Sum_probs=10.5
Q ss_pred ceEEcCCCceEEe
Q 038893 159 ATHICLDCGYIYF 171 (235)
Q Consensus 159 ~~y~C~~CGyvyd 171 (235)
.-|+|..|||.+-
T Consensus 27 ~fy~C~~C~~~w~ 39 (40)
T smart00440 27 VFYVCTKCGHRWR 39 (40)
T ss_pred EEEEeCCCCCEeC
Confidence 4689999999763
No 348
>COG5349 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.42 E-value=18 Score=29.93 Aligned_cols=27 Identities=22% Similarity=0.550 Sum_probs=19.3
Q ss_pred eEEcCCCc--eEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCG--YIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CG--yvyd~~tpfe~lped~~CP~C~a~ 191 (235)
+-+|+.|| +.|++ |=+.-+ +|-.|+.+
T Consensus 21 ~grCP~CGeGrLF~g---FLK~~p--~C~aCG~d 49 (126)
T COG5349 21 RGRCPRCGEGRLFRG---FLKVVP--ACEACGLD 49 (126)
T ss_pred cCCCCCCCCchhhhh---hcccCc--hhhhcccc
Confidence 57999998 67777 334433 89999864
No 349
>PHA00732 hypothetical protein
Probab=30.25 E-value=30 Score=25.97 Aligned_cols=28 Identities=21% Similarity=0.459 Sum_probs=16.6
Q ss_pred EEcCCCceEEeCCC------CCCCCCCCCCCCCCCC
Q 038893 161 HICLDCGYIYFLQK------PFDELPDTYVCPQCQA 190 (235)
Q Consensus 161 y~C~~CGyvyd~~t------pfe~lped~~CP~C~a 190 (235)
|+|..||+.+.... .-...+ +.|+.|+.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~--~~C~~CgK 35 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHTL--TKCPVCNK 35 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccCC--CccCCCCC
Confidence 67888888876541 111112 37888865
No 350
>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []. It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.
Probab=30.24 E-value=34 Score=26.09 Aligned_cols=15 Identities=20% Similarity=0.673 Sum_probs=9.1
Q ss_pred cceEEcCCCceEEeC
Q 038893 158 RATHICLDCGYIYFL 172 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~ 172 (235)
|..|+|+.||..++-
T Consensus 63 Ms~~~Cp~Cg~~~~i 77 (81)
T PF10609_consen 63 MSYFVCPHCGERIYI 77 (81)
T ss_dssp T-EEE-TTT--EEET
T ss_pred CCccCCCCCCCeecC
Confidence 778999999988864
No 351
>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]
Probab=30.06 E-value=52 Score=34.25 Aligned_cols=30 Identities=23% Similarity=0.522 Sum_probs=19.0
Q ss_pred cceEEcCCCceEEeCCCC-CCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKP-FDELPDTYVCPQC 188 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tp-fe~lped~~CP~C 188 (235)
...|.|+.||+...-... +... ..-.||.|
T Consensus 127 ~~~~~C~~Cg~~~~~~~~~~~~~-~~~~C~~~ 157 (682)
T COG1241 127 KAVFECPKCGREVEVEQSEFRVE-PPRECENC 157 (682)
T ss_pred EEEEEcCCCCCEEEEEecccccc-CCccCCCc
Confidence 457999999987766421 1111 12379999
No 352
>PRK06048 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=30.06 E-value=59 Score=32.09 Aligned_cols=111 Identities=14% Similarity=0.068 Sum_probs=56.2
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
..|.|....+..+.+.+||+++|+.+-.+.. -.|. +-.+ . .+|+.. +..|......-++.+|+|..+.+.|.+
T Consensus 213 l~G~g~~~~~a~~~l~~lae~lg~pV~tt~~---~kg~-~~~~-h-pl~~G~~g~~~~~~~~~~l~~aD~vl~lG~~~~~ 286 (561)
T PRK06048 213 YAGGGVISSNASEELVELAETIPAPVTTTLM---GIGA-IPTE-H-PLSLGMLGMHGTKYANYAIQESDLIIAVGARFDD 286 (561)
T ss_pred EECCCcccccHHHHHHHHHHHhCCCEEEccc---cCcc-CCCC-C-ccccCCCCCCCCHHHHHHHHhCCEEEEECCCCCc
Confidence 3478877667788999999999999854411 1111 1111 1 122211 111211112237889999999888875
Q ss_pred Cc---cccCccchhhhhhhcCCCCce-EEecCceeeeecccc
Q 038893 101 EL---WPADKLGFTKTAIQAKPDSVY-FVVNRGGADVDVKRL 138 (235)
Q Consensus 101 ~l---W~~~~~g~~i~AIn~~~~a~i-f~~~~~g~~~d~~~~ 138 (235)
.. |..-.....++-|+.|+...- ....+..+.+|+...
T Consensus 287 ~~~~~~~~~~~~~~~I~id~d~~~~~~~~~~~~~i~~D~~~~ 328 (561)
T PRK06048 287 RVTGKLASFAPNAKIIHIDIDPAEISKNVKVDVPIVGDAKQV 328 (561)
T ss_pred cccCChhhcCCCCeEEEEECCHHHhCCCCCCCeEEEeCHHHH
Confidence 21 111111122344555543211 111244577776654
No 353
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=29.85 E-value=17 Score=32.04 Aligned_cols=19 Identities=32% Similarity=0.527 Sum_probs=0.0
Q ss_pred ceEEcCCCc-eEEeCCCCCC
Q 038893 159 ATHICLDCG-YIYFLQKPFD 177 (235)
Q Consensus 159 ~~y~C~~CG-yvyd~~tpfe 177 (235)
..|.|-+|| ++|-+...|+
T Consensus 100 ~ey~CEICGN~~Y~GrkaFe 119 (196)
T PF11931_consen 100 VEYKCEICGNQSYKGRKAFE 119 (196)
T ss_dssp --------------------
T ss_pred CeeeeEeCCCcceecHHHHH
Confidence 369999999 7887764444
No 354
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins.
Probab=29.76 E-value=24 Score=25.79 Aligned_cols=8 Identities=38% Similarity=0.920 Sum_probs=3.9
Q ss_pred EEcCCCce
Q 038893 161 HICLDCGY 168 (235)
Q Consensus 161 y~C~~CGy 168 (235)
|+|+.||.
T Consensus 1 y~C~KCg~ 8 (64)
T PF09855_consen 1 YKCPKCGN 8 (64)
T ss_pred CCCCCCCC
Confidence 44555553
No 355
>PF06957 COPI_C: Coatomer (COPI) alpha subunit C-terminus; InterPro: IPR010714 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the C terminus (approximately 500 residues) of the eukaryotic coatomer alpha subunit [, ]. This domain is found along with the IPR006692 from INTERPRO domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat; PDB: 3MKR_B 3MV2_E 3MKQ_B 3MV3_A.
Probab=29.67 E-value=33 Score=33.66 Aligned_cols=25 Identities=28% Similarity=0.689 Sum_probs=15.5
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.-+|+.||-.|.++. ....||+|+.
T Consensus 380 ~v~CP~cgA~y~~~~------kG~lC~vC~l 404 (422)
T PF06957_consen 380 SVKCPYCGAKYHPEY------KGQLCPVCEL 404 (422)
T ss_dssp EEE-TTT--EEEGGG------TTSB-TTTTT
T ss_pred CeeCCCCCCccChhh------CCCCCCCCcc
Confidence 468999999998841 2458999965
No 356
>COG0178 UvrA Excinuclease ATPase subunit [DNA replication, recombination, and repair]
Probab=29.67 E-value=35 Score=36.47 Aligned_cols=32 Identities=22% Similarity=0.454 Sum_probs=21.9
Q ss_pred ceEEcCCCceEEeCCC--CCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQK--PFDELPDTYVCPQCQA 190 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~t--pfe~lped~~CP~C~a 190 (235)
..+-|+.||+.|.+-. -|.-....-.||.|..
