Query 027804
Match_columns 218
No_of_seqs 120 out of 201
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 15:26:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027804.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027804hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3341 RNA polymerase II tran 100.0 7.4E-75 1.6E-79 499.7 18.0 190 1-191 1-190 (249)
2 PF04157 EAP30: EAP30/Vps36 fa 100.0 5.8E-55 1.2E-59 377.2 15.5 183 5-190 1-189 (223)
3 KOG2760 Vacuolar sorting prote 99.9 7.1E-22 1.5E-26 183.2 16.4 173 3-187 196-374 (432)
4 cd08767 Cdt1_c The C-terminal 92.2 1.1 2.3E-05 36.1 8.2 79 97-184 44-123 (126)
5 TIGR02147 Fsuc_second hypothet 90.8 2.6 5.7E-05 38.2 10.1 133 40-188 8-208 (271)
6 PF05158 RNA_pol_Rpc34: RNA po 89.3 2 4.3E-05 39.9 8.2 81 97-188 8-95 (327)
7 PF13382 Adenine_deam_C: Adeni 85.7 1.8 3.8E-05 36.8 5.2 65 138-203 73-147 (171)
8 PLN02180 gamma-glutamyl transp 85.1 1.5 3.3E-05 44.3 5.3 73 45-126 216-299 (639)
9 PLN02198 glutathione gamma-glu 84.8 1.4 3.1E-05 43.7 4.9 73 45-126 166-249 (573)
10 PF08784 RPA_C: Replication pr 83.5 2 4.3E-05 32.5 4.2 52 96-157 45-96 (102)
11 cd05029 S-100A6 S-100A6: S-100 83.0 4.1 9E-05 30.5 5.7 55 101-156 10-66 (88)
12 TIGR00066 g_glut_trans gamma-g 82.3 3 6.4E-05 40.8 5.9 32 91-126 191-223 (516)
13 PF01019 G_glu_transpept: Gamm 80.5 2.1 4.6E-05 41.6 4.2 74 44-126 121-205 (510)
14 COG0055 AtpD F0F1-type ATP syn 80.5 1.9 4.2E-05 41.6 3.7 128 18-162 251-415 (468)
15 PF09907 DUF2136: Uncharacteri 78.5 4.3 9.4E-05 30.1 4.4 44 119-167 5-48 (76)
16 TIGR01774 PFL2-3 pyruvate form 76.5 83 0.0018 32.8 14.4 133 45-191 207-367 (786)
17 PTZ00184 calmodulin; Provision 76.4 31 0.00067 26.1 9.1 49 104-156 86-135 (149)
18 cd01295 AdeC Adenine deaminase 76.1 4.1 8.9E-05 38.3 4.6 62 139-203 331-404 (422)
19 PF07051 OCIA: Ovarian carcino 75.0 2.7 5.9E-05 33.6 2.6 40 172-211 23-62 (111)
20 PRK00135 scpB segregation and 74.4 13 0.00029 31.9 6.9 60 118-186 21-99 (188)
21 PRK09615 ggt gamma-glutamyltra 74.2 7.3 0.00016 38.9 6.0 32 91-126 239-271 (581)
22 COG5126 FRQ1 Ca2+-binding prot 70.3 33 0.00072 29.0 8.2 40 36-80 16-55 (160)
23 PF04558 tRNA_synt_1c_R1: Glut 69.0 7.2 0.00016 32.9 4.0 92 49-149 15-128 (164)
24 PF14848 HU-DNA_bdg: DNA-bindi 68.7 7.5 0.00016 30.9 3.9 44 113-160 24-72 (124)
25 cd01677 PFL2_DhaB_BssA Pyruvat 68.1 1.5E+02 0.0032 31.0 13.9 119 58-190 224-364 (781)
26 PLN02964 phosphatidylserine de 66.0 14 0.00031 37.5 6.1 93 35-157 138-231 (644)
27 COG1001 AdeC Adenine deaminase 62.2 11 0.00024 37.9 4.4 63 138-203 481-555 (584)
28 TIGR01178 ade adenine deaminas 62.0 11 0.00024 37.3 4.4 63 138-203 451-525 (552)
29 PF14394 DUF4423: Domain of un 61.6 17 0.00036 30.6 4.8 78 93-188 22-110 (171)
30 TIGR03793 TOMM_pelo TOMM prope 61.1 22 0.00048 26.5 4.9 32 42-80 5-40 (77)
31 PF05600 DUF773: Protein of un 61.1 17 0.00037 35.8 5.5 44 34-77 128-171 (507)
32 cd00576 RNR_PFL Ribonucleotide 60.8 52 0.0011 30.1 8.3 104 94-204 47-163 (401)
33 PF09733 VEFS-Box: VEFS-Box of 60.4 11 0.00024 31.0 3.5 30 44-73 92-121 (140)
34 PRK10027 cryptic adenine deami 60.3 12 0.00027 37.4 4.4 63 138-203 483-557 (588)
35 COG3879 Uncharacterized protei 57.9 30 0.00066 31.3 6.0 99 45-178 75-179 (247)
36 KOG0027 Calmodulin and related 57.7 79 0.0017 25.2 8.0 96 37-157 5-101 (151)
37 cd08803 Death_ank3 Death domai 56.6 16 0.00034 27.5 3.5 66 67-147 7-83 (84)
38 PRK14331 (dimethylallyl)adenos 53.3 29 0.00062 33.0 5.5 52 137-192 276-327 (437)
39 TIGR02833 spore_III_AB stage I 51.6 19 0.00042 30.1 3.6 55 15-76 105-159 (170)
40 COG3877 Uncharacterized protei 49.8 53 0.0011 26.5 5.5 35 45-82 59-93 (122)
41 PRK08307 stage III sporulation 49.3 22 0.00048 29.9 3.6 55 15-76 106-160 (171)
42 COG1654 BirA Biotin operon rep 48.9 34 0.00075 25.6 4.2 51 116-177 18-68 (79)
43 COG0735 Fur Fe2+/Zn2+ uptake r 48.9 1.3E+02 0.0028 24.5 7.9 54 101-163 24-77 (145)
44 COG0309 HypE Hydrogenase matur 48.5 12 0.00026 35.3 2.0 37 44-80 232-271 (339)
45 PF09079 Cdc6_C: CDC6, C termi 48.5 17 0.00037 26.4 2.5 27 54-81 13-39 (85)
46 PF13413 HTH_25: Helix-turn-he 47.1 22 0.00047 25.1 2.8 46 32-78 13-59 (62)
47 PF15112 DUF4559: Domain of un 46.7 92 0.002 29.1 7.4 97 35-151 161-263 (307)
48 PF08279 HTH_11: HTH domain; 46.2 57 0.0012 21.4 4.6 37 118-165 16-52 (55)
49 COG3710 CadC DNA-binding winge 45.4 19 0.00041 29.7 2.5 53 97-154 30-83 (148)
50 KOG1043 Ca2+-binding transmemb 45.2 1.6E+02 0.0035 29.3 9.2 101 34-145 257-369 (499)
51 cd00213 S-100 S-100: S-100 dom 45.1 1.1E+02 0.0024 21.8 6.8 75 34-129 2-79 (88)
52 PRK14332 (dimethylallyl)adenos 45.0 59 0.0013 31.2 6.2 51 137-191 282-332 (449)
53 PRK14337 (dimethylallyl)adenos 44.7 55 0.0012 31.3 5.9 52 137-192 280-331 (446)
54 TIGR02384 RelB_DinJ addiction 44.5 18 0.0004 27.0 2.1 25 56-80 6-30 (83)
55 cd02905 Macro_GDAP2_like Macro 44.1 30 0.00065 28.1 3.5 66 141-208 42-123 (140)
56 cd07669 BAR_SNX33 The Bin/Amph 43.7 51 0.0011 29.1 5.0 80 44-129 33-113 (207)
57 PF07352 Phage_Mu_Gam: Bacteri 43.4 77 0.0017 25.7 5.9 30 29-58 38-67 (149)
58 PF07240 Turandot: Stress-indu 43.4 26 0.00055 26.8 2.8 29 75-105 49-77 (85)
59 cd07668 BAR_SNX9 The Bin/Amphi 43.1 55 0.0012 29.0 5.2 78 44-128 33-112 (210)
60 smart00350 MCM minichromosome 43.0 50 0.0011 32.1 5.5 52 98-151 441-505 (509)
61 PRK14329 (dimethylallyl)adenos 41.6 66 0.0014 31.0 6.0 51 137-191 304-354 (467)
62 PRK00411 cdc6 cell division co 41.5 19 0.00042 32.8 2.2 21 60-80 318-338 (394)
63 PHA02095 hypothetical protein 41.5 23 0.00049 26.6 2.2 23 166-188 58-80 (84)
64 PF07818 HCNGP: HCNGP-like pro 41.0 35 0.00075 26.3 3.3 41 59-102 41-84 (96)
65 TIGR01125 MiaB-like tRNA modif 40.8 73 0.0016 30.1 6.1 51 137-191 266-316 (430)
66 PRK03187 tgl transglutaminase; 40.8 43 0.00092 30.8 4.3 43 77-134 180-223 (272)
67 PHA02047 phage lambda Rz1-like 40.5 87 0.0019 24.7 5.3 30 29-58 40-72 (101)
68 PF03484 B5: tRNA synthetase B 40.4 1.3E+02 0.0028 21.2 6.0 32 137-173 18-49 (70)
69 cd08805 Death_ank1 Death domai 40.3 68 0.0015 24.1 4.7 67 66-147 6-83 (84)
70 cd08317 Death_ank Death domain 39.8 39 0.00086 24.8 3.3 67 66-147 6-83 (84)
71 KOG1956 DNA topoisomerase III 39.7 25 0.00055 36.0 2.9 43 98-154 122-164 (758)
72 PF14106 DUF4279: Domain of un 39.0 51 0.0011 25.0 3.9 50 28-77 53-115 (118)
73 PRK14325 (dimethylallyl)adenos 38.9 80 0.0017 30.0 6.1 51 137-191 280-330 (444)
74 PRK13436 F0F1 ATP synthase sub 38.9 1.6E+02 0.0035 24.6 7.3 131 18-174 9-169 (179)
75 PRK11557 putative DNA-binding 38.8 1E+02 0.0022 26.9 6.3 15 137-151 112-126 (278)
76 PF04914 DltD_C: DltD C-termin 38.7 16 0.00034 29.7 1.1 54 56-109 28-87 (130)
77 PF04079 DUF387: Putative tran 38.5 56 0.0012 27.3 4.4 45 118-172 14-62 (159)
78 TIGR02573 LcrG_PcrG type III s 38.2 26 0.00056 27.1 2.1 18 65-82 23-40 (90)
79 PRK09613 thiH thiamine biosynt 37.8 1.1E+02 0.0025 29.9 7.0 96 47-151 204-305 (469)
80 PF08221 HTH_9: RNA polymerase 37.8 86 0.0019 21.9 4.7 48 93-154 8-55 (62)
81 KOG0624 dsRNA-activated protei 37.8 20 0.00043 34.7 1.7 22 54-80 446-467 (504)
82 PF04221 RelB: RelB antitoxin; 37.7 20 0.00043 26.5 1.4 24 56-79 5-28 (83)
83 PRK14981 DNA-directed RNA poly 37.5 50 0.0011 26.0 3.7 48 92-152 62-109 (112)
84 COG1460 Uncharacterized protei 37.2 53 0.0011 26.5 3.8 62 59-151 48-109 (114)
85 TIGR00762 DegV EDD domain prot 37.2 1.5E+02 0.0033 26.2 7.2 63 118-189 41-104 (275)
86 PF14538 Raptor_N: Raptor N-te 36.6 1E+02 0.0022 25.6 5.6 30 135-164 69-99 (154)
87 PRK14330 (dimethylallyl)adenos 36.5 97 0.0021 29.3 6.2 51 137-191 271-321 (434)
88 cd07670 BAR_SNX18 The Bin/Amph 36.4 76 0.0016 28.1 5.0 62 44-105 33-95 (207)
89 TIGR00281 segregation and cond 36.3 81 0.0017 27.1 5.1 46 118-172 18-68 (186)
90 KOG1350 F0F1-type ATP synthase 36.3 45 0.00097 32.1 3.8 111 34-162 326-465 (521)
91 PRK13429 F0F1 ATP synthase sub 36.0 2.5E+02 0.0053 23.1 9.1 133 18-175 8-170 (181)
92 PF07216 LcrG: LcrG protein; 35.8 26 0.00057 27.2 1.8 17 66-82 27-43 (93)
93 PRK14338 (dimethylallyl)adenos 35.7 1.1E+02 0.0024 29.4 6.4 51 137-191 286-336 (459)
94 PRK14339 (dimethylallyl)adenos 35.7 1.2E+02 0.0025 28.8 6.6 51 137-191 261-311 (420)
95 TIGR00089 RNA modification enz 35.4 98 0.0021 29.1 6.0 51 137-191 270-320 (429)
96 PF04977 DivIC: Septum formati 34.7 1.6E+02 0.0034 20.5 5.8 47 16-62 22-73 (80)
97 PF04481 DUF561: Protein of un 34.6 2.4E+02 0.0052 25.5 7.9 101 90-201 19-128 (242)
98 PRK14335 (dimethylallyl)adenos 34.3 98 0.0021 29.7 5.9 51 137-191 289-339 (455)
99 TIGR02865 spore_II_E stage II 34.2 1.7E+02 0.0038 30.2 8.0 48 32-79 435-482 (764)
100 TIGR01558 sm_term_P27 phage te 34.0 2E+02 0.0044 22.2 6.7 24 57-80 66-95 (116)
101 PRK14333 (dimethylallyl)adenos 33.9 1E+02 0.0022 29.4 5.9 51 137-191 286-336 (448)
102 cd00051 EFh EF-hand, calcium b 33.8 1.1E+02 0.0025 18.6 5.2 41 112-156 11-51 (63)
103 cd08768 Cdc6_C Winged-helix do 33.7 50 0.0011 23.6 3.0 26 55-81 21-46 (87)
104 cd07291 PX_SNX5 The phosphoino 33.4 72 0.0016 26.6 4.2 32 37-69 103-139 (141)
105 PRK11337 DNA-binding transcrip 33.2 1.9E+02 0.0041 25.4 7.2 112 32-151 19-138 (292)
106 PF13730 HTH_36: Helix-turn-he 33.1 1.2E+02 0.0026 19.7 4.6 34 112-154 19-53 (55)
107 smart00576 BTP Bromodomain tra 33.0 1.1E+02 0.0024 22.1 4.8 15 137-151 58-72 (77)
108 PF10410 DnaB_bind: DnaB-helic 32.7 1.1E+02 0.0023 20.3 4.3 29 49-78 27-56 (59)
