Query psy16109
Match_columns 129
No_of_seqs 101 out of 223
Neff 5.4
Searched_HMMs 46136
Date Fri Aug 16 21:06:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16109.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16109hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0741|consensus 100.0 1.2E-34 2.5E-39 253.9 11.9 120 1-122 623-742 (744)
2 PF00004 AAA: ATPase family as 95.0 0.01 2.3E-07 40.7 1.1 46 2-48 85-131 (132)
3 TIGR01243 CDC48 AAA family ATP 88.8 1.1 2.5E-05 40.9 6.1 44 17-61 588-632 (733)
4 PRK00411 cdc6 cell division co 87.8 9.8 0.00021 31.4 10.6 73 3-78 159-241 (394)
5 TIGR01241 FtsH_fam ATP-depende 87.4 7.9 0.00017 33.7 10.2 57 3-61 178-235 (495)
6 cd08819 CARD_MDA5_2 Caspase ac 87.0 3.1 6.7E-05 29.2 6.1 60 54-120 22-81 (88)
7 TIGR02928 orc1/cdc6 family rep 85.2 13 0.00029 30.2 10.0 59 17-76 163-231 (365)
8 TIGR00678 holB DNA polymerase 82.6 9.2 0.0002 28.4 7.5 69 3-78 113-181 (188)
9 CHL00195 ycf46 Ycf46; Provisio 82.2 3.9 8.4E-05 36.3 6.0 56 2-61 346-402 (489)
10 PF01637 Arch_ATPase: Archaeal 81.5 7.1 0.00015 28.8 6.5 74 2-78 140-224 (234)
11 KOG0740|consensus 80.5 7.7 0.00017 34.2 7.2 74 4-78 275-352 (428)
12 CHL00181 cbbX CbbX; Provisiona 79.4 26 0.00057 28.6 9.6 73 2-78 147-228 (287)
13 PRK03057 hypothetical protein; 75.0 12 0.00027 29.2 6.2 91 25-117 75-174 (180)
14 TIGR02880 cbbX_cfxQ probable R 74.4 45 0.00098 27.0 10.1 94 3-100 147-250 (284)
15 CHL00176 ftsH cell division pr 73.5 53 0.0012 30.2 10.8 44 17-61 319-363 (638)
16 PRK03992 proteasome-activating 72.2 30 0.00066 29.3 8.5 97 18-118 269-372 (389)
17 PRK14958 DNA polymerase III su 71.6 31 0.00067 30.7 8.7 66 4-75 137-207 (509)
18 cd08326 CARD_CASP9 Caspase act 69.7 26 0.00057 23.8 6.2 59 53-120 18-76 (84)
19 PF13344 Hydrolase_6: Haloacid 68.5 2.8 6E-05 29.0 1.2 33 4-37 68-100 (101)
20 PF12689 Acid_PPase: Acid Phos 68.2 11 0.00024 28.9 4.6 56 16-72 60-136 (169)
21 cd08807 CARD_CARD10_CARMA3 Cas 67.8 18 0.00038 25.4 5.0 58 54-117 19-76 (86)
22 PRK13342 recombination factor 67.8 58 0.0013 27.7 9.3 45 16-62 118-162 (413)
23 PTZ00454 26S protease regulato 67.3 18 0.00039 31.2 6.1 96 18-117 283-385 (398)
24 cd08809 CARD_CARD9 Caspase act 66.9 19 0.00041 25.2 5.0 60 52-117 17-76 (86)
25 cd08789 CARD_IPS-1_RIG-I Caspa 66.6 30 0.00064 23.5 6.0 58 56-120 20-77 (84)
26 PLN00020 ribulose bisphosphate 65.4 13 0.00027 32.8 4.8 75 3-77 241-327 (413)
27 PRK07940 DNA polymerase III su 64.7 27 0.00058 30.1 6.7 65 4-74 135-199 (394)
28 PRK14953 DNA polymerase III su 63.6 61 0.0013 28.7 8.8 66 4-75 137-207 (486)
29 PF05729 NACHT: NACHT domain 61.4 36 0.00077 23.7 5.9 54 4-62 107-161 (166)
30 TIGR03689 pup_AAA proteasome A 59.7 15 0.00032 33.0 4.3 58 2-62 317-376 (512)
31 cd08810 CARD_BCL10 Caspase act 59.6 55 0.0012 22.5 6.7 58 53-123 18-78 (84)
32 cd08808 CARD_CARD11_CARMA1 Cas 58.4 33 0.00072 24.0 5.0 58 54-117 19-76 (86)
33 PRK10733 hflB ATP-dependent me 58.0 58 0.0013 29.7 7.9 43 18-61 289-332 (644)
34 PRK14961 DNA polymerase III su 57.8 1.1E+02 0.0023 25.6 9.0 67 4-76 137-208 (363)
35 TIGR03420 DnaA_homol_Hda DnaA 57.3 50 0.0011 24.8 6.4 71 4-76 110-189 (226)
36 PRK06893 DNA replication initi 56.8 52 0.0011 25.5 6.6 73 5-78 112-193 (229)
37 PRK03636 hypothetical protein; 56.7 52 0.0011 25.7 6.5 90 25-116 77-174 (179)
38 PF07499 RuvA_C: RuvA, C-termi 55.1 35 0.00075 20.5 4.2 25 54-79 4-28 (47)
39 PRK09112 DNA polymerase III su 54.0 46 0.001 28.1 6.2 65 4-74 159-226 (351)
40 PRK13531 regulatory ATPase Rav 53.8 88 0.0019 28.2 8.2 60 17-78 146-219 (498)
41 COG0464 SpoVK ATPases of the A 53.4 44 0.00096 28.9 6.2 58 2-61 362-420 (494)
42 KOG4849|consensus 53.2 39 0.00084 29.8 5.7 66 50-118 357-424 (498)
43 PRK12402 replication factor C 52.2 1.2E+02 0.0026 24.1 9.4 68 3-76 142-214 (337)
44 PRK07471 DNA polymerase III su 52.1 1.5E+02 0.0032 25.2 10.9 56 4-65 159-214 (365)
45 PRK14964 DNA polymerase III su 52.0 1.4E+02 0.003 26.7 9.1 68 3-76 133-205 (491)
46 cd08785 CARD_CARD9-like Caspas 51.7 72 0.0016 21.9 5.9 59 53-118 18-77 (86)
47 PRK14952 DNA polymerase III su 51.1 79 0.0017 28.8 7.6 66 3-74 135-205 (584)
48 PRK08058 DNA polymerase III su 50.7 1.4E+02 0.0031 24.6 8.7 58 5-69 129-186 (329)
49 cd08806 CARD_CARD14_CARMA2 Cas 49.9 35 0.00076 23.9 4.0 56 53-117 18-76 (86)
50 KOG0733|consensus 48.8 28 0.0006 32.8 4.3 57 6-62 316-375 (802)
51 PRK06645 DNA polymerase III su 48.8 1.7E+02 0.0037 26.2 9.2 66 4-75 146-216 (507)
52 PRK14951 DNA polymerase III su 48.7 1.8E+02 0.0038 26.9 9.4 66 4-75 142-212 (618)
53 CHL00206 ycf2 Ycf2; Provisiona 48.7 52 0.0011 34.8 6.5 49 3-51 1754-1805(2281)
54 PRK14957 DNA polymerase III su 48.6 1.8E+02 0.0038 26.4 9.3 65 3-73 136-205 (546)
55 PRK14954 DNA polymerase III su 48.0 1.9E+02 0.0041 26.6 9.5 68 4-77 145-217 (620)
56 PRK07132 DNA polymerase III su 47.4 1.4E+02 0.0029 24.8 7.9 55 4-64 108-162 (299)
57 PRK14956 DNA polymerase III su 46.8 1.5E+02 0.0032 26.7 8.4 67 3-75 138-209 (484)
58 PRK14962 DNA polymerase III su 45.9 1.7E+02 0.0036 25.9 8.7 67 4-76 135-206 (472)
59 cd08812 CARD_RIG-I_like Caspas 45.9 93 0.002 21.1 6.6 60 54-120 22-81 (88)
60 PRK14969 DNA polymerase III su 45.7 1.1E+02 0.0025 27.2 7.7 67 4-76 137-208 (527)
61 PRK09111 DNA polymerase III su 45.3 2E+02 0.0044 26.3 9.2 67 3-75 149-220 (598)
62 PRK07994 DNA polymerase III su 45.1 1.7E+02 0.0037 27.2 8.8 66 4-75 137-207 (647)
63 PRK14955 DNA polymerase III su 44.5 1.5E+02 0.0033 25.1 8.0 67 4-76 145-216 (397)
64 PF02875 Mur_ligase_C: Mur lig 44.0 17 0.00038 23.9 1.8 26 3-28 27-52 (91)
65 PTZ00112 origin recognition co 43.2 1.7E+02 0.0036 29.2 8.6 90 6-100 889-986 (1164)
66 KOG3109|consensus 42.8 61 0.0013 26.7 5.0 45 21-65 117-175 (244)
67 KOG0075|consensus 42.5 32 0.0007 26.9 3.3 40 6-45 111-157 (186)
68 PRK14950 DNA polymerase III su 42.3 1.9E+02 0.0042 26.0 8.6 66 3-74 137-207 (585)
69 PRK05564 DNA polymerase III su 42.1 99 0.0022 25.0 6.3 66 4-76 111-178 (313)
70 KOG3380|consensus 41.5 29 0.00063 26.6 2.8 88 29-118 43-136 (152)
71 PRK14965 DNA polymerase III su 41.2 1.3E+02 0.0028 27.2 7.3 66 4-75 137-207 (576)
72 PRK05563 DNA polymerase III su 41.1 2.4E+02 0.0052 25.4 9.0 67 4-76 137-208 (559)
73 PRK14971 DNA polymerase III su 41.0 2E+02 0.0044 26.3 8.6 66 4-75 139-209 (614)
74 PF03931 Skp1_POZ: Skp1 family 40.8 32 0.00069 21.6 2.6 29 29-61 27-55 (62)
75 TIGR01243 CDC48 AAA family ATP 40.6 93 0.002 28.6 6.4 57 3-61 299-356 (733)
76 PRK05896 DNA polymerase III su 40.5 2.3E+02 0.005 26.2 8.9 66 4-75 137-207 (605)
77 PRK07133 DNA polymerase III su 40.4 2.4E+02 0.0053 26.6 9.1 54 3-62 135-188 (725)
78 PTZ00361 26 proteosome regulat 39.4 2.7E+02 0.0058 24.5 9.1 95 19-117 322-423 (438)
79 cd01671 CARD Caspase activatio 38.4 1E+02 0.0023 19.5 6.5 61 51-120 13-73 (80)
80 PRK00440 rfc replication facto 38.1 2E+02 0.0043 22.6 9.3 68 4-77 120-192 (319)
81 TIGR02069 cyanophycinase cyano 37.2 97 0.0021 24.9 5.4 71 2-78 16-100 (250)
82 KOG0391|consensus 37.1 14 0.00029 37.4 0.5 22 3-24 1262-1283(1958)
83 PRK06647 DNA polymerase III su 37.0 2.6E+02 0.0057 25.3 8.6 67 3-75 136-207 (563)
84 PRK14959 DNA polymerase III su 36.9 3.3E+02 0.0071 25.3 9.3 67 4-76 137-208 (624)
85 TIGR03025 EPS_sugtrans exopoly 36.3 2.6E+02 0.0056 23.8 8.2 66 13-78 121-211 (445)
86 PF00619 CARD: Caspase recruit 36.1 1.2E+02 0.0025 19.4 6.4 57 52-117 17-73 (85)
87 cd07043 STAS_anti-anti-sigma_f 36.0 29 0.00064 22.2 1.9 40 3-42 56-96 (99)
88 PRK10124 putative UDP-glucose 35.4 2.6E+02 0.0057 24.3 8.2 67 13-79 139-227 (463)
89 PF04361 DUF494: Protein of un 35.3 1.5E+02 0.0032 22.4 5.9 68 50-122 20-97 (155)
90 TIGR03015 pepcterm_ATPase puta 35.2 2.1E+02 0.0045 22.0 10.3 90 3-98 140-244 (269)
91 PRK14366 Maf-like protein; Pro 34.7 39 0.00085 26.4 2.7 18 21-38 7-26 (195)
92 PRK08691 DNA polymerase III su 34.4 1.9E+02 0.004 27.4 7.4 67 4-76 137-208 (709)
93 TIGR03642 cas_csx13 CRISPR-ass 34.1 1.9E+02 0.0041 21.2 6.2 35 2-38 7-41 (124)
94 TIGR00377 ant_ant_sig anti-ant 34.1 37 0.0008 22.5 2.2 42 3-44 61-103 (108)
95 TIGR01457 HAD-SF-IIA-hyp2 HAD- 33.5 1.5E+02 0.0032 23.3 5.8 34 4-38 71-104 (249)
96 PRK14970 DNA polymerase III su 33.1 2.8E+02 0.006 22.8 8.0 68 3-76 125-197 (367)
97 PRK14949 DNA polymerase III su 33.1 3.2E+02 0.0069 26.8 8.8 66 4-75 137-207 (944)
98 PRK07399 DNA polymerase III su 32.8 1.4E+02 0.0031 24.7 5.8 55 4-65 142-196 (314)
99 PRK07764 DNA polymerase III su 32.7 3.5E+02 0.0076 25.8 9.0 53 4-62 138-190 (824)
100 PRK07003 DNA polymerase III su 32.4 3.1E+02 0.0066 26.5 8.5 65 4-74 137-206 (830)
101 cd08818 CARD_MDA5_1 Caspase ac 32.4 1.1E+02 0.0023 21.5 4.3 62 55-120 20-81 (88)
102 cd08318 Death_NMPP84 Death dom 32.3 1.6E+02 0.0034 19.8 6.4 66 48-120 3-78 (86)
103 KOG2882|consensus 31.3 51 0.0011 28.0 3.0 96 4-103 93-218 (306)
104 KOG0730|consensus 31.2 81 0.0017 29.7 4.4 33 18-50 569-602 (693)
105 TIGR02886 spore_II_AA anti-sig 30.8 43 0.00094 22.3 2.1 39 3-41 57-96 (106)
106 PRK12323 DNA polymerase III su 30.4 3.9E+02 0.0084 25.3 8.7 64 4-73 142-210 (700)
107 TIGR03023 WcaJ_sugtrans Undeca 30.1 3.4E+02 0.0074 23.1 7.9 64 15-78 126-214 (451)
108 PRK08084 DNA replication initi 29.9 2.2E+02 0.0048 22.1 6.3 71 7-78 120-199 (235)
109 PF03874 RNA_pol_Rpb4: RNA pol 29.1 72 0.0016 22.1 3.1 48 30-78 64-113 (117)
110 PRK06305 DNA polymerase III su 29.0 3.9E+02 0.0085 23.3 8.6 68 3-76 138-210 (451)
111 PRK08903 DnaA regulatory inact 28.3 2.2E+02 0.0048 21.5 5.9 72 4-76 108-187 (227)
112 TIGR01242 26Sp45 26S proteasom 28.1 1.2E+02 0.0027 25.1 4.8 43 19-62 261-304 (364)
113 PLN03210 Resistant to P. syrin 28.0 3.1E+02 0.0067 26.7 8.0 70 17-94 324-397 (1153)
114 PF08640 U3_assoc_6: U3 small 28.0 59 0.0013 22.1 2.4 19 60-78 11-29 (83)
115 PRK02261 methylaspartate mutas 27.8 95 0.0021 22.7 3.6 53 3-61 71-131 (137)
116 TIGR02881 spore_V_K stage V sp 27.8 1.3E+02 0.0028 23.7 4.7 42 36-78 164-210 (261)
117 cd03145 GAT1_cyanophycinase Ty 27.2 1.9E+02 0.0042 22.4 5.5 69 2-78 17-101 (217)
118 PF00231 ATP-synt: ATP synthas 27.1 32 0.00069 27.9 1.1 29 10-45 67-95 (290)
119 PRK10725 fructose-1-P/6-phosph 26.7 1.5E+02 0.0033 21.3 4.6 46 20-65 104-157 (188)
120 PRK10748 flavin mononucleotide 26.5 1.7E+02 0.0037 22.6 5.1 46 18-65 129-178 (238)
121 PRK13341 recombination factor 26.5 2.9E+02 0.0062 26.0 7.2 45 16-62 135-179 (725)
122 PRK11034 clpA ATP-dependent Cl 26.3 1.2E+02 0.0025 28.6 4.7 78 18-100 314-406 (758)
123 PRK04694 Maf-like protein; Rev 25.5 48 0.0011 25.7 1.8 19 20-38 1-21 (190)
124 COG1393 ArsC Arsenate reductas 25.5 2.1E+02 0.0046 20.4 5.0 19 46-64 7-25 (117)
125 PRK04056 Maf-like protein; Rev 25.0 53 0.0012 25.3 1.9 27 20-50 1-29 (180)
126 PF09339 HTH_IclR: IclR helix- 24.8 57 0.0012 19.5 1.7 27 96-122 22-49 (52)
127 TIGR01993 Pyr-5-nucltdase pyri 24.6 1.6E+02 0.0036 21.3 4.5 44 21-64 100-155 (184)
128 COG1011 Predicted hydrolase (H 24.2 2.9E+02 0.0064 20.3 5.9 47 19-65 116-169 (229)
129 cd07042 STAS_SulP_like_sulfate 24.1 69 0.0015 20.7 2.1 37 4-40 60-97 (107)
130 TIGR01681 HAD-SF-IIIC HAD-supe 24.1 2.3E+02 0.0051 19.8 5.0 48 16-64 44-103 (128)
131 PRK14988 GMP/IMP nucleotidase; 24.0 3.3E+02 0.0073 20.8 6.6 48 17-65 109-164 (224)
132 cd08788 CARD_NOD2_2_CARD15 Cas 23.6 1.9E+02 0.0041 20.0 4.2 57 53-117 16-72 (81)
133 TIGR00635 ruvB Holliday juncti 23.5 3.7E+02 0.0081 21.2 7.8 57 20-78 130-191 (305)
134 cd08323 CARD_APAF1 Caspase act 23.5 2.5E+02 0.0054 19.1 7.1 59 53-120 16-74 (86)
135 TIGR01454 AHBA_synth_RP 3-amin 23.5 2.3E+02 0.0049 20.9 5.1 48 17-65 91-146 (205)
136 PRK02478 Maf-like protein; Rev 23.5 65 0.0014 25.2 2.1 26 21-50 5-32 (199)
137 PRK00234 Maf-like protein; Rev 23.4 64 0.0014 25.1 2.1 20 21-42 4-25 (192)
138 PRK08451 DNA polymerase III su 23.4 5.6E+02 0.012 23.2 8.6 66 3-74 134-204 (535)
139 PRK14960 DNA polymerase III su 23.3 6.3E+02 0.014 24.0 8.7 66 4-75 136-206 (702)
140 PRK09449 dUMP phosphatase; Pro 23.1 1.9E+02 0.0042 21.5 4.7 51 16-67 109-167 (224)
141 PRK13407 bchI magnesium chelat 23.0 4.6E+02 0.01 22.1 8.0 44 18-62 170-214 (334)
142 TIGR02640 gas_vesic_GvpN gas v 22.9 3.8E+02 0.0083 21.1 6.9 82 20-103 152-240 (262)
143 PRK08699 DNA polymerase III su 22.7 1.7E+02 0.0037 24.4 4.6 56 4-65 131-186 (325)
144 PRK05642 DNA replication initi 22.6 3.7E+02 0.0081 20.9 6.4 72 5-78 118-198 (234)
145 TIGR02397 dnaX_nterm DNA polym 22.6 4.1E+02 0.0089 21.3 9.2 67 4-76 135-206 (355)
146 TIGR03289 frhB coenzyme F420 h 22.4 1.9E+02 0.0041 23.6 4.8 55 17-71 92-156 (275)
147 PRK01406 gltX glutamyl-tRNA sy 22.4 2.9E+02 0.0062 24.5 6.2 56 60-118 410-466 (476)
148 smart00657 RPOL4c DNA-directed 22.4 1.5E+02 0.0032 21.1 3.7 27 52-78 84-111 (118)
149 cd00555 Maf Nucleotide binding 22.3 54 0.0012 25.1 1.5 26 21-50 1-28 (180)
150 PF08672 APC2: Anaphase promot 22.2 1.9E+02 0.0042 18.4 3.9 37 86-122 11-52 (60)
151 PRK00648 Maf-like protein; Rev 22.1 72 0.0016 24.8 2.1 20 21-42 5-26 (191)
152 PF12242 Eno-Rase_NADH_b: NAD( 21.9 1.1E+02 0.0024 21.0 2.8 23 9-31 29-53 (78)
153 PRK10026 arsenate reductase; P 21.7 2.4E+02 0.0053 20.9 4.9 11 54-64 42-52 (141)
154 TIGR02717 AcCoA-syn-alpha acet 21.7 1.4E+02 0.0031 25.8 4.1 67 3-79 281-366 (447)
155 cd02071 MM_CoA_mut_B12_BD meth 21.6 1.3E+02 0.0028 21.1 3.2 40 4-43 68-109 (122)
156 KOG0731|consensus 21.6 2.4E+02 0.0051 27.0 5.7 80 18-97 449-551 (774)
157 PF04016 DUF364: Domain of unk 21.5 46 0.001 24.6 0.9 50 9-64 81-132 (147)
158 KOG0422|consensus 21.5 68 0.0015 24.6 1.8 15 2-16 104-118 (153)
159 TIGR01452 PGP_euk phosphoglyco 21.2 1E+02 0.0022 24.6 2.9 33 6-38 74-106 (279)
160 PRK00148 Maf-like protein; Rev 21.1 76 0.0016 24.7 2.1 18 21-38 3-22 (194)
161 PRK01441 Maf-like protein; Rev 20.5 85 0.0018 24.7 2.3 17 21-37 7-25 (207)
162 TIGR00172 maf MAF protein. Thi 20.4 81 0.0018 24.3 2.1 18 21-38 5-24 (183)
163 smart00550 Zalpha Z-DNA-bindin 20.3 2.4E+02 0.0053 17.9 4.8 47 71-123 8-54 (68)
164 PRK01839 Maf-like protein; Rev 20.2 82 0.0018 24.9 2.1 18 21-38 12-31 (209)
No 1
>KOG0741|consensus
Probab=100.00 E-value=1.2e-34 Score=253.94 Aligned_cols=120 Identities=54% Similarity=0.807 Sum_probs=114.8
Q ss_pred ChHHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHHhh
Q psy16109 1 MTLQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDVFSKKQVQEIERYLHQ 80 (129)
Q Consensus 1 ~ILQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~~F~~~e~~~i~~~l~~ 80 (129)
.|||||+|||||+|||||||||+||||.++||++|||++||+++++||++++.+++.+||++.+.|++.+.+.+.+.+
T Consensus 623 ~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~n~fsd~~~~~~~~~~-- 700 (744)
T KOG0741|consen 623 LVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEELNIFSDDEVRAIAEQL-- 700 (744)
T ss_pred HHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHHccCCCcchhHHHHHHH--
Confidence 489999999999999999999999999999999999999999999999999999999999999999999999998888
Q ss_pred CCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHhcCccc
Q psy16109 81 HKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGCLD 122 (129)
Q Consensus 81 ~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~~g~~~ 122 (129)
-+..++|||||+|++||||+|++..+|+.+|++.|+++|...
T Consensus 701 ~~~~~~vgIKklL~lie~a~q~e~~~rv~~~~~~m~~~~~~~ 742 (744)
T KOG0741|consen 701 LSKKVNVGIKKLLMLIEMARQDEQEYRVRKFLALMEEEGANP 742 (744)
T ss_pred hccccchhHHHHHHHHHHHhccCccchHHHHHHHHHhhcccc
Confidence 677799999999999999999998999999999999998754
No 2
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=95.01 E-value=0.01 Score=40.72 Aligned_cols=46 Identities=26% Similarity=0.474 Sum_probs=36.8
Q ss_pred hHHHHHHHhcCCCCCCCeEEEEecCCcHHHHHh-CCCchhcccceecC
Q psy16109 2 TLQALRVLLKKEPPRNKKLLVLCTTSCREVLED-LKILSKFSAVLHVP 48 (129)
Q Consensus 2 ILQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~-lgl~~~F~~~i~VP 48 (129)
++++|+.++.+...+++++.||+||+..+-+.. +-- ++|+..+++|
T Consensus 85 ~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~~-~rf~~~i~~~ 131 (132)
T PF00004_consen 85 LLNQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALLR-SRFDRRIEFP 131 (132)
T ss_dssp HHHHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHHS-TTSEEEEEE-
T ss_pred ccceeeecccccccccccceeEEeeCChhhCCHhHHh-CCCcEEEEcC
Confidence 578999999999999999999999997544433 334 8999999987
No 3
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=88.80 E-value=1.1 Score=40.88 Aligned_cols=44 Identities=16% Similarity=0.330 Sum_probs=35.3
Q ss_pred CCeEEEEecCCcHHHHHhCCCc-hhcccceecCCCCCHHHHHHHHH
Q psy16109 17 NKKLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNLSTPEHLLNVIE 61 (129)
Q Consensus 17 GrrLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l~~~~el~~Vl~ 61 (129)
+++++|||||+.++.++.--+- ..|+..++||... .++-..+++
T Consensus 588 ~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd-~~~R~~i~~ 632 (733)
T TIGR01243 588 LSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPD-EEARKEIFK 632 (733)
T ss_pred CCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcC-HHHHHHHHH
Confidence 4679999999999998887775 6899999999886 456666653
No 4
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=87.76 E-value=9.8 Score=31.42 Aligned_cols=73 Identities=16% Similarity=0.250 Sum_probs=47.4
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCC--Cchhcc-cceecCCCCCHHHHHHHHHhc-------CCCCHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLK--ILSKFS-AVLHVPNLSTPEHLLNVIEES-------DVFSKKQVQ 72 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lg--l~~~F~-~~i~VP~l~~~~el~~Vl~~~-------~~F~~~e~~ 72 (129)
|.+|+-+....+ +.++.||++++..++++.++ +...|. ..++.|+.+ .+++..+++.. +.|+++.++
T Consensus 159 l~~l~~~~~~~~--~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~-~~e~~~il~~r~~~~~~~~~~~~~~l~ 235 (394)
T PRK00411 159 LYSLLRAHEEYP--GARIGVIGISSDLTFLYILDPRVKSVFRPEEIYFPPYT-ADEIFDILKDRVEEGFYPGVVDDEVLD 235 (394)
T ss_pred HHHHHHhhhccC--CCeEEEEEEECCcchhhhcCHHHHhcCCcceeecCCCC-HHHHHHHHHHHHHhhcccCCCCHhHHH
Confidence 445544444432 45899999999888877654 233453 568999997 48999988742 246666665
Q ss_pred HHHHHH
Q psy16109 73 EIERYL 78 (129)
Q Consensus 73 ~i~~~l 78 (129)
.+.+..
T Consensus 236 ~i~~~~ 241 (394)
T PRK00411 236 LIADLT 241 (394)
T ss_pred HHHHHH
Confidence 555544
No 5
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=87.37 E-value=7.9 Score=33.75 Aligned_cols=57 Identities=18% Similarity=0.204 Sum_probs=35.9
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCc-hhcccceecCCCCCHHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNLSTPEHLLNVIE 61 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l~~~~el~~Vl~ 61 (129)
+..|+..+..-.. ..+++|||||+.++.++.-=+- ..|+..++||... .++-..+++
T Consensus 178 ~~~lL~~~d~~~~-~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd-~~~R~~il~ 235 (495)
T TIGR01241 178 LNQLLVEMDGFGT-NTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPD-IKGREEILK 235 (495)
T ss_pred HHHHHhhhccccC-CCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCC-HHHHHHHHH
Confidence 3445555543322 3458999999988776654332 3699999998775 345555444
No 6
>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat. Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei
Probab=87.05 E-value=3.1 Score=29.18 Aligned_cols=60 Identities=20% Similarity=0.215 Sum_probs=42.8
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHhcCc
Q psy16109 54 EHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGC 120 (129)
Q Consensus 54 ~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~~g~ 120 (129)
+++..-|-+.++|++++++.|..+- +++...=+..+||.-++ |. ..-+..|+++|++.|-
T Consensus 22 ~~v~d~ll~~~ilT~~d~e~I~aa~--~~~g~~~~ar~LL~~L~--rg---~~aF~~Fl~aLreT~~ 81 (88)
T cd08819 22 RDVCDKCLEQGLLTEEDRNRIEAAT--ENHGNESGARELLKRIV--QK---EGWFSKFLQALRETEH 81 (88)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHhc--cccCcHHHHHHHHHHhc--cC---CcHHHHHHHHHHHcCc
Confidence 4555556677899999998888765 33333455667777776 32 2459999999999885
No 7
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=85.24 E-value=13 Score=30.24 Aligned_cols=59 Identities=19% Similarity=0.263 Sum_probs=40.9
Q ss_pred CCeEEEEecCCcHHHHHhCC--Cchhcc-cceecCCCCCHHHHHHHHHhc-------CCCCHHHHHHHHH
Q psy16109 17 NKKLLVLCTTSCREVLEDLK--ILSKFS-AVLHVPNLSTPEHLLNVIEES-------DVFSKKQVQEIER 76 (129)
Q Consensus 17 GrrLLViaTTS~~~vL~~lg--l~~~F~-~~i~VP~l~~~~el~~Vl~~~-------~~F~~~e~~~i~~ 76 (129)
+.++.+|++++.+++++.+. +.+.|. ..++.|+.+ .+|+..+++.. +.|+++.++.+..