T Consensus 244 ~~~acp~~g~~~~eleprlFSFNsP~GaCp~C~G 277 (935)
T COG0178 244 ENFACPVCGFSIPELEPRLFSFNSPFGACPTCDG 277 (935)
T ss_pred cccCCCccCcccCCCCcccccCCCCCCCCCcCCC
Confidence 3579999999998872 2333223348999954
No 357
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=29.61 E-value=43 Score=32.98 Aligned_cols=110 Identities=11% Similarity=0.032 Sum_probs=57.0
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEE-EeecchHHHHhcCCcCcceeeeccccCCC
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVIT-AVEGGGNAAKAGLKSGDQVLYTSSFFGDE 101 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa-~~isG~~a~~~Gi~~gD~i~~~s~~fG~~ 101 (235)
.|.|....+..+.+.+||+.+|+.+-.+. .--|+ +..+ .| +|+. .+..+..+...-++..|.|..+.+.|.+.
T Consensus 211 ~G~g~~~~~a~~~l~~lae~~~~pV~tt~---~~kg~-~~~~-hp-~~~G~~g~~~~~~~~~~l~~aDlvl~lG~~~~~~ 284 (557)
T PRK08199 211 LGGSGWTEAAVADLRAFAERWGLPVACAF---RRQDL-FDNR-HP-NYAGDLGLGINPALAARIREADLVLAVGTRLGEV 284 (557)
T ss_pred ECCCcCchhHHHHHHHHHHHhCCCEEEcC---CcCCC-CCCC-Ch-hhccCCcCcCCHHHHHHHHhCCEEEEeCCCCccc
Confidence 47777656668899999999999985441 11122 1111 11 2221 11122223333467899999999888653
Q ss_pred c---cccCc---cchhhhhhhcCCCCceE-EecCceeeeecccc
Q 038893 102 L---WPADK---LGFTKTAIQAKPDSVYF-VVNRGGADVDVKRL 138 (235)
Q Consensus 102 l---W~~~~---~g~~i~AIn~~~~a~if-~~~~~g~~~d~~~~ 138 (235)
. |..-. ....++-|+.|+....- ...+..+..|....
T Consensus 285 ~~~~~~~~~~~~~~~~~i~vd~d~~~~~~~~~~~~~i~~D~~~~ 328 (557)
T PRK08199 285 TTQGYTLLDIPVPRQTLVHVHPDAEELGRVYRPDLAIVADPAAF 328 (557)
T ss_pred cccccccccccCCCCeEEEEeCCHHHhCCccCCCeEEecCHHHH
Confidence 2 22111 12234456655542110 01244566665543
No 358
>PRK06276 acetolactate synthase catalytic subunit; Reviewed
Probab=29.51 E-value=58 Score=32.43 Aligned_cols=72 Identities=11% Similarity=0.085 Sum_probs=41.1
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
.|.|....+..+.+.+||+++|+.+-.+. ..| |. +..+ . .+|+.. +..|..+...-++..|+|..+.+.|.+
T Consensus 210 ~G~g~~~~~a~~~l~~lae~~~~pv~tt~-~~k--g~-~p~~-h-p~~~G~~G~~~~~~~~~~l~~aD~vl~lG~~~~~ 282 (586)
T PRK06276 210 AGGGVIISGASEELIELSELVKIPVCTTL-MGK--GA-FPED-H-PLALGMVGMHGTKAANYSVTESDVLIAIGCRFSD 282 (586)
T ss_pred ECCCcCcccHHHHHHHHHHHHCCCEEEcC-CCC--cc-CCCC-C-cccccCCCCCCCHHHHHHHHcCCEEEEECCCCCc
Confidence 47776655667889999999999985441 111 11 1111 1 122211 222222222336789999998888764
No 359
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=29.39 E-value=25 Score=36.17 Aligned_cols=27 Identities=30% Similarity=0.577 Sum_probs=19.3
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA 196 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~ 196 (235)
.|+.||+...+ +...||.||++-..+-
T Consensus 29 ~Cp~CG~~~~~--------~~~fC~~CG~~~~~~~ 55 (645)
T PRK14559 29 PCPQCGTEVPV--------DEAHCPNCGAETGTIW 55 (645)
T ss_pred cCCCCCCCCCc--------ccccccccCCcccchh
Confidence 58888887644 3448999998766553
No 360
>PRK04023 DNA polymerase II large subunit; Validated
Probab=29.31 E-value=35 Score=37.16 Aligned_cols=27 Identities=30% Similarity=0.641 Sum_probs=21.6
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
+.++|..||--|.. .|-.-+||.||..
T Consensus 1036 Q~fRC~kC~~kYRR------~PL~G~C~kCGg~ 1062 (1121)
T PRK04023 1036 QEFRCTKCGAKYRR------PPLSGKCPKCGGN 1062 (1121)
T ss_pred cceeecccCccccc------CCCCCcCccCCCe
Confidence 46999999999966 4556699999763
No 361
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=29.17 E-value=34 Score=29.08 Aligned_cols=31 Identities=19% Similarity=0.289 Sum_probs=20.5
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCC
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQ 189 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~ 189 (235)
...++.|+.||.+|.... ...++...|..|+
T Consensus 121 l~~R~~~~~~g~~y~~~~--~~p~~~~~~~~~~ 151 (210)
T TIGR01351 121 LSGRRICPSCGRVYHLKF--NPPKVPGCDDCTG 151 (210)
T ss_pred HHCCCccCCcCCcccccc--CCCccCCcCcccC
Confidence 356799999999998752 1122234677675
No 362
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=29.15 E-value=32 Score=26.91 Aligned_cols=15 Identities=20% Similarity=0.406 Sum_probs=7.5
Q ss_pred cceEEcCCCceEEeC
Q 038893 158 RATHICLDCGYIYFL 172 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~ 172 (235)
..+|.|..||+++-+
T Consensus 52 ~GIW~C~~C~~~~AG 66 (90)
T PRK03976 52 TGIWECRKCGAKFAG 66 (90)
T ss_pred EEEEEcCCCCCEEeC
Confidence 334555555555544
No 363
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=29.12 E-value=57 Score=28.65 Aligned_cols=16 Identities=19% Similarity=0.461 Sum_probs=13.9
Q ss_pred cceEEcCCCceEEeCC
Q 038893 158 RATHICLDCGYIYFLQ 173 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~ 173 (235)
...|.|+.||++++.+
T Consensus 320 ~r~~~C~~cg~~~~rD 335 (364)
T COG0675 320 GRLFKCPRCGFVHDRD 335 (364)
T ss_pred ceeEECCCCCCeehhh
Confidence 4579999999999886
No 364
>PLN00162 transport protein sec23; Provisional
Probab=29.07 E-value=24 Score=36.78 Aligned_cols=31 Identities=19% Similarity=0.405 Sum_probs=20.2
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.-+|+.|+-+-+|-..|+.--..|+||.|+.
T Consensus 53 pvRC~~CraylNPf~~~d~~~~~W~C~~C~~ 83 (761)
T PLN00162 53 PLRCRTCRAVLNPYCRVDFQAKIWICPFCFQ 83 (761)
T ss_pred CCccCCCcCEECCceEEecCCCEEEccCCCC
Confidence 4578888766666444444445688888855
No 365
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=29.02 E-value=34 Score=29.02 Aligned_cols=39 Identities=15% Similarity=0.283 Sum_probs=20.7
Q ss_pred EcCCCce----EEeCCC--CCCCCCCCCCCCCCCCCccCeeeccC
Q 038893 162 ICLDCGY----IYFLQK--PFDELPDTYVCPQCQAPKKRFARYDV 200 (235)
Q Consensus 162 ~C~~CGy----vyd~~t--pfe~lped~~CP~C~a~k~~F~~~~~ 200 (235)
+|+.||+ |-|.-. .-..+--.-.|+.|+..=.-|+.++.
T Consensus 2 ~CP~C~~~dtkViDSR~~~dg~~IRRRReC~~C~~RFTTyErve~ 46 (147)
T TIGR00244 2 HCPFCQHHNTRVLDSRLVEDGQSIRRRRECLECHERFTTFERAEL 46 (147)
T ss_pred CCCCCCCCCCEeeeccccCCCCeeeecccCCccCCccceeeeccc
Confidence 6999996 333321 11123334579999874444444443
No 366
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=29.01 E-value=18 Score=38.39 Aligned_cols=34 Identities=26% Similarity=0.584 Sum_probs=0.0
Q ss_pred cceEEcCCCceEEeCCCCC---CCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPF---DELPDTYVCPQCQAP 191 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpf---e~lped~~CP~C~a~ 191 (235)
....+|+.||..-...+++ ..-...|.||.|+..