109 cd08804 Death_ank2 Death domai 32.6 71 0.0015 23.7 3.7 46 94-147 38-83 (84)
110 cd05026 S-100Z S-100Z: S-100Z 32.2 92 0.002 23.1 4.3 45 112-156 23-68 (93)
111 PF11823 DUF3343: Protein of u 32.2 1.1E+02 0.0024 21.7 4.5 47 139-194 10-67 (73)
112 KOG4302 Microtubule-associated 31.8 47 0.001 34.0 3.4 46 34-79 156-202 (660)
113 cd08318 Death_NMPP84 Death dom 31.0 73 0.0016 23.6 3.6 62 60-129 3-75 (86)
114 KOG1463 26S proteasome regulat 30.7 90 0.002 30.1 4.8 43 31-73 284-330 (411)
115 TIGR02944 suf_reg_Xantho FeS a 30.7 2E+02 0.0044 22.2 6.3 83 99-197 10-94 (130)
116 PRK10328 DNA binding protein, 30.7 1.2E+02 0.0027 24.8 5.1 47 32-78 23-72 (134)
117 TIGR01361 DAHP_synth_Bsub phos 30.6 2.6E+02 0.0057 24.9 7.7 113 66-194 80-200 (260)
118 PRK09841 cryptic autophosphory 30.5 1.2E+02 0.0026 30.9 6.1 43 13-55 257-299 (726)
119 TIGR02928 orc1/cdc6 family rep 30.3 1.2E+02 0.0027 27.1 5.6 25 56-81 307-331 (365)
120 PRK11191 RNase E inhibitor pro 30.1 92 0.002 25.7 4.3 54 139-194 42-109 (138)
121 PRK13430 F0F1 ATP synthase sub 29.9 3.5E+02 0.0076 24.3 8.4 99 58-171 132-258 (271)
122 PRK10947 global DNA-binding tr 29.0 1.2E+02 0.0026 24.9 4.8 48 32-79 23-73 (135)
123 PRK14334 (dimethylallyl)adenos 29.0 1.5E+02 0.0033 28.2 6.2 51 137-191 268-318 (440)
124 PRK14340 (dimethylallyl)adenos 28.9 1.2E+02 0.0026 29.1 5.5 51 137-191 279-329 (445)
125 TIGR02933 nifM_nitrog nitrogen 28.7 4E+02 0.0087 23.4 9.4 107 12-151 4-115 (256)
126 TIGR00738 rrf2_super rrf2 fami 28.7 1.5E+02 0.0033 22.7 5.2 85 98-198 8-95 (132)
127 PF09548 Spore_III_AB: Stage I 28.6 67 0.0015 26.7 3.3 56 14-76 104-159 (170)
128 PF10376 Mei5: Double-strand r 28.6 1.7E+02 0.0038 25.8 6.0 18 59-78 198-215 (221)
129 COG4396 Mu-like prophage host- 28.5 1.6E+02 0.0034 24.9 5.4 31 31-61 55-85 (170)
130 TIGR03017 EpsF chain length de 28.5 1.5E+02 0.0033 27.6 6.0 39 17-55 165-203 (444)
131 PRK13434 F0F1 ATP synthase sub 28.3 3.1E+02 0.0068 22.8 7.4 64 113-177 80-168 (184)
132 PF09336 Vps4_C: Vps4 C termin 28.3 84 0.0018 22.2 3.3 28 118-149 30-57 (62)
133 cd02903 Macro_BAL_like Macro d 28.1 97 0.0021 24.6 4.0 64 142-207 44-120 (137)
134 PF14394 DUF4423: Domain of un 28.1 28 0.00061 29.2 1.0 49 5-53 107-155 (171)
135 PF05796 Chordopox_G2: Chordop 28.1 76 0.0016 28.2 3.6 122 57-197 16-137 (216)
136 TIGR01579 MiaB-like-C MiaB-lik 27.9 1.6E+02 0.0035 27.5 6.1 51 137-191 269-319 (414)
137 smart00803 TAF TATA box bindin 27.8 2.3E+02 0.0049 20.1 6.1 13 136-148 53-65 (65)
138 PRK11519 tyrosine kinase; Prov 27.6 1.4E+02 0.0031 30.3 6.0 42 14-55 258-299 (719)
139 PLN03094 Substrate binding sub 27.2 2.2E+02 0.0047 27.2 6.8 45 31-75 321-367 (370)
140 PF13833 EF-hand_8: EF-hand do 27.1 1.5E+02 0.0034 19.0 4.3 39 115-157 2-41 (54)
141 KOG0027 Calmodulin and related 27.1 3.2E+02 0.0069 21.6 7.8 73 66-157 65-137 (151)
142 PTZ00183 centrin; Provisional 27.1 2.9E+02 0.0062 21.1 8.5 44 109-156 97-141 (158)
143 PF03837 RecT: RecT family; I 27.0 49 0.0011 27.7 2.2 22 59-80 20-41 (199)
144 PRK00888 ftsB cell division pr 26.7 2.1E+02 0.0046 22.2 5.6 35 29-63 47-84 (105)
145 TIGR01617 arsC_related transcr 26.7 92 0.002 23.9 3.6 38 45-82 14-58 (117)
146 cd05031 S-100A10_like S-100A10 26.5 1.7E+02 0.0038 21.3 5.0 55 102-156 9-66 (94)
147 COG5159 RPN6 26S proteasome re 26.3 1.4E+02 0.0031 28.4 5.3 66 5-74 263-329 (421)
148 PF06627 DUF1153: Protein of u 26.2 25 0.00053 27.3 0.3 41 100-152 35-75 (90)
149 PRK15482 transcriptional regul 26.1 3.6E+02 0.0078 23.7 7.7 66 32-104 7-75 (285)
150 PRK14862 rimO ribosomal protei 26.1 1.6E+02 0.0034 28.2 5.7 51 137-191 277-327 (440)
151 PF10264 Stork_head: Winged he 25.8 1.7E+02 0.0036 22.2 4.7 47 113-160 25-77 (80)
152 PF10136 SpecificRecomb: Site- 25.7 1.1E+02 0.0023 31.4 4.7 87 57-150 42-134 (643)
153 TIGR01837 PHA_granule_1 poly(h 25.6 2.5E+02 0.0053 22.2 5.9 71 5-77 12-93 (118)
154 PF14338 Mrr_N: Mrr N-terminal 25.6 1.7E+02 0.0037 21.6 4.7 41 96-145 2-42 (92)
155 KOG0031 Myosin regulatory ligh 25.5 3.1E+02 0.0067 23.6 6.7 38 36-78 28-65 (171)
156 CHL00119 atpD ATP synthase CF1 25.2 4E+02 0.0086 22.1 7.6 67 113-180 85-177 (184)
157 PRK11235 bifunctional antitoxi 25.2 55 0.0012 24.6 2.0 24 57-80 6-29 (80)
158 COG3975 Predicted protease wit 25.1 1.6E+02 0.0034 29.7 5.6 55 96-151 356-412 (558)
159 PF03102 NeuB: NeuB family; I 25.0 2.1E+02 0.0045 25.5 6.0 107 61-184 55-165 (241)
160 TIGR01578 MiaB-like-B MiaB-lik 24.9 2E+02 0.0043 27.2 6.2 51 137-191 264-314 (420)
161 cd05027 S-100B S-100B: S-100B 24.9 1.7E+02 0.0036 21.7 4.6 43 114-156 23-66 (88)
162 PRK02899 adaptor protein; Prov 24.9 2.7E+02 0.0059 24.0 6.5 53 139-191 112-166 (197)
163 PRK13398 3-deoxy-7-phosphohept 24.2 2E+02 0.0044 25.8 5.8 113 65-194 81-202 (266)
164 PF13443 HTH_26: Cro/C1-type H 24.2 1.7E+02 0.0036 19.5 4.2 42 32-78 13-54 (63)
165 cd07626 BAR_SNX9_like The Bin/ 24.1 1.2E+02 0.0026 26.4 4.1 50 33-82 14-64 (199)
166 cd00052 EH Eps15 homology doma 23.8 1.9E+02 0.0042 18.8 4.4 37 114-156 12-48 (67)
167 PF00392 GntR: Bacterial regul 23.7 2.4E+02 0.0052 19.1 5.5 50 96-154 2-52 (64)
168 TIGR01029 rpsG_bact ribosomal 23.7 3.2E+02 0.007 22.6 6.5 40 142-184 59-98 (154)
169 KOG0028 Ca2+-binding protein ( 23.6 1.8E+02 0.004 25.0 5.0 68 102-177 70-137 (172)
170 PF08227 DASH_Hsk3: DASH compl 23.6 1.1E+02 0.0024 20.7 3.0 18 32-49 4-21 (45)
171 TIGR01201 HU_rel DNA-binding p 23.5 1E+02 0.0022 25.1 3.4 45 113-163 26-75 (145)
172 PF13012 MitMem_reg: Maintenan 23.4 17 0.00036 27.8 -1.2 69 3-75 4-74 (115)
173 PRK14336 (dimethylallyl)adenos 23.4 2.2E+02 0.0049 26.9 6.2 51 137-191 255-305 (418)
174 CHL00081 chlI Mg-protoporyphyr 23.2 1.7E+02 0.0036 27.6 5.2 51 98-150 271-322 (350)
175 PRK14101 bifunctional glucokin 23.1 3.6E+02 0.0078 26.9 7.8 111 32-151 347-466 (638)
176 PF11744 ALMT: Aluminium activ 23.0 2.6E+02 0.0056 27.0 6.5 43 35-77 261-303 (406)
177 KOG2607 CDK5 activator-binding 22.9 1.7E+02 0.0037 28.8 5.3 85 17-105 105-198 (505)
178 PF05597 Phasin: Poly(hydroxya 22.8 4.2E+02 0.0092 21.6 7.2 71 5-77 25-106 (132)
179 CHL00073 chlN photochlorophyll 22.7 5.1E+02 0.011 25.4 8.6 73 5-81 271-343 (457)
180 PF05633 DUF793: Protein of un 22.7 1.9E+02 0.004 28.0 5.4 79 66-153 82-163 (389)
181 PF13031 DUF3892: Protein of u 22.6 1.5E+02 0.0033 21.6 4.0 42 138-179 31-80 (85)
182 PF13267 DUF4058: Protein of u 22.6 66 0.0014 29.3 2.3 30 75-110 7-36 (254)
183 PRK11753 DNA-binding transcrip 22.6 3.7E+02 0.008 21.8 6.7 64 93-169 139-207 (211)
184 PF09566 RE_SacI: SacI restric 22.5 1.5E+02 0.0033 28.2 4.7 47 137-191 257-305 (351)
185 cd07153 Fur_like Ferric uptake 22.4 2.3E+02 0.005 21.2 5.0 46 102-155 5-50 (116)
186 TIGR02530 flg_new flagellar op 22.3 3.9E+02 0.0084 20.9 6.6 49 121-173 19-70 (96)
187 cd02901 Macro_Poa1p_like Macro 22.2 2.6E+02 0.0055 21.8 5.4 67 140-208 44-124 (140)
188 COG3343 RpoE DNA-directed RNA 22.1 1.6E+02 0.0035 25.4 4.4 59 104-167 17-76 (175)
189 PF07182 DUF1402: Protein of u 22.1 72 0.0015 29.5 2.4 39 42-80 37-75 (303)
190 PF00808 CBFD_NFYB_HMF: Histon 22.0 1.3E+02 0.0027 20.8 3.2 32 93-147 34-65 (65)
191 PRK13441 F0F1 ATP synthase sub 22.0 4.6E+02 0.0099 21.7 7.5 117 30-176 22-170 (180)
192 PF11791 Aconitase_B_N: Aconit 21.9 94 0.002 26.3 2.9 66 72-159 10-96 (154)
193 COG2512 Predicted membrane-ass 21.9 1.8E+02 0.0039 26.2 5.0 47 113-169 206-252 (258)
194 PF11719 Drc1-Sld2: DNA replic 21.8 73 0.0016 30.7 2.6 36 34-72 3-43 (426)
195 PF07862 Nif11: Nitrogen fixat 21.8 1.3E+02 0.0029 19.6 3.2 22 44-69 4-25 (49)
196 COG1769 CRISPR system related 21.8 1.2E+02 0.0026 28.3 3.8 33 111-151 115-147 (335)
197 COG0405 Ggt Gamma-glutamyltran 21.7 1.8E+02 0.0039 29.2 5.3 73 45-126 155-238 (539)
198 cd05030 calgranulins Calgranul 21.6 2.3E+02 0.0051 20.7 4.8 53 103-155 10-65 (88)
199 PF01346 FKBP_N: Domain amino 21.6 2.9E+02 0.0062 21.1 5.5 56 93-151 23-78 (124)
200 cd05022 S-100A13 S-100A13: S-1 21.6 98 0.0021 23.2 2.7 71 34-129 2-75 (89)
201 TIGR00273 iron-sulfur cluster- 21.5 81 0.0018 30.4 2.8 79 17-96 31-109 (432)
202 smart00411 BHL bacterial (prok 21.5 1.3E+02 0.0028 21.7 3.4 40 118-163 1-45 (90)
203 PF05119 Terminase_4: Phage te 21.4 3.1E+02 0.0067 20.0 5.5 24 57-80 57-86 (100)
204 PRK05469 peptidase T; Provisio 21.4 1.2E+02 0.0026 28.0 3.8 75 56-152 325-399 (408)
205 smart00544 MA3 Domain in DAP-5 21.2 2.8E+02 0.0061 20.6 5.3 53 90-150 28-81 (113)
206 CHL00053 rps7 ribosomal protei 21.1 1.7E+02 0.0037 24.2 4.3 41 141-184 60-100 (155)
207 PF02082 Rrf2: Transcriptional 21.1 3.2E+02 0.007 19.5 6.5 67 97-177 7-76 (83)
208 KOG1106 Uncharacterized conser 21.1 1.1E+02 0.0023 26.5 3.1 42 88-132 94-135 (177)
209 COG0078 ArgF Ornithine carbamo 21.0 1E+02 0.0023 28.8 3.3 107 63-200 165-274 (310)
210 KOG0854 Alkyl hydroperoxide re 21.0 86 0.0019 27.6 2.6 32 136-173 191-223 (224)
211 PF09837 DUF2064: Uncharacteri 21.0 1.3E+02 0.0028 23.8 3.4 30 133-162 68-105 (122)
212 PF08638 Med14: Mediator compl 21.0 1.2E+02 0.0026 25.9 3.6 86 93-178 84-188 (195)
213 TIGR01145 ATP_synt_delta ATP s 20.9 2.4E+02 0.0052 23.1 5.2 59 114-173 79-163 (172)
214 PF14528 LAGLIDADG_3: LAGLIDAD 20.8 76 0.0016 22.2 1.9 22 58-79 28-49 (77)
215 PF10771 DUF2582: Protein of u 20.8 2.9E+02 0.0063 19.9 4.9 45 115-169 20-64 (65)
216 PF13405 EF-hand_6: EF-hand do 20.7 1.1E+02 0.0023 17.9 2.3 13 137-149 16-28 (31)
217 cd07981 TAF12 TATA Binding Pro 20.6 1.5E+02 0.0034 21.2 3.5 26 122-149 41-66 (72)