T Consensus 163 ~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~-~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~ 231 (365)
T TIGR02928 163 NAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYD-AEELRDILENRAEKAFYDGVLDDGVIPLCAA 231 (365)
T ss_pred CCeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCC-HHHHHHHHHHHHHhhccCCCCChhHHHHHHH
Confidence 56889999998888877664 345564 568999997 58999999742 2366654444433
No 8
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=82.62 E-value=9.2 Score=28.43 Aligned_cols=69 Identities=30% Similarity=0.388 Sum_probs=44.4
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcCCCCHHHHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDVFSKKQVQEIERYL 78 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~~F~~~e~~~i~~~l 78 (129)
..+|+-++..+|+ +-.+|+.|+....+++. +.+.+ ..++++.++ .+++...+++.| ++++....+.+..
T Consensus 113 ~~~Ll~~le~~~~--~~~~il~~~~~~~l~~~--i~sr~-~~~~~~~~~-~~~~~~~l~~~g-i~~~~~~~i~~~~ 181 (188)
T TIGR00678 113 ANALLKTLEEPPP--NTLFILITPSPEKLLPT--IRSRC-QVLPFPPLS-EEALLQWLIRQG-ISEEAAELLLALA 181 (188)
T ss_pred HHHHHHHhcCCCC--CeEEEEEECChHhChHH--HHhhc-EEeeCCCCC-HHHHHHHHHHcC-CCHHHHHHHHHHc
Confidence 3568888877555 45567766654333333 22222 478898997 589999999886 6766666665543
No 9
>CHL00195 ycf46 Ycf46; Provisional
Probab=82.18 E-value=3.9 Score=36.29 Aligned_cols=56 Identities=14% Similarity=0.192 Sum_probs=35.8
Q ss_pred hHHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhC-CCchhcccceecCCCCCHHHHHHHHH
Q psy16109 2 TLQALRVLLKKEPPRNKKLLVLCTTSCREVLEDL-KILSKFSAVLHVPNLSTPEHLLNVIE 61 (129)
Q Consensus 2 ILQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~l-gl~~~F~~~i~VP~l~~~~el~~Vl~ 61 (129)
++.+++..+.. +...++|||||+.++-|..- ---..|+..++||.-+ .++-..+++
T Consensus 346 vl~~lL~~l~~---~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~-~~eR~~Il~ 402 (489)
T CHL00195 346 VLATFITWLSE---KKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPS-LEEREKIFK 402 (489)
T ss_pred HHHHHHHHHhc---CCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcC-HHHHHHHHH
Confidence 45666666654 24579999999988755531 1124788888888664 345455544
No 10
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=81.50 E-value=7.1 Score=28.80 Aligned_cols=74 Identities=26% Similarity=0.394 Sum_probs=39.2
Q ss_pred hHHHHHHHhcCCCCCCCeEEEEecCCcHHHHHh-----CCCchhcccceecCCCCCHHHHHHHHHh-----cCC-CCHHH
Q psy16109 2 TLQALRVLLKKEPPRNKKLLVLCTTSCREVLED-----LKILSKFSAVLHVPNLSTPEHLLNVIEE-----SDV-FSKKQ 70 (129)
Q Consensus 2 ILQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~-----lgl~~~F~~~i~VP~l~~~~el~~Vl~~-----~~~-F~~~e 70 (129)
+++.|.-++...+-..+..+| .+.|..+++.+ -.+.+.+.. +.++.++ .++....+.+ .+. +++.+
T Consensus 140 ~~~~l~~~~~~~~~~~~~~~v-~~~S~~~~~~~~~~~~~~~~~~~~~-~~l~~l~-~~e~~~~~~~~~~~~~~~~~~~~~ 216 (234)
T PF01637_consen 140 FLKSLRSLLDSLLSQQNVSIV-ITGSSDSLMEEFLDDKSPLFGRFSH-IELKPLS-KEEAREFLKELFKELIKLPFSDED 216 (234)
T ss_dssp HHHHHHHHHHH----TTEEEE-EEESSHHHHHHTT-TTSTTTT---E-EEE-----HHHHHHHHHHHHHCC------HHH
T ss_pred HHHHHHHHHhhccccCCceEE-EECCchHHHHHhhcccCccccccce-EEEeeCC-HHHHHHHHHHHHHHhhcccCCHHH
Confidence 356677777774433444445 45555777776 234455555 9999997 5888888887 232 58888
Q ss_pred HHHHHHHH
Q psy16109 71 VQEIERYL 78 (129)
Q Consensus 71 ~~~i~~~l 78 (129)
+..+.+..
T Consensus 217 ~~~i~~~~ 224 (234)
T PF01637_consen 217 IEEIYSLT 224 (234)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHh
Confidence 87777765
No 11
>KOG0740|consensus
Probab=80.52 E-value=7.7 Score=34.20 Aligned_cols=74 Identities=15% Similarity=0.156 Sum_probs=49.1
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCH---HHHHHHHHhc-CCCCHHHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTP---EHLLNVIEES-DVFSKKQVQEIERYL 78 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~---~el~~Vl~~~-~~F~~~e~~~i~~~l 78 (129)
|.|+-.+-+.--.+-|.||||||..+..+++.=.- .|...+.||.-... ..+...|.+. +.+++.++..+++..
T Consensus 275 efLiq~~~~~s~~~drvlvigaTN~P~e~Dea~~R-rf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~T 352 (428)
T KOG0740|consen 275 EFLLQFDGKNSAPDDRVLVIGATNRPWELDEAARR-RFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVT 352 (428)
T ss_pred HHHhhhccccCCCCCeEEEEecCCCchHHHHHHHH-HhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHh
Confidence 44555554433333499999999999999987666 99999999876432 2344445554 346666666665544
No 12
>CHL00181 cbbX CbbX; Provisional
Probab=79.37 E-value=26 Score=28.59 Aligned_cols=73 Identities=14% Similarity=0.315 Sum_probs=44.4
Q ss_pred hHHHHHHHhcCCCCCCCeEEEEecCCcHHHHH----hCCCchhcccceecCCCCCHHHHHHHHHhc----C-CCCHHHHH
Q psy16109 2 TLQALRVLLKKEPPRNKKLLVLCTTSCREVLE----DLKILSKFSAVLHVPNLSTPEHLLNVIEES----D-VFSKKQVQ 72 (129)
Q Consensus 2 ILQaLlVLlkk~PPkGrrLLViaTTS~~~vL~----~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~----~-~F~~~e~~ 72 (129)
+.++|+-++-... .++.||++++...+-+ .=++.+.|+..++.|..+ .+|+..+++.. + .++++...
T Consensus 147 ~~~~L~~~me~~~---~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t-~~el~~I~~~~l~~~~~~l~~~~~~ 222 (287)
T CHL00181 147 AIEILLQVMENQR---DDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYT-PEELLQIAKIMLEEQQYQLTPEAEK 222 (287)
T ss_pred HHHHHHHHHhcCC---CCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcC-HHHHHHHHHHHHHHhcCCCChhHHH
Confidence 3456666665432 3466666665433221 135778899999999996 68998888742 1 24555444
Q ss_pred HHHHHH
Q psy16109 73 EIERYL 78 (129)
Q Consensus 73 ~i~~~l 78 (129)
.+...+
T Consensus 223 ~L~~~i 228 (287)
T CHL00181 223 ALLDYI 228 (287)
T ss_pred HHHHHH
Confidence 444444
No 13
>PRK03057 hypothetical protein; Provisional
Probab=75.03 E-value=12 Score=29.19 Aligned_cols=91 Identities=19% Similarity=0.246 Sum_probs=60.4
Q ss_pred cCCcHHHHHhCCCc--hhcccceecCCCCCHHHHHHHHHhcCCCC--H-----HHHHHHHHHHhhCCCcccccHHHHHHH
Q psy16109 25 TTSCREVLEDLKIL--SKFSAVLHVPNLSTPEHLLNVIEESDVFS--K-----KQVQEIERYLHQHKARVFVGIRKLLGL 95 (129)
Q Consensus 25 TTS~~~vL~~lgl~--~~F~~~i~VP~l~~~~el~~Vl~~~~~F~--~-----~e~~~i~~~l~~~~~~~~IgIKkLL~~ 95 (129)
||+.-....++.+- +.|+..++-|.-....++.+||+++...+ . ...+.+.+.|. -.....-+++|+..
T Consensus 75 ~~d~e~aFhdirlN~~~~iYIql~F~~~~~~~~yl~vLe~np~~~~~~~~~~~~~~~~ae~~L~--~~~~~~~~~~L~~~ 152 (180)
T PRK03057 75 SESLAAAMGDLALNPNEPLYLILHFPGKARNHSYLQLLDHQAFENVKRHKQFQKYAKETEQVLD--EVLKRNEVSRLRMQ 152 (180)
T ss_pred ecCHHHHHHHHHcCCCCCeEEEEeCCCcccChHHHHhhhcCCCcccchhhhhHHHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence 34445578887544 77999999999888889999998765443 1 22233334331 11345678999999
Q ss_pred HHHHhcccchhhHHHHHHHHHh
Q psy16109 96 IDMARQIEENYRVMKFLTKLED 117 (129)
Q Consensus 96 ie~A~~~~~~~~~~~fl~~l~~ 117 (129)
||.|-......++-+..+.|..
T Consensus 153 ID~ALd~~D~e~F~~Lt~~L~~ 174 (180)
T PRK03057 153 IDQALDRKDMEEFQRLTEKLKK 174 (180)
T ss_pred HHHHHHCCCHHHHHHHHHHHHH
Confidence 9999876554556665555543
No 14
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=74.39 E-value=45 Score=27.04 Aligned_cols=94 Identities=17% Similarity=0.275 Sum_probs=52.2
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcH--HHHHh--CCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCR--EVLED--LKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQE 73 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~--~vL~~--lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~ 73 (129)
.++|+-++-... .++.||++++.. +-+-. =++.+.|...+++|.++ .+|+..+++. .+ .++++..+.
T Consensus 147 ~~~Ll~~le~~~---~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~-~edl~~I~~~~l~~~~~~l~~~a~~~ 222 (284)
T TIGR02880 147 IEILLQVMENQR---DDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYS-EAELLVIAGLMLKEQQYRFSAEAEEA 222 (284)
T ss_pred HHHHHHHHhcCC---CCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcC-HHHHHHHHHHHHHHhccccCHHHHHH
Confidence 455666665332 345566665532 22222 25677889999999998 6899988763 22 245554444
Q ss_pred HHHHHhhCCCccccc-HHHHHHHHHHHh
Q psy16109 74 IERYLHQHKARVFVG-IRKLLGLIDMAR 100 (129)
Q Consensus 74 i~~~l~~~~~~~~Ig-IKkLL~~ie~A~ 100 (129)
+...+......-|-| +..+-.++|-|.
T Consensus 223 L~~~l~~~~~~~~~GN~R~lrn~ve~~~ 250 (284)
T TIGR02880 223 FADYIALRRTQPHFANARSIRNAIDRAR 250 (284)
T ss_pred HHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence 444432111123445 566666666553
No 15
>CHL00176 ftsH cell division protein; Validated
Probab=73.53 E-value=53 Score=30.18 Aligned_cols=44 Identities=20% Similarity=0.372 Sum_probs=31.1
Q ss_pred CCeEEEEecCCcHHHHHhCCCc-hhcccceecCCCCCHHHHHHHHH
Q psy16109 17 NKKLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNLSTPEHLLNVIE 61 (129)
Q Consensus 17 GrrLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l~~~~el~~Vl~ 61 (129)
+.+++|||||+.++.++.-=+- ..|+..++||..+ .++-..+++
T Consensus 319 ~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd-~~~R~~IL~ 363 (638)
T CHL00176 319 NKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPD-REGRLDILK 363 (638)
T ss_pred CCCeeEEEecCchHhhhhhhhccccCceEEEECCCC-HHHHHHHHH
Confidence 4579999999998888753222 3699888887664 456555554
No 16
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=72.22 E-value=30 Score=29.33 Aligned_cols=97 Identities=13% Similarity=0.239 Sum_probs=54.5
Q ss_pred CeEEEEecCCcHHHHHhCCCc-hhcccceecCCCCCHHHHHHHHHhcC---CCC-HHHHHHHHHHHhhCCCcccccHHHH
Q psy16109 18 KKLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNLSTPEHLLNVIEESD---VFS-KKQVQEIERYLHQHKARVFVGIRKL 92 (129)
Q Consensus 18 rrLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l~~~~el~~Vl~~~~---~F~-~~e~~~i~~~l~~~~~~~~IgIKkL 92 (129)
.+..|||||+..+.++.-=+- ..|+..++||..+ .++-..+++..- .++ +.+...+.+.. .+ -.+--|+.+
T Consensus 269 ~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~-~~~R~~Il~~~~~~~~~~~~~~~~~la~~t--~g-~sgadl~~l 344 (389)
T PRK03992 269 GNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPD-EEGRLEILKIHTRKMNLADDVDLEELAELT--EG-ASGADLKAI 344 (389)
T ss_pred CCEEEEEecCChhhCCHHHcCCccCceEEEECCCC-HHHHHHHHHHHhccCCCCCcCCHHHHHHHc--CC-CCHHHHHHH
Confidence 478999999988766554332 4799999999986 578888877421 122 23444444332 21 223445555
Q ss_pred HHHHHHH--hcccchhhHHHHHHHHHhc
Q psy16109 93 LGLIDMA--RQIEENYRVMKFLTKLEDE 118 (129)
Q Consensus 93 L~~ie~A--~~~~~~~~~~~fl~~l~~~ 118 (129)
+.-+-+. +......+...|.+.+...
T Consensus 345 ~~eA~~~a~~~~~~~i~~~d~~~A~~~~ 372 (389)
T PRK03992 345 CTEAGMFAIRDDRTEVTMEDFLKAIEKV 372 (389)
T ss_pred HHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 4433332 2222334566666665543
No 17
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.58 E-value=31 Score=30.68 Aligned_cols=66 Identities=21% Similarity=0.386 Sum_probs=40.6
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHH----HHHHhcCC-CCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLL----NVIEESDV-FSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~----~Vl~~~~~-F~~~e~~~i~ 75 (129)
++|+-.|..+|+ +-.+|++||..+.++.. +.+.. ..++.+.++. +++. .+++..|. |+++.++.+.
T Consensus 137 naLLk~LEepp~--~~~fIlattd~~kl~~t--I~SRc-~~~~f~~l~~-~~i~~~l~~il~~egi~~~~~al~~ia 207 (509)
T PRK14958 137 NALLKTLEEPPS--HVKFILATTDHHKLPVT--VLSRC-LQFHLAQLPP-LQIAAHCQHLLKEENVEFENAALDLLA 207 (509)
T ss_pred HHHHHHHhccCC--CeEEEEEECChHhchHH--HHHHh-hhhhcCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 577777777666 57788999876666654 33222 4566777764 5544 46666553 5665544443
No 18
>cd08326 CARD_CASP9 Caspase activation and recruitment domain of Caspase-9. Caspase activation and recruitment domain (CARD) similar to that found in caspase-9 (CASP9, MCH6, APAF3), which interacts with the CARD of apoptotic protease-activating factor 1 (APAF-1). Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Initiator caspases are the first to be activated following death- or inflammation-inducing signals. Caspase-9 is the initiator caspase associated with the intrinsic or mitochondrial pathway of apoptosis, induced by many pro-apoptotic signals. Together with APAF-1, it forms the heptameric 'apoptosome' in response to the release of cytochrome c from mitochondria. Activated caspase-9 cleaves and activates downstream effector caspases, like caspase-3, caspase-6, and caspase-7, resulting in apoptosis. In general, CARDs are death domains (DDs) associated with caspases. They are known to be important in the signaling pathways for apopt
Probab=69.72 E-value=26 Score=23.81 Aligned_cols=59 Identities=22% Similarity=0.263 Sum_probs=40.9
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHhcCc
Q psy16109 53 PEHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGC 120 (129)
Q Consensus 53 ~~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~~g~ 120 (129)
++++...|-+.|+|++.+.+.|...= ++ .==..+||.++.. .+ ...+..|.+.|.+.|.
T Consensus 18 ~~~v~~~L~~~~Vlt~~~~e~I~~~~---tr--~~q~~~LLd~L~~--RG--~~AF~~F~~aL~~~~~ 76 (84)
T cd08326 18 PKYLWDHLLSRGVFTPDMIEEIQAAG---SR--RDQARQLLIDLET--RG--KQAFPAFLSALRETGQ 76 (84)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHcCC---CH--HHHHHHHHHHHHh--cC--HHHHHHHHHHHHhcCc
Confidence 56788888899999999887776521 11 1113667777554 22 2358999999999886
No 19
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=68.52 E-value=2.8 Score=29.00 Aligned_cols=33 Identities=30% Similarity=0.320 Sum_probs=26.3
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCC
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKI 37 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl 37 (129)
++.--+|++. +.++|.+|+|+-..++.|++.|+
T Consensus 68 ~~~~~~l~~~-~~~~~v~vlG~~~l~~~l~~~G~ 100 (101)
T PF13344_consen 68 MAAAEYLKEH-KGGKKVYVLGSDGLREELREAGF 100 (101)
T ss_dssp HHHHHHHHHH-TTSSEEEEES-HHHHHHHHHTTE
T ss_pred HHHHHHHHhc-CCCCEEEEEcCHHHHHHHHHcCC
Confidence 4556677776 44899999999999999999986
No 20
>PF12689 Acid_PPase: Acid Phosphatase; InterPro: IPR010036 This entry represents two closely related clades of sequences from eukaryotes and archaea. The mouse enzyme has been characterised as a phosphatase and has been positively identified as a member of the haloacid dehalogenase (HAD) superfamily by site-directed mutagenesis of the active site residues [, ].; GO: 0016791 phosphatase activity; PDB: 1U7P_A 1U7O_A 2WM8_A.
Probab=68.18 E-value=11 Score=28.87 Aligned_cols=56 Identities=27% Similarity=0.324 Sum_probs=36.5
Q ss_pred CCCeEEEEecCCc----HHHHHhCCCc----------hhcccceecCCCCCHHHHHHHHHhcCC-------CCHHHHH
Q psy16109 16 RNKKLLVLCTTSC----REVLEDLKIL----------SKFSAVLHVPNLSTPEHLLNVIEESDV-------FSKKQVQ 72 (129)
Q Consensus 16 kGrrLLViaTTS~----~~vL~~lgl~----------~~F~~~i~VP~l~~~~el~~Vl~~~~~-------F~~~e~~ 72 (129)
+|-+|-|--.|+. +++|+.+++. +.|+. .++=.=++..++.++.+.+|+ |+++..+
T Consensus 60 ~gv~lavASRt~~P~~A~~~L~~l~i~~~~~~~~~~~~~F~~-~eI~~gsK~~Hf~~i~~~tgI~y~eMlFFDDe~~N 136 (169)
T PF12689_consen 60 RGVKLAVASRTDEPDWARELLKLLEIDDADGDGVPLIEYFDY-LEIYPGSKTTHFRRIHRKTGIPYEEMLFFDDESRN 136 (169)
T ss_dssp CT--EEEEE--S-HHHHHHHHHHTT-C----------CCECE-EEESSS-HHHHHHHHHHHH---GGGEEEEES-HHH
T ss_pred CCCEEEEEECCCChHHHHHHHHhcCCCccccccccchhhcch-hheecCchHHHHHHHHHhcCCChhHEEEecCchhc
Confidence 6777766665665 4789999999 99997 666666889999999998885 6766553
No 21
>cd08807 CARD_CARD10_CARMA3 Caspase activation and recruitment domain of CARD10-like proteins. Caspase activation and recruitment domain (CARD) similar to that found in CARD10, also known as CARMA3 (caspase recruitment domain-containing membrane-associated guanylate kinase protein 3) or BIMP1. The CARMA3-BCL10-MALT1 signalosome plays a role in the GPCR-induced NF-kB activation. CARMA3 is more widely expressed than CARMA1, which is found only in hematopoietic cells. In endothelial and smooth muscle cells, CARMA3-mediated NF-kB activation induces pro-inflammatory signals within the vasculature and is a key factor in atherogenesis. In bronchial epithelial cells, CARMA3-mediated NF-kB signaling is important for the development of allergic airway inflammation. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains fo
Probab=67.85 E-value=18 Score=25.35 Aligned_cols=58 Identities=21% Similarity=0.222 Sum_probs=43.1
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHh
Q psy16109 54 EHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLED 117 (129)
Q Consensus 54 ~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~ 117 (129)
+.+..-|.+.++.+++|.++|.++. ++.+...|..+++|.-...-+ .-+..|+++|+.
T Consensus 19 ~~vtpYLrQ~~VL~~~deEEI~~~~-----~~~~~~~k~~~LLDIL~trG~-~gf~aFLeSLE~ 76 (86)
T cd08807 19 AKLTPYLRQCRVIDEQDEEEVLNSY-----RFPCRINRTGRLMDILRGRGK-RGYEAFLEALEF 76 (86)
T ss_pred hhccHHHHHhCCCChhhHHHHHhcc-----chhhHHHHHHHHHHHHHhcCc-hHHHHHHHHHHh
Confidence 4466678899999999998888754 677788888888876544322 348899999974
No 22
>PRK13342 recombination factor protein RarA; Reviewed
Probab=67.80 E-value=58 Score=27.70 Aligned_cols=45 Identities=20% Similarity=0.223 Sum_probs=29.7
Q ss_pred CCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh
Q psy16109 16 RNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE 62 (129)
Q Consensus 16 kGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~ 62 (129)
.|+..+|.+||.++...-.-.+.+.| ..++++.++. +++..+++.
T Consensus 118 ~~~iilI~att~n~~~~l~~aL~SR~-~~~~~~~ls~-e~i~~lL~~ 162 (413)
T PRK13342 118 DGTITLIGATTENPSFEVNPALLSRA-QVFELKPLSE-EDIEQLLKR 162 (413)
T ss_pred cCcEEEEEeCCCChhhhccHHHhccc-eeeEeCCCCH-HHHHHHHHH
Confidence 36666777777766543333445555 5788999974 788888875
No 23
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=67.34 E-value=18 Score=31.16 Aligned_cols=96 Identities=9% Similarity=0.088 Sum_probs=50.8
Q ss_pred CeEEEEecCCcHHHHHhCCCc-hhcccceecCCCCCHHHHHHHHH----hcCCCCHHHHHHHHHHHhhCCCcccccHHHH
Q psy16109 18 KKLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNLSTPEHLLNVIE----ESDVFSKKQVQEIERYLHQHKARVFVGIRKL 92 (129)
Q Consensus 18 rrLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l~~~~el~~Vl~----~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkL 92 (129)
.+..||+||+.++.++.-=+- ..|+..|+||..+. ++-..+++ ..+.-.+-+...+.+.. .+ -.+--|+.+
T Consensus 283 ~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~-~~R~~Il~~~~~~~~l~~dvd~~~la~~t--~g-~sgaDI~~l 358 (398)
T PTZ00454 283 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDR-RQKRLIFQTITSKMNLSEEVDLEDFVSRP--EK-ISAADIAAI 358 (398)
T ss_pred CCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCH-HHHHHHHHHHHhcCCCCcccCHHHHHHHc--CC-CCHHHHHHH
Confidence 357889999888766653221 47999999998764 55444444 22222233555554433 21 123345555
Q ss_pred HHHHHHH--hcccchhhHHHHHHHHHh
Q psy16109 93 LGLIDMA--RQIEENYRVMKFLTKLED 117 (129)
Q Consensus 93 L~~ie~A--~~~~~~~~~~~fl~~l~~ 117 (129)
..-+-|. +.+......+.|.+.+..
T Consensus 359 ~~eA~~~A~r~~~~~i~~~df~~A~~~ 385 (398)
T PTZ00454 359 CQEAGMQAVRKNRYVILPKDFEKGYKT 385 (398)
T ss_pred HHHHHHHHHHcCCCccCHHHHHHHHHH
Confidence 4444332 222223445566555544
No 24
>cd08809 CARD_CARD9 Caspase activation and recruitment domain of CARD9-like proteins. Caspase activation and recruitment domain (CARD) similar to that found in CARD9. CARD9 is a central regulator of innate immunity and is highly expressed in dendritic cells and macrophages. Together with BCL10 (B-cell lymphoma 10) and Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1), it forms the M-CBM signalosome (the CBM complex in myeloid immune cells), which mediates activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. CARD9 associates with BCL10 via a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating wi
Probab=66.86 E-value=19 Score=25.21 Aligned_cols=60 Identities=17% Similarity=0.232 Sum_probs=44.0
Q ss_pred CHHHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHh
Q psy16109 52 TPEHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLED 117 (129)
Q Consensus 52 ~~~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~ 117 (129)
+++.+..-|.+.++.+++|.++|.++. .+++...|..+++|.-....+ .-+..|+++|+.
T Consensus 17 ~p~rl~pyLrQ~~Vl~~~deEeI~~~~-----~~~~~~~kvg~LLDIL~~rG~-~~f~aFLeSLE~ 76 (86)
T cd08809 17 DPSRITPYLRQCKVLNSDDEEQVLNDP-----SLVIRKRKVGVLLDILQRTGL-KGYEAFLESLEL 76 (86)
T ss_pred CHhhcChHHHHhCCCChhhHHHHHcCc-----ccchHHHHHHHHHHHHHhcCc-hHHHHHHHHHHH
Confidence 356777778899999999998888754 557777777777776543322 348999999984
No 25
>cd08789 CARD_IPS-1_RIG-I Caspase activation and recruitment domains (CARDs) found in IPS-1 and RIG-I-like RNA helicases. Caspase activation and recruitment domains (CARDs) found in IPS-1 (Interferon beta promoter stimulator protein 1) and Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. RIG-I-like helicases and IPS-1 play important roles in the induction of interferons in response to viral infection. They are crucial in triggering innate immunity and in developing adaptive immunity against viral pathogens. RIG-I-like helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. MDA5 and RIG-I associate with IPS-1 through a CARD-CAR
Probab=66.64 E-value=30 Score=23.52 Aligned_cols=58 Identities=16% Similarity=0.197 Sum_probs=39.6
Q ss_pred HHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHhcCc
Q psy16109 56 LLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGC 120 (129)
Q Consensus 56 l~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~~g~ 120 (129)
...|+.....|++++.++|...- .++...=+.-+|+..+. + ..+-+..|++.|.+.|.
T Consensus 20 ~~~il~~L~~Lt~~d~e~I~a~~--~~~G~~~aa~~Ll~~L~--r---~~~Wf~~Fl~AL~~~~~ 77 (84)
T cd08789 20 VEEVLPYLTCLTAEDKERIQAAE--NNSGNIKAAWTLLDTLV--R---RDNWLEPFLDALRECGL 77 (84)
T ss_pred HHHHHhhCCcCCHHHHHHHHHHH--hcCChHHHHHHHHHHHh--c---cCChHHHHHHHHHHcCC
Confidence 44556666689999998888765 22223445556677666 3 23469999999999986
No 26
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=65.40 E-value=13 Score=32.80 Aligned_cols=75 Identities=12% Similarity=0.074 Sum_probs=42.8
Q ss_pred HHHHHHHhcCCC-----------CCCCeEEEEecCCcHHHHHhCCCc-hhcccceecCCCCCHHHHHHHHHhcCCCCHHH
Q psy16109 3 LQALRVLLKKEP-----------PRNKKLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNLSTPEHLLNVIEESDVFSKKQ 70 (129)
Q Consensus 3 LQaLlVLlkk~P-----------PkGrrLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l~~~~el~~Vl~~~~~F~~~e 70 (129)
..+||.++=.+. -..++.+|||||..++.|..-=+= .-|+..+.+|.-..-.++-+++-.....+..|
T Consensus 241 ~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~i~lPd~e~R~eIL~~~~r~~~l~~~d 320 (413)
T PLN00020 241 NGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVVHGIFRDDGVSRED 320 (413)
T ss_pred HHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCCceeCCCCHHHHHHHHHHHhccCCCCHHH
Confidence 367777754321 235789999999988876543222 25666677776544444444433333345555
Q ss_pred HHHHHHH
Q psy16109 71 VQEIERY 77 (129)
Q Consensus 71 ~~~i~~~ 77 (129)
+.+++..