T Consensus 653 i~~r~Cp~Cg~~t~~~~Cp~CG~~T~~~~~Cp~C~~~ 689 (900)
T PF03833_consen 653 IGRRRCPKCGKETFYNRCPECGSHTEPVYVCPDCGIE 689 (900)
T ss_dssp -------------------------------------
T ss_pred eecccCcccCCcchhhcCcccCCccccceeccccccc
Confidence 4567888888654333211 111123677777664
No 367
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=28.82 E-value=13 Score=36.80 Aligned_cols=17 Identities=41% Similarity=0.802 Sum_probs=14.0
Q ss_pred eEEcCCCc-eEEeCCCCC
Q 038893 160 THICLDCG-YIYFLQKPF 176 (235)
Q Consensus 160 ~y~C~~CG-yvyd~~tpf 176 (235)
.|.|.+|| |+|.+...|
T Consensus 401 ey~CEICGNy~Y~GrkaF 418 (497)
T KOG2636|consen 401 EYNCEICGNYVYKGRKAF 418 (497)
T ss_pred ccceeeccCccccCcHHH
Confidence 59999999 999997433
No 368
>PRK09259 putative oxalyl-CoA decarboxylase; Validated
Probab=28.70 E-value=43 Score=33.11 Aligned_cols=61 Identities=13% Similarity=0.079 Sum_probs=40.5
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS 95 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s 95 (235)
..|.|....+..+.+.+||+++|+.+-.+ ++-+.|+-+ . . ....-++..|.|..+.
T Consensus 219 i~G~g~~~~~a~~~l~~lae~l~iPV~tt~~gkg~~~e~hpl~~------------G-----~-~~~~~l~~aDlvl~lG 280 (569)
T PRK09259 219 ILGKGAAYAQADEQIREFVEKTGIPFLPMSMAKGLLPDTHPQSA------------A-----A-ARSLALANADVVLLVG 280 (569)
T ss_pred EECcCccccChHHHHHHHHHHHCCCEEecccccccCCCCChhhh------------h-----H-HHHHHHhcCCEEEEeC
Confidence 34788876777899999999999998544 222333222 1 0 1112267899999998
Q ss_pred cccCC
Q 038893 96 SFFGD 100 (235)
Q Consensus 96 ~~fG~ 100 (235)
+.|..
T Consensus 281 ~~~~~ 285 (569)
T PRK09259 281 ARLNW 285 (569)
T ss_pred CCCch
Confidence 88764
No 369
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=28.40 E-value=33 Score=24.10 Aligned_cols=28 Identities=36% Similarity=0.718 Sum_probs=16.4
Q ss_pred eEEcCCCceEEeCC---CCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQ---KPFDELPDTYVCPQCQA 190 (235)
Q Consensus 160 ~y~C~~CGyvyd~~---tpfe~lped~~CP~C~a 190 (235)
.-+|+.|...- +. ..++.+ .|+||-|++
T Consensus 22 aLIC~~C~~hN-Gla~~~~~~~i--~y~C~~Cg~ 52 (54)
T PF10058_consen 22 ALICSKCFSHN-GLAPKEEFEEI--QYRCPYCGA 52 (54)
T ss_pred eEECcccchhh-cccccccCCce--EEEcCCCCC
Confidence 45888886322 21 123333 688988875
No 370
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=28.17 E-value=42 Score=34.60 Aligned_cols=32 Identities=22% Similarity=0.517 Sum_probs=23.2
Q ss_pred eEEcCC-CceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLD-CGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~-CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.-.|.. |+-+|++.-..+.--..|.||.|...
T Consensus 53 pv~C~~pC~avlnpyC~id~r~~~W~CpfCnqr 85 (755)
T COG5047 53 PVKCTAPCKAVLNPYCHIDERNQSWICPFCNQR 85 (755)
T ss_pred CceecccchhhcCcceeeccCCceEecceecCC
Confidence 458999 99999997333333347999999653
No 371
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=28.01 E-value=74 Score=24.84 Aligned_cols=40 Identities=25% Similarity=0.183 Sum_probs=28.7
Q ss_pred cccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEee
Q 038893 29 ATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVE 75 (235)
Q Consensus 29 ~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~i 75 (235)
-+++|+-+++||+.+|..+-.++...+ +..+|+-||..|-
T Consensus 6 ~~~~l~El~~L~~t~g~~vv~~~~q~~-------~~~~p~~~iG~GK 45 (95)
T PF13167_consen 6 FEESLEELEELAETAGYEVVGTVVQKR-------RKPDPKTYIGSGK 45 (95)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEEecC-------CCCCcceeechhH
Confidence 456788899999999988765555332 2357888887763
No 372
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=27.96 E-value=32 Score=28.91 Aligned_cols=15 Identities=13% Similarity=0.000 Sum_probs=12.4
Q ss_pred ceEEcCCCceEEeCC
Q 038893 159 ATHICLDCGYIYFLQ 173 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~ 173 (235)
..|+|.+|..+-.++
T Consensus 79 ~lYeCnIC~etS~ee 93 (140)
T PF05290_consen 79 KLYECNICKETSAEE 93 (140)
T ss_pred CceeccCcccccchh
Confidence 379999999887776
No 373
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=27.82 E-value=28 Score=30.07 Aligned_cols=15 Identities=33% Similarity=0.693 Sum_probs=12.3
Q ss_pred ceEEcCCCceEEeCC
Q 038893 159 ATHICLDCGYIYFLQ 173 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~ 173 (235)
.-|+|+.||.+|=.-
T Consensus 129 ~f~~C~~CgkiYW~G 143 (165)
T COG1656 129 EFYRCPKCGKIYWKG 143 (165)
T ss_pred ceeECCCCcccccCc
Confidence 468999999999653
No 374
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=27.56 E-value=32 Score=27.59 Aligned_cols=11 Identities=36% Similarity=0.712 Sum_probs=6.9
Q ss_pred ceEEcCCCceE
Q 038893 159 ATHICLDCGYI 169 (235)
Q Consensus 159 ~~y~C~~CGyv 169 (235)
..+-|+.||+.
T Consensus 21 k~FtCp~Cghe 31 (104)
T COG4888 21 KTFTCPRCGHE 31 (104)
T ss_pred ceEecCccCCe
Confidence 45667777664
No 375
>PRK08273 thiamine pyrophosphate protein; Provisional
Probab=27.13 E-value=35 Score=34.11 Aligned_cols=108 Identities=13% Similarity=-0.041 Sum_probs=51.8
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCCC
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGDE 101 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~~ 101 (235)
.|.|.. ..-+.+.+||+++|+.+..+.- -.|. +..+ .| +|+.. +..|......=++..|.|..+.+.|...
T Consensus 215 ~G~g~~--~a~~~l~~lae~~~~PV~tt~~---gkg~-~~e~-hp-~~~G~~G~~g~~~a~~~~~~aDlvl~lG~~~~~~ 286 (597)
T PRK08273 215 VGAGAL--GATDEVIAVAERLGAGVAKALL---GKAA-LPDD-LP-WVTGSIGLLGTKPSYELMRECDTLLMVGSSFPYS 286 (597)
T ss_pred ECcchH--hHHHHHHHHHHHhCCceeeccc---Cccc-CCCC-Cc-cceecCCCCccHHHHHHHHhCCEEEEeCCCCCHH
Confidence 366653 3356799999999999865511 1111 1111 11 22211 1122221122278899999988887532
Q ss_pred ccccCccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 102 LWPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 102 lW~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
-|-.+.-...++-|+.|+...-.. -.+..+..|++..