218 PRK09983 pflD putative formate 20.6 9.9E+02 0.021 25.0 13.2 132 45-191 198-357 (765)
219 smart00005 DEATH DEATH domain, 20.6 1.7E+02 0.0036 20.8 3.8 31 99-129 45-75 (88)
220 PF09006 Surfac_D-trimer: Lung 20.6 2.5E+02 0.0053 19.2 4.2 23 28-50 4-26 (46)
221 COG2433 Uncharacterized conser 20.5 6.3E+02 0.014 26.1 8.8 117 63-194 38-185 (652)
222 cd04790 HTH_Cfa-like_unk Helix 20.5 3.8E+02 0.0082 22.3 6.4 54 26-79 77-133 (172)
223 cd05022 S-100A13 S-100A13: S-1 20.5 2.3E+02 0.005 21.2 4.6 51 103-156 10-62 (89)
224 PRK08599 coproporphyrinogen II 20.2 2.3E+02 0.005 26.1 5.5 66 122-199 124-193 (377)
225 PRK14327 (dimethylallyl)adenos 20.0 2.7E+02 0.0057 27.5 6.1 51 137-191 343-393 (509)
No 1
>KOG3341 consensus RNA polymerase II transcription factor complex subunit [Transcription]
Probab=100.00 E-value=7.4e-75 Score=499.71 Aligned_cols=190 Identities=64% Similarity=1.055 Sum_probs=187.1
Q ss_pred CCCCcchhhhhccHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCC
Q 027804 1 MRRRPGIGGLQSAAVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 1 MrR~vGi~ai~~~~~~~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLa 80 (218)
||||+|++||++++ ...+|++.|++++++|+.||++||++||++|++||++|+.||++||+||++|+.||++||||||+
T Consensus 1 ~rrrvG~gAi~~~k-~~~ky~~~g~~l~e~Ql~q~~~Ql~~f~~~LeeFA~kH~~ei~knsqFR~~Fq~Mca~IGvDPla 79 (249)
T KOG3341|consen 1 MRRRVGLGAIQKKK-AAKKYKEVGTELAEQQLVQMSKQLEVFQEALEEFARKHKTEIRKNSQFRNQFQEMCASIGVDPLA 79 (249)
T ss_pred CccchhhhHHhhHH-HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHcCCCccc
Confidence 89999999999987 89999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEE
Q 027804 81 SNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVI 160 (218)
Q Consensus 81 s~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi 160 (218)
|+|++|++++|+|||||||||||||||++|++.|||+|+++||++++.+.|+...+.||+||++|||++|++||+||+|+
T Consensus 80 s~kgfw~~~lgvgdFYYelgVqviEvC~at~~~nGGlislqel~~~l~~~R~~~~e~vt~dD~lrAi~kLk~LG~gFev~ 159 (249)
T KOG3341|consen 80 SGKGFWAELLGVGDFYYELGVQVIEVCLATKHTNGGLISLQELCNHLLQRRKKDHEAVTEDDLLRAIDKLKVLGSGFEVI 159 (249)
T ss_pred cCcchHHHHhhhHHHHHHHhhHHHHHHHHhhcccCCeeeHHHHHHHHHHHhcccchhccHHHHHHHHHHhhccCCCeEEE
Confidence 99999999999999999999999999999999999999999999999999998888999999999999999999999999
Q ss_pred EECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 161 SVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 161 ~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
+||||+||||||.|||+||+.|||+|+..|+
T Consensus 160 ~iggK~~vrSVP~ELn~Dht~ILela~~~gy 190 (249)
T KOG3341|consen 160 KIGGKKLVRSVPTELNMDHTVILELAEILGY 190 (249)
T ss_pred EecCEEeeecCcchhcccHHHHHHHHHhcCc
Confidence 9999999999999999999999999999887
No 2
>PF04157 EAP30: EAP30/Vps36 family; InterPro: IPR007286 EAP30 is a subunit of the ELL complex. The ELL is an 80kDa RNA polymerase II transcription factor. ELL interacts with three other proteins to form the complex known as ELL complex. The ELL complex is capable of increasing that catalytic rate of transcription elongation, but is unable to repress initiation of transcription by RNA polymerase II as is the case of ELL. EAP30 is thought to lead to the derepression of ELL's transcriptional inhibitory activity. ; PDB: 2ZME_A 3CUQ_A 1W7P_D 1U5T_B.
Probab=100.00 E-value=5.8e-55 Score=377.16 Aligned_cols=183 Identities=50% Similarity=0.817 Sum_probs=153.0
Q ss_pred cchhhhhccHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCC
Q 027804 5 PGIGGLQSAAVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKG 84 (218)
Q Consensus 5 vGi~ai~~~~~~~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~ 84 (218)
+||+||+++.+++++|++.+.+.+.+++++|.+|+++|++.+++||++|+++|++||+||++|++||++|||||+++++
T Consensus 1 ~GI~~l~~~~~~~~~~~~~~~~~a~~dl~~L~~qa~~~~~~l~~fa~k~~~~i~~~~~~r~~f~~~~~~lGvdp~~s~~- 79 (223)
T PF04157_consen 1 VGIAGLQRRQEQKRQYNELGMQLAFQDLEALMSQAKDFVELLENFARKHKSEIKSDPEFRSQFQSMCASLGVDPLASSK- 79 (223)
T ss_dssp --------------------TCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCSHHHHHHHHHHHHHHT--CHCCTT-
T ss_pred CchHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCchHHHHHHHHHHHcCCCcccchh-
Confidence 6999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cccccc-CccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhc-CCCCCCCCHHHHHHHHhhccccCCceEEEEE
Q 027804 85 FWAELL-GIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRR-KSNREAVSEDDCLRAISKLKVLGNGYEVISV 162 (218)
Q Consensus 85 ~ws~~l-G~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~r-g~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~i 162 (218)
+|++.+ |.++||||||+||+|||..+|+.|||||+|+||++++||+| |.. .|||+||++||+.|++||.||.++++
T Consensus 80 ~~s~~l~~~~~f~~ELa~qi~e~c~~~~~~~GGii~L~dl~~~~nr~R~g~~--lISp~Di~~A~~~l~~lg~g~~l~~~ 157 (223)
T PF04157_consen 80 FWSESLKGSGDFYYELAVQIAEVCLATRSKNGGIISLSDLYCRYNRARGGSE--LISPEDILRACKLLEVLGLGFRLRKF 157 (223)
T ss_dssp CCCCCCSCHHHHHHHHHHHHHHHHHHHCCTTTSEEEHHHHHHHHHHCTTTSS--T--HHHHHHHHHHHCCCTSSEEEEEE
T ss_pred hhhhccccchhHHHHHHHHHHHHHHHHHhcCCCEEEHHHHHHHHHHhcccCC--CcCHHHHHHHHHHHHHcCCCeEEEEe
Confidence 999999 99999999999999999999999999999999999999999 555 99999999999999999999999999
Q ss_pred C-CEEEEEecC-CCcchhHHHHHHHH--hhcc
Q 027804 163 G-KKKLVRSVP-TELNKDHNQILELA--QVTS 190 (218)
Q Consensus 163 g-~k~~vrSvP-~ELs~Dq~~vLe~a--~~~~ 190 (218)
+ |++||+|+| .|+|.||++||++| +..|
T Consensus 158 ~sg~~vv~s~~~~e~~~~~~~il~~~~~~~~g 189 (223)
T PF04157_consen 158 GSGVKVVQSVPYSELSKDQSRILELAEEENGG 189 (223)
T ss_dssp TTTEEEEECST-CHH-HHHHHHHHHH--TTTS
T ss_pred CCCcEEEEeCCchhhhHHHHHHHHHHHhhcCC
Confidence 9 999999999 99999999999999 4444
No 3
>KOG2760 consensus Vacuolar sorting protein VPS36 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.88 E-value=7.1e-22 Score=183.22 Aligned_cols=173 Identities=18% Similarity=0.253 Sum_probs=145.9
Q ss_pred CCcchhhhhccHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHH------HHHHHHHHhhccccCChhHHHHHHHHHHhcCC
Q 027804 3 RRPGIGGLQSAAVARDQYRLLGENVAKLRTDLMKEQLATFRS------QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGV 76 (218)
Q Consensus 3 R~vGi~ai~~~~~~~~~y~~~g~~l~~~~~~~L~~QL~~F~~------~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGV 76 (218)
|++||++|+|+.+++.+-++...+.+ +++|++.|+..++ ++.++.+..+++|.+|++.| |+++..++||
T Consensus 196 r~vGI~giEr~~e~q~~~td~~i~~A---FqDLskLMs~Akemv~Lsk~~~~Km~~~~g~i~dDetv~--~ks~llsLGI 270 (432)
T KOG2760|consen 196 RMVGISGIERSLEEQLKKTDKTINNA---FQDLSKLMSLAKEMVSLSKSIAEKMKSKTGEIQDDETVR--FKSYLLSLGI 270 (432)
T ss_pred eeechhHHHHHHHHHHHhcchhHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcCchhhhh--hHHhhhhhcc
Confidence 57999999999999999999999988 7788888888775 78888999999999999997 9999999999
Q ss_pred CCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCc
Q 027804 77 DPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNG 156 (218)
Q Consensus 77 DPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~G 156 (218)
+...+..++-- . ..-|+.+||.||.|+.+.+.+.|||||+|.|++|++||+||++ .|||+|+.+||+.|+.||-+
T Consensus 271 ~dpvt~~n~~~--s-~~~Y~~~Lakqlse~l~~~lee~ggmisLtdvY~~~NRaRG~e--LiSPedl~~ACe~le~l~~p 345 (432)
T KOG2760|consen 271 LDPVTKDNFGL--S-LSLYHQELAKQLSEFLRLPLEENGGMISLTDVYCRYNRARGTE--LISPEDLVNACELLEHLGVP 345 (432)
T ss_pred CCcchhccccc--h-HHHHHHHHHHHHHHHHhcchhhcCCEEEHHHHHHHHHHhccCC--CCCHHHHHHHHHHHHhcCCc
Confidence 86555533320 0 1589999999999999999999999999999999999999988 99999999999999999999
Q ss_pred eEEEEECCEEEEEecCCCcchhHHHHHHHHh
Q 027804 157 YEVISVGKKKLVRSVPTELNKDHNQILELAQ 187 (218)
Q Consensus 157 f~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~ 187 (218)
.++.+.+..-+|.. ..-..|.-+++.+.+
T Consensus 346 l~L~kf~SGvlvvq--lKs~~~~e~l~~~l~ 374 (432)
T KOG2760|consen 346 LRLRKFNSGVLVVQ--LKSHSDEEKLVDALE 374 (432)
T ss_pred eEEEEcCCceEEEE--eeccchHHHHHHHHH
Confidence 99999887666554 244445555544433
No 4
>cd08767 Cdt1_c The C-terminal fold of replication licensing factor Cdt1 is essential for Cdt1 activity and directly interacts with MCM2-7 helicase. Cdt1 is a replication licensing factor in eukaryotes that recruits the Minichromosome Maintenance Complex (MCM2-7) to the Origin Recognition Complex (ORC). The Cdt1 protein is divided into three regions based on sequence comparison and biochemical analyses: the N-terminal region (Cdt1_n) binds DNA in a sequence-, strand-, and conformation-independent manner; the middle winged helix fold (Cdt1_m) binds geminin to inhibit both binding of the MCM complex to origins of replication and DNA; and the C-terminal region (Cdt1_c) is essential for Cdt1 activity and directly interacts with the MCM2-7 helicase. Precise duplication of chromosomal DNA is required for genomic stability during replication. Assembly of replication factors to start DNA replication in eukaryotes must occur only once per cell cycle. To form a pre-replicative complex on replicat
Probab=92.17 E-value=1.1 Score=36.08 Aligned_cols=79 Identities=16% Similarity=0.164 Sum_probs=62.5
Q ss_pred HHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccC-CceEEEEECCEEEEEecCCCc
Q 027804 97 YELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLG-NGYEVISVGKKKLVRSVPTEL 175 (218)
Q Consensus 97 yeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG-~Gf~vi~ig~k~~vrSvP~EL 175 (218)
-+|+-.|--+|.+ .+-..+++++|+..+..... ..+|.+|++.-++.|.-+= .=+.+.++++..||+..=.