T Consensus 321 v~~Lv~~ 327 (413)
T PLN00020 321 VVKLVDT 327 (413)
T ss_pred HHHHHHc
Confidence 5555543
No 27
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=64.71 E-value=27 Score=30.08 Aligned_cols=65 Identities=20% Similarity=0.297 Sum_probs=38.8
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcCCCCHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDVFSKKQVQEI 74 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~~F~~~e~~~i 74 (129)
.+|+-.+..+|| +.++|++||+-..++..+ ...| ..++++.++ .+++...|.+....++++...+
T Consensus 135 naLLk~LEep~~--~~~fIL~a~~~~~llpTI-rSRc--~~i~f~~~~-~~~i~~~L~~~~~~~~~~a~~l 199 (394)
T PRK07940 135 NALLKAVEEPPP--RTVWLLCAPSPEDVLPTI-RSRC--RHVALRTPS-VEAVAEVLVRRDGVDPETARRA 199 (394)
T ss_pred HHHHHHhhcCCC--CCeEEEEECChHHChHHH-HhhC--eEEECCCCC-HHHHHHHHHHhcCCCHHHHHHH
Confidence 345556654443 478888888854554331 2233 478888886 5889888875423555544333
No 28
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.62 E-value=61 Score=28.68 Aligned_cols=66 Identities=21% Similarity=0.432 Sum_probs=39.9
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i~ 75 (129)
.+|+-.+..+|| +-++|++||.-..++.. +.+.+ ..++++.++ .+++...++. .| .++++.++.+.
T Consensus 137 naLLk~LEepp~--~~v~Il~tt~~~kl~~t--I~SRc-~~i~f~~ls-~~el~~~L~~i~k~egi~id~~al~~La 207 (486)
T PRK14953 137 NALLKTLEEPPP--RTIFILCTTEYDKIPPT--ILSRC-QRFIFSKPT-KEQIKEYLKRICNEEKIEYEEKALDLLA 207 (486)
T ss_pred HHHHHHHhcCCC--CeEEEEEECCHHHHHHH--HHHhc-eEEEcCCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 467777777665 67899998864444432 22222 367888886 4777766553 34 35555554443
No 29
>PF05729 NACHT: NACHT domain
Probab=61.37 E-value=36 Score=23.66 Aligned_cols=54 Identities=22% Similarity=0.299 Sum_probs=34.0
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHH-HhCCCchhcccceecCCCCCHHHHHHHHHh
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVL-EDLKILSKFSAVLHVPNLSTPEHLLNVIEE 62 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL-~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~ 62 (129)
..|.-++.+..|.+.|++|.++++...-+ +.+.-. ..++|+.++. +++...++.
T Consensus 107 ~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~----~~~~l~~~~~-~~~~~~~~~ 161 (166)
T PF05729_consen 107 DLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQA----QILELEPFSE-EDIKQYLRK 161 (166)
T ss_pred HHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCC----cEEEECCCCH-HHHHHHHHH
Confidence 34556777766668888888776644222 222211 5688888864 788887764
No 30
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=59.74 E-value=15 Score=33.00 Aligned_cols=58 Identities=10% Similarity=0.257 Sum_probs=41.6
Q ss_pred hHHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCc--hhcccceecCCCCCHHHHHHHHHh
Q psy16109 2 TLQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKIL--SKFSAVLHVPNLSTPEHLLNVIEE 62 (129)
Q Consensus 2 ILQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~--~~F~~~i~VP~l~~~~el~~Vl~~ 62 (129)
++.+|+..+-.-...+ +.+|||||..++.|+.- +. ..|+..|++|..+ .++...+++.
T Consensus 317 il~~LL~~LDgl~~~~-~ViVI~ATN~~d~LDpA-LlRpGRfD~~I~~~~Pd-~e~r~~Il~~ 376 (512)
T TIGR03689 317 VVPQLLSELDGVESLD-NVIVIGASNREDMIDPA-ILRPGRLDVKIRIERPD-AEAAADIFSK 376 (512)
T ss_pred HHHHHHHHhcccccCC-ceEEEeccCChhhCCHh-hcCccccceEEEeCCCC-HHHHHHHHHH
Confidence 3556666665544433 58899999888776544 44 3899999999986 5788888864
No 31
>cd08810 CARD_BCL10 Caspase activation and recruitment domain of B-cell lymphoma 10. Caspase activation and recruitment domain (CARD) similar to that found in BCL10 (B-cell lymphoma 10). BCL10 and Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1) are the integral components of CBM signalosomes. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells) and with CARMA1 to form L-CBM (CBM complex in lymphoid immune cells), to mediate activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. Both CARMA1 and CARD9 associate with BCL10 via a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by asso
Probab=59.58 E-value=55 Score=22.50 Aligned_cols=58 Identities=10% Similarity=0.251 Sum_probs=40.4
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHH---HHHHHHHHHhcccchhhHHHHHHHHHhcCcccc
Q psy16109 53 PEHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIR---KLLGLIDMARQIEENYRVMKFLTKLEDEGCLDM 123 (129)
Q Consensus 53 ~~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIK---kLL~~ie~A~~~~~~~~~~~fl~~l~~~g~~~~ 123 (129)
++++..-|.+.++|+.++.+.|... +-.-+ +||.+++ + + ..-+..|+++|.+.+..+|
T Consensus 18 ~~~l~d~L~s~~ILt~~d~EeI~~~--------~t~~~qa~~LLdiL~--r-G--p~Af~~F~esL~~~~~~~f 78 (84)
T cd08810 18 ADRHFDYLRSKRILTRDDCEEISCR--------TTSRKQAGKLLDILA--E-N--PKGLDALIESIRRERTQNF 78 (84)
T ss_pred HHHHHHHHHHcCCCCHHHHHHHhcc--------CCcHHHHHHHHHHHh--h-C--chHHHHHHHHHHHcccHHH
Confidence 5678888889999999988877652 12233 3555544 2 2 2458999999999876554
No 32
>cd08808 CARD_CARD11_CARMA1 Caspase activation and recruitment domain of CARD11-like proteins. Caspase activation and recruitment domain (CARD) similar to that found in CARD11, also known as caspase recruitment domain-containing membrane-associated guanylate kinase protein 1 (CARMA1). CARMA1, together with BCL10 (B-cell lymphoma 10) and Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1), form the L-CBM signalosome (CBM complex in lymphoid immune cells) which mediates activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. CARMA1 associates with BCL10 via a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by as
Probab=58.43 E-value=33 Score=23.98 Aligned_cols=58 Identities=17% Similarity=0.175 Sum_probs=40.6
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHh
Q psy16109 54 EHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLED 117 (129)
Q Consensus 54 ~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~ 117 (129)
+.+..-|.+.++++++|.++|.++- ..+....|..+++|.=...- ..-+.-|+++|+-
T Consensus 19 ~~v~pYLrQ~~Il~~~deEeI~s~~-----~~~~~~~k~g~LLDIL~trG-~~af~aFLeSLe~ 76 (86)
T cd08808 19 AKLTPYLRQCKVIDEQDEDEVLNSP-----MLPSKINRAGRLLDILHTKG-QRGYVVFLESLEF 76 (86)
T ss_pred hhccHHHHHcCCCChhhHHHHHcCc-----ccchHHHHHHHHHHHHHhcC-chHHHHHHHHHHh
Confidence 3466678899999999988888632 45677777777776543322 2348899999973
No 33
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=58.02 E-value=58 Score=29.72 Aligned_cols=43 Identities=14% Similarity=0.219 Sum_probs=31.3
Q ss_pred CeEEEEecCCcHHHHHhCCCc-hhcccceecCCCCCHHHHHHHHH
Q psy16109 18 KKLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNLSTPEHLLNVIE 61 (129)
Q Consensus 18 rrLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l~~~~el~~Vl~ 61 (129)
.+.+|||||..++.++.-=+- ..|+..++||..+ .++-..+++
T Consensus 289 ~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd-~~~R~~Il~ 332 (644)
T PRK10733 289 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPD-VRGREQILK 332 (644)
T ss_pred CCeeEEEecCChhhcCHHHhCCcccceEEEcCCCC-HHHHHHHHH
Confidence 568999999999887765543 4799999998775 345555544
No 34
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.82 E-value=1.1e+02 Score=25.64 Aligned_cols=67 Identities=21% Similarity=0.286 Sum_probs=38.5
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEIER 76 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i~~ 76 (129)
++|+-.+..+|+ +-.+|++||....+.+. +.+.+ ..++++.++ .+++...++. .+ .++++.++.+..
T Consensus 137 naLLk~lEe~~~--~~~fIl~t~~~~~l~~t--I~SRc-~~~~~~~l~-~~el~~~L~~~~~~~g~~i~~~al~~ia~ 208 (363)
T PRK14961 137 NALLKTLEEPPQ--HIKFILATTDVEKIPKT--ILSRC-LQFKLKIIS-EEKIFNFLKYILIKESIDTDEYALKLIAY 208 (363)
T ss_pred HHHHHHHhcCCC--CeEEEEEcCChHhhhHH--HHhhc-eEEeCCCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 466666666544 44566666654444332 22222 478899996 4777766653 34 367766555444
No 35
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=57.33 E-value=50 Score=24.77 Aligned_cols=71 Identities=15% Similarity=0.231 Sum_probs=39.7
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHh--CCCchhc--ccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLED--LKILSKF--SAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEI 74 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~--lgl~~~F--~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i 74 (129)
+.|.-++.+....|+ .+|++|+..+.-+.. -.+.+.| ...+.+|+++. ++...+++. .+ .++++.++.+
T Consensus 110 ~~L~~~l~~~~~~~~-~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~-~e~~~~l~~~~~~~~~~~~~~~l~~L 187 (226)
T TIGR03420 110 EALFHLYNRVREAGG-RLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSD-EEKIAALQSRAARRGLQLPDEVADYL 187 (226)
T ss_pred HHHHHHHHHHHHcCC-eEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence 345555554333344 455555544433221 1344555 36899999987 787777764 33 2566656555
Q ss_pred HH
Q psy16109 75 ER 76 (129)
Q Consensus 75 ~~ 76 (129)
.+
T Consensus 188 ~~ 189 (226)
T TIGR03420 188 LR 189 (226)
T ss_pred HH
Confidence 54
No 36
>PRK06893 DNA replication initiation factor; Validated
Probab=56.80 E-value=52 Score=25.55 Aligned_cols=73 Identities=16% Similarity=0.296 Sum_probs=46.5
Q ss_pred HHHHHhcCCCCCCCeEEEEecCCcHHHHHhC--CCchhc--ccceecCCCCCHHHHHHHHH----hcCC-CCHHHHHHHH
Q psy16109 5 ALRVLLKKEPPRNKKLLVLCTTSCREVLEDL--KILSKF--SAVLHVPNLSTPEHLLNVIE----ESDV-FSKKQVQEIE 75 (129)
Q Consensus 5 aLlVLlkk~PPkGrrLLViaTTS~~~vL~~l--gl~~~F--~~~i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~i~ 75 (129)
+|.-++.+.--+|++++|++++..++.+... ++.+.| ...++++.+. .++...+++ ..+. .+++.++.++
T Consensus 112 ~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd-~e~~~~iL~~~a~~~~l~l~~~v~~~L~ 190 (229)
T PRK06893 112 AIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLT-DEQKIIVLQRNAYQRGIELSDEVANFLL 190 (229)
T ss_pred HHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 4555555544457777788777777777644 566644 4577788886 478888887 3333 4666666666
Q ss_pred HHH
Q psy16109 76 RYL 78 (129)
Q Consensus 76 ~~l 78 (129)
+..
T Consensus 191 ~~~ 193 (229)
T PRK06893 191 KRL 193 (229)
T ss_pred Hhc
Confidence 644
No 37
>PRK03636 hypothetical protein; Provisional
Probab=56.73 E-value=52 Score=25.67 Aligned_cols=90 Identities=20% Similarity=0.244 Sum_probs=56.6
Q ss_pred cCCcHHHHHhCCC--chhcccceecCCCCCHHHHHHHHHhcCCCCH------HHHHHHHHHHhhCCCcccccHHHHHHHH
Q psy16109 25 TTSCREVLEDLKI--LSKFSAVLHVPNLSTPEHLLNVIEESDVFSK------KQVQEIERYLHQHKARVFVGIRKLLGLI 96 (129)
Q Consensus 25 TTS~~~vL~~lgl--~~~F~~~i~VP~l~~~~el~~Vl~~~~~F~~------~e~~~i~~~l~~~~~~~~IgIKkLL~~i 96 (129)
||+.-....++-+ -+.|+..++-|.-.+..+...||+++...+. .+...+...|. ..-...-+++|+..|
T Consensus 77 ~~d~e~aFhdirlN~~~~iYIql~F~~~~~~~~yl~vLe~np~~~~~~~~~~~~~~~ae~~L~--~~~~~~r~~~L~~~I 154 (179)
T PRK03636 77 TTDAEKSFHDIRLNRDEDIYIQLNFREAFQSPEYVAVLEENPYLPKNEEVNEKDRLLAEQFLE--QSVFQFRREKLLKQI 154 (179)
T ss_pred ecCHHHHHHHHHcCCCCCeEEEEecCCcccChHHHHHHhcCCCcccchhhhhhhHHHHHHHHH--HHHHHHHHHHHHHHH
Confidence 3444457777744 4779999999998888899999998754321 12222222221 112355679999999
Q ss_pred HHHhcccchhhHHHHHHHHH
Q psy16109 97 DMARQIEENYRVMKFLTKLE 116 (129)
Q Consensus 97 e~A~~~~~~~~~~~fl~~l~ 116 (129)
|.|-......++.+..+.|.
T Consensus 155 D~ALd~~D~e~F~~Ls~~l~ 174 (179)
T PRK03636 155 DEALDRRDKEAFHRLSDELN 174 (179)
T ss_pred HHHHHcCCHHHHHHHHHHHH
Confidence 99976544344555444443
No 38
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=55.10 E-value=35 Score=20.45 Aligned_cols=25 Identities=24% Similarity=0.255 Sum_probs=19.9
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHh
Q psy16109 54 EHLLNVIEESDVFSKKQVQEIERYLH 79 (129)
Q Consensus 54 ~el~~Vl~~~~~F~~~e~~~i~~~l~ 79 (129)
+|+...|...| |++.|++++++.+.
T Consensus 4 ~d~~~AL~~LG-y~~~e~~~av~~~~ 28 (47)
T PF07499_consen 4 EDALEALISLG-YSKAEAQKAVSKLL 28 (47)
T ss_dssp HHHHHHHHHTT-S-HHHHHHHHHHHH
T ss_pred HHHHHHHHHcC-CCHHHHHHHHHHhh
Confidence 57778888887 89999999998884
No 39
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=54.02 E-value=46 Score=28.13 Aligned_cols=65 Identities=15% Similarity=0.263 Sum_probs=39.5
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcCC---CCHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDV---FSKKQVQEI 74 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~~---F~~~e~~~i 74 (129)
.+|+-.+.. ||+ +-++|+.|++...++... ...| ..+++|.++ .+++...|++.+. |+++....+
T Consensus 159 naLLk~LEE-pp~-~~~fiLit~~~~~llptI-rSRc--~~i~l~pl~-~~~~~~~L~~~~~~~~~~~~~~~~i 226 (351)
T PRK09112 159 NAILKTLEE-PPA-RALFILISHSSGRLLPTI-RSRC--QPISLKPLD-DDELKKALSHLGSSQGSDGEITEAL 226 (351)
T ss_pred HHHHHHHhc-CCC-CceEEEEECChhhccHHH-Hhhc--cEEEecCCC-HHHHHHHHHHhhcccCCCHHHHHHH
Confidence 566666765 443 456666666544444332 2233 589999997 4899999987542 555554444
No 40
>PRK13531 regulatory ATPase RavA; Provisional
Probab=53.83 E-value=88 Score=28.22 Aligned_cols=60 Identities=12% Similarity=0.231 Sum_probs=40.7
Q ss_pred CCeEEEEecCCcHH---HHHhCCCchhcccceecCCCCCHHHHHHHHHhcC-----------CCCHHHHHHHHHHH
Q psy16109 17 NKKLLVLCTTSCRE---VLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESD-----------VFSKKQVQEIERYL 78 (129)
Q Consensus 17 GrrLLViaTTS~~~---vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~-----------~F~~~e~~~i~~~l 78 (129)
..|++|+||-.-++ ++ -.+++.|...+.||.++..++...+|.... .++.+|+.++.+.+
T Consensus 146 p~rfiv~ATN~LPE~g~~l--eAL~DRFliri~vp~l~~~~~e~~lL~~~~~~~~~~~~~~~vis~eel~~lq~~v 219 (498)
T PRK13531 146 PMRLLVTASNELPEADSSL--EALYDRMLIRLWLDKVQDKANFRSMLTSQQDENDNPVPASLQITDEEYQQWQKEI 219 (498)
T ss_pred CCcEEEEECCCCcccCCch--HHhHhhEEEEEECCCCCchHHHHHHHHcccccccCCCcccCCCCHHHHHHHHHHh
Confidence 35788888853333 11 137888989999999987778788886421 25667776666555
No 41
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=53.41 E-value=44 Score=28.85 Aligned_cols=58 Identities=17% Similarity=0.232 Sum_probs=41.5
Q ss_pred hHHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCc-hhcccceecCCCCCHHHHHHHHH
Q psy16109 2 TLQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNLSTPEHLLNVIE 61 (129)
Q Consensus 2 ILQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l~~~~el~~Vl~ 61 (129)
|++.|+..+....+.. ..+|||||..++.++.--+- ..|+..+.||.-+.. +-..+++
T Consensus 362 ~~~~lL~~~d~~e~~~-~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~-~r~~i~~ 420 (494)
T COG0464 362 VVGQLLTELDGIEKAE-GVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLE-ERLEIFK 420 (494)
T ss_pred HHHHHHHHhcCCCccC-ceEEEecCCCccccCHhhcccCccceEeecCCCCHH-HHHHHHH
Confidence 5677777776655543 48899999999988874333 589999999998764 4444443
No 42
>KOG4849|consensus
Probab=53.24 E-value=39 Score=29.77 Aligned_cols=66 Identities=18% Similarity=0.228 Sum_probs=51.0
Q ss_pred CCCHHHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhccc--chhhHHHHHHHHHhc
Q psy16109 50 LSTPEHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIE--ENYRVMKFLTKLEDE 118 (129)
Q Consensus 50 l~~~~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~--~~~~~~~fl~~l~~~ 118 (129)
|+. .|+..|+..+...+++.|.+++..- .-+.+.=-|..||..|..-+|.. .++|+...++.|+++
T Consensus 357 lSe-AEFEdiM~RNraiSSSAIsrAvsdA--SaGDy~~AiETllTAI~lIKqSrv~~DdRCrvLissL~dc 424 (498)
T KOG4849|consen 357 LSE-AEFEDIMTRNRAISSSAISRAVSDA--SAGDYKGAIETLLTAIQLIKQSRVGHDDRCRVLISSLEDC 424 (498)
T ss_pred chH-HHHHHHHhhcchhhHHHHHHHhccc--ccccchhHHHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Confidence 554 6899999998888888887776543 22356667899999999988874 467888899999887
No 43
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=52.21 E-value=1.2e+02 Score=24.15 Aligned_cols=68 Identities=18% Similarity=0.293 Sum_probs=37.9
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEIER 76 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i~~ 76 (129)
.++|.-++...|+.. + +|++|++...+++. +.+.+ ..+.++.++ .+++...++. .+ .++++.++.+++
T Consensus 142 ~~~L~~~le~~~~~~-~-~Il~~~~~~~~~~~--L~sr~-~~v~~~~~~-~~~~~~~l~~~~~~~~~~~~~~al~~l~~ 214 (337)
T PRK12402 142 QQALRRIMEQYSRTC-R-FIIATRQPSKLIPP--IRSRC-LPLFFRAPT-DDELVDVLESIAEAEGVDYDDDGLELIAY 214 (337)
T ss_pred HHHHHHHHHhccCCC-e-EEEEeCChhhCchh--hcCCc-eEEEecCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 356666776655433 3 66666554444433 22333 467777786 4787777764 33 256665544443
No 44
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=52.06 E-value=1.5e+02 Score=25.20 Aligned_cols=56 Identities=21% Similarity=0.430 Sum_probs=34.3
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcCC
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDV 65 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~~ 65 (129)
.+|+-.+.. ||. +.++|+.|.+...++. -..+-...+++|.++ .+++...|++...
T Consensus 159 naLLK~LEe-pp~-~~~~IL~t~~~~~llp---ti~SRc~~i~l~~l~-~~~i~~~L~~~~~ 214 (365)
T PRK07471 159 NALLKVLEE-PPA-RSLFLLVSHAPARLLP---TIRSRCRKLRLRPLA-PEDVIDALAAAGP 214 (365)
T ss_pred HHHHHHHhc-CCC-CeEEEEEECCchhchH---HhhccceEEECCCCC-HHHHHHHHHHhcc
Confidence 466666654 443 4566665554333322 224445688999997 4899999987643
No 45
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.96 E-value=1.4e+02 Score=26.74 Aligned_cols=68 Identities=18% Similarity=0.344 Sum_probs=42.2
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHH----hcC-CCCHHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE----ESD-VFSKKQVQEIER 76 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~----~~~-~F~~~e~~~i~~ 76 (129)
..+|+-.|..+|| +-.+|++||....+... +.+-+ ..++...++. +++...+. ..| .++++.++.+.+
T Consensus 133 ~NaLLK~LEePp~--~v~fIlatte~~Kl~~t--I~SRc-~~~~f~~l~~-~el~~~L~~ia~~Egi~i~~eAL~lIa~ 205 (491)
T PRK14964 133 FNALLKTLEEPAP--HVKFILATTEVKKIPVT--IISRC-QRFDLQKIPT-DKLVEHLVDIAKKENIEHDEESLKLIAE 205 (491)
T ss_pred HHHHHHHHhCCCC--CeEEEEEeCChHHHHHH--HHHhh-eeeecccccH-HHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 4577888888776 67899999876666653 22222 3567777764 56655555 344 356665554443
No 46
>cd08785 CARD_CARD9-like Caspase activation and recruitment domain of CARD9 and related proteins. Caspase activation and recruitment domain (CARD) found in CARD9, CARD14 (CARMA2), CARD10 (CARMA3), CARD11 (CARMA1) and BCL10. BCL10 (B-cell lymphoma 10), together with Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1), are integral components of the CBM signalosome. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells), and with CARD11 to form L-CBM (CBM complex in lymphoid immune cells), which mediates activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. BCL10/Malt1 also associates with CARD10, which is more widely expressed and is not restricted to hematopoietic cells, to play a role in GPCR-induced NF-kB activation. CARD14 has also been shown to associate with BCL10. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inf
Probab=51.74 E-value=72 Score=21.88 Aligned_cols=59 Identities=19% Similarity=0.243 Sum_probs=38.0
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHH-hcccchhhHHHHHHHHHhc
Q psy16109 53 PEHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMA-RQIEENYRVMKFLTKLEDE 118 (129)
Q Consensus 53 ~~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A-~~~~~~~~~~~fl~~l~~~ 118 (129)
++++..-|.+.++|++++.+.|...- +..+--+|--.++++= +.+ ...+..|+++|++.
T Consensus 18 ~~~l~d~L~q~~VLt~~d~EeI~~~~-----t~~~r~~ka~~LLdiL~~rG--~~Af~~F~~aL~~~ 77 (86)
T cd08785 18 PSRLTPYLRQCKVLDEQDEEEVLSSP-----RLPIRANRTGRLLDILATRG--KRGYVAFLESLEFY 77 (86)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHhCCC-----ccccHHHHHHHHHHHHHhcC--cchHHHHHHHHHHh
Confidence 46788888899999999988877532 2222345544444432 232 24589999999644
No 47
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.13 E-value=79 Score=28.84 Aligned_cols=66 Identities=17% Similarity=0.238 Sum_probs=39.3
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHH----HhcCC-CCHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVI----EESDV-FSKKQVQEI 74 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl----~~~~~-F~~~e~~~i 74 (129)
..+|+-.|..+|+ +-.+|++||.-..++..+ ...| ..++...++. +++...| +..|. ++++.+..+
T Consensus 135 ~NALLK~LEEpp~--~~~fIL~tte~~kll~TI-~SRc--~~~~F~~l~~-~~i~~~L~~i~~~egi~i~~~al~~I 205 (584)
T PRK14952 135 FNALLKIVEEPPE--HLIFIFATTEPEKVLPTI-RSRT--HHYPFRLLPP-RTMRALIARICEQEGVVVDDAVYPLV 205 (584)
T ss_pred HHHHHHHHhcCCC--CeEEEEEeCChHhhHHHH-HHhc--eEEEeeCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence 3577777777655 788999998766655543 1223 3566667754 5555444 44554 666544433
No 48
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=50.73 E-value=1.4e+02 Score=24.61 Aligned_cols=58 Identities=21% Similarity=0.315 Sum_probs=37.4
Q ss_pred HHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcCCCCHH
Q psy16109 5 ALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDVFSKK 69 (129)
Q Consensus 5 aLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~~F~~~ 69 (129)
+|+-.|..||+ +-++|+.|++...++.. ..+-...++++.++ .+++...|++.| .++.
T Consensus 129 aLLK~LEEPp~--~~~~Il~t~~~~~ll~T---IrSRc~~i~~~~~~-~~~~~~~L~~~g-i~~~ 186 (329)
T PRK08058 129 SLLKFLEEPSG--GTTAILLTENKHQILPT---ILSRCQVVEFRPLP-PESLIQRLQEEG-ISES 186 (329)
T ss_pred HHHHHhcCCCC--CceEEEEeCChHhCcHH---HHhhceeeeCCCCC-HHHHHHHHHHcC-CChH
Confidence 45555555443 56777777765555554 34555677888886 479999998876 4443
No 49
>cd08806 CARD_CARD14_CARMA2 Caspase activation and recruitment domain of CARD14-like proteins. Caspase activation and recruitment domain (CARD) similar to that found in CARD14, also known as BIMP2 or CARMA2 (caspase recruitment domain-containing membrane-associated guanylate kinase protein 2). CARD14 has been identified as a novel member of the MAGUK (membrane-associated guanylate kinase) family that functions as upstream activators of BCL10 (B-cell lymphoma 10) and NF-kB signaling. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effector Domain). They serve as adaptors in signaling pathways
Probab=49.85 E-value=35 Score=23.86 Aligned_cols=56 Identities=20% Similarity=0.273 Sum_probs=37.7
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHH---HHHHHHHHhcccchhhHHHHHHHHHh
Q psy16109 53 PEHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRK---LLGLIDMARQIEENYRVMKFLTKLED 117 (129)
Q Consensus 53 ~~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKk---LL~~ie~A~~~~~~~~~~~fl~~l~~ 117 (129)
++.+..-|.+.+++++.|.++|.+.. +...-.-| ||.++..- +. .-+.-|+++|+-
T Consensus 18 p~~l~pYLrQ~~IL~~~deeeIls~~-----t~~~r~~k~g~LLDIL~tr--G~--~g~~aFLeSLe~ 76 (86)
T cd08806 18 PSRLTPYLRQAKVLDQLDEEEVLHSP-----RLTNRAMRVGHLLDLLKTR--GK--NGAIAFLESLKF 76 (86)
T ss_pred HhhccHHHHHcCCCChhhHHHHHccc-----hHHHHHHHHHHHHHHHHhc--Cc--hHHHHHHHHHHH
Confidence 34566778899999999988888754 22333334 77776542 21 248899999973
No 50
>KOG0733|consensus
Probab=48.84 E-value=28 Score=32.80 Aligned_cols=57 Identities=25% Similarity=0.351 Sum_probs=41.3
Q ss_pred HHHHhcCCCCCCCeEEEEecCCcHHHHHh-CCCchhcccc--eecCCCCCHHHHHHHHHh
Q psy16109 6 LRVLLKKEPPRNKKLLVLCTTSCREVLED-LKILSKFSAV--LHVPNLSTPEHLLNVIEE 62 (129)
Q Consensus 6 LlVLlkk~PPkGrrLLViaTTS~~~vL~~-lgl~~~F~~~--i~VP~l~~~~el~~Vl~~ 62 (129)
.|-=|...+-+|...||||+|+.++.|+- |-=..-|+.+ ++||+=..-+++-+++..