T Consensus 287 ~~~~~~~~~~~i~Id~d~~~~~~~~~~~~~i~~D~~~~ 324 (597)
T PRK08273 287 EFLPKEGQARGVQIDIDGRMLGLRYPMEVNLVGDAAET 324 (597)
T ss_pred hcCCCCCCCeEEEEeCCHHHcCCCCCCCceEecCHHHH
Confidence 221111112344455554432111 1244577776543
No 376
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=27.10 E-value=34 Score=26.90 Aligned_cols=13 Identities=31% Similarity=0.897 Sum_probs=11.1
Q ss_pred eEEcCCCceEEeC
Q 038893 160 THICLDCGYIYFL 172 (235)
Q Consensus 160 ~y~C~~CGyvyd~ 172 (235)
.++|..||++|.-
T Consensus 79 ~~rC~eCG~~fkL 91 (97)
T cd00924 79 PKRCPECGHVFKL 91 (97)
T ss_pred ceeCCCCCcEEEE
Confidence 5899999999854
No 377
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=26.96 E-value=29 Score=26.21 Aligned_cols=11 Identities=18% Similarity=0.280 Sum_probs=3.3
Q ss_pred cceEEcCCCce
Q 038893 158 RATHICLDCGY 168 (235)
Q Consensus 158 ~~~y~C~~CGy 168 (235)
...+.|+.|+|
T Consensus 20 ~~~F~CPfC~~ 30 (81)
T PF05129_consen 20 PKVFDCPFCNH 30 (81)
T ss_dssp SS----TTT--
T ss_pred CceEcCCcCCC
Confidence 35677777774
No 379
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=26.89 E-value=38 Score=31.52 Aligned_cols=30 Identities=27% Similarity=0.539 Sum_probs=17.3
Q ss_pred ceEEcCCCceEEeCC------CCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQ------KPFDELPDTYVCPQCQA 190 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~------tpfe~lped~~CP~C~a 190 (235)
....|+.||.+|-.. ..-..+|= .|++||-
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c--~C~iCGK 195 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPC--ECGICGK 195 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCc--ccccccc
Confidence 457888888777654 12233433 5666654
No 380
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=26.57 E-value=33 Score=30.18 Aligned_cols=23 Identities=30% Similarity=0.765 Sum_probs=16.2
Q ss_pred cceEEcCCCceEEeCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPD 181 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lpe 181 (235)
..+|+|+.|||...+. -|+.+++
T Consensus 46 Y~V~vCP~CgyA~~~~-~F~~l~~ 68 (214)
T PF09986_consen 46 YEVWVCPHCGYAAFEE-DFEKLSP 68 (214)
T ss_pred eeEEECCCCCCccccc-ccccCCH
Confidence 4589999999998774 2444433
No 381
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=26.54 E-value=18 Score=34.99 Aligned_cols=14 Identities=36% Similarity=0.975 Sum_probs=12.5
Q ss_pred eEEcCCCc-eEEeCC
Q 038893 160 THICLDCG-YIYFLQ 173 (235)
Q Consensus 160 ~y~C~~CG-yvyd~~ 173 (235)
.|.|.+|| |+|.+.
T Consensus 374 ef~CEICgNyvy~GR 388 (470)
T COG5188 374 EFECEICGNYVYYGR 388 (470)
T ss_pred ceeeeecccccccch
Confidence 58999999 999986
No 382
>KOG4602 consensus Nanos and related proteins [General function prediction only]
Probab=26.43 E-value=30 Score=32.18 Aligned_cols=13 Identities=46% Similarity=1.091 Sum_probs=10.2
Q ss_pred CCCCCCCCCCccC
Q 038893 182 TYVCPQCQAPKKR 194 (235)
Q Consensus 182 d~~CP~C~a~k~~ 194 (235)
+++||+||+..++
T Consensus 268 ~YVCPiCGATgDn 280 (318)
T KOG4602|consen 268 SYVCPICGATGDN 280 (318)
T ss_pred hhcCccccccCCc
Confidence 5799999996544
No 383
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=26.28 E-value=41 Score=37.41 Aligned_cols=26 Identities=31% Similarity=0.694 Sum_probs=21.4
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
+.++|..||--|.. .|-.-+||.||.
T Consensus 1252 Q~~RC~kC~~kyRR------~PL~G~C~kCGg 1277 (1337)
T PRK14714 1252 QEFRCLKCGTKYRR------MPLAGKCRKCGG 1277 (1337)
T ss_pred cceeecccCccccc------CCCCCcccccCC
Confidence 46999999999966 455669999987
No 384
>smart00355 ZnF_C2H2 zinc finger.
Probab=26.01 E-value=21 Score=19.22 Aligned_cols=10 Identities=30% Similarity=1.049 Sum_probs=5.7
Q ss_pred EEcCCCceEE
Q 038893 161 HICLDCGYIY 170 (235)
Q Consensus 161 y~C~~CGyvy 170 (235)
|+|..|++.+
T Consensus 1 ~~C~~C~~~f 10 (26)
T smart00355 1 YRCPECGKVF 10 (26)
T ss_pred CCCCCCcchh
Confidence 3566666554
No 385
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=25.79 E-value=20 Score=24.50 Aligned_cols=8 Identities=50% Similarity=1.456 Sum_probs=3.7
Q ss_pred CCCCCCCC
Q 038893 184 VCPQCQAP 191 (235)
Q Consensus 184 ~CP~C~a~ 191 (235)
.||.|+.+
T Consensus 22 ~CPlC~r~ 29 (54)
T PF04423_consen 22 CCPLCGRP 29 (54)
T ss_dssp E-TTT--E
T ss_pred cCCCCCCC
Confidence 78888764
No 386
>PF05808 Podoplanin: Podoplanin; InterPro: IPR008783 This family consists of several mammalian podoplanin-like proteins which are thought to control specifically the unique shape of podocytes [].; GO: 0016021 integral to membrane; PDB: 3IET_X.
Probab=25.70 E-value=23 Score=30.49 Aligned_cols=30 Identities=20% Similarity=0.578 Sum_probs=0.0
Q ss_pred CCCCCCCCCCchhhhhHHHHHHHHHHHHhHh
Q 038893 202 TGKPIGSGLPPIGVIIGLIAGIGAVGALLVY 232 (235)
Q Consensus 202 ~~~~~g~~~~~~~~~~~~~~g~~~~~~~~~~ 232 (235)
+..|+.-.-. .++++|.++||+.|++++++
T Consensus 122 ek~GL~T~tL-VGIIVGVLlaIG~igGIIiv 151 (162)
T PF05808_consen 122 EKDGLSTVTL-VGIIVGVLLAIGFIGGIIIV 151 (162)
T ss_dssp -------------------------------
T ss_pred ccCCcceeee-eeehhhHHHHHHHHhheeeE
Confidence 4456654433 67889999999999888765
No 387
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=25.69 E-value=32 Score=30.31 Aligned_cols=26 Identities=19% Similarity=0.493 Sum_probs=17.7
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
.-+|..|++.-... . ....||.|+..
T Consensus 149 ~A~CsrC~~~L~~~----~--~~l~Cp~Cg~t 174 (188)
T COG1096 149 YARCSRCRAPLVKK----G--NMLKCPNCGNT 174 (188)
T ss_pred EEEccCCCcceEEc----C--cEEECCCCCCE
Confidence 34999999765442 1 23489999873
No 388
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=25.67 E-value=60 Score=32.08 Aligned_cols=110 Identities=14% Similarity=-0.000 Sum_probs=55.6
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE-eecchHHHHhcCCcCcceeeeccccCC
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA-VEGGGNAAKAGLKSGDQVLYTSSFFGD 100 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~~~Gi~~gD~i~~~s~~fG~ 100 (235)
..|.|....+..+.+.+||+++|+.+-.+. .-.|. +..+ .| +|+.. +..|......=++..|+|..+...|.+
T Consensus 212 ~~G~g~~~~~a~~~l~~lae~~~~pv~tt~---~gkg~-~~~~-hp-~~~G~~G~~~~~~~~~~l~~aDlvl~lG~~~~~ 285 (574)
T PRK06882 212 FVGGGVITAECSEQLTQFAQKLNLPVTSSL---MGLGA-YPST-DK-QFLGMLGMHGTYEANNAMHESDLILGIGVRFDD 285 (574)
T ss_pred EECCCccccchHHHHHHHHHHhCCCEEEcC---ccCcC-CCCC-Ch-hhcCCCcccccHHHHHHHHhCCEEEEECCCCCc
Confidence 347888766667889999999999985441 11122 1111 11 22211 111211112236789999998887755
Q ss_pred Cc---cccCccchhhhhhhcCCCCceEE-ecCceeeeeccc
Q 038893 101 EL---WPADKLGFTKTAIQAKPDSVYFV-VNRGGADVDVKR 137 (235)
Q Consensus 101 ~l---W~~~~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~ 137 (235)
.. |....-...++-|+.|+...... -.+..+..|...
T Consensus 286 ~~~~~~~~~~~~~~~I~id~d~~~~~~~~~~~~~i~~D~~~ 326 (574)
T PRK06882 286 RTTNNLAKYCPNAKVIHIDIDPTSISKNVPAYIPIVGSAKN 326 (574)
T ss_pred cccCchhhcCCCCeEEEEECCHHHhcCccCCceEEecCHHH
Confidence 33 21111112244566665432211 123456666533
No 389
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=25.48 E-value=33 Score=25.65 Aligned_cols=29 Identities=24% Similarity=0.545 Sum_probs=17.6
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA 196 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~ 196 (235)
..|.|..|+.-|.-. -.||.|+.+-....