T Consensus 44 P~la~~v~~if~s---~~k~~l~~e~l~~kl~~S~~---~~~s~~E~E~~l~LL~el~P~Wis~~~~~~~~~lk~~k~-- 115 (126)
T cd08767 44 PELARILRNIFVS---EKKTVLPLEELVYKLQASYP---SILSRGEVEEHLRLLAELAPDWISEKSLRKGDYLKIDKK-- 115 (126)
T ss_pred HHHHHHHHHHHHh---cccccccHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHHhChHHheeeeeCCceEEEECcc--
Confidence 4667777777777 67899999999999998654 3599999999999997655 4467888899999986653
Q ss_pred chhHHHHHH
Q 027804 176 NKDHNQILE 184 (218)
Q Consensus 176 s~Dq~~vLe 184 (218)
.|...|.+
T Consensus 116 -~~~~~V~~ 123 (126)
T cd08767 116 -VDLEKVRK 123 (126)
T ss_pred -ccHHHHHH
Confidence 77777764
No 5
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=90.79 E-value=2.6 Score=38.18 Aligned_cols=133 Identities=20% Similarity=0.250 Sum_probs=81.6
Q ss_pred HHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCC------CCCC--------ccccccCccchHHHHHHHHHH
Q 027804 40 ATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLA------SNKG--------FWAELLGIGDFYYELGVQIVE 105 (218)
Q Consensus 40 ~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLa------s~k~--------~ws~~lG~gdFyyeLaVqIvE 105 (218)
..+|.-|..|-...+. .||.|- .+.+|..+|++|.+ .+|. -+++.+|++++=.+--..+|.
T Consensus 8 ~dYR~fl~d~ye~rk~---~~p~fS--~R~fa~~~G~ss~s~L~~v~~Gkr~Ls~~~~~k~a~~l~L~~~E~~yF~~lV~ 82 (271)
T TIGR02147 8 TDYRKYLRDYYEERKK---TDPAFS--WRFFAEKAGFSSTSYLNDIIKGKKNLTKRMIPKFAEALGLDEKEAAYFEAMVN 82 (271)
T ss_pred hhHHHHHHHHHHHHhc---cCcCcC--HHHHHHHhCCCCHHHHHHHHcCCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 3466666666666553 699995 89999999999831 1111 355667876655555555555
Q ss_pred Hhhhccc-------------------------------------------cCCCcccHHHHHHHHHhhcCCCCCCCCHHH
Q 027804 106 ICLATRP-------------------------------------------HNGGLINLQELCNLLRQRRKSNREAVSEDD 142 (218)
Q Consensus 106 vC~~tr~-------------------------------------------~NGGli~l~el~~~v~k~rg~~~~~IS~dD 142 (218)
.|.+.-+ ..+|=-++.++-.++. +.||.++
T Consensus 83 f~~ak~~~~k~~~~~~~~~~~~~~~~~~L~~~~~~y~~~W~~~virel~~~~~~~~~~~~ia~~l~-------p~is~~e 155 (271)
T TIGR02147 83 FGQAKTDTEKQQFFEEMQALKPRPRLRVLAADQFEYYRHWYNSVIRELLGVMPFADDPEELAKRCF-------PKISAEQ 155 (271)
T ss_pred HhccCCHHHHHHHHHHHHHHhhhchheeccHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHhC-------CCCCHHH
Confidence 5555421 1222222222222222 4699999
Q ss_pred HHHHHhhccccCCceEEEEE-CCEEEEEecC-----CCcc-----hhHHHHHHHHhh
Q 027804 143 CLRAISKLKVLGNGYEVISV-GKKKLVRSVP-----TELN-----KDHNQILELAQV 188 (218)
Q Consensus 143 I~rAi~~L~~LG~Gf~vi~i-g~k~~vrSvP-----~ELs-----~Dq~~vLe~a~~ 188 (218)
|..|++.|..+| +|+- +.-+|+++.+ .|.. .=|..++++|..
T Consensus 156 v~~sL~~L~~~g----likk~~~g~y~~t~~~l~~~~~~~~~avr~~h~q~l~lA~~ 208 (271)
T TIGR02147 156 VKESLDLLERLG----LIKKNEDGFYKQTDKAVSTGDEVIPLAVRQYQKQMIDLAKE 208 (271)
T ss_pred HHHHHHHHHHCC----CeeECCCCcEEeecceeecCCccchHHHHHHHHHHHHHHHH
Confidence 999999999988 4544 3346777644 2332 348888888876
No 6
>PF05158 RNA_pol_Rpc34: RNA polymerase Rpc34 subunit; InterPro: IPR007832 The family comprises a subunit specific to RNA Pol III, the tRNA specific polymerase. The C34 subunit of Saccharomyces cerevisiae RNA Pol III is part of a subcomplex of three subunits which have no counterpart in the other two nuclear RNA polymerases. This subunit interacts with TFIIIB70 and therefore participates in Pol III recruitment [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2DK8_A 2DK5_A 2YU3_A.
Probab=89.26 E-value=2 Score=39.93 Aligned_cols=81 Identities=17% Similarity=0.294 Sum_probs=59.7
Q ss_pred HHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEECCEEEEEec-----
Q 027804 97 YELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSV----- 171 (218)
Q Consensus 97 yeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSv----- 171 (218)
-+++.+|.+.|.+. ..+..++.+||...+. ..+..+++.|++.|-.=|. +++++-+++-..+-+
T Consensus 8 ~~~~~~l~~~~~~~--~~~~~~~~~~L~~~~~--------~~~~~~~~~~in~Ll~~~~-~~~~~~~~~l~~~~~~~~~a 76 (327)
T PF05158_consen 8 SELEKKLLELCREN--PSPKGFSQEDLQQLIP--------GLDLQELVKAINELLSSGL-LKLLKKGGGLSYKAVSEEEA 76 (327)
T ss_dssp HHHHHHHHHHHHH-----SS-EEHHHHHHH-T--------TS-HHHHHHHHHHHHHHTS-EEEEE-SSSEEEEE--SSS-
T ss_pred HHHHHHHHHHHHHh--cCCCCcCHHHHHhhcC--------CCCHHHHHHHHHHHHhCCC-EEEEEcCCEEEEEEeCHHHH
Confidence 57899999999987 5678899999998843 4799999999999977554 888887777666666
Q ss_pred --CCCcchhHHHHHHHHhh
Q 027804 172 --PTELNKDHNQILELAQV 188 (218)
Q Consensus 172 --P~ELs~Dq~~vLe~a~~ 188 (218)
...|++|+..||.+.+.
T Consensus 77 ~k~~~l~~~e~lvy~~I~~ 95 (327)
T PF05158_consen 77 KKLKGLSDEERLVYQLIEE 95 (327)
T ss_dssp ----SSSCCHHHHHHHHHH
T ss_pred hhhcCCCHHHHHHHHHHHH
Confidence 34799999999988665
No 7
>PF13382 Adenine_deam_C: Adenine deaminase C-terminal domain; PDB: 3T8L_B 3T81_A 3NQB_A.