T Consensus 316 ~mD~l~~~~~~g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~ 375 (802)
T KOG0733|consen 316 SMDELSNEKTKGDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICR 375 (802)
T ss_pred hhhcccccccCCCCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHh
Confidence 34456777788999999999999988753 3334568876 467887777777766554
No 51
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=48.77 E-value=1.7e+02 Score=26.20 Aligned_cols=66 Identities=20% Similarity=0.401 Sum_probs=38.6
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHH----hcCC-CCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE----ESDV-FSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~i~ 75 (129)
.+|+-.+..+|| +-.+|++||....+...+ .+.+ ..++++.++. +++...++ ..+. ++++.+..+.
T Consensus 146 naLLk~LEepp~--~~vfI~aTte~~kI~~tI--~SRc-~~~ef~~ls~-~el~~~L~~i~~~egi~ie~eAL~~Ia 216 (507)
T PRK06645 146 NALLKTLEEPPP--HIIFIFATTEVQKIPATI--ISRC-QRYDLRRLSF-EEIFKLLEYITKQENLKTDIEALRIIA 216 (507)
T ss_pred HHHHHHHhhcCC--CEEEEEEeCChHHhhHHH--Hhcc-eEEEccCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 456666666555 778899998766655532 2222 4567777864 67665554 4443 5555444433
No 52
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.74 E-value=1.8e+02 Score=26.88 Aligned_cols=66 Identities=20% Similarity=0.294 Sum_probs=39.3
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHH----hcCC-CCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE----ESDV-FSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~i~ 75 (129)
++|+-.+..+| ++-.+|++||.-..++.. +.+- ...++.+.++. +++...|+ ..|. |+++.+..+.
T Consensus 142 NaLLKtLEEPP--~~~~fIL~Ttd~~kil~T--IlSR-c~~~~f~~Ls~-eei~~~L~~i~~~egi~ie~~AL~~La 212 (618)
T PRK14951 142 NAMLKTLEEPP--EYLKFVLATTDPQKVPVT--VLSR-CLQFNLRPMAP-ETVLEHLTQVLAAENVPAEPQALRLLA 212 (618)
T ss_pred HHHHHhcccCC--CCeEEEEEECCchhhhHH--HHHh-ceeeecCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 45555555544 367788899876666654 3332 35778888874 67666554 3443 5655444433
No 53
>CHL00206 ycf2 Ycf2; Provisional
Probab=48.66 E-value=52 Score=34.79 Aligned_cols=49 Identities=18% Similarity=0.293 Sum_probs=35.1
Q ss_pred HHHHHHHhcCC--CCCCCeEEEEecCCcHHHHHhCCCc-hhcccceecCCCC
Q psy16109 3 LQALRVLLKKE--PPRNKKLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNLS 51 (129)
Q Consensus 3 LQaLlVLlkk~--PPkGrrLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l~ 51 (129)
|..|+..+-.- ....+.++|||+|..+++|+.-=+- .-|+..|.||...
T Consensus 1754 L~qLLneLDg~~~~~s~~~VIVIAATNRPD~LDPALLRPGRFDR~I~Ir~Pd 1805 (2281)
T CHL00206 1754 LGLLVNSLSRDCERCSTRNILVIASTHIPQKVDPALIAPNKLNTCIKIRRLL 1805 (2281)
T ss_pred HHHHHHHhccccccCCCCCEEEEEeCCCcccCCHhHcCCCCCCeEEEeCCCC
Confidence 45566666532 2234789999999999998776554 5799999986544
No 54
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.58 E-value=1.8e+02 Score=26.43 Aligned_cols=65 Identities=20% Similarity=0.321 Sum_probs=39.7
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHH----hcCC-CCHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE----ESDV-FSKKQVQE 73 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~ 73 (129)
.++|+-.+..+|+ +-.+|++||.-+.++.. +.+ -...++...++. +++...++ ..|. ++++.+..
T Consensus 136 ~naLLK~LEepp~--~v~fIL~Ttd~~kil~t--I~S-Rc~~~~f~~Ls~-~eI~~~L~~il~~egi~~e~~Al~~ 205 (546)
T PRK14957 136 FNALLKTLEEPPE--YVKFILATTDYHKIPVT--ILS-RCIQLHLKHISQ-ADIKDQLKIILAKENINSDEQSLEY 205 (546)
T ss_pred HHHHHHHHhcCCC--CceEEEEECChhhhhhh--HHH-heeeEEeCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHH
Confidence 3567777776544 56788889876667755 332 225778888864 67665555 3343 45553333
No 55
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=47.99 E-value=1.9e+02 Score=26.62 Aligned_cols=68 Identities=13% Similarity=0.300 Sum_probs=41.9
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cCC-CCHHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SDV-FSKKQVQEIERY 77 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~~-F~~~e~~~i~~~ 77 (129)
++|+-.|..+|+ .-.||++|+.-..++.. ...-...++...++. +++.+.+.. .|. ++++.++.++..
T Consensus 145 naLLK~LEePp~--~tv~IL~t~~~~kLl~T---I~SRc~~vef~~l~~-~ei~~~L~~i~~~egi~I~~eal~~La~~ 217 (620)
T PRK14954 145 NAFLKTLEEPPP--HAIFIFATTELHKIPAT---IASRCQRFNFKRIPL-DEIQSQLQMICRAEGIQIDADALQLIARK 217 (620)
T ss_pred HHHHHHHhCCCC--CeEEEEEeCChhhhhHH---HHhhceEEecCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence 567777777766 57888888765444443 233345677778864 677766653 343 677665555443
No 56
>PRK07132 DNA polymerase III subunit delta'; Validated
Probab=47.37 E-value=1.4e+02 Score=24.83 Aligned_cols=55 Identities=18% Similarity=0.297 Sum_probs=36.8
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcC
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESD 64 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~ 64 (129)
.+|+-.|..||| .-++|+.|++-..++... .+-...++.+.++ .+++...|.+.+
T Consensus 108 NaLLK~LEEPp~--~t~~il~~~~~~kll~TI---~SRc~~~~f~~l~-~~~l~~~l~~~~ 162 (299)
T PRK07132 108 NALLKTIEEPPK--DTYFLLTTKNINKVLPTI---VSRCQVFNVKEPD-QQKILAKLLSKN 162 (299)
T ss_pred HHHHHHhhCCCC--CeEEEEEeCChHhChHHH---HhCeEEEECCCCC-HHHHHHHHHHcC
Confidence 467777777665 677888777544444432 3344567788886 589998888765
No 57
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=46.79 E-value=1.5e+02 Score=26.67 Aligned_cols=67 Identities=16% Similarity=0.226 Sum_probs=36.3
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHH----HHHhcCC-CCHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLN----VIEESDV-FSKKQVQEIE 75 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~----Vl~~~~~-F~~~e~~~i~ 75 (129)
.++|+-.+..+| ++=.+|++||.-..+... =+..| ..++.+.++. +++.. +++..|. |+++.+..+.
T Consensus 138 ~NALLKtLEEPp--~~viFILaTte~~kI~~T-I~SRC--q~~~f~~ls~-~~i~~~L~~i~~~Egi~~e~eAL~~Ia 209 (484)
T PRK14956 138 FNALLKTLEEPP--AHIVFILATTEFHKIPET-ILSRC--QDFIFKKVPL-SVLQDYSEKLCKIENVQYDQEGLFWIA 209 (484)
T ss_pred HHHHHHHhhcCC--CceEEEeecCChhhccHH-HHhhh--heeeecCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 456666665533 578888999874444332 12222 2466777753 45544 4444453 6666544443
No 58
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=45.92 E-value=1.7e+02 Score=25.85 Aligned_cols=67 Identities=25% Similarity=0.406 Sum_probs=38.6
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEIER 76 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i~~ 76 (129)
.+|+-.+..+| ++-.+|++||....+... +.+.| ..++.+.++. +++...++. .+ .++++.++.+++
T Consensus 135 ~~LLk~LE~p~--~~vv~Ilattn~~kl~~~--L~SR~-~vv~f~~l~~-~el~~~L~~i~~~egi~i~~eal~~Ia~ 206 (472)
T PRK14962 135 NALLKTLEEPP--SHVVFVLATTNLEKVPPT--IISRC-QVIEFRNISD-ELIIKRLQEVAEAEGIEIDREALSFIAK 206 (472)
T ss_pred HHHHHHHHhCC--CcEEEEEEeCChHhhhHH--HhcCc-EEEEECCccH-HHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 45666666544 467778888743333222 33334 3677888865 677776664 23 366665555554
No 59
>cd08812 CARD_RIG-I_like Caspase activation and recruitment domains found in RIG-I-like DEAD box helicases. Caspase activation and recruitment domains (CARDs) found in Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. These helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, RIG-I and MDA5 have been shown to recognize different sets of viruses. MDA5 and RIG-I associate with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mec
Probab=45.86 E-value=93 Score=21.10 Aligned_cols=60 Identities=15% Similarity=0.221 Sum_probs=38.8
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHhcCc
Q psy16109 54 EHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGC 120 (129)
Q Consensus 54 ~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~~g~ 120 (129)
.++..-|-+ .|++++.++|...- .++...-+.-+||..++..+ ..+=+..|++.|.+.|.
T Consensus 22 ~~il~~l~~--~L~~~~~e~I~a~~--~~~g~~~aa~~Ll~~L~~~r---~~~wf~~Fl~AL~~~g~ 81 (88)
T cd08812 22 RDILDHLPE--CLTDEDKEQILAEE--RNKGNIAAAEELLDRLERCD---KPGWFQAFLDALRRTGN 81 (88)
T ss_pred HHHHHHHHH--HcCHHHHHHHHHHH--hccChHHHHHHHHHHHHHhc---cCCcHHHHHHHHHHcCC
Confidence 344444443 78889888888754 22223445566777666532 23569999999999997
No 60
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=45.74 E-value=1.1e+02 Score=27.19 Aligned_cols=67 Identities=18% Similarity=0.389 Sum_probs=39.9
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHH----HHHhcCC-CCHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLN----VIEESDV-FSKKQVQEIER 76 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~----Vl~~~~~-F~~~e~~~i~~ 76 (129)
.+|+-.|..+|+ +-.+|++||....++.. +.+. ...++.+.++. +++.. +++..|. |+++.++.+.+
T Consensus 137 naLLK~LEepp~--~~~fIL~t~d~~kil~t--I~SR-c~~~~f~~l~~-~~i~~~L~~il~~egi~~~~~al~~la~ 208 (527)
T PRK14969 137 NAMLKTLEEPPE--HVKFILATTDPQKIPVT--VLSR-CLQFNLKQMPP-PLIVSHLQHILEQENIPFDATALQLLAR 208 (527)
T ss_pred HHHHHHHhCCCC--CEEEEEEeCChhhCchh--HHHH-HHHHhcCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 567777777544 66888999876666653 3322 35777778864 56654 4444443 56654444443
No 61
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=45.28 E-value=2e+02 Score=26.28 Aligned_cols=67 Identities=19% Similarity=0.312 Sum_probs=41.8
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEIE 75 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i~ 75 (129)
..+|+-.|..+|| +-.||++||.-..++.. +.+.+ ..++++.++. +++...++. .+ -++++.+..++
T Consensus 149 ~naLLKtLEePp~--~~~fIl~tte~~kll~t--I~SRc-q~~~f~~l~~-~el~~~L~~i~~kegi~i~~eAl~lIa 220 (598)
T PRK09111 149 FNALLKTLEEPPP--HVKFIFATTEIRKVPVT--VLSRC-QRFDLRRIEA-DVLAAHLSRIAAKEGVEVEDEALALIA 220 (598)
T ss_pred HHHHHHHHHhCCC--CeEEEEEeCChhhhhHH--HHhhe-eEEEecCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 3567777777666 57788888876666655 33333 4678888864 676665554 44 35665544443
No 62
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=45.12 E-value=1.7e+02 Score=27.17 Aligned_cols=66 Identities=24% Similarity=0.358 Sum_probs=39.4
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i~ 75 (129)
++|+-.|-.+|+ +=.+|++||....++.. |.+- ...++++.++. +++...|+. .+ .|++..+..+.
T Consensus 137 NALLKtLEEPp~--~v~FIL~Tt~~~kLl~T--I~SR-C~~~~f~~Ls~-~ei~~~L~~il~~e~i~~e~~aL~~Ia 207 (647)
T PRK07994 137 NALLKTLEEPPE--HVKFLLATTDPQKLPVT--ILSR-CLQFHLKALDV-EQIRQQLEHILQAEQIPFEPRALQLLA 207 (647)
T ss_pred HHHHHHHHcCCC--CeEEEEecCCccccchH--HHhh-heEeeCCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 455555555444 67788888876655533 2322 36788888864 788776653 24 36655444443
No 63
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=44.52 E-value=1.5e+02 Score=25.09 Aligned_cols=67 Identities=16% Similarity=0.289 Sum_probs=40.6
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEIER 76 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i~~ 76 (129)
++|+-.+..+|| .-.+|++|+....+++.+ .+ -...++.+.++ .+++...++. .+ -++++..+.+..
T Consensus 145 ~~LLk~LEep~~--~t~~Il~t~~~~kl~~tl--~s-R~~~v~f~~l~-~~ei~~~l~~~~~~~g~~i~~~al~~l~~ 216 (397)
T PRK14955 145 NAFLKTLEEPPP--HAIFIFATTELHKIPATI--AS-RCQRFNFKRIP-LEEIQQQLQGICEAEGISVDADALQLIGR 216 (397)
T ss_pred HHHHHHHhcCCC--CeEEEEEeCChHHhHHHH--HH-HHHHhhcCCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 466777776666 567777777655555432 12 22367788886 5788777764 24 367765555443
No 64
>PF02875 Mur_ligase_C: Mur ligase family, glutamate ligase domain This Prosite entry is a subset of the Pfam family.; InterPro: IPR004101 The bacterial cell wall provides strength and rigidity to counteract internal osmotic pressure, and protection against the environment. The peptidoglycan layer gives the cell wall its strength, and helps maintain the overall shape of the cell. The basic peptidoglycan structure of both Gram-positive and Gram-negative bacteria is comprised of a sheet of glycan chains connected by short cross-linking polypeptides. Biosynthesis of peptidoglycan is a multi-step (11-12 steps) process comprising three main stages: (1) formation of UDP-N-acetylmuramic acid (UDPMurNAc) from N-acetylglucosamine (GlcNAc). (2) addition of a short polypeptide chain to the UDPMurNAc. (3) addition of a second GlcNAc to the disaccharide-pentapeptide building block and transport of this unit through the cytoplasmic membrane and incorporation into the growing peptidoglycan layer. Stage two involves four key Mur ligase enzymes: MurC (6.3.2.8 from EC) [], MurD (6.3.2.9 from EC) [], MurE (6.3.2.13 from EC) [] and MurF (6.3.2.10 from EC) []. These four Mur ligases are responsible for the successive additions of L-alanine, D-glutamate, meso-diaminopimelate or L-lysine, and D-alanyl-D-alanine to UDP-N-acetylmuramic acid. All four Mur ligases are topologically similar to one another, even though they display low sequence identity. They are each composed of three domains: an N-terminal Rossmann-fold domain responsible for binding the UDPMurNAc substrate; a central domain (similar to ATP-binding domains of several ATPases and GTPases); and a C-terminal domain (similar to dihydrofolate reductase fold) that appears to be associated with binding the incoming amino acid. The conserved sequence motifs found in the four Mur enzymes also map to other members of the Mur ligase family, including folylpolyglutamate synthetase, cyanophycin synthetase and the capB enzyme from Bacillales []. This entry represents the C-terminal domain from all four stage 2 Mur enzymes: UDP-N-acetylmuramate-L-alanine ligase (MurC), UDP-N-acetylmuramoylalanine-D-glutamate ligase (MurD), UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase (MurE), and UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase (MurF). This entry also includes the C-terminal domain of folylpolyglutamate synthase that transfers glutamate to folylpolyglutamate and cyanophycin synthetase that catalyses the biosynthesis of the cyanobacterial reserve material multi-L-arginyl-poly-L-aspartate (cyanophycin) []. The C-terminal domain is almost always associated with the cytoplasmic peptidoglycan synthetases, N-terminal domain (see IPR000713 from INTERPRO).; GO: 0005524 ATP binding, 0016874 ligase activity, 0009058 biosynthetic process; PDB: 2Y68_A 3UAG_A 4UAG_A 2UAG_A 1E0D_A 2XPC_A 2WJP_A 2VTE_A 2Y67_A 1EEH_A ....
Probab=43.98 E-value=17 Score=23.92 Aligned_cols=26 Identities=23% Similarity=0.276 Sum_probs=20.7
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCc
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSC 28 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~ 28 (129)
+.+++--+++..|++|+.+|+|...+
T Consensus 27 ~~a~l~~l~~~~~~~~~i~V~G~~~d 52 (91)
T PF02875_consen 27 IRALLEALKELYPKGRIIAVFGAMGD 52 (91)
T ss_dssp HHHHHHHHHHHCTTSEEEEEEEEBTT
T ss_pred HHHHHHHHHHhccCCcEEEEEccccc
Confidence 45777788888889999999997544
No 65
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=43.22 E-value=1.7e+02 Score=29.17 Aligned_cols=90 Identities=20% Similarity=0.255 Sum_probs=51.9
Q ss_pred HHHHhcCCCCCCCeEEEEecCCcHHHHHhC--CCchhccc-ceecCCCCCHHHHHHHHHh-----cCCCCHHHHHHHHHH
Q psy16109 6 LRVLLKKEPPRNKKLLVLCTTSCREVLEDL--KILSKFSA-VLHVPNLSTPEHLLNVIEE-----SDVFSKKQVQEIERY 77 (129)
Q Consensus 6 LlVLlkk~PPkGrrLLViaTTS~~~vL~~l--gl~~~F~~-~i~VP~l~~~~el~~Vl~~-----~~~F~~~e~~~i~~~ 77 (129)
|.-|++-+--.|.|+.|||.+...++.+.+ .+.+.|.. .+..|+.+ .+|+..+|+. .+.|+++-++.+++.
T Consensus 889 LYnLFR~~~~s~SKLiLIGISNdlDLperLdPRLRSRLg~eeIvF~PYT-aEQL~dILk~RAe~A~gVLdDdAIELIArk 967 (1164)
T PTZ00112 889 LFTLFDWPTKINSKLVLIAISNTMDLPERLIPRCRSRLAFGRLVFSPYK-GDEIEKIIKERLENCKEIIDHTAIQLCARK 967 (1164)
T ss_pred HHHHHHHhhccCCeEEEEEecCchhcchhhhhhhhhccccccccCCCCC-HHHHHHHHHHHHHhCCCCCCHHHHHHHHHh
Confidence 444444322246789999999754444432 33344443 36668885 5899999974 246788777666664
Q ss_pred HhhCCCcccccHHHHHHHHHHHh
Q psy16109 78 LHQHKARVFVGIRKLLGLIDMAR 100 (129)
Q Consensus 78 l~~~~~~~~IgIKkLL~~ie~A~ 100 (129)
....+ =-+++.|.+++.|-
T Consensus 968 VAq~S----GDARKALDILRrAg 986 (1164)
T PTZ00112 968 VANVS----GDIRKALQICRKAF 986 (1164)
T ss_pred hhhcC----CHHHHHHHHHHHHH
Confidence 42111 12445555555553
No 66
>KOG3109|consensus
Probab=42.77 E-value=61 Score=26.66 Aligned_cols=45 Identities=16% Similarity=0.274 Sum_probs=35.1
Q ss_pred EEEecCCc----HHHHHhCCCchhcccceecCCCC----------CHHHHHHHHHhcCC
Q psy16109 21 LVLCTTSC----REVLEDLKILSKFSAVLHVPNLS----------TPEHLLNVIEESDV 65 (129)
Q Consensus 21 LViaTTS~----~~vL~~lgl~~~F~~~i~VP~l~----------~~~el~~Vl~~~~~ 65 (129)
.++-|-+- -.+|+.+|+.+||...+-.-... +++.+..|++..|+
T Consensus 117 k~~FTNa~k~HA~r~Lk~LGieDcFegii~~e~~np~~~~~vcKP~~~afE~a~k~agi 175 (244)
T KOG3109|consen 117 KWIFTNAYKVHAIRILKKLGIEDCFEGIICFETLNPIEKTVVCKPSEEAFEKAMKVAGI 175 (244)
T ss_pred EEEecCCcHHHHHHHHHHhChHHhccceeEeeccCCCCCceeecCCHHHHHHHHHHhCC
Confidence 67778774 45899999999999988766655 35778888888774
No 67
>KOG0075|consensus
Probab=42.52 E-value=32 Score=26.92 Aligned_cols=40 Identities=28% Similarity=0.231 Sum_probs=31.9
Q ss_pred HHHHhcCCCCCCCeEEEEecC-------CcHHHHHhCCCchhcccce
Q psy16109 6 LRVLLKKEPPRNKKLLVLCTT-------SCREVLEDLKILSKFSAVL 45 (129)
Q Consensus 6 LlVLlkk~PPkGrrLLViaTT-------S~~~vL~~lgl~~~F~~~i 45 (129)
|..||-|+.-.|+-+||+||- |+.+..++|||.+.=+.++
T Consensus 111 L~~LL~k~~l~gip~LVLGnK~d~~~AL~~~~li~rmgL~sitdREv 157 (186)
T KOG0075|consen 111 LHDLLDKPSLTGIPLLVLGNKIDLPGALSKIALIERMGLSSITDREV 157 (186)
T ss_pred HHHHhcchhhcCCcEEEecccccCcccccHHHHHHHhCccccccceE
Confidence 678899999999999999986 4567888899886544443
No 68
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=42.26 E-value=1.9e+02 Score=25.96 Aligned_cols=66 Identities=17% Similarity=0.297 Sum_probs=40.1
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cCC-CCHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SDV-FSKKQVQEI 74 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~~-F~~~e~~~i 74 (129)
+++|+-.+..+|| +-.+|++|+.-..++..+ ......++++.++. +++...+.. .|. ++++..+.+
T Consensus 137 ~naLLk~LEepp~--~tv~Il~t~~~~kll~tI---~SR~~~i~f~~l~~-~el~~~L~~~a~~egl~i~~eal~~L 207 (585)
T PRK14950 137 FNALLKTLEEPPP--HAIFILATTEVHKVPATI---LSRCQRFDFHRHSV-ADMAAHLRKIAAAEGINLEPGALEAI 207 (585)
T ss_pred HHHHHHHHhcCCC--CeEEEEEeCChhhhhHHH---HhccceeeCCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence 4567777777765 678888887765555543 23334677777764 676665553 343 565544443
No 69
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=42.12 E-value=99 Score=25.03 Aligned_cols=66 Identities=14% Similarity=0.260 Sum_probs=38.7
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHH-HHHhCCCchhcccceecCCCCCHHHHHHHHHhc-CCCCHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCRE-VLEDLKILSKFSAVLHVPNLSTPEHLLNVIEES-DVFSKKQVQEIER 76 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~-vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~-~~F~~~e~~~i~~ 76 (129)
.+|+-.|..| |+ +-.+|+.|++ ++ ++.. ..+....++.+.++ .+++...+++. +..+++++..++.
T Consensus 111 naLLK~LEep-p~-~t~~il~~~~-~~~ll~T---I~SRc~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~~l~~ 178 (313)
T PRK05564 111 NAFLKTIEEP-PK-GVFIILLCEN-LEQILDT---IKSRCQIYKLNRLS-KEEIEKFISYKYNDIKEEEKKSAIA 178 (313)
T ss_pred HHHHHHhcCC-CC-CeEEEEEeCC-hHhCcHH---HHhhceeeeCCCcC-HHHHHHHHHHHhcCCCHHHHHHHHH
Confidence 3566677754 43 4667776654 44 2221 13334578888886 47888888754 2356666555544
No 70
>KOG3380|consensus
Probab=41.49 E-value=29 Score=26.62 Aligned_cols=88 Identities=14% Similarity=0.207 Sum_probs=50.8
Q ss_pred HHHHHhCCCchhcccceecCCCCCHHH------HHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcc
Q psy16109 29 REVLEDLKILSKFSAVLHVPNLSTPEH------LLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQI 102 (129)
Q Consensus 29 ~~vL~~lgl~~~F~~~i~VP~l~~~~e------l~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~ 102 (129)
+++|++=.+.+++...+.=|+.++.++ +..|++-.-.|...||.++++.+ +.....|=+|-+.-..+.....
T Consensus 43 ~sll~qg~~~~AL~~aL~~~P~~t~~q~vK~~a~~~v~~vL~~ik~adI~~~v~~L--s~e~~DiLmKYiYkGm~~p~d~ 120 (152)
T KOG3380|consen 43 RSLLTQGKSLEALQTALLNPPYGTKDQEVKDRALNVVLKVLTSIKQADIEAAVKKL--STEEIDILMKYIYKGMEIPSDN 120 (152)
T ss_pred HHHHHcccHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHh--hHHHHHHHHHHHHHHhcCcccc
Confidence 445555555555555555555544433 55566666668888999999999 4445677777777775433222
Q ss_pred cchhhHHHHHHHHHhc
Q psy16109 103 EENYRVMKFLTKLEDE 118 (129)
Q Consensus 103 ~~~~~~~~fl~~l~~~ 118 (129)
......-.+-+.+.+.