T Consensus 16 ~~~~C~~C~~~~~~~---------a~CPdC~~~Le~Lk 44 (70)
T PF07191_consen 16 GHYHCEACQKDYKKE---------AFCPDCGQPLEVLK 44 (70)
T ss_dssp TEEEETTT--EEEEE---------EE-TTT-SB-EEEE
T ss_pred CEEECccccccceec---------ccCCCcccHHHHHH
Confidence 579999999888662 27999988755443
No 390
>PRK12366 replication factor A; Reviewed
Probab=25.27 E-value=55 Score=33.49 Aligned_cols=26 Identities=19% Similarity=0.488 Sum_probs=20.0
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
...|+.|...-.. .+..|.||.|+..
T Consensus 532 y~aCp~CnkKv~~------~~g~~~C~~c~~~ 557 (637)
T PRK12366 532 LYLCPNCRKRVEE------VDGEYICEFCGEV 557 (637)
T ss_pred EecccccCeEeEc------CCCcEECCCCCCC
Confidence 4599999977653 2467999999875
No 391
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=25.13 E-value=39 Score=35.74 Aligned_cols=25 Identities=32% Similarity=0.818 Sum_probs=17.4
Q ss_pred ceEEcCCCce-------------EEeCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGY-------------IYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 159 ~~y~C~~CGy-------------vyd~~tpfe~lped~~CP~C~a 190 (235)
..|+|+.||. |+.++. -|-||.|+.
T Consensus 280 RKFKCtECgKAFKfKHHLKEHlRIHSGEK-------PfeCpnCkK 317 (1007)
T KOG3623|consen 280 RKFKCTECGKAFKFKHHLKEHLRIHSGEK-------PFECPNCKK 317 (1007)
T ss_pred ccccccccchhhhhHHHHHhhheeecCCC-------CcCCccccc
Confidence 3699999994 445543 345999954
No 392
>TIGR03393 indolpyr_decarb indolepyruvate decarboxylase, Erwinia family. A family of closely related, thiamine pyrophosphate-dependent enzymes includes indolepyruvate decarboxylase (EC 4.1.1.74), phenylpyruvate decarboxylase (EC 4.1.1.43), pyruvate decarboxylase (EC 4.1.1.1), branched-chain alpha-ketoacid decarboxylase, etc.. Members of this group of homologs may overlap in specificity. Within the larger family, this model represents a clade of bacterial indolepyruvate decarboxylases, part of a pathway for biosynthesis of the plant hormone indole-3-acetic acid. Typically, these species interact with plants, as pathogens or as beneficial, root-associated bacteria.
Probab=25.00 E-value=1.1e+02 Score=30.18 Aligned_cols=82 Identities=15% Similarity=0.103 Sum_probs=46.0
Q ss_pred ccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEe-ecchH-HHHhcCC
Q 038893 9 LQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAV-EGGGN-AAKAGLK 86 (235)
Q Consensus 9 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~-isG~~-a~~~Gi~ 86 (235)
|.+|++.| |.+|.|.......+.+.+||+++|+.+..|.- --|. +..+ .| +|+... -.++. ....=++
T Consensus 202 L~~AkrPv----il~G~g~~~~~a~~~l~~lae~~~~pv~tt~~---gkg~-~~~~-hp-l~lG~~~g~~~~~~~~~~~~ 271 (539)
T TIGR03393 202 LAMAKRVS----LLADFLALRHGLKHALQKWVKEVPMPHATLLM---GKGI-LDEQ-QA-GFYGTYSGSASTGAVKEAIE 271 (539)
T ss_pred HHhCCCCE----EEeChhhcccChHHHHHHHHHHhCCCEEECcc---cCcc-ccCc-CC-CeEEEEeCCCCCHHHHHHHh
Confidence 34455442 23477876667788999999999999854411 1111 1111 12 233221 01111 2222267
Q ss_pred cCcceeeeccccCC
Q 038893 87 SGDQVLYTSSFFGD 100 (235)
Q Consensus 87 ~gD~i~~~s~~fG~ 100 (235)
..|.|..+.+.|++
T Consensus 272 ~aDlvl~lG~~l~~ 285 (539)
T TIGR03393 272 GADAVICVGVRFTD 285 (539)
T ss_pred hCCEEEEECCcccc
Confidence 89999999988876
No 393
>PHA02942 putative transposase; Provisional
Probab=24.91 E-value=79 Score=30.29 Aligned_cols=15 Identities=27% Similarity=0.465 Sum_probs=13.2
Q ss_pred ceEEcCCCceEEeCC
Q 038893 159 ATHICLDCGYIYFLQ 173 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~ 173 (235)
..|.|+.|||..|.+
T Consensus 341 r~f~C~~CG~~~drD 355 (383)
T PHA02942 341 RYFHCPSCGYENDRD 355 (383)
T ss_pred CEEECCCCCCEeCcH
Confidence 479999999999885
No 394
>PRK12495 hypothetical protein; Provisional
Probab=24.27 E-value=31 Score=31.14 Aligned_cols=28 Identities=29% Similarity=0.650 Sum_probs=20.1
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.|..+.|..||.--. .+|-..+||.|+.
T Consensus 39 tmsa~hC~~CG~PIp------a~pG~~~Cp~CQ~ 66 (226)
T PRK12495 39 TMTNAHCDECGDPIF------RHDGQEFCPTCQQ 66 (226)
T ss_pred ccchhhcccccCccc------CCCCeeECCCCCC
Confidence 467899999995432 3455568999975
No 395
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.14 E-value=26 Score=28.68 Aligned_cols=34 Identities=21% Similarity=0.343 Sum_probs=20.7
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC--CccCeee
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQA--PKKRFAR 197 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a--~k~~F~~ 197 (235)
+.-+|+.||.-+... .--|. +||-||. |.+.|+.
T Consensus 8 tKridPetg~KFYDL---NrdPi--VsPytG~s~P~s~fe~ 43 (129)
T COG4530 8 TKRIDPETGKKFYDL---NRDPI--VSPYTGKSYPRSYFEE 43 (129)
T ss_pred ccccCccccchhhcc---CCCcc--ccCcccccchHHHHHh
Confidence 356788888554432 12233 8888865 6677765
No 396
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=23.98 E-value=81 Score=33.63 Aligned_cols=31 Identities=19% Similarity=0.480 Sum_probs=24.3
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK 192 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k 192 (235)
...|.|+.|-|---. .++|..-.||.|+.+-
T Consensus 1154 ~~fWlC~~CkH~a~~----~EIs~y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1154 NIFWLCPRCKHRAHQ----HEISKYNCCPLCHSME 1184 (1189)
T ss_pred ceEEEcccccccccc----ccccccccCccccChh
Confidence 347999999987655 4888888999997653
No 397
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=23.93 E-value=58 Score=31.27 Aligned_cols=24 Identities=29% Similarity=0.614 Sum_probs=19.2
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQ 189 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~ 189 (235)
...|.|+.|.-.|-. +|- .||+|+
T Consensus 274 ~~Gy~CP~CkakvCs------LP~--eCpiC~ 297 (378)
T KOG2807|consen 274 GGGYFCPQCKAKVCS------LPI--ECPICS 297 (378)
T ss_pred cCceeCCcccCeeec------CCc--cCCccc
Confidence 457999999988854 677 799993
No 398
>COG4031 Predicted metal-binding protein [General function prediction only]
Probab=23.87 E-value=37 Score=30.30 Aligned_cols=20 Identities=35% Similarity=0.830 Sum_probs=14.0
Q ss_pred EcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
+| -|||-.+. |. .||.|+.+
T Consensus 2 ~C-rCG~~l~~-------p~--~Cl~Cg~~ 21 (227)
T COG4031 2 IC-RCGAELSS-------PA--FCLNCGRR 21 (227)
T ss_pred cc-ccCCcccc-------cc--hhcccCCc
Confidence 57 78887633 54 89999654
No 399
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.86 E-value=29 Score=36.16 Aligned_cols=34 Identities=21% Similarity=0.487 Sum_probs=24.8
Q ss_pred ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893 157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a 190 (235)
.....+|..|+-++++--..+.--.-|.||.|..