Probab=85.71 E-value=1.8 Score=36.83 Aligned_cols=65 Identities=22% Similarity=0.355 Sum_probs=42.3
Q ss_pred CCHHHHHHHHhhccccCCceEEEEECCEEEEEecCC----------CcchhHHHHHHHHhhccccccccccCcchh
Q 027804 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT----------ELNKDHNQILELAQVTSILYQCFPFPHISF 203 (218)
Q Consensus 138 IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~----------ELs~Dq~~vLe~a~~~~~~~~~~~~~~~~~ 203 (218)
-+++|+.+|++.|..+|+|+.++.=|.....-..|- |+......+-+++..+|.-+. =||-.+||
T Consensus 73 ~~~~dm~~A~n~l~~~gGG~vvv~~g~v~a~lpLpi~GlmS~~~~eev~~~~~~l~~~~~~lG~~~~-~p~~tlsf 147 (171)
T PF13382_consen 73 TNDEDMALAANRLIEMGGGIVVVDDGEVLAELPLPIAGLMSDLPAEEVARQLEELEEALRELGCPFD-DPFMTLSF 147 (171)
T ss_dssp SSHHHHHHHHHHHHHTTSEEEEEETTEEEEEEE-TBTTTBBSS-HHHHHHHHHHHHHHHHTTS-BTT-TBSGGGGG
T ss_pred CCHHHHHHHHHHHHHhCCCEEEEECCEEEEEEeccccceecCCCHHHHHHHHHHHHHHHHHcCCCCC-CHHHHHHH
Confidence 379999999999999999998875333333333442 444455666677777775444 56655655
No 8
>PLN02180 gamma-glutamyl transpeptidase 4
Probab=85.13 E-value=1.5 Score=44.28 Aligned_cols=73 Identities=27% Similarity=0.464 Sum_probs=48.7
Q ss_pred HHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccc----cc------cCccchHH-HHHHHHHHHhhhcccc
Q 027804 45 QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWA----EL------LGIGDFYY-ELGVQIVEICLATRPH 113 (218)
Q Consensus 45 ~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws----~~------lG~gdFyy-eLaVqIvEvC~~tr~~ 113 (218)
.|.......+..+.++|.+|+-|.. =| .|+....-+.. +. -|...||. ++|.+|++-+++
T Consensus 216 ~la~~l~~~~~~l~~~p~~~~~f~~----~G-~~~~~Gd~l~qp~LA~TLe~IA~~G~d~FY~G~iA~~iv~~~~~---- 286 (639)
T PLN02180 216 YLGKAISSHAAMILKDPGLRSVFSR----NG-QVLKPGETCYNPELAQSLETISEQGPGAFYNGTIGEKLVKDVKK---- 286 (639)
T ss_pred HHHHHHHHHHHHHhcChhHHHHhCc----CC-ccCCCCCeeccHHHHHHHHHHHHhCcccccCCHHHHHHHHHHHH----
Confidence 4555555666667778888877653 14 45532211111 11 26678887 999999999874
Q ss_pred CCCcccHHHHHHH
Q 027804 114 NGGLINLQELCNL 126 (218)
Q Consensus 114 NGGli~l~el~~~ 126 (218)
+||+|+++||..-
T Consensus 287 ~GG~lT~eDLa~Y 299 (639)
T PLN02180 287 AGGIITMDDLRSY 299 (639)
T ss_pred cCCCCCHHHHHhC
Confidence 8999999999754
No 9
>PLN02198 glutathione gamma-glutamylcysteinyltransferase
Probab=84.79 E-value=1.4 Score=43.71 Aligned_cols=73 Identities=22% Similarity=0.284 Sum_probs=45.7
Q ss_pred HHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccc----cc------cCccchHH-HHHHHHHHHhhhcccc
Q 027804 45 QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWA----EL------LGIGDFYY-ELGVQIVEICLATRPH 113 (218)
Q Consensus 45 ~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws----~~------lG~gdFyy-eLaVqIvEvC~~tr~~ 113 (218)
.|....+..++.|+.+|.+|+-|.. =| .|+....-+.. ++ -|...||. ++|.+|++-|++
T Consensus 166 ~la~~l~~~~~~l~~~p~~~~~f~~----~G-~~~~~Gd~l~~p~LA~TL~~iA~~G~~~FY~G~iA~~iv~~~~~---- 236 (573)
T PLN02198 166 YLYMQMNATRSDILADKGLSDLFVS----NG-ELKKPGTICHNPKLALTLRLIGEYGPKAFYNGTVGVNLVRDIQK---- 236 (573)
T ss_pred HHHHHHHHHHHHHhcChhHHHHcCc----CC-CcCCCCCeecCHHHHHHHHHHHHhCcccccCCHHHHHHHHHHHH----
Confidence 3444455556666677777766642 12 34432211110 11 25667886 799999999964
Q ss_pred CCCcccHHHHHHH
Q 027804 114 NGGLINLQELCNL 126 (218)
Q Consensus 114 NGGli~l~el~~~ 126 (218)
+||+|+++||..-
T Consensus 237 ~GG~lt~~DL~~y 249 (573)
T PLN02198 237 SGGIITLKDLQSY 249 (573)
T ss_pred cCCCCCHHHHhhC
Confidence 9999999999754
No 10
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=83.50 E-value=2 Score=32.52 Aligned_cols=52 Identities=19% Similarity=0.314 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCce
Q 027804 96 YYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGY 157 (218)
Q Consensus 96 yyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf 157 (218)
.-.+..+|.++|......+-| ++++++.+.+ . ++++||..||+.|.--|-=|
T Consensus 45 ~~~~~~~Vl~~i~~~~~~~~G-v~v~~I~~~l-~--------~~~~~v~~al~~L~~eG~IY 96 (102)
T PF08784_consen 45 LSPLQDKVLNFIKQQPNSEEG-VHVDEIAQQL-G--------MSENEVRKALDFLSNEGHIY 96 (102)
T ss_dssp S-HHHHHHHHHHHC----TTT-EEHHHHHHHS-T--------S-HHHHHHHHHHHHHTTSEE
T ss_pred CCHHHHHHHHHHHhcCCCCCc-ccHHHHHHHh-C--------cCHHHHHHHHHHHHhCCeEe
Confidence 457899999999995555556 8899999887 2 79999999999998877533
No 11
>cd05029 S-100A6 S-100A6: S-100A6 domain found in proteins similar to S100A6. S100A6 is a member of the S100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A6 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100A6 is normally expressed in the G1 phase of the cell cycle in neuronal cells. The function of S100A6 remains unclear, but evidence suggests that it is involved in cell cycle regulation and exocytosis. S100A6 may also be involved in tumorigenesis; the protein is overexpressed in several tumors. Ca2+ binding to S100A6 leads to a conformational change in the protein, which exposes a hydrophobic surface for interact
Probab=83.04 E-value=4.1 Score=30.47 Aligned_cols=55 Identities=11% Similarity=0.129 Sum_probs=40.5
Q ss_pred HHHHHHhhhccccC--CCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCc
Q 027804 101 VQIVEICLATRPHN--GGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNG 156 (218)
Q Consensus 101 VqIvEvC~~tr~~N--GGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~G 156 (218)
+.||+++.+--..| .|.|+.+||...+.+.... ...+|++||.+-++.+..=|+|
T Consensus 10 ~~~i~~F~~y~~~~~~~g~Is~~EL~~~l~~~~~l-g~k~t~~ev~~m~~~~D~d~dG 66 (88)
T cd05029 10 GLLVAIFHKYSGREGDKNTLSKKELKELIQKELTI-GSKLQDAEIAKLMEDLDRNKDQ 66 (88)
T ss_pred HHHHHHHHHHHccCCCCCEECHHHHHHHHHHHHhc-CCCCCHHHHHHHHHHhcCCCCC
Confidence 46788888776644 4799999999999763221 1358999999988887665554
No 12
>TIGR00066 g_glut_trans gamma-glutamyltranspeptidase. Also called gamma-glutamyltranspeptidase (ggt). Some members of this family have antibiotic synthesis or resistance activities. In the case of a cephalosporin acylase from Pseudomonas sp., the enzyme was shown to retain some gamma-glutamyltranspeptidase activity. Other, more distantly related proteins have ggt-related activities and score below the trusted cutoff.
Probab=82.33 E-value=3 Score=40.84 Aligned_cols=32 Identities=25% Similarity=0.580 Sum_probs=27.5
Q ss_pred CccchHH-HHHHHHHHHhhhccccCCCcccHHHHHHH
Q 027804 91 GIGDFYY-ELGVQIVEICLATRPHNGGLINLQELCNL 126 (218)
Q Consensus 91 G~gdFyy-eLaVqIvEvC~~tr~~NGGli~l~el~~~ 126 (218)
|...||. |+|.+|++-+.+ +||+|+++||..-
T Consensus 191 G~~~FY~G~iA~~iv~~~~~----~GG~lt~~DL~~y 223 (516)
T TIGR00066 191 GPDAFYKGDIAESIIDTLQK----NGGIMTKKDLAAY 223 (516)
T ss_pred CcccccCCHHHHHHHHHHHH----cCCCCCHHHHhhC
Confidence 5678888 999999998874 8999999999744
No 13
>PF01019 G_glu_transpept: Gamma-glutamyltranspeptidase; InterPro: IPR000101 Gamma-glutamyltranspeptidase (2.3.2.2 from EC) (GGT) [] catalyzes the transfer of the gamma-glutamyl moiety of glutathione to an acceptor that may be an amino acid, a peptide or water (forming glutamate). GGT plays a key role in the gamma-glutamyl cycle, a pathway for the synthesis and degradation of glutathione and drug and xenobiotic detoxification []. In prokaryotes and eukaryotes, it is an enzyme that consists of two polypeptide chains, a heavy and a light subunit, processed from a single chain precursor by an autocatalytic cleavage. The active site of GGT is known to be located in the light subunit. The sequences of mammalian and bacterial GGT show a number of regions of high similarity []. Pseudomonas cephalosporin acylases (3.5.1 from EC) that convert 7-beta-(4-carboxybutanamido)-cephalosporanic acid (GL-7ACA) into 7-aminocephalosporanic acid (7ACA) and glutaric acid are evolutionary related to GGT and also show some GGT activity []. Like GGT, these GL-7ACA acylases, are also composed of two subunits. As an autocatalytic peptidase GGT belongs to MEROPS peptidase family T3 (gamma-glutamyltransferase family, clan PB(T)). The active site residue for members of this family and family T1 is C-terminal to the autolytic cleavage site. The type example is gamma-glutamyltransferase 1 from Escherichia coli. ; GO: 0003840 gamma-glutamyltransferase activity; PDB: 2DBX_A 2Z8K_D 2Z8I_B 2DBU_D 2E0X_B 2DBW_B 2E0W_B 2DG5_A 2E0Y_C 2Z8J_C ....
Probab=80.46 E-value=2.1 Score=41.59 Aligned_cols=74 Identities=27% Similarity=0.423 Sum_probs=46.7
Q ss_pred HHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccc----cc------cCccchHH-HHHHHHHHHhhhccc
Q 027804 44 SQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWA----EL------LGIGDFYY-ELGVQIVEICLATRP 112 (218)
Q Consensus 44 ~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws----~~------lG~gdFyy-eLaVqIvEvC~~tr~ 112 (218)
..|....++.+..|+.+|..|+-|.. +=.|+....-+-. +. -|...||- +||.+|++-..+
T Consensus 121 ~~la~~l~~~~~~l~~~~~~~~~f~~-----~G~~~~~Gd~l~~p~LA~TL~~ia~~G~~~FY~G~lA~~iv~~~~~--- 192 (510)
T PF01019_consen 121 PSLARALARNADKLRRDPGSRALFLP-----DGRPPREGDILRQPELADTLERIAEEGPDAFYRGELAEKIVADVQA--- 192 (510)
T ss_dssp HHHHHHHHHHHHHHTTSHHHHHHHST-----TSSE--TTSEE--HHHHHHHHHHHHHTTHHHHSCHHHHHHHHHHHH---
T ss_pred hhHHhHHHhHHHHHhhhhhHHHHhcc-----CCCcCCCCCEEEHHHHHHHHHHHHhcCchhhcCChHHHHHHHHHHh---
Confidence 37778888888889999999877744 1123332211100 11 25678888 799999998765
Q ss_pred cCCCcccHHHHHHH
Q 027804 113 HNGGLINLQELCNL 126 (218)
Q Consensus 113 ~NGGli~l~el~~~ 126 (218)
+||+|+++|+..-
T Consensus 193 -~GG~lt~~Dla~Y 205 (510)
T PF01019_consen 193 -NGGLLTLEDLAAY 205 (510)
T ss_dssp -TT-S--HHHHHH-
T ss_pred -ccCCccHHHHhhc
Confidence 8999999999865
No 14
>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]
Probab=80.46 E-value=1.9 Score=41.60 Aligned_cols=128 Identities=23% Similarity=0.361 Sum_probs=84.8
Q ss_pred HHHHHhhHhHHHHHH---------HHHHHHHHHHHHHHHHHHHHhhccccC------------ChhHHHHHHHH------
Q 027804 18 DQYRLLGENVAKLRT---------DLMKEQLATFRSQLEDFARKHKNDIRK------------NPTFRSQFHEM------ 70 (218)
Q Consensus 18 ~~y~~~g~~l~~~~~---------~~L~~QL~~F~~~L~~FA~kH~~eI~~------------dP~FR~~F~~M------ 70 (218)
=+|+..|.+++.--= -.|.+.|..+|+++. +..++.|++ ||.=-..|...
T Consensus 251 fRftQAGsEVSalLGr~PSavGYQpTLatemg~lQERIt---stk~GSITSiQavyvPaDDlTDPapattFaHLDat~vL 327 (468)
T COG0055 251 FRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERIT---STKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVL 327 (468)
T ss_pred hHHhhcchHHHHHhccCccccccCchhHHHHHHHHHHHh---cCCCCceEEEEEEEeccccCCCcchhhhhhhcccceee
Confidence 367777777663211 168889999998874 466667764 78766677654
Q ss_pred ---HHhcC----CCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHH-
Q 027804 71 ---CAKVG----VDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDD- 142 (218)
Q Consensus 71 ---C~siG----VDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dD- 142 (218)
.++.| ||||.|++..-.- .=+|+=+|++|.++-.+.++.++ |.|++..+ |+. ++|++|
T Consensus 328 sR~ia~~GIyPAvDPL~StSr~l~p-~ivGe~Hy~va~~vq~iLqrYke-------LqDIIaIL----Gmd--ELseedk 393 (468)
T COG0055 328 SRQIAALGIYPAVDPLDSTSRALDP-KIVGEEHYEVAREVQSILQRYKE-------LQDIIAIL----GMD--ELSEEDK 393 (468)
T ss_pred eHhHHhcCCCcccCcccccccccCc-ccccHHHHHHHHHHHHHHHHHHH-------HHHHHHHh----Cch--hcChhHH
Confidence 34556 6999877432211 12689999999999999999654 66666554 333 789888
Q ss_pred --HHHHHhhccccCCceEEEEE
Q 027804 143 --CLRAISKLKVLGNGYEVISV 162 (218)
Q Consensus 143 --I~rAi~~L~~LG~Gf~vi~i 162 (218)
|.||-+.=+=|.-.|-|-+.