T Consensus 121 ~s~~~LL~WHEk~~~~ 136 (152)
T KOG3380|consen 121 SSCVSLLQWHEKLVAK 136 (152)
T ss_pred chHHHHHHHHHHHHHh
Confidence 2222234555555544
No 71
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=41.22 E-value=1.3e+02 Score=27.16 Aligned_cols=66 Identities=14% Similarity=0.272 Sum_probs=38.2
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHH----HhcCC-CCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVI----EESDV-FSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl----~~~~~-F~~~e~~~i~ 75 (129)
.+|+-.|..+|+ +-.+|++||.-..+...+ ...| ..++.+.++ .+++...+ ++.|. ++++.++.++
T Consensus 137 naLLk~LEepp~--~~~fIl~t~~~~kl~~tI-~SRc--~~~~f~~l~-~~~i~~~L~~i~~~egi~i~~~al~~la 207 (576)
T PRK14965 137 NALLKTLEEPPP--HVKFIFATTEPHKVPITI-LSRC--QRFDFRRIP-LQKIVDRLRYIADQEGISISDAALALVA 207 (576)
T ss_pred HHHHHHHHcCCC--CeEEEEEeCChhhhhHHH-HHhh--hhhhcCCCC-HHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence 466777777666 778889998766555442 1123 355566675 35665444 44553 5565544443
No 72
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=41.10 E-value=2.4e+02 Score=25.39 Aligned_cols=67 Identities=21% Similarity=0.395 Sum_probs=37.5
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHH----hcCC-CCHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE----ESDV-FSKKQVQEIER 76 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~i~~ 76 (129)
.+|+-.+..+|+ +-.+|++||.-..++.. +.+.+ ..++.+.++ .+++...++ ..|. ++++.++.+++
T Consensus 137 naLLKtLEepp~--~~ifIlatt~~~ki~~t--I~SRc-~~~~f~~~~-~~ei~~~L~~i~~~egi~i~~~al~~ia~ 208 (559)
T PRK05563 137 NALLKTLEEPPA--HVIFILATTEPHKIPAT--ILSRC-QRFDFKRIS-VEDIVERLKYILDKEGIEYEDEALRLIAR 208 (559)
T ss_pred HHHHHHhcCCCC--CeEEEEEeCChhhCcHH--HHhHh-eEEecCCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 456666665544 67899998865444432 22222 245677775 467766664 3453 55554444443
No 73
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=41.03 E-value=2e+02 Score=26.27 Aligned_cols=66 Identities=14% Similarity=0.298 Sum_probs=40.1
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHH----hcCC-CCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE----ESDV-FSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~i~ 75 (129)
.+|+-+|..+|+ +-.||++||....++..+ ..-...++++.++. +++...+. ..|. .+++.++.++
T Consensus 139 naLLK~LEepp~--~tifIL~tt~~~kIl~tI---~SRc~iv~f~~ls~-~ei~~~L~~ia~~egi~i~~~al~~La 209 (614)
T PRK14971 139 NAFLKTLEEPPS--YAIFILATTEKHKILPTI---LSRCQIFDFNRIQV-ADIVNHLQYVASKEGITAEPEALNVIA 209 (614)
T ss_pred HHHHHHHhCCCC--CeEEEEEeCCchhchHHH---HhhhheeecCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 467777777555 567888888766555542 33345688888864 67766665 4443 3454444443
No 74
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=40.76 E-value=32 Score=21.59 Aligned_cols=29 Identities=38% Similarity=0.530 Sum_probs=21.1
Q ss_pred HHHHHhCCCchhcccceecCCCCCHHHHHHHHH
Q psy16109 29 REVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE 61 (129)
Q Consensus 29 ~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~ 61 (129)
+++++++|-.+. .+++|++++ +-+.+|++
T Consensus 27 ~~ml~~~~~~~~---~Ipl~~v~~-~~L~kVie 55 (62)
T PF03931_consen 27 KNMLEDLGDEDE---PIPLPNVSS-RILKKVIE 55 (62)
T ss_dssp HHHHHCTCCCGT---EEEETTS-H-HHHHHHHH
T ss_pred HHHHhhhccccc---ccccCccCH-HHHHHHHH
Confidence 556676666665 799999975 78888876
No 75
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=40.57 E-value=93 Score=28.61 Aligned_cols=57 Identities=12% Similarity=0.211 Sum_probs=35.6
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhC-CCchhcccceecCCCCCHHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDL-KILSKFSAVLHVPNLSTPEHLLNVIE 61 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~l-gl~~~F~~~i~VP~l~~~~el~~Vl~ 61 (129)
.+.|+.++...... .+.+|||||+.++-++.- --...|+..+.+|..+ .++-..+++
T Consensus 299 ~~~Ll~~ld~l~~~-~~vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~-~~~R~~Il~ 356 (733)
T TIGR01243 299 VAQLLTLMDGLKGR-GRVIVIGATNRPDALDPALRRPGRFDREIVIRVPD-KRARKEILK 356 (733)
T ss_pred HHHHHHHhhccccC-CCEEEEeecCChhhcCHHHhCchhccEEEEeCCcC-HHHHHHHHH
Confidence 45667777655433 368899999887655322 1124688888887764 455555554
No 76
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=40.47 E-value=2.3e+02 Score=26.20 Aligned_cols=66 Identities=17% Similarity=0.343 Sum_probs=39.2
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cCC-CCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SDV-FSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~~-F~~~e~~~i~ 75 (129)
++|+-.+..+|+ +=.+|++|++-..++.. +.+.+ ..++.+.++ .+++...+.. .+. ++++.++.++
T Consensus 137 NaLLKtLEEPp~--~tvfIL~Tt~~~KLl~T--I~SRc-q~ieF~~Ls-~~eL~~~L~~il~kegi~Is~eal~~La 207 (605)
T PRK05896 137 NALLKTLEEPPK--HVVFIFATTEFQKIPLT--IISRC-QRYNFKKLN-NSELQELLKSIAKKEKIKIEDNAIDKIA 207 (605)
T ss_pred HHHHHHHHhCCC--cEEEEEECCChHhhhHH--HHhhh-hhcccCCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 456666666554 67788888765444333 22222 367888886 4677766664 343 6666554444
No 77
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=40.36 E-value=2.4e+02 Score=26.63 Aligned_cols=54 Identities=22% Similarity=0.373 Sum_probs=34.1
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE 62 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~ 62 (129)
.+||+-.|..||+ +-.+|++||....++.. +.+.+ ..+++..++ .+++...|++
T Consensus 135 ~NALLKtLEEPP~--~tifILaTte~~KLl~T--I~SRc-q~ieF~~L~-~eeI~~~L~~ 188 (725)
T PRK07133 135 FNALLKTLEEPPK--HVIFILATTEVHKIPLT--ILSRV-QRFNFRRIS-EDEIVSRLEF 188 (725)
T ss_pred HHHHHHHhhcCCC--ceEEEEEcCChhhhhHH--HHhhc-eeEEccCCC-HHHHHHHHHH
Confidence 4567667776555 67889999865444433 23222 367888886 4787766653
No 78
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=39.37 E-value=2.7e+02 Score=24.49 Aligned_cols=95 Identities=14% Similarity=0.127 Sum_probs=53.9
Q ss_pred eEEEEecCCcHHHHHhCCC-chhcccceecCCCCCHHHHHHHHHhc--C-CCC-HHHHHHHHHHHhhCCCcccccHHHHH
Q psy16109 19 KLLVLCTTSCREVLEDLKI-LSKFSAVLHVPNLSTPEHLLNVIEES--D-VFS-KKQVQEIERYLHQHKARVFVGIRKLL 93 (129)
Q Consensus 19 rLLViaTTS~~~vL~~lgl-~~~F~~~i~VP~l~~~~el~~Vl~~~--~-~F~-~~e~~~i~~~l~~~~~~~~IgIKkLL 93 (129)
.+.||+||...+.++.-=+ -..|+..|++|..+ .++...+++.. + .++ +.+...++... .+ -.+--|+.++
T Consensus 322 ~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd-~~~R~~Il~~~~~k~~l~~dvdl~~la~~t--~g-~sgAdI~~i~ 397 (438)
T PTZ00361 322 DVKVIMATNRIESLDPALIRPGRIDRKIEFPNPD-EKTKRRIFEIHTSKMTLAEDVDLEEFIMAK--DE-LSGADIKAIC 397 (438)
T ss_pred CeEEEEecCChHHhhHHhccCCeeEEEEEeCCCC-HHHHHHHHHHHHhcCCCCcCcCHHHHHHhc--CC-CCHHHHHHHH
Confidence 5788899988888877433 25799999999886 47888888732 1 132 33555555433 21 1122377765
Q ss_pred HHHHHH--hcccchhhHHHHHHHHHh
Q psy16109 94 GLIDMA--RQIEENYRVMKFLTKLED 117 (129)
Q Consensus 94 ~~ie~A--~~~~~~~~~~~fl~~l~~ 117 (129)
.-+.+. +........+.|...+..
T Consensus 398 ~eA~~~Alr~~r~~Vt~~D~~~A~~~ 423 (438)
T PTZ00361 398 TEAGLLALRERRMKVTQADFRKAKEK 423 (438)
T ss_pred HHHHHHHHHhcCCccCHHHHHHHHHH
Confidence 544332 222223344555554443
No 79
>cd01671 CARD Caspase activation and recruitment domain: a protein-protein interaction domain. Caspase activation and recruitment domains (CARDs) are death domains (DDs) found associated with caspases. Caspases are aspartate-specific cysteine proteases with functions in apoptosis, immune signaling, inflammation, and host-defense mechanisms. In addition to caspases, proteins containing CARDs include adaptor proteins such as RAIDD, CARD9, and RIG-I-like helicases, which can form mutliprotein complexes and play important roles in mediating the signals to induce immune and inflammatory responses. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effector Domain). They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=38.41 E-value=1e+02 Score=19.50 Aligned_cols=61 Identities=16% Similarity=0.205 Sum_probs=40.8
Q ss_pred CCHHHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHhcCc
Q psy16109 51 STPEHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGC 120 (129)
Q Consensus 51 ~~~~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~~g~ 120 (129)
+.++.+...|.+.++++.+|.+.+...- . .-.+.-.++++.... ....+..|++.|.+.+.
T Consensus 13 ~~~~~il~~L~~~~vlt~~e~~~i~~~~-----~---~~~k~~~Lld~l~~k-g~~af~~F~~~L~~~~~ 73 (80)
T cd01671 13 LDVEDVLDHLLSDGVLTEEEYEKIRSES-----T---RQDKARKLLDILPRK-GPKAFQSFLQALQETDQ 73 (80)
T ss_pred ccHHHHHHHHHHcCCCCHHHHHHHHcCC-----C---hHHHHHHHHHHHHhc-ChHHHHHHHHHHHhcCC
Confidence 4567788888889999999987766521 1 334444455544432 23458999999998763
No 80
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=38.05 E-value=2e+02 Score=22.61 Aligned_cols=68 Identities=16% Similarity=0.282 Sum_probs=38.5
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHH----hcCC-CCHHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE----ESDV-FSKKQVQEIERY 77 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~i~~~ 77 (129)
++|.-++...|+.. .+|+.++....+++. +.+.+. .++++.++ .+++...++ ..+. ++++.++.+++.
T Consensus 120 ~~L~~~le~~~~~~--~lIl~~~~~~~l~~~--l~sr~~-~~~~~~l~-~~ei~~~l~~~~~~~~~~i~~~al~~l~~~ 192 (319)
T PRK00440 120 QALRRTMEMYSQNT--RFILSCNYSSKIIDP--IQSRCA-VFRFSPLK-KEAVAERLRYIAENEGIEITDDALEAIYYV 192 (319)
T ss_pred HHHHHHHhcCCCCC--eEEEEeCCccccchh--HHHHhh-eeeeCCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence 46667777655543 355555444444433 223333 47888886 478776665 3454 677766555543
No 81
>TIGR02069 cyanophycinase cyanophycinase. This model describes both cytosolic and extracellular cyanophycinases. The former are part of a system in many Cyanobacteria and a few other species of generating and later utilizing a storage polymer for nitrogen, carbon, and energy, called cyanophycin. The latter are found in species such as Pseudomonas anguilliseptica that can use external cyanophycin. The polymer has a backbone of L-aspartic acid, with most Asp side chain carboxyl groups attached to L-arginine.
Probab=37.25 E-value=97 Score=24.89 Aligned_cols=71 Identities=15% Similarity=0.225 Sum_probs=41.8
Q ss_pred hHHHHHHHhcCCCCCCCeEEEEecCCc-H--------HHHHhCCCchhcccceecCC---CCCHHHHHHHHHhcCC--CC
Q psy16109 2 TLQALRVLLKKEPPRNKKLLVLCTTSC-R--------EVLEDLKILSKFSAVLHVPN---LSTPEHLLNVIEESDV--FS 67 (129)
Q Consensus 2 ILQaLlVLlkk~PPkGrrLLViaTTS~-~--------~vL~~lgl~~~F~~~i~VP~---l~~~~el~~Vl~~~~~--F~ 67 (129)
|+|.++-+.+++.| |+.||.|-|. + +.++++|..++. .+++++ -.. ++..+.+.+.+. |+
T Consensus 16 i~~~~~~lag~~~~---rI~~iptAS~~~~~~~~~~~~~~~~lG~~~v~--~l~i~~r~~a~~-~~~~~~l~~ad~I~~~ 89 (250)
T TIGR02069 16 ILREFVSRAGGEDA---IIVIITSASEEPREVGERYITIFSRLGVKEVK--ILDVREREDASD-ENAIALLSNATGIFFT 89 (250)
T ss_pred HHHHHHHHhCCCCc---eEEEEeCCCCChHHHHHHHHHHHHHcCCceeE--EEecCChHHccC-HHHHHHHhhCCEEEEe
Confidence 67888888888765 9999999773 2 467777875433 344433 223 345555665543 34
Q ss_pred HHHHHHHHHHH
Q psy16109 68 KKQVQEIERYL 78 (129)
Q Consensus 68 ~~e~~~i~~~l 78 (129)
..+-....+.+
T Consensus 90 GGnq~~l~~~l 100 (250)
T TIGR02069 90 GGDQLRITSLL 100 (250)
T ss_pred CCCHHHHHHHH
Confidence 44433444433
No 82
>KOG0391|consensus
Probab=37.08 E-value=14 Score=37.37 Aligned_cols=22 Identities=27% Similarity=0.551 Sum_probs=20.4
Q ss_pred HHHHHHHhcCCCCCCCeEEEEe
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLC 24 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLVia 24 (129)
||||-|||++-=-.|||.||+-
T Consensus 1262 LQtLAiLLqQLk~eghRvLIfT 1283 (1958)
T KOG0391|consen 1262 LQTLAILLQQLKSEGHRVLIFT 1283 (1958)
T ss_pred HHHHHHHHHHHHhcCceEEehh
Confidence 8999999999988999999984
No 83
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=37.01 E-value=2.6e+02 Score=25.30 Aligned_cols=67 Identities=19% Similarity=0.350 Sum_probs=39.0
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEIE 75 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i~ 75 (129)
.++|+-.+..+|| +-.+|++||.-..+... |.+.+. .++.+.++ .+++...+++ .+ .++++.+..++
T Consensus 136 ~naLLK~LEepp~--~~vfI~~tte~~kL~~t--I~SRc~-~~~f~~l~-~~el~~~L~~i~~~egi~id~eAl~lLa 207 (563)
T PRK06647 136 FNALLKTIEEPPP--YIVFIFATTEVHKLPAT--IKSRCQ-HFNFRLLS-LEKIYNMLKKVCLEDQIKYEDEALKWIA 207 (563)
T ss_pred HHHHHHhhccCCC--CEEEEEecCChHHhHHH--HHHhce-EEEecCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 4577777777655 67888888764444432 222222 46677775 4777766653 33 34555444443
No 84
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=36.85 E-value=3.3e+02 Score=25.31 Aligned_cols=67 Identities=25% Similarity=0.307 Sum_probs=39.9
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cCC-CCHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SDV-FSKKQVQEIER 76 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~~-F~~~e~~~i~~ 76 (129)
.+|+-.+..+|+ +-.+|++||....++.. +.+.+ ..++.+.++. +++...|++ .+. ++++.+..+.+
T Consensus 137 naLLk~LEEP~~--~~ifILaTt~~~kll~T--I~SRc-q~i~F~pLs~-~eL~~~L~~il~~egi~id~eal~lIA~ 208 (624)
T PRK14959 137 NALLKTLEEPPA--RVTFVLATTEPHKFPVT--IVSRC-QHFTFTRLSE-AGLEAHLTKVLGREGVDYDPAAVRLIAR 208 (624)
T ss_pred HHHHHHhhccCC--CEEEEEecCChhhhhHH--HHhhh-hccccCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 456556655443 67788878765555543 23222 3678889974 788776663 343 66665544443
No 85
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=36.26 E-value=2.6e+02 Score=23.78 Aligned_cols=66 Identities=18% Similarity=0.275 Sum_probs=41.1
Q ss_pred CCCCCCeEEEEecCCc-HHHHHhC------C--Cchhccc-------ceecCCCCCHHHHHHHHHhcCC---------CC
Q psy16109 13 EPPRNKKLLVLCTTSC-REVLEDL------K--ILSKFSA-------VLHVPNLSTPEHLLNVIEESDV---------FS 67 (129)
Q Consensus 13 ~PPkGrrLLViaTTS~-~~vL~~l------g--l~~~F~~-------~i~VP~l~~~~el~~Vl~~~~~---------F~ 67 (129)
....+||.||+|+.+. ..+.+++ | +...++. .-.+|-+.+.+++.+++++.++ .+
T Consensus 121 ~~~~~~rvLIvGag~~a~~l~~~L~~~~~~g~~vvG~idd~~~~~~~i~g~pVlg~~~~l~~~i~~~~id~ViIa~p~~~ 200 (445)
T TIGR03025 121 RGWNLRRVLIVGTGEAARELAAALSRNPDLGYRVVGFVDDRPSDRVEVAGLPVLGKLDDLVELVRAHRVDEVIIALPLSE 200 (445)
T ss_pred CCCCCCcEEEEECCHHHHHHHHHHhhCccCCeEEEEEEeCCcccccccCCCcccCCHHHHHHHHHhCCCCEEEEecCccc
Confidence 3445689999999985 3444443 1 2222332 1247778888999999987663 23
Q ss_pred HHHHHHHHHHH
Q psy16109 68 KKQVQEIERYL 78 (129)
Q Consensus 68 ~~e~~~i~~~l 78 (129)
.++..++++.+
T Consensus 201 ~~~~~~ll~~~ 211 (445)
T TIGR03025 201 EARILELLLQL 211 (445)
T ss_pred HHHHHHHHHHH
Confidence 44556666655
No 86
>PF00619 CARD: Caspase recruitment domain; InterPro: IPR001315 The caspase recruitment domain domain (CARD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. CARD is related in sequence and structure to the death domain (DD, see IPR000488 from INTERPRO) and the death effector domain (DED, see IPR001875 from INTERPRO), which work in similar pathways and show similar interaction properties []. The CARD domain typically associates with other CARD-containing proteins, forming either dimers or trimers. CARD domains can be found in isolation, or in combination with other domains. Domains associated with CARD include: NACHT (IPR007111 from INTERPRO) (in Nal1 and Bir1), NB-ARC (IPR002182 from INTERPRO) (in Apaf-1), pyrin/dapin domains (IPR004020 from INTERPRO) (in Nal1), leucine-rich repeats () (in Nal1), WD repeats (IPR001680 from INTERPRO) (in Apaf1), Src homology domains (IPR001452 from INTERPRO), PDZ (IPR001478 from INTERPRO), RING, kinase and DD domains []. CARD-containing proteins are involved in apoptosis through their regulation of caspases that contain CARDs in their N-terminal pro-domains, including human caspases 1, 2, 9, 11 and 12 []. CARD-containing proteins are also involved in inflammation through their regulation of NF-kappaB []. The mechanisms by which CARDs activate caspases and NF-kappaB involve the assembly of multi-protein complexes, which can facilitate dimerisation or serve as scaffolds on which proteases and kinases are assembled and activated.; GO: 0005515 protein binding, 0042981 regulation of apoptosis, 0005622 intracellular; PDB: 2NSN_A 2NZ7_B 2DBD_A 4E9M_C 2B1W_A 3YGS_P 2KN6_A 3CRD_A 1DGN_A 3KAT_A ....
Probab=36.13 E-value=1.2e+02 Score=19.44 Aligned_cols=57 Identities=16% Similarity=0.197 Sum_probs=38.5
Q ss_pred CHHHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHh
Q psy16109 52 TPEHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLED 117 (129)
Q Consensus 52 ~~~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~ 117 (129)
.++.+..-|.+.++|+.+|.+.+.. . +-+-++.=.++++.... ....+..|++.|.+
T Consensus 17 ~~~~ild~L~~~~vlt~~e~e~I~~-~-------~t~~~k~~~LLd~l~~k-g~~a~~~F~~~L~~ 73 (85)
T PF00619_consen 17 DLDDILDHLLSRGVLTEEEYEEIRS-E-------PTRQDKARKLLDILKRK-GPEAFDIFCQALRE 73 (85)
T ss_dssp HHHHHHHHHHHTTSSSHHHHHHHHT-S-------SSHHHHHHHHHHHHHHC-CHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHCCCCCHHHHHHHHc-c-------CChHHHHHHHHHHHHHH-CHHHHHHHHHHHHh
Confidence 4678888888999999999987775 2 22344444455544432 22458899999887
No 87
>cd07043 STAS_anti-anti-sigma_factors Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation. Anti-anti-sigma factors play an important role in the regulation of several sigma factors and their corresponding anti-sigma factors. Upon dephosphorylation they bind the anti-sigma factor and induce the release of the sigma factor from the anti-sigma factor. In a feedback mechanism the anti-anti-sigma factor can be inactivated via phosphorylation by the anti-sigma factor. Well studied examples from Bacillus subtilis are SpoIIAA (regulating sigmaF and sigmaC which play an important role in sporulation) and RsbV (regulating sigmaB involved in the general stress response). The STAS domain is also found in the C- terminal region of sulphate transporters and stressosomes.
Probab=36.03 E-value=29 Score=22.23 Aligned_cols=40 Identities=23% Similarity=0.253 Sum_probs=30.6
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCC-cHHHHHhCCCchhcc
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTS-CREVLEDLKILSKFS 42 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS-~~~vL~~lgl~~~F~ 42 (129)
+++|.-+.++--++|..+-+.+... ..++|+.+|+.+.|.
T Consensus 56 ~~~L~~l~~~~~~~g~~v~i~~~~~~~~~~l~~~gl~~~~~ 96 (99)
T cd07043 56 LGVLLGAYKRARAAGGRLVLVNVSPAVRRVLELTGLDRLFP 96 (99)
T ss_pred HHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHHHhCcceeee
Confidence 5777888888777888888887664 578888888877664
No 88
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=35.44 E-value=2.6e+02 Score=24.34 Aligned_cols=67 Identities=10% Similarity=0.140 Sum_probs=42.1
Q ss_pred CCCCCCeEEEEecCCcH-HHHHhC------C--Cchhccc----ceecCCCCCHHHHHHHHHhcCC---------CCHHH
Q psy16109 13 EPPRNKKLLVLCTTSCR-EVLEDL------K--ILSKFSA----VLHVPNLSTPEHLLNVIEESDV---------FSKKQ 70 (129)
Q Consensus 13 ~PPkGrrLLViaTTS~~-~vL~~l------g--l~~~F~~----~i~VP~l~~~~el~~Vl~~~~~---------F~~~e 70 (129)
..-.+||.+|+|+.+.- .+.+++ | +...++. ...||-+.+.+++.+++++.++ .+.++
T Consensus 139 ~g~~~rrVLIvGaG~~g~~l~~~L~~~~~~g~~vVGfiDdd~~~g~~VpvlG~~~dL~~~v~~~~IdeViIAip~~~~~~ 218 (463)
T PRK10124 139 HGYNKRMVAVAGDLPAGQMLLESFRNEPWLGFEVVGVYHDPKPGGVSNDWAGNLQQLVEDAKAGKIHNVYIAMSMCDGAR 218 (463)
T ss_pred cCCCCCcEEEEECCHHHHHHHHHHhcCccCCeEEEEEEeCCccccCCCCcCCCHHHHHHHHHhCCCCEEEEeCCCcchHH
Confidence 33346899999999863 344443 2 2222321 2456768888999999887653 34556
Q ss_pred HHHHHHHHh
Q psy16109 71 VQEIERYLH 79 (129)
Q Consensus 71 ~~~i~~~l~ 79 (129)
++++++.++
T Consensus 219 l~ell~~~~ 227 (463)
T PRK10124 219 VKKLVRQLA 227 (463)
T ss_pred HHHHHHHHH
Confidence 777777663
No 89
>PF04361 DUF494: Protein of unknown function (DUF494); InterPro: IPR007456 Members of this family of uncharacterised proteins are often named Smg.
Probab=35.32 E-value=1.5e+02 Score=22.42 Aligned_cols=68 Identities=15% Similarity=0.227 Sum_probs=44.4
Q ss_pred CCCHHHHHHHHHhcCCCCHHHHHHHHHHHh----hC------CCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHhcC
Q psy16109 50 LSTPEHLLNVIEESDVFSKKQVQEIERYLH----QH------KARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEG 119 (129)
Q Consensus 50 l~~~~el~~Vl~~~~~F~~~e~~~i~~~l~----~~------~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~~g 119 (129)
....+++..-|.+.| |++.||.++..-+. .. ....+=++ ++..--|..+-+ ..+--|+..|+..|
T Consensus 20 ~~d~~~L~~~L~~aG-F~~~eI~~Al~WL~~L~~~~~~~~~~~~~~~~s~-Riyt~~E~~~L~---~e~rgfL~fLeq~g 94 (155)
T PF04361_consen 20 CPDQDDLTRELSAAG-FEDEEINKALDWLEGLAELQEEEPPAQFASPRSM-RIYTPEEQEKLD---TECRGFLLFLEQAG 94 (155)
T ss_pred CCCHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHhccccccccccCCCCce-EecCHHHHHHCC---HHHHHHHHHHHHcC
Confidence 335789999999876 99999999987664 00 00111122 345555554443 24678999999999
Q ss_pred ccc
Q psy16109 120 CLD 122 (129)
Q Consensus 120 ~~~ 122 (129)
+++
T Consensus 95 vL~ 97 (155)
T PF04361_consen 95 VLD 97 (155)
T ss_pred CCC
Confidence 877
No 90
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=35.23 E-value=2.1e+02 Score=21.99 Aligned_cols=90 Identities=24% Similarity=0.280 Sum_probs=49.8
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCC------CchhcccceecCCCCCHHHHHHHHHh----cC-----CCC
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLK------ILSKFSAVLHVPNLSTPEHLLNVIEE----SD-----VFS 67 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lg------l~~~F~~~i~VP~l~~~~el~~Vl~~----~~-----~F~ 67 (129)
+..|..|..-....++.+-|+.| ..++..+.+. +.+.+...++.|+++. +|+...+.. .+ .|+
T Consensus 140 ~~~l~~l~~~~~~~~~~~~vvl~-g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~-~e~~~~l~~~l~~~g~~~~~~~~ 217 (269)
T TIGR03015 140 LEELRMLSNFQTDNAKLLQIFLV-GQPEFRETLQSPQLQQLRQRIIASCHLGPLDR-EETREYIEHRLERAGNRDAPVFS 217 (269)
T ss_pred HHHHHHHhCcccCCCCeEEEEEc-CCHHHHHHHcCchhHHHHhheeeeeeCCCCCH-HHHHHHHHHHHHHcCCCCCCCcC
Confidence 34444444444433333333333 3444444433 3345566789999975 888776652 22 477
Q ss_pred HHHHHHHHHHHhhCCCcccccHHHHHHHHHH
Q psy16109 68 KKQVQEIERYLHQHKARVFVGIRKLLGLIDM 98 (129)
Q Consensus 68 ~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~ 98 (129)
++.++.+.+.- +| .+-.|.++...+-.
T Consensus 218 ~~~~~~i~~~s--~G--~p~~i~~l~~~~~~ 244 (269)
T TIGR03015 218 EGAFDAIHRFS--RG--IPRLINILCDRLLL 244 (269)
T ss_pred HHHHHHHHHHc--CC--cccHHHHHHHHHHH
Confidence 77776666643 33 35567777666543
No 91
>PRK14366 Maf-like protein; Provisional
Probab=34.65 E-value=39 Score=26.44 Aligned_cols=18 Identities=28% Similarity=0.543 Sum_probs=16.0
Q ss_pred EEEecCC--cHHHHHhCCCc
Q psy16109 21 LVLCTTS--CREVLEDLKIL 38 (129)
Q Consensus 21 LViaTTS--~~~vL~~lgl~ 38 (129)
+|+|.+| .+++|+++|+.
T Consensus 7 iILAS~SprR~elL~~~G~~ 26 (195)
T PRK14366 7 LILASSSKQRLALLEQIGVV 26 (195)
T ss_pred EEEeCCCHHHHHHHHhCCCC
Confidence 8999999 68999999983
No 92
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=34.38 E-value=1.9e+02 Score=27.37 Aligned_cols=67 Identities=16% Similarity=0.299 Sum_probs=38.5
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHH----HHHHhcCC-CCHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLL----NVIEESDV-FSKKQVQEIER 76 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~----~Vl~~~~~-F~~~e~~~i~~ 76 (129)
++|+-.|..+|+ +-.+|++||..+.++..+ +..| ..++++.++. +++. .+++..|. ++++.+..+.+
T Consensus 137 NALLKtLEEPp~--~v~fILaTtd~~kL~~TI-rSRC--~~f~f~~Ls~-eeI~~~L~~Il~kEgi~id~eAL~~Ia~ 208 (709)
T PRK08691 137 NAMLKTLEEPPE--HVKFILATTDPHKVPVTV-LSRC--LQFVLRNMTA-QQVADHLAHVLDSEKIAYEPPALQLLGR 208 (709)
T ss_pred HHHHHHHHhCCC--CcEEEEEeCCccccchHH-HHHH--hhhhcCCCCH-HHHHHHHHHHHHHcCCCcCHHHHHHHHH
Confidence 456666666544 567888888766655442 1233 4566778864 5654 44455553 56655444443
No 93
>TIGR03642 cas_csx13 CRISPR-associated protein, Csx13 family. This model describes a protein N-terminal protein sequence domain strictly associated with CRISPR and CRISPR-associated protein systems. This model and TIGR02584 identify two separate clades from a larger homology domain family, both CRISPR-associated, while other homologs are found that may not be. Members are found in bacteria that include Pelotomaculum thermopropionicum SI, Thermoanaerobacter tengcongensis MB4, and Roseiflexus sp. RS-1, and in archaea that include Thermoplasma volcanium, Picrophilus torridus, and Methanospirillum hungatei. The molecular function is unknown.
Probab=34.15 E-value=1.9e+02 Score=21.23 Aligned_cols=35 Identities=29% Similarity=0.372 Sum_probs=23.2
Q ss_pred hHHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCc
Q psy16109 2 TLQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKIL 38 (129)
Q Consensus 2 ILQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~ 38 (129)
|-.||-.|.++.+|.. .+.||-|+ ++.+++-+.+.