T Consensus 50 ~y~P~~C~~C~AvlNPyc~vd~~a~~W~CpfC~q 83 (745)
T KOG1986|consen 50 QYDPLRCSKCGAVLNPYCSVDFRAKSWICPFCNQ 83 (745)
T ss_pred CCCCchhccchhhcCcceeecccCceEecccccc
Confidence 3456799999999999733333345799999944
No 400
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=23.44 E-value=75 Score=23.96 Aligned_cols=17 Identities=35% Similarity=0.638 Sum_probs=12.7
Q ss_pred hhhHHHHHHHHHHHHhH
Q 038893 215 VIIGLIAGIGAVGALLV 231 (235)
Q Consensus 215 ~~~~~~~g~~~~~~~~~ 231 (235)
+.+|+++|+|.|.++|+
T Consensus 75 ~svgiAagvG~llG~Ll 91 (94)
T PF05957_consen 75 QSVGIAAGVGFLLGLLL 91 (94)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34677888888888775
No 401
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=23.32 E-value=58 Score=18.18 Aligned_cols=12 Identities=17% Similarity=0.310 Sum_probs=8.9
Q ss_pred EEcCCCceEEeC
Q 038893 161 HICLDCGYIYFL 172 (235)
Q Consensus 161 y~C~~CGyvyd~ 172 (235)
|.|.+|...+..
T Consensus 1 ~~C~~C~~~f~s 12 (25)
T PF12874_consen 1 FYCDICNKSFSS 12 (25)
T ss_dssp EEETTTTEEESS
T ss_pred CCCCCCCCCcCC
Confidence 678888877654
No 402
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=23.30 E-value=62 Score=27.60 Aligned_cols=40 Identities=18% Similarity=0.337 Sum_probs=24.6
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeeccCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVNTGKPIGS 208 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~~~~~~~~g~ 208 (235)
..+|+.||..-.+- .|.+ ..||.|+.- +.-..+.+|+..|
T Consensus 149 ~a~~~~~g~~~~~~-~~~~----~~c~~~~~~----e~rkva~~~~~~~ 188 (189)
T PRK09521 149 YAMCSRCRTPLVKK-GENE----LKCPNCGNI----ETRKLSSYYGKGG 188 (189)
T ss_pred EEEccccCCceEEC-CCCE----EECCCCCCE----EeeccchhhcccC
Confidence 45899999877662 2332 489999852 3333345565543
No 403
>KOG3877 consensus NADH:ubiquinone oxidoreductase, NDUFA10/42kDa subunit [Energy production and conversion]
Probab=22.97 E-value=67 Score=30.64 Aligned_cols=31 Identities=26% Similarity=0.158 Sum_probs=24.9
Q ss_pred cccceeeecccccccCCcccccCchhHHHHHHHhCCee
Q 038893 10 QESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASK 47 (235)
Q Consensus 10 ~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~ 47 (235)
|.|++|+.+--|.+||+ +++++||+.||-.-
T Consensus 69 enSkvI~VeGnI~sGK~-------klAKelAe~Lgf~h 99 (393)
T KOG3877|consen 69 ENSKVIVVEGNIGSGKT-------KLAKELAEQLGFVH 99 (393)
T ss_pred ccceEEEEeCCcccCch-------hHHHHHHHHhCCcc
Confidence 56888988866777775 47899999999764
No 404
>COG5270 PUA domain (predicted RNA-binding domain) [Translation, ribosomal structure and biogenesis]
Probab=22.96 E-value=59 Score=28.83 Aligned_cols=22 Identities=18% Similarity=0.390 Sum_probs=17.7
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQ 189 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~ 189 (235)
+..|-|..|.-.--+ .+|+.|+
T Consensus 12 ~~iyWCe~cNlPl~~----------~~c~~cg 33 (202)
T COG5270 12 FPIYWCEKCNLPLLG----------RRCSVCG 33 (202)
T ss_pred cceeehhhCCCcccc----------ccccccC
Confidence 568999999876644 2899999
No 405
>PHA00733 hypothetical protein
Probab=22.84 E-value=46 Score=27.05 Aligned_cols=31 Identities=19% Similarity=0.478 Sum_probs=20.3
Q ss_pred ceEEcCCCceEEeCCC------CCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQK------PFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~t------pfe~lped~~CP~C~a~ 191 (235)
..|+|..||..|.... ... ...+.|+.|+..
T Consensus 72 kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~ 108 (128)
T PHA00733 72 SPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKE 108 (128)
T ss_pred CCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCc
Confidence 3599999998877641 111 124699999653
No 406
>PF04495 GRASP55_65: GRASP55/65 PDZ-like domain ; InterPro: IPR007583 GRASP55 (Golgi reassembly stacking protein of 55 kDa) and GRASP65 (a 65 kDa) protein are highly homologous. GRASP55 is a component of the Golgi stacking machinery. GRASP65, an N-ethylmaleimide-sensitive membrane protein required for the stacking of Golgi cisternae in a cell-free system [].; PDB: 3RLE_A 4EDJ_A.
Probab=22.83 E-value=1.2e+02 Score=24.97 Aligned_cols=30 Identities=30% Similarity=0.285 Sum_probs=22.8
Q ss_pred CCcEEEEEeecchHHHHhcCCc-Ccceeeec
Q 038893 66 GGGVVITAVEGGGNAAKAGLKS-GDQVLYTS 95 (235)
Q Consensus 66 ~~~vyIa~~isG~~a~~~Gi~~-gD~i~~~s 95 (235)
...+-|..+.+|+.|+.+|+++ .|.|+.+.
T Consensus 42 ~~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~ 72 (138)
T PF04495_consen 42 EEGWHVLRVAPNSPAAKAGLEPFFDYIIGID 72 (138)
T ss_dssp CCEEEEEEE-TTSHHHHTT--TTTEEEEEET
T ss_pred cceEEEeEecCCCHHHHCCccccccEEEEcc
Confidence 5678899999999999999887 79886654
No 407
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=22.72 E-value=58 Score=27.83 Aligned_cols=8 Identities=38% Similarity=1.115 Sum_probs=5.3
Q ss_pred CCCCCCCC
Q 038893 183 YVCPQCQA 190 (235)
Q Consensus 183 ~~CP~C~a 190 (235)
.+||.|++
T Consensus 134 ~rc~eCG~ 141 (153)
T KOG3352|consen 134 QRCPECGH 141 (153)
T ss_pred ccCCcccc
Confidence 46777765
No 408
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=22.60 E-value=25 Score=29.29 Aligned_cols=31 Identities=29% Similarity=0.778 Sum_probs=19.8
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCC-CccCeee
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQA-PKKRFAR 197 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a-~k~~F~~ 197 (235)
.-.|+.||..|.-. .++ .||.|.. .-..|..
T Consensus 3 l~nC~~CgklF~~~-----~~~--iCp~C~~~~e~~f~k 34 (137)
T TIGR03826 3 LANCPKCGRLFVKT-----GRD--VCPSCYEEEEREFEK 34 (137)
T ss_pred Cccccccchhhhhc-----CCc--cCHHHhHHHHHHHHH
Confidence 34799999777552 223 7999965 3444543
No 409
>PHA02739 hypothetical protein; Provisional
Probab=22.46 E-value=96 Score=25.34 Aligned_cols=69 Identities=23% Similarity=0.328 Sum_probs=41.4
Q ss_pred eeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeeccccCCCCCCcccccccchhhcccceEEcCCCceEE
Q 038893 91 VLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIY 170 (235)
Q Consensus 91 i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~p~~~a~~~f~~k~~~~~~~~~~y~C~~CGyvy 170 (235)
|++.|-.|+..+|=-+-=.. |+.|+. ...|++.+++...|..+. ...--|+.|.--
T Consensus 47 VtA~l~~~~~~lWFRK~~D~-----n~~Pd~----~~Y~~m~i~~~~s~~~~~--------------~~~~~~~~~~~~- 102 (116)
T PHA02739 47 VTAESIEFSGYLWFRKLDDT-----NKKPDF----KCYSLMVIPFFESPASPS--------------EDISSCSECDSE- 102 (116)
T ss_pred EEEEEeecCCeEeEEEcCCC-----CCCCCc----ceeEEEEEEEEEcCCCCc--------------cccccccccChh-
Confidence 56777788888885432211 344433 234578888888766433 224567777532
Q ss_pred eCCCCCCCCCCCCCCCCCC
Q 038893 171 FLQKPFDELPDTYVCPQCQ 189 (235)
Q Consensus 171 d~~tpfe~lped~~CP~C~ 189 (235)
+-+.++..|..|+
T Consensus 103 ------~~~sd~~~~~~~~ 115 (116)
T PHA02739 103 ------ELLSDDECCSTCD 115 (116)
T ss_pred ------HhhcCCCcccccC
Confidence 1455667888885
No 410
>PF04502 DUF572: Family of unknown function (DUF572) ; InterPro: IPR007590 This entry represents eukaryotic proteins with undetermined function belonging to the CWC16 family.