T Consensus 394 ~~V~rArki~~FlSQpF~vAE~ 415 (468)
T COG0055 394 LTVARARKIQRFLSQPFFVAEV 415 (468)
T ss_pred HHHHHHHHHHHHhcCcchhhhe
Confidence 55666655556666655443
No 15
>PF09907 DUF2136: Uncharacterized protein conserved in bacteria (DUF2136); InterPro: IPR018669 HigB (YgjN) is the toxin of the HigB-HigA toxin-antitoxin system, acting as a translation-dependent mRNA interferase. HigB inhibits protein synthesis by cleaving translated mRNAs within the coding region []. ; GO: 0016788 hydrolase activity, acting on ester bonds
Probab=78.50 E-value=4.3 Score=30.15 Aligned_cols=44 Identities=11% Similarity=0.214 Sum_probs=35.7
Q ss_pred cHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEECCEEE
Q 027804 119 NLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKL 167 (218)
Q Consensus 119 ~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~ 167 (218)
+|.+.+..+.++ ..=|++||.+.......+++++-|+.|||.+|
T Consensus 5 ~L~~W~~~~~~a-----~w~~~~elk~~f~~ad~v~~~~~vFnI~GN~y 48 (76)
T PF09907_consen 5 ALEAWYREVKKA-----DWKNPAELKQQFPSADIVKNNRVVFNIGGNKY 48 (76)
T ss_pred HHHHHHHHHHHc-----cCCCHHHHHHHCcchhhhcCCEEEEEcCCCcE
Confidence 456666777664 36799999999999999999999999977444
No 16
>TIGR01774 PFL2-3 pyruvate formate-lyase. This model represents isoforms of the pyruvate-formate lyases found in a limited number of species including E. coli. This enzyme catalyzes the reaction pyruvate + CoA - acetyl-CoA + formate, which is a step in the fermentation of glucose.
Probab=76.48 E-value=83 Score=32.80 Aligned_cols=133 Identities=8% Similarity=0.123 Sum_probs=77.8
Q ss_pred HHHHHHHHhhcc------ccCChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcc
Q 027804 45 QLEDFARKHKND------IRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLI 118 (218)
Q Consensus 45 ~L~~FA~kH~~e------I~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli 118 (218)
++.+||..|++. -..||+=|++..+|....+-+|--.-++||- .+- -=|++.|++++ +.||.-+
T Consensus 207 a~~~~a~R~a~lA~~~a~~e~d~~Rk~EL~~iA~~c~~vp~~pa~tf~E-AlQ-~~wf~~l~~~~--------E~ng~~~ 276 (786)
T TIGR01774 207 AVINHILRYAKLAEEMAASETGESRREELLKIAEICRKVAAEKPQTFWQ-AVQ-LVWLVQSILQQ--------ESNEQSI 276 (786)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHhccCcccCCCCHHH-HHH-HHHHHHHHHHH--------hcccccc
Confidence 444555554432 2569999999999999999998876667774 322 22333343332 3466555
Q ss_pred c---HHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc--c---------------C-CceEEEEECCEEEEEecCCCcch
Q 027804 119 N---LQELCNLLRQRRKSNREAVSEDDCLRAISKLKV--L---------------G-NGYEVISVGKKKLVRSVPTELNK 177 (218)
Q Consensus 119 ~---l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~--L---------------G-~Gf~vi~ig~k~~vrSvP~ELs~ 177 (218)
+ ++..+.-+-++ ..+...+|+++.+.-++.|=. - | +-|..++|||.. .-.....+
T Consensus 277 s~GR~Dq~L~Pyy~~-Dl~~G~it~e~A~ELl~~~~iK~~~~~~~r~~~~~~~~~G~~~~~~i~iGG~~---~dG~da~N 352 (786)
T TIGR01774 277 SMGRIDQYLYPFYKK-DIGEGRIDRELAFEILASLWIKTNEIVPARSSSLEQYFAGQPTNQAVTIGGCD---IYGNDAVN 352 (786)
T ss_pred CCCchHHHHHHHHHh-HHhcCCCCHHHHHHHHHHHHHHhcccccCCCcccccccCCCCccceeEecccC---CCCCcccC
Confidence 5 45555444432 222336888887666654421 1 1 346788899874 12235666
Q ss_pred hHHH-HHHHHhhccc
Q 027804 178 DHNQ-ILELAQVTSI 191 (218)
Q Consensus 178 Dq~~-vLe~a~~~~~ 191 (218)
|=+- +|+++.....
T Consensus 353 ~lS~l~Lea~~~l~~ 367 (786)
T TIGR01774 353 ELSYLMLEVTDRLRL 367 (786)
T ss_pred HHHHHHHHHHHhcCC
Confidence 6655 6788877643
No 17
>PTZ00184 calmodulin; Provisional
Probab=76.39 E-value=31 Score=26.14 Aligned_cols=49 Identities=20% Similarity=0.403 Sum_probs=29.5
Q ss_pred HHHhhhccccCC-CcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCc
Q 027804 104 VEICLATRPHNG-GLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNG 156 (218)
Q Consensus 104 vEvC~~tr~~NG-Gli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~G 156 (218)
++.+....+.+| |.|+.+|+...+... + ..++.+++...++.+..-|.|
T Consensus 86 ~~~~F~~~D~~~~g~i~~~e~~~~l~~~-~---~~~~~~~~~~~~~~~d~~~~g 135 (149)
T PTZ00184 86 IKEAFKVFDRDGNGFISAAELRHVMTNL-G---EKLTDEEVDEMIREADVDGDG 135 (149)
T ss_pred HHHHHHhhCCCCCCeEeHHHHHHHHHHH-C---CCCCHHHHHHHHHhcCCCCCC
Confidence 444455555554 778888887776653 2 246777777766665544443
No 18
>cd01295 AdeC Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source in bacteria and archea.
Probab=76.15 E-value=4.1 Score=38.26 Aligned_cols=62 Identities=24% Similarity=0.422 Sum_probs=41.7
Q ss_pred CHHHHHHHHhhccccCCceEEEEECCEEEEEecCC------------CcchhHHHHHHHHhhccccccccccCcchh
Q 027804 139 SEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT------------ELNKDHNQILELAQVTSILYQCFPFPHISF 203 (218)
Q Consensus 139 S~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~------------ELs~Dq~~vLe~a~~~~~~~~~~~~~~~~~ 203 (218)
+++|+..|++.|..+|+|+-++. +-+.+-++|- |+.....++-+.+...|.- -.-||-.+||
T Consensus 331 ~~~~~~~a~~~~~~~~gg~~~~~--~~~~~~~~~l~~~g~~s~~~~~~~~~~~~~~~~~~~~~g~~-~~~p~~~~~~ 404 (422)
T cd01295 331 NDEDMALAVNRLKEIGGGIVVVK--NGKVLAELPLPIAGLMSDEPAEEVAEELKKLREALRELGYA-LDDPFMTLSF 404 (422)
T ss_pred CHHHHHHHHHHHHHhCCcEEEEE--CCEEEEEeccccccccCCCCHHHHHHHHHHHHHHHHHcCCC-CCChHHHHHH
Confidence 69999999999999999998864 3346677774 3334445556666666641 1245555555
No 19
>PF07051 OCIA: Ovarian carcinoma immunoreactive antigen (OCIA); InterPro: IPR009764 This family consists of several ovarian carcinoma immunoreactive antigen (OCIA) and related eukaryotic sequences. The function of this family is unknown [,].
Probab=75.01 E-value=2.7 Score=33.62 Aligned_cols=40 Identities=18% Similarity=0.285 Sum_probs=32.9
Q ss_pred CCCcchhHHHHHHHHhhccccccccccCcchhHHHHHHHh
Q 027804 172 PTELNKDHNQILELAQVTSILYQCFPFPHISFGLFVFAMN 211 (218)
Q Consensus 172 P~ELs~Dq~~vLe~a~~~~~~~~~~~~~~~~~~~~~~~~~ 211 (218)
+-+++.|..+|+.=|...++.|.++||.-+|-.+-.++.+
T Consensus 23 ~~~~T~EE~kvlrEC~~ESFwyRslPls~~s~~~t~~lv~ 62 (111)
T PF07051_consen 23 PYQLTEEERKVLRECNEESFWYRSLPLSAGSMLVTQGLVK 62 (111)
T ss_pred CccCCHHHHHHHHHHHHhhhHhccCcHHHHHHHHHHHHHH
Confidence 3499999999999999999999999998876555444443
No 20
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=74.39 E-value=13 Score=31.87 Aligned_cols=60 Identities=13% Similarity=0.283 Sum_probs=45.8
Q ss_pred ccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc----ccCCceEEEEECCEEEEEecCC---------------Ccchh
Q 027804 118 INLQELCNLLRQRRKSNREAVSEDDCLRAISKLK----VLGNGYEVISVGKKKLVRSVPT---------------ELNKD 178 (218)
Q Consensus 118 i~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~----~LG~Gf~vi~ig~k~~vrSvP~---------------ELs~D 178 (218)
+++.+|...+. +++++|..+++.|. .-+.|++|+.++|.+-+++-|. .||.-
T Consensus 21 ls~~~La~~l~---------~~~~~v~~~l~~L~~~y~~~~~gi~i~~~~~~y~l~tk~e~~~~v~~~~~~~~~~~LS~a 91 (188)
T PRK00135 21 LSLEQLAEILE---------LEPTEVQQLLEELQEKYEGDDRGLKLIEFNDVYKLVTKEENADYLQKLVKTPIKQSLSQA 91 (188)
T ss_pred CCHHHHHHHHC---------CCHHHHHHHHHHHHHHHhhCCCCEEEEEECCEEEEEEcHHHHHHHHHHhcccccCCCCHH
Confidence 67888877653 56789999999994 2388999999999887777442 57777
Q ss_pred HHHHHHHH
Q 027804 179 HNQILELA 186 (218)
Q Consensus 179 q~~vLe~a 186 (218)
...+|.+.
T Consensus 92 aLEtLaiI 99 (188)
T PRK00135 92 ALEVLAII 99 (188)
T ss_pred HHHHHHHH
Confidence 77777664
No 21
>PRK09615 ggt gamma-glutamyltranspeptidase; Reviewed
Probab=74.24 E-value=7.3 Score=38.91 Aligned_cols=32 Identities=34% Similarity=0.539 Sum_probs=27.6
Q ss_pred CccchHH-HHHHHHHHHhhhccccCCCcccHHHHHHH
Q 027804 91 GIGDFYY-ELGVQIVEICLATRPHNGGLINLQELCNL 126 (218)
Q Consensus 91 G~gdFyy-eLaVqIvEvC~~tr~~NGGli~l~el~~~ 126 (218)
|...||. ++|.+|++-+.+ +||+|+++||-.-
T Consensus 239 G~~~FY~G~iA~~iv~~~~~----~GG~lt~~DLa~y 271 (581)
T PRK09615 239 GPDAFYKGTIADQIAQEMQK----NGGLITKEDLAAY 271 (581)
T ss_pred CcccccCCHHHHHHHHHHHH----cCCCCCHHHHhhC
Confidence 5678887 799999999874 8999999999755
No 22
>COG5126 FRQ1 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]
Probab=70.33 E-value=33 Score=28.96 Aligned_cols=40 Identities=20% Similarity=0.446 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCC
Q 027804 36 KEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 36 ~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLa 80 (218)
..|.+.++++..-|.++..+-|..+ .|..|..++|-.|..
T Consensus 16 ~~qi~~lkeaF~l~D~d~~G~I~~~-----el~~ilr~lg~~~s~ 55 (160)
T COG5126 16 EEQIQELKEAFQLFDRDSDGLIDRN-----ELGKILRSLGFNPSE 55 (160)
T ss_pred HHHHHHHHHHHHHhCcCCCCCCcHH-----HHHHHHHHcCCCCcH
Confidence 4577788889999998888888765 688999999999874
No 23
>PF04558 tRNA_synt_1c_R1: Glutaminyl-tRNA synthetase, non-specific RNA binding region part 1 ; InterPro: IPR007639 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This is a domain found N-terminal to the catalytic domain of glutaminyl-tRNA synthetase (6.1.1.18 from EC) in eukaryotes but not in Escherichia coli. This domain is thought to bind RNA in a non-specific manner, enhancing interactions between the tRNA and enzyme, but is not essential for enzyme function [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 3TL4_X.