T Consensus 7 vTEtl~aL~~~g~~i~-ev~lI~T~-~~~v~~~~~~l 41 (124)
T TIGR03642 7 ITEAIDYLKKKGEPIS-DVILIYTK-DPYVLSALRAL 41 (124)
T ss_pred HHHHHHHHHhcCCCCC-eEEEEEcC-CHHHHHHHHHH
Confidence 5678889988855543 66666655 56666665544
No 94
>TIGR00377 ant_ant_sig anti-anti-sigma factor. This superfamily includes small (105-125 residue) proteins related to SpoIIAA of Bacillus subtilis, an anti-anti-sigma factor. SpoIIAA can bind to and inhibit the anti-sigma F factor SpoIIAB. Also, it can be phosphorylated by SpoIIAB on a Ser residue at position 59 of the seed alignment. A similar arrangement is inferred for RsbV, an anti-anti-sigma factor for sigma B. This Ser is fairly well conserved within a motif resembling MXS[STA]G[VIL]X[VIL][VILF] among homologous known or predicted anti-anti-sigma factors. Regions similar to SpoIIAA and apparently homologous, but differing considerably near the phosphorlated Ser of SpoIIAA, appear in a single copy in several longer proteins.
Probab=34.14 E-value=37 Score=22.52 Aligned_cols=42 Identities=14% Similarity=0.135 Sum_probs=23.4
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCC-cHHHHHhCCCchhcccc
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTS-CREVLEDLKILSKFSAV 44 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS-~~~vL~~lgl~~~F~~~ 44 (129)
+++|.-+.++--.+|.++.+.+... -..+|+.+|+.+.|...
T Consensus 61 l~~L~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~l~~~~~i~ 103 (108)
T TIGR00377 61 LGVLLGRYKQVRRVGGQLVLVSVSPRVARLLDITGLLRIIPIY 103 (108)
T ss_pred HHHHHHHHHHHHhcCCEEEEEeCCHHHHHHHHHhChhheeccC
Confidence 4455555555334566666665443 35666666666665543
No 95
>TIGR01457 HAD-SF-IIA-hyp2 HAD-superfamily subfamily IIA hydrolase, TIGR01457. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram positive (low-GC) bacteria. Sequences found in this model are annotated variously as related to NagD or 4-nitrophenyl phosphatase, and this hypothetical equivalog, of all of those within the Class IIA subfamily, is most closely related to the E. coli NagD enzyme and the PGP_euk equivalog (TIGR01452). However, there is presently no evidence that this hypothetical equivalog has the same function of either those.
Probab=33.55 E-value=1.5e+02 Score=23.34 Aligned_cols=34 Identities=12% Similarity=0.157 Sum_probs=27.3
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCc
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKIL 38 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~ 38 (129)
+++.-+|++..| +++.+++|+.+-.+.+++.|+.
T Consensus 71 ~~~~~~l~~~~~-~~~v~~lg~~~l~~~l~~~g~~ 104 (249)
T TIGR01457 71 MATADYMNDLKL-EKTVYVIGEEGLKEAIKEAGYV 104 (249)
T ss_pred HHHHHHHHhcCC-CCEEEEEcChhHHHHHHHcCCE
Confidence 455667777644 6899999999999999999874
No 96
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=33.12 E-value=2.8e+02 Score=22.83 Aligned_cols=68 Identities=15% Similarity=0.384 Sum_probs=36.6
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHH----hcCC-CCHHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE----ESDV-FSKKQVQEIER 76 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~i~~ 76 (129)
+.+|+-.+..+|+ .-.+|++|+.....+..+ .+.+ ..++.+.++ .+++...+. ..|. ++++.++.++.
T Consensus 125 ~~~ll~~le~~~~--~~~~Il~~~~~~kl~~~l--~sr~-~~v~~~~~~-~~~l~~~l~~~~~~~g~~i~~~al~~l~~ 197 (367)
T PRK14970 125 FNAFLKTLEEPPA--HAIFILATTEKHKIIPTI--LSRC-QIFDFKRIT-IKDIKEHLAGIAVKEGIKFEDDALHIIAQ 197 (367)
T ss_pred HHHHHHHHhCCCC--ceEEEEEeCCcccCCHHH--Hhcc-eeEecCCcc-HHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 3456666666443 356777776543333322 1222 247787776 467766555 4454 66665555444
No 97
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=33.08 E-value=3.2e+02 Score=26.82 Aligned_cols=66 Identities=14% Similarity=0.222 Sum_probs=38.7
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i~ 75 (129)
++|+-.|-.+|+ +-.+|++||....++..+ +..| ..++.+.++ .+++...|+. .+ .|+++.+..+.
T Consensus 137 NALLKtLEEPP~--~vrFILaTTe~~kLl~TI-lSRC--q~f~fkpLs-~eEI~~~L~~il~~EgI~~edeAL~lIA 207 (944)
T PRK14949 137 NALLKTLEEPPE--HVKFLLATTDPQKLPVTV-LSRC--LQFNLKSLT-QDEIGTQLNHILTQEQLPFEAEALTLLA 207 (944)
T ss_pred HHHHHHHhccCC--CeEEEEECCCchhchHHH-HHhh--eEEeCCCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 456555555444 455677788766554321 1133 678889996 4788776664 33 46666554443
No 98
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=32.77 E-value=1.4e+02 Score=24.72 Aligned_cols=55 Identities=22% Similarity=0.231 Sum_probs=36.7
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcCC
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDV 65 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~~ 65 (129)
.||+-.|-.| |++ ++|+.|++...++..+ .+-...++++.++. +++..+|++.+.
T Consensus 142 NaLLK~LEEP-p~~--~fILi~~~~~~Ll~TI---~SRcq~i~f~~l~~-~~~~~~L~~~~~ 196 (314)
T PRK07399 142 NALLKTLEEP-GNG--TLILIAPSPESLLPTI---VSRCQIIPFYRLSD-EQLEQVLKRLGD 196 (314)
T ss_pred HHHHHHHhCC-CCC--eEEEEECChHhCcHHH---HhhceEEecCCCCH-HHHHHHHHHhhc
Confidence 4566677554 444 6777777655555442 34456788989974 899999998654
No 99
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=32.68 E-value=3.5e+02 Score=25.84 Aligned_cols=53 Identities=17% Similarity=0.257 Sum_probs=32.9
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE 62 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~ 62 (129)
.+|+-+|+.+|+ +-+||++||....++..+ ..-...++...++ .+++...|++
T Consensus 138 NaLLK~LEEpP~--~~~fIl~tt~~~kLl~TI---rSRc~~v~F~~l~-~~~l~~~L~~ 190 (824)
T PRK07764 138 NALLKIVEEPPE--HLKFIFATTEPDKVIGTI---RSRTHHYPFRLVP-PEVMRGYLER 190 (824)
T ss_pred HHHHHHHhCCCC--CeEEEEEeCChhhhhHHH---HhheeEEEeeCCC-HHHHHHHHHH
Confidence 568888888766 778888887654444432 2223355565664 4677666654
No 100
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=32.42 E-value=3.1e+02 Score=26.54 Aligned_cols=65 Identities=20% Similarity=0.424 Sum_probs=37.4
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHH----hcCC-CCHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE----ESDV-FSKKQVQEI 74 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~i 74 (129)
.+|+-.|..+|+ +-.+|++||....++.. |.+-+ ..++...++. +++...|+ ..++ ++++.+..+
T Consensus 137 NALLKtLEEPP~--~v~FILaTtd~~KIp~T--IrSRC-q~f~Fk~Ls~-eeIv~~L~~Il~~EgI~id~eAL~lI 206 (830)
T PRK07003 137 NAMLKTLEEPPP--HVKFILATTDPQKIPVT--VLSRC-LQFNLKQMPA-GHIVSHLERILGEERIAFEPQALRLL 206 (830)
T ss_pred HHHHHHHHhcCC--CeEEEEEECChhhccch--hhhhe-EEEecCCcCH-HHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence 455555555555 67788888876666533 33222 4677778864 67765554 3343 566544433
No 101
>cd08818 CARD_MDA5_1 Caspase activation and recruitment domain found in MDA5, first repeat. Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), first repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-
Probab=32.35 E-value=1.1e+02 Score=21.49 Aligned_cols=62 Identities=16% Similarity=0.228 Sum_probs=37.8
Q ss_pred HHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHhcCc
Q psy16109 55 HLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGC 120 (129)
Q Consensus 55 el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~~g~ 120 (129)
....|+.-...+++++.++|.+.-.+.|. .-.--.||..++-- ..+.+=+..|++.|...||
T Consensus 20 ~v~~VL~~l~~L~~e~ke~I~a~~~~~Gn--~~AA~~LL~~l~~~--~~~~GWf~~FldAL~~~G~ 81 (88)
T cd08818 20 RVEPVLDYLTFLEAEVKERIRAAAATRGN--IAAAELLLSTLEKG--TWDPGWFREFVTALEQGGC 81 (88)
T ss_pred cHHHHhhhcccCCHHHHHHHHHHHHccCc--HHHHHHHHHHHHHh--ccCCchHHHHHHHHHhcCC
Confidence 34455665667789989888887743331 22222233333221 2234679999999999998
No 102
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=32.27 E-value=1.6e+02 Score=19.75 Aligned_cols=66 Identities=12% Similarity=0.152 Sum_probs=39.6
Q ss_pred CCCCCHHHHHHHHHhcCC----------CCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHh
Q psy16109 48 PNLSTPEHLLNVIEESDV----------FSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLED 117 (129)
Q Consensus 48 P~l~~~~el~~Vl~~~~~----------F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~ 117 (129)
++++. +++..|.+..|. |++.|++.|.. ... ..--...-|+..+..+....-++...++.|.+
T Consensus 3 ~~~t~-~~l~~ia~~iG~~Wk~Lar~LGls~~dI~~i~~----~~~--~~~eq~~~mL~~W~~r~g~~AT~~~L~~aL~~ 75 (86)
T cd08318 3 KPVTG-EQITVFANKLGEDWKTLAPHLEMKDKEIRAIES----DSE--DIKMQAKQLLVAWQDREGSQATPETLITALNA 75 (86)
T ss_pred CCCCH-HHHHHHHHHHhhhHHHHHHHcCCCHHHHHHHHh----cCC--CHHHHHHHHHHHHHHhcCccccHHHHHHHHHH
Confidence 45543 677777666552 78888877764 221 22223334444454443344568899999999
Q ss_pred cCc
Q psy16109 118 EGC 120 (129)
Q Consensus 118 ~g~ 120 (129)
.|.
T Consensus 76 ~~~ 78 (86)
T cd08318 76 AGL 78 (86)
T ss_pred cCc
Confidence 885
No 103
>KOG2882|consensus
Probab=31.34 E-value=51 Score=28.00 Aligned_cols=96 Identities=22% Similarity=0.248 Sum_probs=60.7
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHH-------------HHHHHhcC-CCCHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHL-------------LNVIEESD-VFSKK 69 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el-------------~~Vl~~~~-~F~~~ 69 (129)
+|+-.+||+.-|.++|..|||+.--++-|+..| ..+|...-.. ..+ +.. .+|+-..+ -|+=.
T Consensus 93 ~~~a~ylk~~~~~~k~Vyvig~~gi~~eL~~aG-~~~~g~~~~~--~~~-~~~~~~~~~~~~d~~VgAVvvg~D~hfsy~ 168 (306)
T KOG2882|consen 93 YAIADYLKKRKPFGKKVYVIGEEGIREELDEAG-FEYFGGGPDG--KDT-DGAKSFVLSIGLDPDVGAVVVGYDEHFSYP 168 (306)
T ss_pred HHHHHHHHHhCcCCCeEEEecchhhhHHHHHcC-ceeecCCCCc--ccc-cccccchhhcCCCCCCCEEEEecccccCHH
Confidence 467788877668899999999999999999999 6666543322 111 111 11211111 15556
Q ss_pred HHHHHHHHHhh-------CC---------CcccccHHHHHHHHHHHhccc
Q psy16109 70 QVQEIERYLHQ-------HK---------ARVFVGIRKLLGLIDMARQIE 103 (129)
Q Consensus 70 e~~~i~~~l~~-------~~---------~~~~IgIKkLL~~ie~A~~~~ 103 (129)
.+.++.++|+. .+ .....|-=.+...+++|.+-+
T Consensus 169 KL~kA~~yLqnP~clflatn~D~~~p~~~~~~ipG~G~~v~av~~~t~R~ 218 (306)
T KOG2882|consen 169 KLMKALNYLQNPGCLFLATNRDATTPPTPGVEIPGAGSFVAAVKFATGRQ 218 (306)
T ss_pred HHHHHHHHhCCCCcEEEeccCccccCCCCCeeccCCccHHHHHHHHhcCC
Confidence 78888888871 11 223344455788888887654
No 104
>KOG0730|consensus
Probab=31.23 E-value=81 Score=29.66 Aligned_cols=33 Identities=18% Similarity=0.387 Sum_probs=26.6
Q ss_pred CeEEEEecCCcHHHHHhCCCc-hhcccceecCCC
Q psy16109 18 KKLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNL 50 (129)
Q Consensus 18 rrLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l 50 (129)
++++|||.|..++.++.-=|- .-|+..|+||.-
T Consensus 569 k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplP 602 (693)
T KOG0730|consen 569 KNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLP 602 (693)
T ss_pred CcEEEEeccCChhhcCHHHcCCcccceeEeecCc
Confidence 799999999999888764333 379999999864
No 105
>TIGR02886 spore_II_AA anti-sigma F factor antagonist. The anti-sigma F factor antagonist, also called stage II sporulation protein AA, is a protein universal among endospore-forming bacteria, all of which belong to the Firmcutes
Probab=30.85 E-value=43 Score=22.33 Aligned_cols=39 Identities=13% Similarity=0.135 Sum_probs=26.3
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCc-HHHHHhCCCchhc
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSC-REVLEDLKILSKF 41 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~-~~vL~~lgl~~~F 41 (129)
+.+|..+.++-=.+|+++.+.+...+ +.+|+..|+.+.|
T Consensus 57 i~~L~~~~~~~~~~g~~l~l~~~~~~v~~~l~~~gl~~~~ 96 (106)
T TIGR02886 57 LGVILGRYKKIKNEGGEVIVCNVSPAVKRLFELSGLFKII 96 (106)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeCCHHHHHHHHHhCCceEE
Confidence 34555666665557888887776653 6777777777766
No 106
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.40 E-value=3.9e+02 Score=25.35 Aligned_cols=64 Identities=14% Similarity=0.293 Sum_probs=35.1
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHH----HhcCC-CCHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVI----EESDV-FSKKQVQE 73 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl----~~~~~-F~~~e~~~ 73 (129)
.+||-.|-. || ++-.+|++||+...++..+ +..| ..++.+.++. +++...| ++.+. ++++.+..
T Consensus 142 NALLKTLEE-PP-~~v~FILaTtep~kLlpTI-rSRC--q~f~f~~ls~-eei~~~L~~Il~~Egi~~d~eAL~~ 210 (700)
T PRK12323 142 NAMLKTLEE-PP-EHVKFILATTDPQKIPVTV-LSRC--LQFNLKQMPP-GHIVSHLDAILGEEGIAHEVNALRL 210 (700)
T ss_pred HHHHHhhcc-CC-CCceEEEEeCChHhhhhHH-HHHH--HhcccCCCCh-HHHHHHHHHHHHHcCCCCCHHHHHH
Confidence 344444443 33 4678999999877777441 2234 4566666654 5555544 44443 55544333
No 107
>TIGR03023 WcaJ_sugtrans Undecaprenyl-phosphate glucose phosphotransferase. Colanic acid biosynthesis utilizes a glucose-undecaprenyl carrier, knockout of EpsB abolishes incorporation of UDP-glucose into the lipid phase and the C-terminal portion of GumD has been shown to be responsible for the glucosyl-1-transferase activity.
Probab=30.14 E-value=3.4e+02 Score=23.10 Aligned_cols=64 Identities=22% Similarity=0.326 Sum_probs=39.1
Q ss_pred CCCCeEEEEecCCc-HHHHHhC------C--Cchhcccc-------eecCCCCCHHHHHHHHHhcCC---------CCHH
Q psy16109 15 PRNKKLLVLCTTSC-REVLEDL------K--ILSKFSAV-------LHVPNLSTPEHLLNVIEESDV---------FSKK 69 (129)
Q Consensus 15 PkGrrLLViaTTS~-~~vL~~l------g--l~~~F~~~-------i~VP~l~~~~el~~Vl~~~~~---------F~~~ 69 (129)
-.++|.+|+|+.+. ..+.+.+ | +...++.. -.+|-+.+.+++.+++++.++ .+.+
T Consensus 126 ~~~~rvLIiGag~~~~~l~~~L~~~~~~g~~vvG~idd~~~~~~~~~gvpVlg~~~dl~~~i~~~~vd~ViIA~p~~~~~ 205 (451)
T TIGR03023 126 FNLRRVLIVGAGELGRRLAERLARNPELGYRVVGFFDDRPDARTGVRGVPVLGKLDDLEELIREGEVDEVYIALPLAAED 205 (451)
T ss_pred CCCCcEEEEeCCHHHHHHHHHHHhCccCCcEEEEEEeCCCccccccCCCCccCCHHHHHHHHHhcCCCEEEEeeCcccHH
Confidence 34689999999875 3344443 1 22222211 247778888999999987663 2334
Q ss_pred HHHHHHHHH
Q psy16109 70 QVQEIERYL 78 (129)
Q Consensus 70 e~~~i~~~l 78 (129)
++.++++.+
T Consensus 206 ~~~~ll~~~ 214 (451)
T TIGR03023 206 RILELLDAL 214 (451)
T ss_pred HHHHHHHHH
Confidence 556666655
No 108
>PRK08084 DNA replication initiation factor; Provisional
Probab=29.89 E-value=2.2e+02 Score=22.11 Aligned_cols=71 Identities=13% Similarity=0.116 Sum_probs=42.3
Q ss_pred HHHhcCCCCCCCeEEEEecCCcHHHHHhC--CCchhcc--cceecCCCCCHHHHHHHHHh----cCC-CCHHHHHHHHHH
Q psy16109 7 RVLLKKEPPRNKKLLVLCTTSCREVLEDL--KILSKFS--AVLHVPNLSTPEHLLNVIEE----SDV-FSKKQVQEIERY 77 (129)
Q Consensus 7 lVLlkk~PPkGrrLLViaTTS~~~vL~~l--gl~~~F~--~~i~VP~l~~~~el~~Vl~~----~~~-F~~~e~~~i~~~ 77 (129)
.-++.+.--.|++-+|++|+..+.-+... +|.+-|. ..++++.++ .++...+++. .+. .+++-++.+++.
T Consensus 120 f~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~-~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~ 198 (235)
T PRK08084 120 FDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLS-DEEKLQALQLRARLRGFELPEDVGRFLLKR 198 (235)
T ss_pred HHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHHHh
Confidence 33444333356544555555566665544 6777776 567777775 4788888875 232 366666666665
Q ss_pred H
Q psy16109 78 L 78 (129)
Q Consensus 78 l 78 (129)
.
T Consensus 199 ~ 199 (235)
T PRK08084 199 L 199 (235)
T ss_pred h
Confidence 5
No 109
>PF03874 RNA_pol_Rpb4: RNA polymerase Rpb4; InterPro: IPR005574 The eukaryotic RNA polymerase subunits RPB4 and RPB7 form a heterodimer that reversibly associates with the RNA polymerase II core. Archaeal cells contain a single RNAP made up of about 12 subunits, displaying considerable homology to the eukaryotic RNAPII subunits. The RPB4 and RPB7 homologs are called subunits F and E, respectively, and have been shown to form a stable heterodimer. While the RPB7 homologue is reasonably well conserved, the similarity between the eukaryotic RPB4 and the archaeal F subunit is barely detectable [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3AYH_A 3H3V_E 4A3C_D 3PO3_D 3HOX_D 2R92_D 3HOU_D 1Y77_D 2R7Z_D 3QT1_D ....
Probab=29.06 E-value=72 Score=22.12 Aligned_cols=48 Identities=21% Similarity=0.339 Sum_probs=27.6
Q ss_pred HHHHhCCCchh-cccceecCCCCCHHHHHHHHHhcC-CCCHHHHHHHHHHH
Q psy16109 30 EVLEDLKILSK-FSAVLHVPNLSTPEHLLNVIEESD-VFSKKQVQEIERYL 78 (129)
Q Consensus 30 ~vL~~lgl~~~-F~~~i~VP~l~~~~el~~Vl~~~~-~F~~~e~~~i~~~l 78 (129)
+.|..+||.+. --..+++.+ ++.+|+..++...+ .|+++++++++..+
T Consensus 64 ~~L~~~~L~~~E~~qi~Nl~P-~~~~El~~ii~~~~~r~~ee~l~~iL~~v 113 (117)
T PF03874_consen 64 EELKKFGLTEFEILQIINLRP-TTAVELRAIIESLESRFSEEDLEEILDLV 113 (117)
T ss_dssp HHHTTSTS-HHHHHHHHHH---SSHHHHHHHSTTGTTTSTHHHHHHHHHHH
T ss_pred HHHhcccCCHHHHHHHhcCCC-CCHHHHHHHHHHhccCCCHHHHHHHHHHH
Confidence 34444554322 122344433 45778888888777 48888888777765
No 110
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=28.95 E-value=3.9e+02 Score=23.28 Aligned_cols=68 Identities=21% Similarity=0.363 Sum_probs=40.3
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cCC-CCHHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SDV-FSKKQVQEIER 76 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~~-F~~~e~~~i~~ 76 (129)
.++|+-.+..+|+ +-.+|++|++...+++. +.+.+ ..++++.++. +++...+.. .|. ++++.+..++.
T Consensus 138 ~n~LLk~lEep~~--~~~~Il~t~~~~kl~~t--I~sRc-~~v~f~~l~~-~el~~~L~~~~~~eg~~i~~~al~~L~~ 210 (451)
T PRK06305 138 FNSLLKTLEEPPQ--HVKFFLATTEIHKIPGT--ILSRC-QKMHLKRIPE-ETIIDKLALIAKQEGIETSREALLPIAR 210 (451)
T ss_pred HHHHHHHhhcCCC--CceEEEEeCChHhcchH--HHHhc-eEEeCCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 4567778887555 56777777654433332 22222 3688888864 788776664 343 56665544443
No 111
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=28.29 E-value=2.2e+02 Score=21.54 Aligned_cols=72 Identities=11% Similarity=0.163 Sum_probs=38.3
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHH-hCCCchhc--ccceecCCCCCHHHHHHHHHh----cCC-CCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLE-DLKILSKF--SAVLHVPNLSTPEHLLNVIEE----SDV-FSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~-~lgl~~~F--~~~i~VP~l~~~~el~~Vl~~----~~~-F~~~e~~~i~ 75 (129)
++|.-++...--.|+..+|++++..+.... .-++.+.| ...+++|.++. ++...++.. .++ ++++-++.+.
T Consensus 108 ~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~-~~~~~~l~~~~~~~~v~l~~~al~~L~ 186 (227)
T PRK08903 108 IALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSD-ADKIAALKAAAAERGLQLADEVPDYLL 186 (227)
T ss_pred HHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 345555544323444445665554442221 12334566 46899999986 456666654 332 5666555555
Q ss_pred H
Q psy16109 76 R 76 (129)
Q Consensus 76 ~ 76 (129)
+
T Consensus 187 ~ 187 (227)
T PRK08903 187 T 187 (227)
T ss_pred H
Confidence 4
No 112
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=28.08 E-value=1.2e+02 Score=25.10 Aligned_cols=43 Identities=19% Similarity=0.352 Sum_probs=29.8
Q ss_pred eEEEEecCCcHHHHHhCCCc-hhcccceecCCCCCHHHHHHHHHh
Q psy16109 19 KLLVLCTTSCREVLEDLKIL-SKFSAVLHVPNLSTPEHLLNVIEE 62 (129)
Q Consensus 19 rLLViaTTS~~~vL~~lgl~-~~F~~~i~VP~l~~~~el~~Vl~~ 62 (129)
+..|||||+.++.+..-=+- ..|+..++||..+ .++-..+++.
T Consensus 261 ~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~-~~~r~~Il~~ 304 (364)
T TIGR01242 261 NVKVIAATNRPDILDPALLRPGRFDRIIEVPLPD-FEGRLEILKI 304 (364)
T ss_pred CEEEEEecCChhhCChhhcCcccCceEEEeCCcC-HHHHHHHHHH
Confidence 68899999977655432221 4688889998875 5777777664
No 113
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=28.04 E-value=3.1e+02 Score=26.72 Aligned_cols=70 Identities=17% Similarity=0.201 Sum_probs=40.4
Q ss_pred CCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcCCC----CHHHHHHHHHHHhhCCCcccccHHHH
Q psy16109 17 NKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDVF----SKKQVQEIERYLHQHKARVFVGIRKL 92 (129)
Q Consensus 17 GrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~~F----~~~e~~~i~~~l~~~~~~~~IgIKkL 92 (129)
|.| ||-||..+++++.+|. +..++|+.++. ++-...+... +| .+++..++...+....+..|..||-+
T Consensus 324 Gsr--IIiTTrd~~vl~~~~~----~~~~~v~~l~~-~ea~~LF~~~-Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vl 395 (1153)
T PLN03210 324 GSR--IIVITKDKHFLRAHGI----DHIYEVCLPSN-ELALEMFCRS-AFKKNSPPDGFMELASEVALRAGNLPLGLNVL 395 (1153)
T ss_pred CcE--EEEEeCcHHHHHhcCC----CeEEEecCCCH-HHHHHHHHHH-hcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHH
Confidence 555 5668999999998764 35788888865 5666655542 23 33444444444432222356556544
Q ss_pred HH
Q psy16109 93 LG 94 (129)
Q Consensus 93 L~ 94 (129)
=.
T Consensus 396 gs 397 (1153)
T PLN03210 396 GS 397 (1153)
T ss_pred HH
Confidence 33
No 114
>PF08640 U3_assoc_6: U3 small nucleolar RNA-associated protein 6; InterPro: IPR013949 This entry represents U3 nucleolar RNA-associated proteins which are involved in nucleolar processing of pre-18S ribosomal RNA [].
Probab=27.96 E-value=59 Score=22.07 Aligned_cols=19 Identities=26% Similarity=0.564 Sum_probs=15.7
Q ss_pred HHhcCCCCHHHHHHHHHHH
Q psy16109 60 IEESDVFSKKQVQEIERYL 78 (129)
Q Consensus 60 l~~~~~F~~~e~~~i~~~l 78 (129)
++..|+|+++|+..|++.-
T Consensus 11 l~~~~lFt~~EI~~IvkkR 29 (83)
T PF08640_consen 11 LERKGLFTKEEIREIVKKR 29 (83)
T ss_pred HHHhCCCCHHHHHHHHHHH
Confidence 4678999999999998654
No 115
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=27.84 E-value=95 Score=22.67 Aligned_cols=53 Identities=13% Similarity=0.111 Sum_probs=33.2
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCc--------HHHHHhCCCchhcccceecCCCCCHHHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSC--------REVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE 61 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~--------~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~ 61 (129)
++.++..+++..|.+-++.|=|+... ...++.+|...+|... - ..+++..-++
T Consensus 71 ~~~~~~~L~~~~~~~~~i~vGG~~~~~~~~~~~~~~~l~~~G~~~vf~~~-----~-~~~~i~~~l~ 131 (137)
T PRK02261 71 CRGLREKCIEAGLGDILLYVGGNLVVGKHDFEEVEKKFKEMGFDRVFPPG-----T-DPEEAIDDLK 131 (137)
T ss_pred HHHHHHHHHhcCCCCCeEEEECCCCCCccChHHHHHHHHHcCCCEEECcC-----C-CHHHHHHHHH
Confidence 45567788888565677777776421 2478888977778732 2 3455555444
No 116
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=27.75 E-value=1.3e+02 Score=23.67 Aligned_cols=42 Identities=17% Similarity=0.389 Sum_probs=29.0
Q ss_pred CCchhcccceecCCCCCHHHHHHHHHhc----CC-CCHHHHHHHHHHH
Q psy16109 36 KILSKFSAVLHVPNLSTPEHLLNVIEES----DV-FSKKQVQEIERYL 78 (129)
Q Consensus 36 gl~~~F~~~i~VP~l~~~~el~~Vl~~~----~~-F~~~e~~~i~~~l 78 (129)
++.+.|...++.|..+ .+|+..+++.. +. ++++.+..+.+.+
T Consensus 164 ~L~sRf~~~i~f~~~~-~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~ 210 (261)
T TIGR02881 164 GLRSRFPISIDFPDYT-VEELMEIAERMVKEREYKLTEEAKWKLREHL 210 (261)
T ss_pred HHHhccceEEEECCCC-HHHHHHHHHHHHHHcCCccCHHHHHHHHHHH
Confidence 6778898899999997 57888887632 22 5666555554443
No 117
>cd03145 GAT1_cyanophycinase Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. This group contains proteins similar to the extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Cyanophycinase is believed to be a serine-type exopeptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow.