Probab=22.38 E-value=23 Score=33.06 Aligned_cols=12 Identities=50% Similarity=0.977 Sum_probs=9.9
Q ss_pred EcCCCc-eEEeCC
Q 038893 162 ICLDCG-YIYFLQ 173 (235)
Q Consensus 162 ~C~~CG-yvyd~~ 173 (235)
+|..|| |||.+.
T Consensus 42 ~C~~C~~~I~kG~ 54 (324)
T PF04502_consen 42 WCNTCGEYIYKGV 54 (324)
T ss_pred cCCCCccccccce
Confidence 799998 888775
No 411
>PRK05858 hypothetical protein; Provisional
Probab=22.32 E-value=1e+02 Score=30.32 Aligned_cols=104 Identities=12% Similarity=-0.026 Sum_probs=54.6
Q ss_pred ccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCc
Q 038893 23 VSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDEL 102 (235)
Q Consensus 23 ~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~l 102 (235)
.|.|....+..+.+.+||+++|+.+..+.. .| |. +-. ..| +|+ | .....-++..|.|..+.+.|....
T Consensus 210 ~G~g~~~~~a~~~l~~lae~lg~pV~tt~~-~k--g~-~~~-~hp-l~~-----~-~~~~~~l~~aD~vl~vG~~~~~~~ 277 (542)
T PRK05858 210 AGTDVWWGHAEAALLRLAEELGIPVLMNGM-GR--GV-VPA-DHP-LAF-----S-RARGKALGEADVVLVVGVPMDFRL 277 (542)
T ss_pred ECCCccccChHHHHHHHHHHhCCCEEEcCC-cC--CC-CCC-CCc-hhh-----h-HHHHHHHHhCCEEEEECCCCcccc
Confidence 477776566788999999999999854421 11 22 111 112 232 1 111222678999999888765421
Q ss_pred cccC-ccchhhhhhhcCCCCceEE-ecCceeeeecccc
Q 038893 103 WPAD-KLGFTKTAIQAKPDSVYFV-VNRGGADVDVKRL 138 (235)
Q Consensus 103 W~~~-~~g~~i~AIn~~~~a~if~-~~~~g~~~d~~~~ 138 (235)
+... .-...++-|+.|+...... ..+.++..|+...
T Consensus 278 ~~~~~~~~~~~i~id~d~~~~~~~~~~~~~i~~d~~~~ 315 (542)
T PRK05858 278 GFGVFGGTAQLVHVDDAPPQRAHHRPVAAGLYGDLSAI 315 (542)
T ss_pred cccccCCCCEEEEECCCHHHhcCCCCCceEEeCCHHHH
Confidence 1100 0012345566664332211 1244677776543
No 412
>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]
Probab=21.99 E-value=33 Score=35.84 Aligned_cols=41 Identities=22% Similarity=0.456 Sum_probs=26.3
Q ss_pred ccceEEcCCCceEEeCC---CCCCCCCCCCCCCCCCCCccCeeecc
Q 038893 157 ARATHICLDCGYIYFLQ---KPFDELPDTYVCPQCQAPKKRFARYD 199 (235)
Q Consensus 157 ~~~~y~C~~CGyvyd~~---tpfe~lped~~CP~C~a~k~~F~~~~ 199 (235)
.+..|.|..||++.-|- ...+-=|. .||.|..+-..+..++
T Consensus 289 ~~vky~C~KC~~vlgPF~qs~n~evkp~--~C~~cqSkGpf~vn~e 332 (854)
T KOG0477|consen 289 SVVKYDCLKCGFVLGPFVQSSNSEVKPG--SCPECQSKGPFEVNVE 332 (854)
T ss_pred HHHhhhHHhhCCccCceeeccCceeCCC--CCccccCCCCCccchh
Confidence 35679999999887664 11112233 7999977755555443
No 413
>KOG4477 consensus RING1 interactor RYBP and related Zn-finger-containing proteins [Transcription]
Probab=21.76 E-value=51 Score=29.29 Aligned_cols=29 Identities=17% Similarity=0.426 Sum_probs=22.8
Q ss_pred cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccC
Q 038893 158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKR 194 (235)
Q Consensus 158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~ 194 (235)
...|-|.+|-+.-.. +.|+|-+|+..|.-
T Consensus 22 eg~WdCsvCTFrNsA--------eAfkC~vCdvRKGT 50 (228)
T KOG4477|consen 22 EGKWDCSVCTFRNSA--------EAFKCFVCDVRKGT 50 (228)
T ss_pred cCceeeeeeeecchh--------hhhheeeecccccc
Confidence 568999999887654 46899999886654
No 414
>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=21.72 E-value=47 Score=31.95 Aligned_cols=18 Identities=22% Similarity=0.552 Sum_probs=13.0
Q ss_pred CCCCCCCCCCCCCccCee
Q 038893 179 LPDTYVCPQCQAPKKRFA 196 (235)
Q Consensus 179 lped~~CP~C~a~k~~F~ 196 (235)
..|.|+||.|+...+.-+
T Consensus 281 g~d~W~CpkC~~k~ss~K 298 (415)
T COG5533 281 GKDAWRCPKCGRKESSRK 298 (415)
T ss_pred CcccccCchhcccccchh
Confidence 457899999987654433
No 415
>PF09965 DUF2199: Uncharacterized protein conserved in bacteria (DUF2199); InterPro: IPR018697 This domain has no known function.
Probab=21.63 E-value=34 Score=28.84 Aligned_cols=26 Identities=19% Similarity=0.140 Sum_probs=17.8
Q ss_pred EEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA 196 (235)
Q Consensus 161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~ 196 (235)
|+|..||..+++. .|-.|.+|...+.
T Consensus 1 y~C~~Cg~~h~~~----------P~~~~~~Pd~~~~ 26 (148)
T PF09965_consen 1 YTCSCCGEEHEGL----------PSLGFDAPDYYYE 26 (148)
T ss_pred CCCCcCCccCCCC----------cccccCCChhhhh
Confidence 7899999999652 3555566655554
No 416
>PF12647 RNHCP: RNHCP domain; InterPro: IPR024439 This domain is found in uncharacterised bacterial proteins. It is typically between 94 and 143 amino acids in length and has a conserved RNHCP sequence motif.
Probab=21.27 E-value=64 Score=25.33 Aligned_cols=53 Identities=19% Similarity=0.313 Sum_probs=28.3
Q ss_pred eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeeccCCCCCCCCCCCCchhh
Q 038893 160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGV 215 (235)
Q Consensus 160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~~~~~~~~g~~~~~~~~ 215 (235)
.+.|..||....+..+-..-- --||.|-...---..--+ -...=||..-||.+
T Consensus 4 ~F~C~~CG~~V~p~~~g~~~R--NHCP~CL~S~Hvd~~pGD-Ras~C~g~M~Pi~v 56 (92)
T PF12647_consen 4 SFTCVHCGLTVSPLAAGSAHR--NHCPSCLSSLHVDIVPGD-RASDCGGRMEPIAV 56 (92)
T ss_pred ccCccccCCCcccCCCCCCcc--CcCcccccccccCCCCCC-ccccCCCeeeEEEE
Confidence 589999998775532111121 279999776544321111 12334455555543
No 417
>PRK14715 DNA polymerase II large subunit; Provisional
Probab=21.13 E-value=60 Score=36.55 Aligned_cols=26 Identities=31% Similarity=0.728 Sum_probs=20.6
Q ss_pred ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP 191 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~ 191 (235)
+.++| .||--|.. .|-.-+||.||..