Probab=69.03 E-value=7.2 Score=32.88 Aligned_cols=92 Identities=21% Similarity=0.359 Sum_probs=51.7
Q ss_pred HHHHhhccccCChhHHHHHHHHHHhcCCC-CCCCCCCccccccCccchHHHHHHHHHHHhhhccc------cCCCccc--
Q 027804 49 FARKHKNDIRKNPTFRSQFHEMCAKVGVD-PLASNKGFWAELLGIGDFYYELGVQIVEICLATRP------HNGGLIN-- 119 (218)
Q Consensus 49 FA~kH~~eI~~dP~FR~~F~~MC~siGVD-PLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~------~NGGli~-- 119 (218)
+..+...|+-+||.+...+...-..-|++ ++-. ..|.--|.||.++-.-+...|+ .+|-|-+
T Consensus 15 L~e~kAket~KN~kls~~L~~iI~ea~~~~~~dk---------~~g~LLy~lAtk~k~~~~~~r~~iv~~I~~gklkt~~ 85 (164)
T PF04558_consen 15 LSEKKAKETLKNKKLSASLKAIINEAGVDSGCDK---------KQGNLLYQLATKLKPQALPHRPFIVKYIVDGKLKTNL 85 (164)
T ss_dssp --HHHHHHHTTSHHHHHHHHHHHHTS-TT----H---------HHHHHHHHHHHHHTT---TTHHHHHHHHHTTS--SHH
T ss_pred CChhhHHHHHhCHHHHHHHHHHHHHhcccCCCCH---------HHHHHHHHHHHhcCCCcchhHHHHHHHHHhCCCCCHH
Confidence 34566778999999999999999998887 3221 1578889999877666555444 4566633
Q ss_pred -HHHHHHHHHhhcCCC------------CCCCCHHHHHHHHhh
Q 027804 120 -LQELCNLLRQRRKSN------------REAVSEDDCLRAISK 149 (218)
Q Consensus 120 -l~el~~~v~k~rg~~------------~~~IS~dDI~rAi~~ 149 (218)
++..+.-+....... ...||+|||.+||..
T Consensus 86 Ql~AA~~Yl~~~~~~~~d~~~Fe~~cGVGV~VT~E~I~~~V~~ 128 (164)
T PF04558_consen 86 QLDAALKYLKSNPSEPIDVAEFEKACGVGVVVTPEQIEAAVEK 128 (164)
T ss_dssp HHHHHHHHHHHHGG-G--HHHHHHTTTTT----HHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCCCCCHHHHHHHcCCCeEECHHHHHHHHHH
Confidence 444455555543311 135666666666654
No 24
>PF14848 HU-DNA_bdg: DNA-binding domain
Probab=68.73 E-value=7.5 Score=30.90 Aligned_cols=44 Identities=23% Similarity=0.420 Sum_probs=36.1
Q ss_pred cCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc-----ccCCceEEE
Q 027804 113 HNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK-----VLGNGYEVI 160 (218)
Q Consensus 113 ~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~-----~LG~Gf~vi 160 (218)
.+-|-++++|+..++.+.+. .+|++||+.+++.|. -|-+|+.|-
T Consensus 24 ~~~~~~tl~~Ia~~i~~~~s----~~t~~di~~vl~~~~~~~~~~l~~G~sV~ 72 (124)
T PF14848_consen 24 VSSGTLTLEDIAEEIAKEGS----TLTRADIEAVLNALKDEMIEALMNGYSVN 72 (124)
T ss_pred EecCccCHHHHHHHHHHhCC----CCCHHHHHHHHHHHHHHHHHHHhCCCEEE
Confidence 56789999999999987533 589999999999886 566777765
No 25
>cd01677 PFL2_DhaB_BssA Pyruvate formate lyase 2 and related enzymes. This family includes pyruvate formate lyase 2 (PFL2), B12-independent glycerol dehydratase (DhaB) and the alpha subunit of benzylsuccinate synthase (BssA), all of which have a highly conserved ten-stranded alpha/beta barrel domain, which is similar to those of PFL1 (pyruvate formate lyase 1) and RNR (ribonucleotide reductase). Pyruvate formate lyase catalyzes a key step in anaerobic glycolysis, the conversion of pyruvate and CoenzymeA to formate and acetylCoA. DhaB catalyzes the first step in the conversion of glycerol to 1,3-propanediol while BssA catalyzes the first step in the anaerobic mineralization of both toluene and m-xylene.
Probab=68.10 E-value=1.5e+02 Score=30.98 Aligned_cols=119 Identities=16% Similarity=0.310 Sum_probs=72.0
Q ss_pred cCChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcc---cHHHHHHHHHhhcCCC
Q 027804 58 RKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLI---NLQELCNLLRQRRKSN 134 (218)
Q Consensus 58 ~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli---~l~el~~~v~k~rg~~ 134 (218)
..||.=+++..+|+...+-.|--.-++||- .+-. =|++.|+.++- .||+-+ -++.++.-+-++ ..+
T Consensus 224 e~d~~rk~EL~~iA~~c~~vp~~pp~tf~E-AlQ~-~~~~~l~~~~e--------~n~~~~s~GR~Dq~L~Pyy~~-Dl~ 292 (781)
T cd01677 224 ETDPKRKAELLEIAEICRRVPAHPPRTFWE-ALQS-FWFIHLILQIE--------SNGHSISPGRFDQYLYPFYKQ-DIE 292 (781)
T ss_pred ccCHHHHHHHHHHHHHhccCcCCCCCCHHH-HHHH-HHHHHHHHHHh--------cCCcccCCCcHHHHHHHHHHh-HHh
Confidence 479999999999999999998876667874 3322 23334444432 244433 456666544442 223
Q ss_pred CCCCCHHHHHHHHhhcc-------cc----------C-CceEEEEECCEEEEEecCCCcchhHHH-HHHHHhhcc
Q 027804 135 REAVSEDDCLRAISKLK-------VL----------G-NGYEVISVGKKKLVRSVPTELNKDHNQ-ILELAQVTS 190 (218)
Q Consensus 135 ~~~IS~dDI~rAi~~L~-------~L----------G-~Gf~vi~ig~k~~vrSvP~ELs~Dq~~-vLe~a~~~~ 190 (218)
...+|+++...-++.+- .+ | .-|..++|||.. + --....+|=+- +|+++....
T Consensus 293 ~G~it~eeA~Ell~~f~ik~~~~~~~~~~~~~~~~~G~~~~~~i~iGG~~--~-dG~da~N~ls~l~Lea~~~l~ 364 (781)
T cd01677 293 EGRLTREGAIELLECLWIKINEINKVRSGASAKYFAGYNTFQNLTIGGQT--E-DGSDATNELSYLILEATRRVR 364 (781)
T ss_pred cCCCCHHHHHHHHHHHHHHhcccccccCccccccccCCCCcceEEECCcC--C-CCCccCCHHHHHHHHHHHhcC
Confidence 34689998877766531 11 1 237889999874 1 11245555555 678777653
No 26
>PLN02964 phosphatidylserine decarboxylase
Probab=66.04 E-value=14 Score=37.53 Aligned_cols=93 Identities=13% Similarity=0.280 Sum_probs=57.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcC-CCCCCCCCCccccccCccchHHHHHHHHHHHhhhcccc
Q 027804 35 MKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVG-VDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPH 113 (218)
Q Consensus 35 L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siG-VDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~ 113 (218)
+++|++.+++.+..|-.++.+.| +...+.++| .+|-.....+|. ++++.. -..
T Consensus 138 ~~kqi~elkeaF~lfD~dgdG~i---------Lg~ilrslG~~~pte~e~~fi~--------------~mf~~~---D~D 191 (644)
T PLN02964 138 VTQEPESACESFDLLDPSSSNKV---------VGSIFVSCSIEDPVETERSFAR--------------RILAIV---DYD 191 (644)
T ss_pred cHHHHHHHHHHHHHHCCCCCCcC---------HHHHHHHhCCCCCCHHHHHHHH--------------HHHHHh---CCC
Confidence 45677888888888887776654 556677788 476543212222 222221 112
Q ss_pred CCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCce
Q 027804 114 NGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGY 157 (218)
Q Consensus 114 NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf 157 (218)
+.|.|+++|+...+.+.. ...+++|+..|.+.+..=|+|+
T Consensus 192 gdG~IdfdEFl~lL~~lg----~~~seEEL~eaFk~fDkDgdG~ 231 (644)
T PLN02964 192 EDGQLSFSEFSDLIKAFG----NLVAANKKEELFKAADLNGDGV 231 (644)
T ss_pred CCCeEcHHHHHHHHHHhc----cCCCHHHHHHHHHHhCCCCCCc
Confidence 347888888888777532 1356777777777776666654
No 27
>COG1001 AdeC Adenine deaminase [Nucleotide transport and metabolism]
Probab=62.25 E-value=11 Score=37.91 Aligned_cols=63 Identities=25% Similarity=0.449 Sum_probs=43.1
Q ss_pred CCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCC----cch--------hHHHHHHHHhhccccccccccCcchh
Q 027804 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTE----LNK--------DHNQILELAQVTSILYQCFPFPHISF 203 (218)
Q Consensus 138 IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~E----Ls~--------Dq~~vLe~a~~~~~~~~~~~~~~~~~ 203 (218)
.+++|+..|++.|+-.|+|+.++.=|. .+-.+|-+ +|+ .-.++.++|..+|.-. ++||=-+||
T Consensus 481 ~n~~Dm~~Avn~l~e~gGGivvv~~Ge--v~~~lpLpiaGLmSd~~~eeVae~~~~L~~a~~~lG~~~-~~Pf~tlsf 555 (584)
T COG1001 481 VNDEDMALAVNRLKEIGGGIVVVENGE--VLEELPLPIAGLMSDEPAEEVAEKLEKLREAARELGCEL-DEPFMTLSF 555 (584)
T ss_pred CCHHHHHHHHHHHHhcCCcEEEEECCE--EEEEecccccccccCCCHHHHHHHHHHHHHHHHHhCCCC-CchHHHHHH
Confidence 579999999999999999998876443 34556642 222 3456677788777643 336655555
No 28
>TIGR01178 ade adenine deaminase. The family described by this model includes an experimentally characterized adenine deaminase of Bacillus subtilis. It also include a member from Methanobacterium thermoautotrophicum, in which adenine deaminase activity has been detected.
Probab=62.04 E-value=11 Score=37.28 Aligned_cols=63 Identities=17% Similarity=0.252 Sum_probs=41.2
Q ss_pred CCHHHHHHHHhhccccCCceEEEEECCEEEEEecCC------------CcchhHHHHHHHHhhccccccccccCcchh
Q 027804 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT------------ELNKDHNQILELAQVTSILYQCFPFPHISF 203 (218)
Q Consensus 138 IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~------------ELs~Dq~~vLe~a~~~~~~~~~~~~~~~~~ 203 (218)
-+++|+..|++.|..+|+|+.++. +-+.+-.+|- |+......+-+.+...|.-.+ =||-.+||
T Consensus 451 ~~~~dm~~A~~~l~~~~GG~~~v~--~g~v~~~l~LpiaGlmS~~~~~~v~~~~~~l~~~~~~~G~~~~-~p~~~lsf 525 (552)
T TIGR01178 451 SNDEDLALAVNKLIQIGGGLCAAK--NGEVTIILPLPIAGLMSDDSAERVAEQIIALNDKCRNVGGSRD-NPFLTLSF 525 (552)
T ss_pred CCHHHHHHHHHHHHHhCCcEEEEE--CCEEEEEecccccccccCCCHHHHHHHHHHHHHHHHHcCCCCC-ChHHHHHH
Confidence 369999999999999999998864 3356667774 233334444555665554222 35555555
No 29
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=61.61 E-value=17 Score=30.63 Aligned_cols=78 Identities=23% Similarity=0.276 Sum_probs=52.9
Q ss_pred cchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEECCE-EEEEec
Q 027804 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKK-KLVRSV 171 (218)
Q Consensus 93 gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k-~~vrSv 171 (218)
.+|||-.--.+++ ..+|--+..++-.++.. .||.+++..|++.|..+| +|+-++. +|+++.
T Consensus 22 ~~W~~~~ir~l~~-------l~~~~~d~~~iak~l~p-------~is~~ev~~sL~~L~~~g----li~k~~~g~y~~t~ 83 (171)
T PF14394_consen 22 SSWYHPAIRELLP-------LMPFAPDPEWIAKRLRP-------KISAEEVRDSLEFLEKLG----LIKKDGDGKYVQTD 83 (171)
T ss_pred hhhHHHHHHHHhh-------cCCCCCCHHHHHHHhcC-------CCCHHHHHHHHHHHHHCC----CeEECCCCcEEEec
Confidence 4677765444443 34455578888877765 699999999999999988 5555544 777766
Q ss_pred C-----CCcch-----hHHHHHHHHhh
Q 027804 172 P-----TELNK-----DHNQILELAQV 188 (218)
Q Consensus 172 P-----~ELs~-----Dq~~vLe~a~~ 188 (218)
+ .|... =|...+++|..