Probab=27.17 E-value=1.9e+02 Score=22.36 Aligned_cols=69 Identities=19% Similarity=0.237 Sum_probs=36.8
Q ss_pred hHHHHHHHhcCCCCCCCeEEEEecCC---------cHHHHHhCCCchhcccceecCCCC-----CHHHHHHHHHhcCC--
Q psy16109 2 TLQALRVLLKKEPPRNKKLLVLCTTS---------CREVLEDLKILSKFSAVLHVPNLS-----TPEHLLNVIEESDV-- 65 (129)
Q Consensus 2 ILQaLlVLlkk~PPkGrrLLViaTTS---------~~~vL~~lgl~~~F~~~i~VP~l~-----~~~el~~Vl~~~~~-- 65 (129)
+.|.++-+.. +.+-|+++|.|.| -+..++++|..+. +++.+. ..+++...+.+.+.
T Consensus 17 i~~~~~~~ag---~~~~~i~~iptA~~~~~~~~~~~~~~~~~lG~~~v-----~~~~~~~~~~a~~~~~~~~l~~ad~I~ 88 (217)
T cd03145 17 ILQRFVARAG---GAGARIVVIPAASEEPAEVGEEYRDVFERLGAREV-----EVLVIDSREAANDPEVVARLRDADGIF 88 (217)
T ss_pred HHHHHHHHcC---CCCCcEEEEeCCCcChhHHHHHHHHHHHHcCCcee-----EEeccCChHHcCCHHHHHHHHhCCEEE
Confidence 4555555555 3456999999988 2355666664432 223332 23455566665553
Q ss_pred CCHHHHHHHHHHH
Q psy16109 66 FSKKQVQEIERYL 78 (129)
Q Consensus 66 F~~~e~~~i~~~l 78 (129)
|...+-....+.+
T Consensus 89 ~~GG~~~~~~~~l 101 (217)
T cd03145 89 FTGGDQLRITSAL 101 (217)
T ss_pred EeCCcHHHHHHHH
Confidence 3444433444433
No 118
>PF00231 ATP-synt: ATP synthase This Pfam entry corresponds to chain g; InterPro: IPR000131 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. The ATPase F1 complex gamma subunit forms the central shaft that connects the F0 rotary motor to the F1 catalytic core. The gamma subunit functions as a rotary motor inside the cylinder formed by the alpha(3)beta(3) subunits in the F1 complex []. The best-conserved region of the gamma subunit is its C terminus, which seems to be essential for assembly and catalysis. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015986 ATP synthesis coupled proton transport, 0045261 proton-transporting ATP synthase complex, catalytic core F(1); PDB: 3OFN_G 3FKS_P 3OEE_Y 2HLD_Y 3OEH_Y 2XOK_G 3ZRY_G 3OE7_P 2WPD_G 3OAA_e ....
Probab=27.09 E-value=32 Score=27.92 Aligned_cols=29 Identities=31% Similarity=0.421 Sum_probs=15.1
Q ss_pred hcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccce
Q psy16109 10 LKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVL 45 (129)
Q Consensus 10 lkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i 45 (129)
++++++.++.++|+-|+ +.||+..||..+
T Consensus 67 ~~~~~~~~~~~~ivitS-------DrGLCG~fN~~v 95 (290)
T PF00231_consen 67 LKKREEVKKVLLIVITS-------DRGLCGGFNSNV 95 (290)
T ss_dssp GS-----SCEEEEEE---------STSSSTTHHHHH
T ss_pred cccccccceEEEEEEec-------CccccccccHHH
Confidence 33444556666666665 469999998654
No 119
>PRK10725 fructose-1-P/6-phosphogluconate phosphatase; Provisional
Probab=26.65 E-value=1.5e+02 Score=21.33 Aligned_cols=46 Identities=22% Similarity=0.319 Sum_probs=30.2
Q ss_pred EEEEecCCc----HHHHHhCCCchhcccceecCCCC----CHHHHHHHHHhcCC
Q psy16109 20 LLVLCTTSC----REVLEDLKILSKFSAVLHVPNLS----TPEHLLNVIEESDV 65 (129)
Q Consensus 20 LLViaTTS~----~~vL~~lgl~~~F~~~i~VP~l~----~~~el~~Vl~~~~~ 65 (129)
-+.|+|.+. ...|+.+|+.+.|+..+-...+. .++-+..+++..+.
T Consensus 104 ~l~I~T~~~~~~~~~~l~~~~l~~~fd~i~~~~~~~~~KP~p~~~~~~~~~~~~ 157 (188)
T PRK10725 104 PMAVGTGSESAIAEALLAHLGLRRYFDAVVAADDVQHHKPAPDTFLRCAQLMGV 157 (188)
T ss_pred CEEEEcCCchHHHHHHHHhCCcHhHceEEEehhhccCCCCChHHHHHHHHHcCC
Confidence 356678875 34589999999999766544331 34456666666653
No 120
>PRK10748 flavin mononucleotide phosphatase; Provisional
Probab=26.52 E-value=1.7e+02 Score=22.56 Aligned_cols=46 Identities=20% Similarity=0.075 Sum_probs=30.6
Q ss_pred CeEEEEecCCcHHHHHhCCCchhcccceecCCC----CCHHHHHHHHHhcCC
Q psy16109 18 KKLLVLCTTSCREVLEDLKILSKFSAVLHVPNL----STPEHLLNVIEESDV 65 (129)
Q Consensus 18 rrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l----~~~~el~~Vl~~~~~ 65 (129)
.+ +.|+|++... ++..|+.+.|+..+-.-.+ -.++-+..+++..+.
T Consensus 129 ~~-l~i~Tn~~~~-~~~~gl~~~fd~i~~~~~~~~~KP~p~~~~~a~~~~~~ 178 (238)
T PRK10748 129 WP-LVAITNGNAQ-PELFGLGDYFEFVLRAGPHGRSKPFSDMYHLAAEKLNV 178 (238)
T ss_pred CC-EEEEECCCch-HHHCCcHHhhceeEecccCCcCCCcHHHHHHHHHHcCC
Confidence 44 5556776544 6999999999987754322 235567777777663
No 121
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=26.50 E-value=2.9e+02 Score=25.96 Aligned_cols=45 Identities=18% Similarity=0.204 Sum_probs=26.7
Q ss_pred CCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh
Q psy16109 16 RNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE 62 (129)
Q Consensus 16 kGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~ 62 (129)
+|+-.+|.+||.++..--.=.+.+.. ..+.+|.++. +++..+++.
T Consensus 135 ~g~IiLI~aTTenp~~~l~~aL~SR~-~v~~l~pLs~-edi~~IL~~ 179 (725)
T PRK13341 135 NGTITLIGATTENPYFEVNKALVSRS-RLFRLKSLSD-EDLHQLLKR 179 (725)
T ss_pred CceEEEEEecCCChHhhhhhHhhccc-cceecCCCCH-HHHHHHHHH
Confidence 46666666677665431112222222 3588999975 888888874
No 122
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=26.32 E-value=1.2e+02 Score=28.62 Aligned_cols=78 Identities=19% Similarity=0.285 Sum_probs=47.6
Q ss_pred CeEEEEecCCcHHH----HHhCCCchhcccceecCCCCCHHHHHHHHHhcC---------CCCHHHHHHHHHHHhh--CC
Q psy16109 18 KKLLVLCTTSCREV----LEDLKILSKFSAVLHVPNLSTPEHLLNVIEESD---------VFSKKQVQEIERYLHQ--HK 82 (129)
Q Consensus 18 rrLLViaTTS~~~v----L~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~---------~F~~~e~~~i~~~l~~--~~ 82 (129)
.++.|||+|...+. -.+-.+..-|+ .++||..+ .++...+|+... .++++-+..++..-.. .+
T Consensus 314 g~i~vIgATt~~E~~~~~~~D~AL~rRFq-~I~v~ePs-~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~ 391 (758)
T PRK11034 314 GKIRVIGSTTYQEFSNIFEKDRALARRFQ-KIDITEPS-IEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYIND 391 (758)
T ss_pred CCeEEEecCChHHHHHHhhccHHHHhhCc-EEEeCCCC-HHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccC
Confidence 36888888886553 34556778896 79999996 589888888432 2455555554432211 11
Q ss_pred CcccccHHHHHHHHHHHh
Q psy16109 83 ARVFVGIRKLLGLIDMAR 100 (129)
Q Consensus 83 ~~~~IgIKkLL~~ie~A~ 100 (129)
+ ..| -|.+.++|.|.
T Consensus 392 r--~lP-dKaidlldea~ 406 (758)
T PRK11034 392 R--HLP-DKAIDVIDEAG 406 (758)
T ss_pred c--cCh-HHHHHHHHHHH
Confidence 1 112 25667777664
No 123
>PRK04694 Maf-like protein; Reviewed
Probab=25.51 E-value=48 Score=25.72 Aligned_cols=19 Identities=37% Similarity=0.567 Sum_probs=16.5
Q ss_pred EEEEecCC--cHHHHHhCCCc
Q psy16109 20 LLVLCTTS--CREVLEDLKIL 38 (129)
Q Consensus 20 LLViaTTS--~~~vL~~lgl~ 38 (129)
+||+|.+| .+++|+++|+-
T Consensus 1 mlILAS~SprR~elL~~~g~~ 21 (190)
T PRK04694 1 MLYLASRSPRRRELLQRLDVP 21 (190)
T ss_pred CEEEcCCCHHHHHHHHHCCCC
Confidence 48999999 58999999983
No 124
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=25.47 E-value=2.1e+02 Score=20.45 Aligned_cols=19 Identities=37% Similarity=0.329 Sum_probs=9.0
Q ss_pred ecCCCCCHHHHHHHHHhcC
Q psy16109 46 HVPNLSTPEHLLNVIEESD 64 (129)
Q Consensus 46 ~VP~l~~~~el~~Vl~~~~ 64 (129)
+.|+.++..-..+-|++.|
T Consensus 7 ~~p~C~t~rka~~~L~~~g 25 (117)
T COG1393 7 GNPNCSTCRKALAWLEEHG 25 (117)
T ss_pred eCCCChHHHHHHHHHHHcC
Confidence 4444444444444444444
No 125
>PRK04056 Maf-like protein; Reviewed
Probab=24.97 E-value=53 Score=25.30 Aligned_cols=27 Identities=19% Similarity=0.399 Sum_probs=20.1
Q ss_pred EEEEecCC--cHHHHHhCCCchhcccceecCCC
Q psy16109 20 LLVLCTTS--CREVLEDLKILSKFSAVLHVPNL 50 (129)
Q Consensus 20 LLViaTTS--~~~vL~~lgl~~~F~~~i~VP~l 50 (129)
++|+|.+| .+++|+++|+- |. +..|.+
T Consensus 1 ~iILAS~SprR~elL~~~g~~--f~--v~~~~i 29 (180)
T PRK04056 1 MIILASSSSTRANLLKEAGIE--FE--QKSLDF 29 (180)
T ss_pred CEEEeCCCHHHHHHHHHCCCC--eE--EEcCCC
Confidence 48999999 58999999983 63 335544
No 126
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=24.80 E-value=57 Score=19.47 Aligned_cols=27 Identities=26% Similarity=0.500 Sum_probs=18.2
Q ss_pred HHHHhccc-chhhHHHHHHHHHhcCccc
Q psy16109 96 IDMARQIE-ENYRVMKFLTKLEDEGCLD 122 (129)
Q Consensus 96 ie~A~~~~-~~~~~~~fl~~l~~~g~~~ 122 (129)
-|.|+... +...+.+.++.|.+.|++.
T Consensus 22 ~eia~~~gl~~stv~r~L~tL~~~g~v~ 49 (52)
T PF09339_consen 22 SEIARALGLPKSTVHRLLQTLVEEGYVE 49 (52)
T ss_dssp HHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHCcCHHHHHHHHHHHHHCcCee
Confidence 34444332 3346899999999999864
No 127
>TIGR01993 Pyr-5-nucltdase pyrimidine 5'-nucleotidase. These enzymes are members of the haloacid dehalogenase (HAD) superfamily of hydrolases, specifically the IA subfamily (variant 3, TIGR01509).
Probab=24.63 E-value=1.6e+02 Score=21.28 Aligned_cols=44 Identities=18% Similarity=0.322 Sum_probs=30.5
Q ss_pred EEEecCCc----HHHHHhCCCchhcccceecCCCC--------CHHHHHHHHHhcC
Q psy16109 21 LVLCTTSC----REVLEDLKILSKFSAVLHVPNLS--------TPEHLLNVIEESD 64 (129)
Q Consensus 21 LViaTTS~----~~vL~~lgl~~~F~~~i~VP~l~--------~~~el~~Vl~~~~ 64 (129)
++|+|.+. ...|+.+|+.+.|+..+-...+. .++-+..+++..+
T Consensus 100 ~~i~Tn~~~~~~~~~l~~~gl~~~fd~i~~~~~~~~~~~~~KP~p~~~~~~~~~~~ 155 (184)
T TIGR01993 100 KIIFTNGDRAHARRALNRLGIEDCFDGIFCFDTANPDYLLPKPSPQAYEKALREAG 155 (184)
T ss_pred EEEEeCCCHHHHHHHHHHcCcHhhhCeEEEeecccCccCCCCCCHHHHHHHHHHhC
Confidence 56677664 46788999999999877665442 3456666776665
No 128
>COG1011 Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=24.24 E-value=2.9e+02 Score=20.32 Aligned_cols=47 Identities=28% Similarity=0.360 Sum_probs=35.0
Q ss_pred eEEEEecC---CcHHHHHhCCCchhcccceecCCCC----CHHHHHHHHHhcCC
Q psy16109 19 KLLVLCTT---SCREVLEDLKILSKFSAVLHVPNLS----TPEHLLNVIEESDV 65 (129)
Q Consensus 19 rLLViaTT---S~~~vL~~lgl~~~F~~~i~VP~l~----~~~el~~Vl~~~~~ 65 (129)
||.|+--. .+...|+++||.+.|+..+-.-.+. .++=...+++..|.
T Consensus 116 ~l~ilTNg~~~~~~~~l~~~gl~~~Fd~v~~s~~~g~~KP~~~~f~~~~~~~g~ 169 (229)
T COG1011 116 KLGILTNGARPHQERKLRQLGLLDYFDAVFISEDVGVAKPDPEIFEYALEKLGV 169 (229)
T ss_pred cEEEEeCCChHHHHHHHHHcCChhhhheEEEecccccCCCCcHHHHHHHHHcCC
Confidence 45555331 2789999999999999887766555 55778888888875
No 129
>cd07042 STAS_SulP_like_sulfate_transporter Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function. The SulP family is a large and diverse family of anion transporters, with members from eubacteria, plants, fungi, and mammals. They contain 10 to 14 transmembrane helices which form the catalytic core of the protein and a C-terminal extension, the STAS (Sulphate Transporter and AntiSigma factor antagonist) domain which plays a role in the function and regulation of the transport activity. The STAS domain is found in the C-terminal region of sulphate transporters and bacterial anti-sigma factor antagonists. It has been suggested that this domain may have a general NTP binding function.
Probab=24.15 E-value=69 Score=20.75 Aligned_cols=37 Identities=30% Similarity=0.381 Sum_probs=15.4
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCC-cHHHHHhCCCchh
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTS-CREVLEDLKILSK 40 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS-~~~vL~~lgl~~~ 40 (129)
++|..+.++--.+|.++.+.+... ....++.+|+.+.
T Consensus 60 ~~L~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~g~~~~ 97 (107)
T cd07042 60 EALEELVKDLRKRGVELYLAGLNPQVRELLERAGLLDE 97 (107)
T ss_pred HHHHHHHHHHHHCCCEEEEecCCHHHHHHHHHcCcHHH
Confidence 344444444434444444443332 2344444444433
No 130
>TIGR01681 HAD-SF-IIIC HAD-superfamily phosphatase, subfamily IIIC. No member of this subfamily is characterized with respect to function, however the MDP-1 protein is a characterized phosphatase. All of the characterized enzymes within subfamily III are phosphatases, and all of the active site residues characteristic of HAD-superfamily phosphatases are present in subfamily IIIC.
Probab=24.10 E-value=2.3e+02 Score=19.78 Aligned_cols=48 Identities=15% Similarity=0.131 Sum_probs=28.9
Q ss_pred CCCeEEEEecCC-cH----HHHHhCC-------CchhcccceecCCCCCHHHHHHHHHhcC
Q psy16109 16 RNKKLLVLCTTS-CR----EVLEDLK-------ILSKFSAVLHVPNLSTPEHLLNVIEESD 64 (129)
Q Consensus 16 kGrrLLViaTTS-~~----~vL~~lg-------l~~~F~~~i~VP~l~~~~el~~Vl~~~~ 64 (129)
+|.+ +.|+|.+ .+ .+++..+ +.+.|+..+--.....++-+..+++..+
T Consensus 44 ~g~~-l~i~Sn~~~~~~~~~~l~~~~~~~~i~~l~~~f~~~~~~~~~pkp~~~~~a~~~lg 103 (128)
T TIGR01681 44 NGFL-LALASYNDDPHVAYELLKIFEDFGIIFPLAEYFDPLTIGYWLPKSPRLVEIALKLN 103 (128)
T ss_pred CCeE-EEEEeCCCCHHHHHHHHHhccccccchhhHhhhhhhhhcCCCcHHHHHHHHHHHhc
Confidence 3544 4556665 44 4567777 7788877663323335666777777665
No 131
>PRK14988 GMP/IMP nucleotidase; Provisional
Probab=23.95 E-value=3.3e+02 Score=20.81 Aligned_cols=48 Identities=17% Similarity=0.153 Sum_probs=31.8
Q ss_pred CCeEEEEecCCc----HHHHHhCCCchhcccce---ecCCCC-CHHHHHHHHHhcCC
Q psy16109 17 NKKLLVLCTTSC----REVLEDLKILSKFSAVL---HVPNLS-TPEHLLNVIEESDV 65 (129)
Q Consensus 17 GrrLLViaTTS~----~~vL~~lgl~~~F~~~i---~VP~l~-~~~el~~Vl~~~~~ 65 (129)
|.+ +.|+|.+. ...++.+|+.+.|+..+ .+..-. .++-+..+++..+.
T Consensus 109 g~~-~~i~Tn~~~~~~~~~l~~~~l~~~fd~iv~s~~~~~~KP~p~~~~~~~~~~~~ 164 (224)
T PRK14988 109 GKR-RILLTNAHPHNLAVKLEHTGLDAHLDLLLSTHTFGYPKEDQRLWQAVAEHTGL 164 (224)
T ss_pred CCe-EEEEeCcCHHHHHHHHHHCCcHHHCCEEEEeeeCCCCCCCHHHHHHHHHHcCC
Confidence 666 55666654 45678899999998665 343222 25677888888774
No 132
>cd08788 CARD_NOD2_2_CARD15 Caspase activation and recruitment domain of NOD2, repeat 2. Caspase activation and recruitment domain (CARD) similar to that found in human NOD2 (CARD15), repeat 2. NOD2 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD2, as well as NOD1, the N-terminal effector domain is a CARD. NOD2 contains two N-terminal CARD repeats. Mutations in NOD2 have been associated with Crohns disease and Blau syndrome. Nod2-CARDs have been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are pr
Probab=23.55 E-value=1.9e+02 Score=19.97 Aligned_cols=57 Identities=16% Similarity=0.209 Sum_probs=37.8
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHh
Q psy16109 53 PEHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLED 117 (129)
Q Consensus 53 ~~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~ 117 (129)
.+.+-..+.+.|.|+.+|.+.|..-. .-+--+.=-++|+++... ..-+..|++.+.+
T Consensus 16 V~~~Ld~ll~~G~is~~Ecd~Ir~p~-------~T~sqqARrLLD~V~~KG-~~A~~~ll~~vq~ 72 (81)
T cd08788 16 VDGALELLLTRGFFSSYDCDEIRLPI-------FTPSQQARRLLDLVKAKG-EGAAKFLLEYVQQ 72 (81)
T ss_pred HHHHHHHHHHcCCccHhhcchhhcCC-------CChHHHHHHHHHHHHHHh-HHHHHHHHHHHHh
Confidence 46667777788999999887776533 455566667777777532 2345666666665
No 133
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=23.50 E-value=3.7e+02 Score=21.18 Aligned_cols=57 Identities=18% Similarity=0.280 Sum_probs=35.2
Q ss_pred EEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhc----C-CCCHHHHHHHHHHH
Q psy16109 20 LLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEES----D-VFSKKQVQEIERYL 78 (129)
Q Consensus 20 LLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~----~-~F~~~e~~~i~~~l 78 (129)
..+|++|+.+.-+. ..+.+.|...++++.++ .+++..+++.. + .++++.+..+.+..
T Consensus 130 ~~li~~t~~~~~l~-~~l~sR~~~~~~l~~l~-~~e~~~il~~~~~~~~~~~~~~al~~ia~~~ 191 (305)
T TIGR00635 130 FTLVGATTRAGMLT-SPLRDRFGIILRLEFYT-VEELAEIVSRSAGLLNVEIEPEAALEIARRS 191 (305)
T ss_pred eEEEEecCCccccC-HHHHhhcceEEEeCCCC-HHHHHHHHHHHHHHhCCCcCHHHHHHHHHHh
Confidence 34455555443222 23556788888999986 47888888732 1 36777666666543
No 134
>cd08323 CARD_APAF1 Caspase activation and recruitment domain similar to that found in Apoptotic Protease-Activating Factor 1. Caspase activation and recruitment domain (CARD) similar to that found in apoptotic protease-activating factor 1 (APAF-1), which is an activator of caspase-9. APAF-1 contains WD-40 repeats, a CARD, and an ATPase domain. Upon stimulation, APAF-1, together with caspase-9, forms the heptameric 'apoptosome', which leads to the processing and activation of caspase-9, starting a caspase cascade which leads to apoptosis. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effect
Probab=23.50 E-value=2.5e+02 Score=19.13 Aligned_cols=59 Identities=14% Similarity=0.170 Sum_probs=37.5
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHhcCc
Q psy16109 53 PEHLLNVIEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGC 120 (129)
Q Consensus 53 ~~el~~Vl~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~~g~ 120 (129)
++++..-|-+.|+|+.++.+.|...- +. .==-.+|+.++.. .+ ...+..|.++|.++|+
T Consensus 16 v~~ild~L~~~gvlt~~~~e~I~~~~---t~--~~qa~~Lld~L~t--rG--~~Af~~F~~aL~~~~~ 74 (86)
T cd08323 16 TSYIMDHMISDGVLTLDEEEKVKSKA---TQ--KEKAVMLINMILT--KD--NHAYVSFYNALLHEGY 74 (86)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHcCC---Ch--HHHHHHHHHHHHh--cC--HHHHHHHHHHHHhcCC
Confidence 45677778888999999887776521 11 0011334444332 22 2358999999999886
No 135
>TIGR01454 AHBA_synth_RP 3-amino-5-hydroxybenoic acid synthesis related protein. The most closely related enzyme below the noise cutoff is IndB which is involved in the biosynthesis of Indigoidine in Pectobacterium (Erwinia) chrysanthemi, a gamma proteobacter. This enzyme is similarly related to PGP. In this case, too it is unclear what role would be be played by a PGPase activity.
Probab=23.47 E-value=2.3e+02 Score=20.93 Aligned_cols=48 Identities=23% Similarity=0.362 Sum_probs=31.7
Q ss_pred CCeEEEEecCCc----HHHHHhCCCchhcccceecCCCC----CHHHHHHHHHhcCC
Q psy16109 17 NKKLLVLCTTSC----REVLEDLKILSKFSAVLHVPNLS----TPEHLLNVIEESDV 65 (129)
Q Consensus 17 GrrLLViaTTS~----~~vL~~lgl~~~F~~~i~VP~l~----~~~el~~Vl~~~~~ 65 (129)
|.++ +|+|.+. ...++.+|+.+.|+..+....+. +++-+..+++..+.
T Consensus 91 g~~~-~i~Sn~~~~~~~~~l~~~~l~~~f~~i~~~~~~~~~KP~~~~~~~~~~~~~~ 146 (205)
T TIGR01454 91 GVGT-AIATGKSGPRARSLLEALGLLPLFDHVIGSDEVPRPKPAPDIVREALRLLDV 146 (205)
T ss_pred CCeE-EEEeCCchHHHHHHHHHcCChhheeeEEecCcCCCCCCChHHHHHHHHHcCC
Confidence 5454 5566543 34678899999999766543332 46778888887763
No 136
>PRK02478 Maf-like protein; Reviewed
Probab=23.45 E-value=65 Score=25.21 Aligned_cols=26 Identities=31% Similarity=0.511 Sum_probs=19.9
Q ss_pred EEEecCC--cHHHHHhCCCchhcccceecCCC
Q psy16109 21 LVLCTTS--CREVLEDLKILSKFSAVLHVPNL 50 (129)
Q Consensus 21 LViaTTS--~~~vL~~lgl~~~F~~~i~VP~l 50 (129)
+|+|.+| .+++|+++|+- |. +..|.+
T Consensus 5 iILAS~SprR~elL~~~g~~--f~--v~~~~i 32 (199)
T PRK02478 5 LILASKSPFRRALLENAGLE--FS--AAAADI 32 (199)
T ss_pred EEEeCCCHHHHHHHHHCCCC--eE--EecCCC
Confidence 8999999 68999999984 64 334544
No 137
>PRK00234 Maf-like protein; Reviewed
Probab=23.42 E-value=64 Score=25.07 Aligned_cols=20 Identities=40% Similarity=0.713 Sum_probs=17.1
Q ss_pred EEEecCC--cHHHHHhCCCchhcc
Q psy16109 21 LVLCTTS--CREVLEDLKILSKFS 42 (129)
Q Consensus 21 LViaTTS--~~~vL~~lgl~~~F~ 42 (129)
+|+|.+| .+++|+++|+- |.
T Consensus 4 iILAS~SprR~elL~~~gi~--f~ 25 (192)
T PRK00234 4 LLLASSSPYRRELLARLRLP--FT 25 (192)
T ss_pred EEEecCCHHHHHHHHHCCCC--cE
Confidence 8999999 68999999974 54
No 138
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=23.37 E-value=5.6e+02 Score=23.21 Aligned_cols=66 Identities=17% Similarity=0.295 Sum_probs=38.2
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHH----hcCC-CCHHHHHHH
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE----ESDV-FSKKQVQEI 74 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~i 74 (129)
.++|+-.+..+|+ +-.+|++||.-..++.. +.+ =...++.+.++. +++...+. ..|. |+++..+.+
T Consensus 134 ~NALLK~LEEpp~--~t~FIL~ttd~~kL~~t--I~S-Rc~~~~F~~Ls~-~ei~~~L~~Il~~EGi~i~~~Al~~I 204 (535)
T PRK08451 134 FNALLKTLEEPPS--YVKFILATTDPLKLPAT--ILS-RTQHFRFKQIPQ-NSIISHLKTILEKEGVSYEPEALEIL 204 (535)
T ss_pred HHHHHHHHhhcCC--ceEEEEEECChhhCchH--HHh-hceeEEcCCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence 4677777777655 35577777764333322 222 245778888864 67766654 4443 565544333
No 139
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.28 E-value=6.3e+02 Score=23.99 Aligned_cols=66 Identities=15% Similarity=0.234 Sum_probs=37.8
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHH----HhcCC-CCHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVI----EESDV-FSKKQVQEIE 75 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl----~~~~~-F~~~e~~~i~ 75 (129)
.+|+-.+..+|+ +-.+|++||..+.+...+ +..| ..++...++. +++...+ +..+. ++++.+..+.