T Consensus 1541 Q~~RC-kC~~kyRR------~PL~G~C~kCGg~ 1566 (1627)
T PRK14715 1541 QEFRC-KCGAKYRR------VPLKGKCPKCGSK 1566 (1627)
T ss_pred cceee-cCCCcccc------CCCCCcCcccCCe
Confidence 46999 99999966 4555699999873
No 418
>TIGR00630 uvra excinuclease ABC, A subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.12 E-value=57 Score=35.01 Aligned_cols=32 Identities=22% Similarity=0.513 Sum_probs=21.5
Q ss_pred ceEEcCCCceEEeCCC--CCCCCCCCCCCCCCCC
Q 038893 159 ATHICLDCGYIYFLQK--PFDELPDTYVCPQCQA 190 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~t--pfe~lped~~CP~C~a 190 (235)
..+.|+.||+.|.+.+ -|.-....-.||.|..
T Consensus 249 ~~~~c~~~g~~~~~~~~~~FSfNsp~G~Cp~C~G 282 (924)
T TIGR00630 249 KHAACPECGFSLPELEPRLFSFNSPYGACPECSG 282 (924)
T ss_pred hcccCcccCcccCcCChhhcCCCCCcCCCCCCcc
Confidence 3478999999998653 2333333348999943
No 419
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=21.08 E-value=36 Score=27.59 Aligned_cols=15 Identities=20% Similarity=0.275 Sum_probs=9.8
Q ss_pred ceEEcCCCceEEeCC
Q 038893 159 ATHICLDCGYIYFLQ 173 (235)
Q Consensus 159 ~~y~C~~CGyvyd~~ 173 (235)
+.++|+.|+-...+.
T Consensus 11 t~l~C~~C~t~i~G~ 25 (113)
T PF09862_consen 11 TRLKCPSCGTEIEGE 25 (113)
T ss_pred EEEEcCCCCCEEEee
Confidence 356777777766663
No 420
>COG3478 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=20.63 E-value=55 Score=24.31 Aligned_cols=7 Identities=43% Similarity=1.217 Sum_probs=3.6
Q ss_pred EEcCCCc
Q 038893 161 HICLDCG 167 (235)
Q Consensus 161 y~C~~CG 167 (235)
|+|+.||
T Consensus 5 ~kCpKCg 11 (68)
T COG3478 5 FKCPKCG 11 (68)
T ss_pred ccCCCcC
Confidence 4455555
No 421
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.61 E-value=53 Score=29.01 Aligned_cols=15 Identities=33% Similarity=0.926 Sum_probs=12.4
Q ss_pred CCCCCCCCccCeeec
Q 038893 184 VCPQCQAPKKRFARY 198 (235)
Q Consensus 184 ~CP~C~a~k~~F~~~ 198 (235)
.||+|..++..+..+
T Consensus 191 ~CPiC~~~~~s~~~v 205 (207)
T KOG1100|consen 191 ICPICRSPKTSSVEV 205 (207)
T ss_pred cCCCCcChhhceeec
Confidence 599999998887754
No 422
>PHA00616 hypothetical protein
Probab=20.55 E-value=22 Score=24.28 Aligned_cols=12 Identities=42% Similarity=0.805 Sum_probs=8.6
Q ss_pred EEcCCCceEEeC
Q 038893 161 HICLDCGYIYFL 172 (235)
Q Consensus 161 y~C~~CGyvyd~ 172 (235)
|+|+-||.++.-
T Consensus 2 YqC~~CG~~F~~ 13 (44)
T PHA00616 2 YQCLRCGGIFRK 13 (44)
T ss_pred CccchhhHHHhh
Confidence 788888876643
No 423
>PHA02768 hypothetical protein; Provisional
Probab=20.43 E-value=39 Score=24.05 Aligned_cols=29 Identities=24% Similarity=0.439 Sum_probs=19.3
Q ss_pred eEEcCCCceEEeCCC------CCCCCCCCCCCCCCCC
Q 038893 160 THICLDCGYIYFLQK------PFDELPDTYVCPQCQA 190 (235)
Q Consensus 160 ~y~C~~CGyvyd~~t------pfe~lped~~CP~C~a 190 (235)
.|+|+.||..|.-.. .-.. ..+.|..|+.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k 39 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKR 39 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccc
Confidence 589999999997760 1111 2348888865
No 424
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=20.14 E-value=66 Score=25.52 Aligned_cols=42 Identities=21% Similarity=0.449 Sum_probs=30.9
Q ss_pred hcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893 83 AGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL 138 (235)
Q Consensus 83 ~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~ 138 (235)
..+++||.|.-+|-.+| +++.|+. +...+.+++ |.++.+.+.
T Consensus 51 ~~Lk~Gd~VvT~gGi~G-----------~Vv~i~~--~~v~lei~~-g~~i~~~r~ 92 (106)
T PRK05585 51 SSLAKGDEVVTNGGIIG-----------KVTKVSE--DFVIIELND-DTEIKIQKS 92 (106)
T ss_pred HhcCCCCEEEECCCeEE-----------EEEEEeC--CEEEEEECC-CeEEEEEhH
Confidence 45999999999999998 5555643 567777776 666666654
No 425
>PRK11269 glyoxylate carboligase; Provisional
Probab=20.09 E-value=82 Score=31.39 Aligned_cols=108 Identities=14% Similarity=0.004 Sum_probs=55.5
Q ss_pred cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEeecch----HHHHhcCCcCcceeeeccc
Q 038893 22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGG----NAAKAGLKSGDQVLYTSSF 97 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~isG~----~a~~~Gi~~gD~i~~~s~~ 97 (235)
..|.|....+..+.+.+||+.+|+.+-.+. .-.|. +-.+ .| +|. |..|. .....-++..|.|..+.+.
T Consensus 209 l~G~g~~~~~a~~~l~~lae~~g~PV~tt~---~gkg~-~p~~-hp-l~~--G~~g~~~~~~~~~~~~~~aDlvl~lG~~ 280 (591)
T PRK11269 209 VAGGGVINADASDLLVEFAELTGVPVIPTL---MGWGA-IPDD-HP-LMA--GMVGLQTSHRYGNATLLASDFVLGIGNR 280 (591)
T ss_pred EECCCCcccCHHHHHHHHHHHhCCCeEecc---cccCc-CCCC-Ch-hhc--cCCcCCCCcHHHHHHHHhCCEEEEeCCC
Confidence 347777666668899999999999985441 11222 1111 11 111 11121 1122226789999999988
Q ss_pred cCCC---ccccCccchhhhhhhcCCCCceE-EecCceeeeeccc
Q 038893 98 FGDE---LWPADKLGFTKTAIQAKPDSVYF-VVNRGGADVDVKR 137 (235)
Q Consensus 98 fG~~---lW~~~~~g~~i~AIn~~~~a~if-~~~~~g~~~d~~~ 137 (235)
|++. -|..-.-+..++-|+.|+...-- .-.+..++.|...
T Consensus 281 ~~~~~~~~~~~~~~~~~~i~Vd~d~~~~~~~~~~~~~i~~D~~~ 324 (591)
T PRK11269 281 WANRHTGSVEVYTKGRKFVHVDIEPTQIGRVFGPDLGIVSDAKA 324 (591)
T ss_pred CCccccCchhhcCCCCeEEEeeCCHHHhCCCCCCCeEEEeCHHH
Confidence 8752 23221112224445555433111 0124467777554
No 426
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=20.07 E-value=90 Score=29.51 Aligned_cols=38 Identities=34% Similarity=0.590 Sum_probs=29.7
Q ss_pred cCccceeeee--e---------cCCcEEEEEeecchHHHHhc-CCcCcce
Q 038893 54 DKPLGLTLGQ--K---------PGGGVVITAVEGGGNAAKAG-LKSGDQV 91 (235)
Q Consensus 54 ~kplGl~~g~--~---------~~~~vyIa~~isG~~a~~~G-i~~gD~i 91 (235)
+||+|.-+-. . .-|++||.-.++||-|+..| +.+.|.|
T Consensus 170 ekPLGFYIRDG~SVRVtp~GlekvpGIFISRlVpGGLAeSTGLLaVnDEV 219 (358)
T KOG3606|consen 170 EKPLGFYIRDGTSVRVTPHGLEKVPGIFISRLVPGGLAESTGLLAVNDEV 219 (358)
T ss_pred CCCceEEEecCceEEeccccccccCceEEEeecCCccccccceeeeccee
Confidence 4899975433 1 24899999999999999999 6777744
Done!