T Consensus 136 NALLKtLEEPP~--~v~FILaTtd~~kIp~TI-lSRC--q~feFkpLs~-eEI~k~L~~Il~kEgI~id~eAL~~IA 206 (702)
T PRK14960 136 NALLKTLEEPPE--HVKFLFATTDPQKLPITV-ISRC--LQFTLRPLAV-DEITKHLGAILEKEQIAADQDAIWQIA 206 (702)
T ss_pred HHHHHHHhcCCC--CcEEEEEECChHhhhHHH-HHhh--heeeccCCCH-HHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 567777777654 457778887655554332 1222 4667777764 6666555 44443 5555444443
No 140
>PRK09449 dUMP phosphatase; Provisional
Probab=23.11 E-value=1.9e+02 Score=21.52 Aligned_cols=51 Identities=12% Similarity=0.075 Sum_probs=33.1
Q ss_pred CCCeEEEEecCCcH----HHHHhCCCchhcccceecCCC----CCHHHHHHHHHhcCCCC
Q psy16109 16 RNKKLLVLCTTSCR----EVLEDLKILSKFSAVLHVPNL----STPEHLLNVIEESDVFS 67 (129)
Q Consensus 16 kGrrLLViaTTS~~----~vL~~lgl~~~F~~~i~VP~l----~~~~el~~Vl~~~~~F~ 67 (129)
+|.|+-|+ |.+.+ ..|+.+|+.+.|+..+---.+ .+++-+..+++..+..+
T Consensus 109 ~~~~~~i~-Tn~~~~~~~~~l~~~~l~~~fd~v~~~~~~~~~KP~p~~~~~~~~~~~~~~ 167 (224)
T PRK09449 109 GKVKMGII-TNGFTELQQVRLERTGLRDYFDLLVISEQVGVAKPDVAIFDYALEQMGNPD 167 (224)
T ss_pred hCCeEEEE-eCCcHHHHHHHHHhCChHHHcCEEEEECccCCCCCCHHHHHHHHHHcCCCC
Confidence 35565554 65533 468899999999887643221 24567788888877543
No 141
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=22.96 E-value=4.6e+02 Score=22.06 Aligned_cols=44 Identities=18% Similarity=0.305 Sum_probs=30.4
Q ss_pred CeEEEEecCCcHH-HHHhCCCchhcccceecCCCCCHHHHHHHHHh
Q psy16109 18 KKLLVLCTTSCRE-VLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE 62 (129)
Q Consensus 18 rrLLViaTTS~~~-vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~ 62 (129)
.+..++||+.-.+ -+. =.+.+.|...+.||.....++=..++..
T Consensus 170 ~rfiviAt~NP~e~~l~-~aLldRF~~~v~v~~~~~~~e~~~il~~ 214 (334)
T PRK13407 170 ARFVLVGSGNPEEGELR-PQLLDRFGLSVEVRSPRDVETRVEVIRR 214 (334)
T ss_pred CCEEEEecCCcccCCCC-HHHHhhcceEEEcCCCCcHHHHHHHHHH
Confidence 5889999876311 010 1266889999999999887776666664
No 142
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=22.93 E-value=3.8e+02 Score=21.14 Aligned_cols=82 Identities=13% Similarity=0.211 Sum_probs=49.7
Q ss_pred EEEEecCCcHH--HHH--hCCCchhcccceecCCCCCHHHHHHHHHhcCCCCHHHHHHHHHH---HhhCCCcccccHHHH
Q psy16109 20 LLVLCTTSCRE--VLE--DLKILSKFSAVLHVPNLSTPEHLLNVIEESDVFSKKQVQEIERY---LHQHKARVFVGIRKL 92 (129)
Q Consensus 20 LLViaTTS~~~--vL~--~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~~F~~~e~~~i~~~---l~~~~~~~~IgIKkL 92 (129)
.-||+|++... -.+ .-.+.+.| ..++++..+. ++...++...-..+++..+++++. ++..+.....|++.+
T Consensus 152 frvIaTsN~~~~~g~~~l~~aL~~R~-~~i~i~~P~~-~~e~~Il~~~~~~~~~~~~~iv~~~~~~R~~~~~~~~~~r~~ 229 (262)
T TIGR02640 152 FRVIFTSNPVEYAGVHETQDALLDRL-ITIFMDYPDI-DTETAILRAKTDVAEDSAATIVRLVREFRASGDEITSGLRAS 229 (262)
T ss_pred CEEEEeeCCccccceecccHHHHhhc-EEEECCCCCH-HHHHHHHHHhhCCCHHHHHHHHHHHHHHHhhCCccCCcHHHH
Confidence 45888887421 001 11245566 3567776654 566667765434566666666544 332344678899999
Q ss_pred HHHHHHHhccc
Q psy16109 93 LGLIDMARQIE 103 (129)
Q Consensus 93 L~~ie~A~~~~ 103 (129)
+.+...+++..
T Consensus 230 i~~~~~~~~~~ 240 (262)
T TIGR02640 230 LMIAEVATQQD 240 (262)
T ss_pred HHHHHHHHHcC
Confidence 99999887753
No 143
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=22.67 E-value=1.7e+02 Score=24.41 Aligned_cols=56 Identities=21% Similarity=0.339 Sum_probs=35.6
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcCC
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDV 65 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~~ 65 (129)
++|+-.+..+| ++ ..+|+.|.+...++. -..+....+++|.++ .+++...|++.+.
T Consensus 131 naLLk~LEep~-~~-~~~Ilvth~~~~ll~---ti~SRc~~~~~~~~~-~~~~~~~L~~~~~ 186 (325)
T PRK08699 131 NSLLKVLEEPP-PQ-VVFLLVSHAADKVLP---TIKSRCRKMVLPAPS-HEEALAYLRERGV 186 (325)
T ss_pred HHHHHHHHhCc-CC-CEEEEEeCChHhChH---HHHHHhhhhcCCCCC-HHHHHHHHHhcCC
Confidence 46666776654 33 556665554333333 245566778888986 4888888887654
No 144
>PRK05642 DNA replication initiation factor; Validated
Probab=22.58 E-value=3.7e+02 Score=20.87 Aligned_cols=72 Identities=17% Similarity=0.202 Sum_probs=40.9
Q ss_pred HHHHHhcCCCCCCCeEEEEecCCcHHHHHh--CCCchhcccc--eecCCCCCHHHHHHHHH----hcCC-CCHHHHHHHH
Q psy16109 5 ALRVLLKKEPPRNKKLLVLCTTSCREVLED--LKILSKFSAV--LHVPNLSTPEHLLNVIE----ESDV-FSKKQVQEIE 75 (129)
Q Consensus 5 aLlVLlkk~PPkGrrLLViaTTS~~~vL~~--lgl~~~F~~~--i~VP~l~~~~el~~Vl~----~~~~-F~~~e~~~i~ 75 (129)
.|.-++-....+|++ +|++++..+.-+.. =+|.+-|.+- +.++.++ .++...+++ ..+. .+++-+..++
T Consensus 118 ~Lf~l~n~~~~~g~~-ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~-~e~~~~il~~ka~~~~~~l~~ev~~~L~ 195 (234)
T PRK05642 118 ALFHLFNRLRDSGRR-LLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLS-DEDKLRALQLRASRRGLHLTDEVGHFIL 195 (234)
T ss_pred HHHHHHHHHHhcCCE-EEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 466666665556665 45555555655543 4566777543 4446665 467777777 3333 3555555555
Q ss_pred HHH
Q psy16109 76 RYL 78 (129)
Q Consensus 76 ~~l 78 (129)
+..
T Consensus 196 ~~~ 198 (234)
T PRK05642 196 TRG 198 (234)
T ss_pred Hhc
Confidence 544
No 145
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=22.57 E-value=4.1e+02 Score=21.31 Aligned_cols=67 Identities=19% Similarity=0.331 Sum_probs=37.7
Q ss_pred HHHHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCchhcccceecCCCCCHHHHHHHHHh----cC-CCCHHHHHHHHH
Q psy16109 4 QALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEE----SD-VFSKKQVQEIER 76 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~----~~-~F~~~e~~~i~~ 76 (129)
.+|+-.+..+|+ +-.+|++|++-..+++. +.+.+ ..++.|.++ .+++...+.+ .| .++++.++.+++
T Consensus 135 ~~Ll~~le~~~~--~~~lIl~~~~~~~l~~~--l~sr~-~~~~~~~~~-~~~l~~~l~~~~~~~g~~i~~~a~~~l~~ 206 (355)
T TIGR02397 135 NALLKTLEEPPE--HVVFILATTEPHKIPAT--ILSRC-QRFDFKRIP-LEDIVERLKKILDKEGIKIEDEALELIAR 206 (355)
T ss_pred HHHHHHHhCCcc--ceeEEEEeCCHHHHHHH--HHhhe-eEEEcCCCC-HHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 456666755444 45566666554334433 23333 357788875 5788877763 44 356665554443
No 146
>TIGR03289 frhB coenzyme F420 hydrogenase, subunit beta. This model represents that clade of F420-dependent hydrogenases (FRH) beta subunits found exclusively and universally in methanogenic archaea. The N- and C-terminal domains of this protein are modelled by pfam04422 and pfam04423 respectively.
Probab=22.40 E-value=1.9e+02 Score=23.58 Aligned_cols=55 Identities=16% Similarity=0.019 Sum_probs=34.1
Q ss_pred CCeEEEEecCCcHHHHHhCCCc----hh------cccceecCCCCCHHHHHHHHHhcCCCCHHHH
Q psy16109 17 NKKLLVLCTTSCREVLEDLKIL----SK------FSAVLHVPNLSTPEHLLNVIEESDVFSKKQV 71 (129)
Q Consensus 17 GrrLLViaTTS~~~vL~~lgl~----~~------F~~~i~VP~l~~~~el~~Vl~~~~~F~~~e~ 71 (129)
++|++++||-.+-..|+.+.-. .. +...+--.-..+.+.+.+.+++...++++++
T Consensus 92 ~~~va~vGtPCqi~alr~l~~~~~~~~~~~d~i~~~Igl~C~g~~s~~~~~~~l~~~~g~~~~~v 156 (275)
T TIGR03289 92 LEKIGTVGTPCQVMGLRKAQTYPVGVRNVVDKIALSIGIYCMENFPYESLKTFINDKCGVTMEQV 156 (275)
T ss_pred CCEEEEEccchHHHHHHHHHhccccccccccceEEEEeeeCCCCCCHHHHHHHHHHhcCCCHHHc
Confidence 7999999999999999988632 11 2222322222245677777765322455544
No 147
>PRK01406 gltX glutamyl-tRNA synthetase; Reviewed
Probab=22.40 E-value=2.9e+02 Score=24.46 Aligned_cols=56 Identities=11% Similarity=0.093 Sum_probs=39.3
Q ss_pred HHhcCCCCHHHHHHHHHHHhhCCCcccccHHHHHHHHHHHhccc-chhhHHHHHHHHHhc
Q psy16109 60 IEESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIE-ENYRVMKFLTKLEDE 118 (129)
Q Consensus 60 l~~~~~F~~~e~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~-~~~~~~~fl~~l~~~ 118 (129)
|++.+.|+.++++..+..+.. ..++..|++.+.+-.|-.+. ...++..++..|-.+
T Consensus 410 L~~l~~~~~e~i~~~i~~iak---~~gik~k~lf~pLR~ALtG~~~GP~L~~il~lLGke 466 (476)
T PRK01406 410 LEALEEWTAEAIEAAIKAVAE---ELGLKGGKLFMPLRVALTGRTVGPPLFESMELLGKE 466 (476)
T ss_pred HhcCCCCCHHHHHHHHHHHHH---HhCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHhCHH
Confidence 334345888888888877732 45788899999999997764 344677777766443
No 148
>smart00657 RPOL4c DNA-directed RNA-polymerase II subunit.
Probab=22.36 E-value=1.5e+02 Score=21.09 Aligned_cols=27 Identities=19% Similarity=0.233 Sum_probs=18.5
Q ss_pred CHHHHHHHHHhcC-CCCHHHHHHHHHHH
Q psy16109 52 TPEHLLNVIEESD-VFSKKQVQEIERYL 78 (129)
Q Consensus 52 ~~~el~~Vl~~~~-~F~~~e~~~i~~~l 78 (129)
+.+|+..++...+ .|++++++.++..+
T Consensus 84 s~~E~~~lI~sl~~r~~ee~l~~iL~~i 111 (118)
T smart00657 84 TAEEAQLLIPSLEERIDEEELEELLDDL 111 (118)
T ss_pred CHHHHHHHhhhhhccCCHHHHHHHHHHH
Confidence 4667777777665 57777777777655
No 149
>cd00555 Maf Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or nucleic acid-binding protein with structural similarity to the hypoxanthine/xanthine NTP pyrophosphatase Ham1 from Methanococcus jannaschii, RNase H from Escherichia coli, and some other nucleotide or RNA-binding proteins.
Probab=22.26 E-value=54 Score=25.13 Aligned_cols=26 Identities=38% Similarity=0.631 Sum_probs=19.3
Q ss_pred EEEecCC--cHHHHHhCCCchhcccceecCCC
Q psy16109 21 LVLCTTS--CREVLEDLKILSKFSAVLHVPNL 50 (129)
Q Consensus 21 LViaTTS--~~~vL~~lgl~~~F~~~i~VP~l 50 (129)
+|+|.+| .+++|+++|+ .|. +..|++
T Consensus 1 iILaS~SprR~elL~~~g~--~f~--~~~~~i 28 (180)
T cd00555 1 LILASASPRRRELLEQLGI--PFE--VVPSDI 28 (180)
T ss_pred CEECCCCHHHHHHHHhCCC--CeE--EEcCCC
Confidence 5899999 5899999998 453 444444
No 150
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=22.16 E-value=1.9e+02 Score=18.37 Aligned_cols=37 Identities=19% Similarity=0.342 Sum_probs=27.4
Q ss_pred cccHHHHHHHHHHHhccc-----chhhHHHHHHHHHhcCccc
Q psy16109 86 FVGIRKLLGLIDMARQIE-----ENYRVMKFLTKLEDEGCLD 122 (129)
Q Consensus 86 ~IgIKkLL~~ie~A~~~~-----~~~~~~~fl~~l~~~g~~~ 122 (129)
+.|+-++-+++.|..... .......|++.+.++|.++
T Consensus 11 sl~l~RIh~mLkmf~~~~~~~~~s~~eL~~fL~~lv~e~~L~ 52 (60)
T PF08672_consen 11 SLPLDRIHSMLKMFPKDPGGYDISLEELQEFLDRLVEEGKLE 52 (60)
T ss_dssp SEEHHHHHHHHHHH-GGG--TT--HHHHHHHHHHHHHTTSEE
T ss_pred CCCHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHHHCCcEE
Confidence 588888888888872221 2356889999999999765
No 151
>PRK00648 Maf-like protein; Reviewed
Probab=22.08 E-value=72 Score=24.75 Aligned_cols=20 Identities=35% Similarity=0.735 Sum_probs=17.1
Q ss_pred EEEecCC--cHHHHHhCCCchhcc
Q psy16109 21 LVLCTTS--CREVLEDLKILSKFS 42 (129)
Q Consensus 21 LViaTTS--~~~vL~~lgl~~~F~ 42 (129)
||+|.+| .+++|+++|+- |.
T Consensus 5 lILAS~SprR~elL~~~g~~--f~ 26 (191)
T PRK00648 5 IILASSSPRRKEILEGFRIP--FE 26 (191)
T ss_pred EEEeCCCHHHHHHHHHCCCC--eE
Confidence 8999999 58999999983 64
No 152
>PF12242 Eno-Rase_NADH_b: NAD(P)H binding domain of trans-2-enoyl-CoA reductase; PDB: 3ZU5_A 3ZU3_A 3ZU4_A 3ZU2_A 3S8M_A.
Probab=21.86 E-value=1.1e+02 Score=20.98 Aligned_cols=23 Identities=22% Similarity=0.277 Sum_probs=13.9
Q ss_pred HhcC-CCCCC-CeEEEEecCCcHHH
Q psy16109 9 LLKK-EPPRN-KKLLVLCTTSCREV 31 (129)
Q Consensus 9 Llkk-~PPkG-rrLLViaTTS~~~v 31 (129)
+.|. .+.+| +|.||||.+|-+..
T Consensus 29 yvk~~~~~~GpK~VLViGaStGyGL 53 (78)
T PF12242_consen 29 YVKSQGKINGPKKVLVIGASTGYGL 53 (78)
T ss_dssp HHHHC---TS-SEEEEES-SSHHHH
T ss_pred HHHhcCCCCCCceEEEEecCCcccH
Confidence 3444 44467 99999999986543
No 153
>PRK10026 arsenate reductase; Provisional
Probab=21.71 E-value=2.4e+02 Score=20.91 Aligned_cols=11 Identities=18% Similarity=0.513 Sum_probs=5.9
Q ss_pred HHHHHHHHhcC
Q psy16109 54 EHLLNVIEESD 64 (129)
Q Consensus 54 ~el~~Vl~~~~ 64 (129)
+|+..+++..+
T Consensus 42 ~eL~~~l~~~g 52 (141)
T PRK10026 42 DELVKLIADMG 52 (141)
T ss_pred HHHHHHHHhCC
Confidence 55555555544
No 154
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=21.67 E-value=1.4e+02 Score=25.83 Aligned_cols=67 Identities=13% Similarity=0.238 Sum_probs=41.4
Q ss_pred HHHHHHHhcCCCCCCCeEEEEecCCc-----HHHHHhCCCchhcccceecCCCCCHHHHHHHHHhc--------C-----
Q psy16109 3 LQALRVLLKKEPPRNKKLLVLCTTSC-----REVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEES--------D----- 64 (129)
Q Consensus 3 LQaLlVLlkk~PPkGrrLLViaTTS~-----~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~--------~----- 64 (129)
+.++..|-..+||+|+|+-|+..+-- .+.+++.| +++|.++ ++...-|++. |
T Consensus 281 ~~~~~~l~~~~~~~g~rvaivs~sGG~g~l~aD~~~~~G--------l~lp~ls--~~t~~~L~~~lp~~~~~~NPlDl~ 350 (447)
T TIGR02717 281 FDLARLLSNQPLPKGNRVAIITNAGGPGVIATDACEENG--------LELAELS--EATKNKLRNILPPEASIKNPVDVL 350 (447)
T ss_pred HHHHHHHhcCCCCCCCeEEEEECCchHHHHHHHHHHHcC--------CCcCCCC--HHHHHHHHHhCccccccCCCEecC
Confidence 44566666678899999999988873 34444444 4788775 3444444431 1
Q ss_pred -CCCHHHHHHHHHHHh
Q psy16109 65 -VFSKKQVQEIERYLH 79 (129)
Q Consensus 65 -~F~~~e~~~i~~~l~ 79 (129)
..+++.+..+++.+.
T Consensus 351 ~~~~~~~~~~al~~l~ 366 (447)
T TIGR02717 351 GDATPERYAKALKTVA 366 (447)
T ss_pred CCCCHHHHHHHHHHHH
Confidence 134556666666664
No 155
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=21.58 E-value=1.3e+02 Score=21.08 Aligned_cols=40 Identities=13% Similarity=0.120 Sum_probs=24.9
Q ss_pred HHHHHHhcCCCCCCCeEEEEe--cCCcHHHHHhCCCchhccc
Q psy16109 4 QALRVLLKKEPPRNKKLLVLC--TTSCREVLEDLKILSKFSA 43 (129)
Q Consensus 4 QaLlVLlkk~PPkGrrLLVia--TTS~~~vL~~lgl~~~F~~ 43 (129)
..+...+++..|.+-++++=| .+.+.+-++++|+..+|+.
T Consensus 68 ~~~~~~L~~~~~~~i~i~~GG~~~~~~~~~~~~~G~d~~~~~ 109 (122)
T cd02071 68 PEVIELLRELGAGDILVVGGGIIPPEDYELLKEMGVAEIFGP 109 (122)
T ss_pred HHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCCEEECC
Confidence 456677788755444444443 3434566888998787774
No 156
>KOG0731|consensus
Probab=21.58 E-value=2.4e+02 Score=27.03 Aligned_cols=80 Identities=19% Similarity=0.298 Sum_probs=51.8
Q ss_pred CeEEEEecCCcHHHHHhCCCc-hhcccceec--CCCCCHHHHHHHHHh-----------------cCCCCHHHHHHHHHH
Q psy16109 18 KKLLVLCTTSCREVLEDLKIL-SKFSAVLHV--PNLSTPEHLLNVIEE-----------------SDVFSKKQVQEIERY 77 (129)
Q Consensus 18 rrLLViaTTS~~~vL~~lgl~-~~F~~~i~V--P~l~~~~el~~Vl~~-----------------~~~F~~~e~~~i~~~ 77 (129)
...+|+|+|..+++|+.--+= .-||..+.| |.+..-.++-+|... ...|+..|+.+++++
T Consensus 449 ~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~ne 528 (774)
T KOG0731|consen 449 KGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNE 528 (774)
T ss_pred CcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhH
Confidence 568999999999998765444 568887766 555555555555443 223566666666544
Q ss_pred Hh---hCCCcccccHHHHHHHHH
Q psy16109 78 LH---QHKARVFVGIRKLLGLID 97 (129)
Q Consensus 78 l~---~~~~~~~IgIKkLL~~ie 97 (129)
-. .....-.|+.+.+...+|
T Consensus 529 aa~~a~r~~~~~i~~~~~~~a~~ 551 (774)
T KOG0731|consen 529 AALLAARKGLREIGTKDLEYAIE 551 (774)
T ss_pred HHHHHHHhccCccchhhHHHHHH
Confidence 33 122345777888887777
No 157
>PF04016 DUF364: Domain of unknown function (DUF364); InterPro: IPR007161 This is a entry represents of bacterial and archaeal proteins of unknown function.; PDB: 3L5O_B 3NPG_A.
Probab=21.54 E-value=46 Score=24.59 Aligned_cols=50 Identities=18% Similarity=0.274 Sum_probs=35.2
Q ss_pred HhcCCCCCCCeEEEEecCC--cHHHHHhCCCchhcccceecCCCCCHHHHHHHHHhcC
Q psy16109 9 LLKKEPPRNKKLLVLCTTS--CREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESD 64 (129)
Q Consensus 9 Llkk~PPkGrrLLViaTTS--~~~vL~~lgl~~~F~~~i~VP~l~~~~el~~Vl~~~~ 64 (129)
+|...+ ++++..++|+|+ .+++|.+.|+.-..... +..++.+.+++.+-+
T Consensus 81 iL~~~~-~~~~vil~GpS~~~~P~~l~~~Gv~~v~g~~-----v~d~~~~~~~i~~Gg 132 (147)
T PF04016_consen 81 ILELAR-NAREVILYGPSAPLHPEALFDYGVTYVGGSR-----VVDPEKVLRAISEGG 132 (147)
T ss_dssp HHHHTT-TSSEEEEESCCGGS-GGGGCCTT-SEEEEEE-----ES-HHHHHHHHCTTS
T ss_pred HHHhCc-cCCeEEEEecCchhhHHHHHhCCCCEEEEEE-----EeCHHHHHHHHHcCC
Confidence 444444 579999999998 47889999988777665 556778888777654
No 158
>KOG0422|consensus
Probab=21.51 E-value=68 Score=24.59 Aligned_cols=15 Identities=40% Similarity=0.576 Sum_probs=12.9
Q ss_pred hHHHHHHHhcCCCCC
Q psy16109 2 TLQALRVLLKKEPPR 16 (129)
Q Consensus 2 ILQaLlVLlkk~PPk 16 (129)
|||+|.+|+-.+-|.
T Consensus 104 VlqaLi~liN~P~pe 118 (153)
T KOG0422|consen 104 VLQALIALINDPEPE 118 (153)
T ss_pred HHHHHHHHhcCCCcc
Confidence 899999999987773
No 159
>TIGR01452 PGP_euk phosphoglycolate/pyridoxal phosphate phosphatase family. This model is closely related to a family of bacterial sequences including the E. coli NagD and B. subtilus AraL genes which are characterized by the ability to hydrolyze para-nitrophenylphosphate (pNPPases or NPPases). The chlamydomonas PGPase does not catalyze this reaction and so presumably these two groups have different functions and substrate specificities. Many of the genes in this alignment have been annotated as pNPPases due to this association.
Probab=21.19 E-value=1e+02 Score=24.58 Aligned_cols=33 Identities=24% Similarity=0.299 Sum_probs=24.9
Q ss_pred HHHHhcCCCCCCCeEEEEecCCcHHHHHhCCCc
Q psy16109 6 LRVLLKKEPPRNKKLLVLCTTSCREVLEDLKIL 38 (129)
Q Consensus 6 LlVLlkk~PPkGrrLLViaTTS~~~vL~~lgl~ 38 (129)
..-+|++..-+|+|.++||+...++.|+..|+.
T Consensus 74 ~~~~l~~~~~~~~~v~~iG~~~~~~~l~~~g~~ 106 (279)
T TIGR01452 74 AARLLRQPPDAPKAVYVIGEEGLRAELDAAGIR 106 (279)
T ss_pred HHHHHHhhCcCCCEEEEEcCHHHHHHHHHCCCE
Confidence 344666643336789999999889999988875
No 160
>PRK00148 Maf-like protein; Reviewed
Probab=21.15 E-value=76 Score=24.72 Aligned_cols=18 Identities=33% Similarity=0.272 Sum_probs=15.9
Q ss_pred EEEecCC--cHHHHHhCCCc
Q psy16109 21 LVLCTTS--CREVLEDLKIL 38 (129)
Q Consensus 21 LViaTTS--~~~vL~~lgl~ 38 (129)
+|+|.+| .+++|+++|+-
T Consensus 3 iILAS~SprR~elL~~~g~~ 22 (194)
T PRK00148 3 LVLASASPARLKLLRLAGIP 22 (194)
T ss_pred EEEeCCCHHHHHHHHHCCCC
Confidence 8999999 68999999973
No 161
>PRK01441 Maf-like protein; Reviewed
Probab=20.49 E-value=85 Score=24.70 Aligned_cols=17 Identities=41% Similarity=0.456 Sum_probs=15.8
Q ss_pred EEEecCC--cHHHHHhCCC
Q psy16109 21 LVLCTTS--CREVLEDLKI 37 (129)
Q Consensus 21 LViaTTS--~~~vL~~lgl 37 (129)
+|+|.+| .+++|+++|+
T Consensus 7 iILAS~SprR~elL~~~Gi 25 (207)
T PRK01441 7 LVLASGSPRRVELLNQAGI 25 (207)
T ss_pred EEEeCCCHHHHHHHHhcCC
Confidence 9999999 5899999998
No 162
>TIGR00172 maf MAF protein. This nonessential gene causes inhibition of septation when overexpressed. A member of the family is found in the Archaeon Pyrococcus horikoshii and another in the round worm Caenorhabditis elegans.
Probab=20.42 E-value=81 Score=24.31 Aligned_cols=18 Identities=44% Similarity=0.672 Sum_probs=15.9
Q ss_pred EEEecCC--cHHHHHhCCCc
Q psy16109 21 LVLCTTS--CREVLEDLKIL 38 (129)
Q Consensus 21 LViaTTS--~~~vL~~lgl~ 38 (129)
+|+|.+| .+++|+++|+-
T Consensus 5 lILAS~SprR~elL~~~g~~ 24 (183)
T TIGR00172 5 LILASQSPRRKELLEELGIS 24 (183)
T ss_pred EEEeCCCHHHHHHHHHCCCC
Confidence 8999999 68999999973
No 163
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=20.31 E-value=2.4e+02 Score=17.85 Aligned_cols=47 Identities=17% Similarity=0.187 Sum_probs=27.4
Q ss_pred HHHHHHHHhhCCCcccccHHHHHHHHHHHhcccchhhHHHHHHHHHhcCcccc
Q psy16109 71 VQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGCLDM 123 (129)
Q Consensus 71 ~~~i~~~l~~~~~~~~IgIKkLL~~ie~A~~~~~~~~~~~fl~~l~~~g~~~~ 123 (129)
.++++..|...+.. +++.+.|-..+.+. ...+.+++..|+++|.+..
T Consensus 8 ~~~IL~~L~~~g~~-~~ta~eLa~~lgl~-----~~~v~r~L~~L~~~G~V~~ 54 (68)
T smart00550 8 EEKILEFLENSGDE-TSTALQLAKNLGLP-----KKEVNRVLYSLEKKGKVCK 54 (68)
T ss_pred HHHHHHHHHHCCCC-CcCHHHHHHHHCCC-----HHHHHHHHHHHHHCCCEEe
Confidence 35666666433211 25544333333332 2359999999999998654
No 164
>PRK01839 Maf-like protein; Reviewed
Probab=20.18 E-value=82 Score=24.86 Aligned_cols=18 Identities=33% Similarity=0.486 Sum_probs=16.3
Q ss_pred EEEecCC--cHHHHHhCCCc
Q psy16109 21 LVLCTTS--CREVLEDLKIL 38 (129)
Q Consensus 21 LViaTTS--~~~vL~~lgl~ 38 (129)
+|+|.+| .+++|+++|+-
T Consensus 12 lILAS~SprR~elL~~~gi~ 31 (209)
T PRK01839 12 LYLASQSPRRQELLQQLGVR 31 (209)
T ss_pred EEEeCCCHHHHHHHHHCCCC
Confidence 9999999 68999999985
Done!