T Consensus 84 ~~l~~~~~~~~~avr~~h~q~~~lA~~ 110 (171)
T PF14394_consen 84 KSLTTSSEIPSEAVRSYHKQMLELAQE 110 (171)
T ss_pred ceeeCCCCCcHHHHHHHHHHHHHHHHH
Confidence 4 23322 37777777765
No 30
>TIGR03793 TOMM_pelo TOMM propeptide domain. This model represents a domain that is conserved among a large number of putative thiazole/oxazole-modified microcins (TOMM). Oddly, most of this seqence region appears homologous to nitrile hydratase subunits. This family is expanded especially in Pelotomaculum thermopropionicum SI.
Probab=61.10 E-value=22 Score=26.46 Aligned_cols=32 Identities=22% Similarity=0.351 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHhhccccCChhHHHHH----HHHHHhcCCCCCC
Q 027804 42 FRSQLEDFARKHKNDIRKNPTFRSQF----HEMCAKVGVDPLA 80 (218)
Q Consensus 42 F~~~L~~FA~kH~~eI~~dP~FR~~F----~~MC~siGVDPLa 80 (218)
|...+...|- +||+||+++ +..|...|++...
T Consensus 5 ~ea~ivarAw-------~Dp~Fr~~Ll~DPraaL~e~G~~~P~ 40 (77)
T TIGR03793 5 FEEKIIAKAW-------EDEAFKQALLTNPKEALEREGVQVPA 40 (77)
T ss_pred HHHHHHHHHH-------cCHHHHHHHHHCHHHHHHHhCCCCCC
Confidence 4445554444 799999999 8899999999664
No 31
>PF05600 DUF773: Protein of unknown function (DUF773); InterPro: IPR008491 This family contains several eukaryotic sequences which are thought to be CDK5 activator-binding proteins, however, the function of this family is unknown.
Probab=61.09 E-value=17 Score=35.78 Aligned_cols=44 Identities=27% Similarity=0.559 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCC
Q 027804 34 LMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVD 77 (218)
Q Consensus 34 ~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVD 77 (218)
.+++|++..+..+++.-+|...--+.--..+.+|.++|..+||.
T Consensus 128 ~lkKqi~k~~q~~~d~~kk~~e~~~~~~~~~~~~~~~c~~lGI~ 171 (507)
T PF05600_consen 128 ALKKQIAKCQQQLEDLDKKEEELQRSAAEARERYKKACKQLGIK 171 (507)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 88999999999999877766665566667999999999999999
No 32
>cd00576 RNR_PFL Ribonucleotide reductase and Pyruvate formate lyase. Ribonucleotide reductase (RNR) and pyruvate formate lyase (PFL) are believed to have diverged from a common ancestor. They have a structurally similar ten-stranded alpha-beta barrel domain that hosts the active site, and are radical enzymes. RNRs are found in all organisms and provide the only mechanism by which nucleotides are converted to deoxynucleotides. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs use a diiron-tyrosyl radical while Class II RNRs use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. PFL, an essential enzyme in anaerobic bacteria, catalyzes the conversion of pyruvate and CoA to acteylCoA and formate in a mechanism that uses a glycyl radical.
Probab=60.78 E-value=52 Score=30.06 Aligned_cols=104 Identities=17% Similarity=0.144 Sum_probs=65.4
Q ss_pred chHHHHHHHHHHHhhhccccCCCcccHHHHH----HHHHhhcCCCCCCCCHHHHHHHHhhcc-------ccC--CceEEE
Q 027804 94 DFYYELGVQIVEICLATRPHNGGLINLQELC----NLLRQRRKSNREAVSEDDCLRAISKLK-------VLG--NGYEVI 160 (218)
Q Consensus 94 dFyyeLaVqIvEvC~~tr~~NGGli~l~el~----~~v~k~rg~~~~~IS~dDI~rAi~~L~-------~LG--~Gf~vi 160 (218)
+||..+....-.+.....+.|||=+++..+- -...+-++. ..+++++++.+++.+. ..| .|+..+
T Consensus 47 ~~~eai~~~~~~~~~~~~~~~~ggv~~~~~d~~l~p~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 124 (401)
T cd00576 47 SINEAIQKTYQIIALAASNQNGGGVSFARASSILSPYGSRDYAK--GSGTETDAVEAADAFNLALKEVGQGNGRTGAATG 124 (401)
T ss_pred CHHHHHHHHHHHHHHHHHhccCCccCCchhhhhhhHHHHhhhhc--CCCChHHHHHHHHHHHHHHhhhhhcCCCCceEEE
Confidence 5556666555555555666677777777633 333333321 2578999999887764 222 667888
Q ss_pred EECCEEEEEecCCCcchhHHHHHHHHhhccccccccccCcchhH
Q 027804 161 SVGKKKLVRSVPTELNKDHNQILELAQVTSILYQCFPFPHISFG 204 (218)
Q Consensus 161 ~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~~~~~~~~~~~~~~ 204 (218)
.+|+.. +.+-+.|.-.+|++.....--...+++|.+|+.
T Consensus 125 ~lg~~~-----~~~~~~~~~~~l~~~~~~~~~~~~~~~p~~sv~ 163 (401)
T cd00576 125 FIGGVH-----KGKGDKISQEFLNLALANGGEGIPLNFPNLSVR 163 (401)
T ss_pred EECCCC-----ccccCHHHHHHHHHHHhcCCCCccCCCCcEEEE
Confidence 887642 336667888889888775532224678887764
No 33
>PF09733 VEFS-Box: VEFS-Box of polycomb protein; InterPro: IPR019135 The VEFS-Box is found in the the C-terminal region of the VRN2, EMF2, FIS2, and Su(z)12 polycomb proteins. This domain is characterised by an acidic cluster and a tryptophan/methionine-rich sequence, the acidic-W/M domain []. In some proteins the VEFS-Box is associated with a zinc-finger domain located roughly 100 residues towards the N terminus. These proteins are part of the polycomb cluster of proteins which control HOX gene transcription as it functions in heterochromatin-mediated repression [].
Probab=60.44 E-value=11 Score=31.02 Aligned_cols=30 Identities=23% Similarity=0.338 Sum_probs=26.2
Q ss_pred HHHHHHHHHhhccccCChhHHHHHHHHHHh
Q 027804 44 SQLEDFARKHKNDIRKNPTFRSQFHEMCAK 73 (218)
Q Consensus 44 ~~L~~FA~kH~~eI~~dP~FR~~F~~MC~s 73 (218)
.+.+.|++.|+.+|.++|.++..|..-+.+
T Consensus 92 ~ac~~Fv~~~~~~L~~~~~l~~~f~lHl~~ 121 (140)
T PF09733_consen 92 WACEAFVREHGQWLVEKPNLRREFLLHLIN 121 (140)
T ss_pred HHHHHHHHHhHHHHhhChhHHHHHHHHHHH
Confidence 589999999999999999999999864443
No 34
>PRK10027 cryptic adenine deaminase; Provisional
Probab=60.27 E-value=12 Score=37.36 Aligned_cols=63 Identities=19% Similarity=0.297 Sum_probs=40.8
Q ss_pred CCHHHHHHHHhhccccCCceEEEEECCEEEEEecCC------------CcchhHHHHHHHHhhccccccccccCcchh
Q 027804 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT------------ELNKDHNQILELAQVTSILYQCFPFPHISF 203 (218)
Q Consensus 138 IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~------------ELs~Dq~~vLe~a~~~~~~~~~~~~~~~~~ 203 (218)
-+++|+..|++.|..+|+|+.++. +.+.+-++|- |+......+-+.+...|.-.. -||-.+||
T Consensus 483 ~~~~dm~~A~~~l~~~~GG~vvv~--~g~v~a~lpLpiaGlmS~~~~~~v~~~~~~l~~~~~~lG~~~~-~p~mtlsf 557 (588)
T PRK10027 483 RSAEEMALAVNQVIQDGGGLCVVR--NGQVQSHLPLPIAGLMSTDTAQSLAEQIDALKAAARECGPLPD-EPFIQMAF 557 (588)
T ss_pred CCHHHHHHHHHHHHHhCCcEEEEE--CCEEEEEeccccccccCCCCHHHHHHHHHHHHHHHHHcCCCCC-ChHHHHHH
Confidence 479999999999999999998864 4456666764 233344455555666553111 35545554
No 35
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.91 E-value=30 Score=31.28 Aligned_cols=99 Identities=24% Similarity=0.372 Sum_probs=58.1
Q ss_pred HHHHHHHHhh-ccccCChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHH
Q 027804 45 QLEDFARKHK-NDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQEL 123 (218)
Q Consensus 45 ~L~~FA~kH~-~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el 123 (218)
.+++++.+.+ .+++.+-+.-++-...-..+|--|.... |.- .-+.|=+|+- ||
T Consensus 75 ~~~~~~~s~~~~~~t~~~~ie~~l~~l~~~aG~v~V~G~-Gl~---ITi~d~~~~~--------------~~-------- 128 (247)
T COG3879 75 DLENKLDSVRRSVLTDDAALEDRLEKLRMLAGSVPVTGP-GLV---ITIDDPGYSP--------------NG-------- 128 (247)
T ss_pred HHHHHHHHHHHhHHhHHHHHHHHHHHHHHHhccCCCcCC-cEE---EEecCCCCCc--------------cc--------
Confidence 4555554443 5666677777667777778888877632 220 1122322221 11
Q ss_pred HHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEEC-----CEEEEEecCCCcchh
Q 027804 124 CNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVG-----KKKLVRSVPTELNKD 178 (218)
Q Consensus 124 ~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig-----~k~~vrSvP~ELs~D 178 (218)
-+...+-|.++||..=|+.|..=| =+-|.|| ..+|||.++.-+.-|
T Consensus 129 -------~~~~~~vv~~~dl~~viNeL~~sG--AEaIsIn~~RI~~~t~Ir~v~g~~~vd 179 (247)
T COG3879 129 -------VGPNSQVVHDDDLQAVINELNISG--AEAISINGQRIGSNTTIRCVGGTLLVD 179 (247)
T ss_pred -------CCCCccccCHHHHHHHHHHHHhcc--chheeECCEEeecceEEEecCCeEEEC
Confidence 122235789999888888888744 4556555 467888888755444
No 36
>KOG0027 consensus Calmodulin and related proteins (EF-Hand superfamily) [Signal transduction mechanisms]
Probab=57.75 E-value=79 Score=25.18 Aligned_cols=96 Identities=15% Similarity=0.350 Sum_probs=63.4
Q ss_pred HHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCC
Q 027804 37 EQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGG 116 (218)
Q Consensus 37 ~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGG 116 (218)
.+...++.+...|-+.+.+-|... .+.....++|..|-.. .+.++=...-....|
T Consensus 5 ~~~~el~~~F~~fD~d~~G~i~~~-----el~~~lr~lg~~~t~~--------------------el~~~~~~~D~dg~g 59 (151)
T KOG0027|consen 5 EQILELKEAFQLFDKDGDGKISVE-----ELGAVLRSLGQNPTEE--------------------ELRDLIKEIDLDGDG 59 (151)
T ss_pred HHHHHHHHHHHHHCCCCCCcccHH-----HHHHHHHHcCCCCCHH--------------------HHHHHHHHhCCCCCC
Confidence 456677888888887777666544 5667788888886542 111222222223678
Q ss_pred cccHHHHHHHHHhhcCCCCCC-CCHHHHHHHHhhccccCCce
Q 027804 117 LINLQELCNLLRQRRKSNREA-VSEDDCLRAISKLKVLGNGY 157 (218)
Q Consensus 117 li~l~el~~~v~k~rg~~~~~-IS~dDI~rAi~~L~~LG~Gf 157 (218)
-|++.|.+..+.+........ -+.+++..|-+.+-.=|+||
T Consensus 60 ~I~~~eF~~l~~~~~~~~~~~~~~~~el~eaF~~fD~d~~G~ 101 (151)
T KOG0027|consen 60 TIDFEEFLDLMEKLGEEKTDEEASSEELKEAFRVFDKDGDGF 101 (151)
T ss_pred eEcHHHHHHHHHhhhcccccccccHHHHHHHHHHHccCCCCc
Confidence 899999998888765433222 25668888888888888886
No 37
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=56.62 E-value=16 Score=27.46 Aligned_cols=66 Identities=15% Similarity=0.142 Sum_probs=49.3
Q ss_pred HHHHHHhcCCC--CCCCCCCccccccCc---------cchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCC
Q 027804 67 FHEMCAKVGVD--PLASNKGFWAELLGI---------GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNR 135 (218)
Q Consensus 67 F~~MC~siGVD--PLas~k~~ws~~lG~---------gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~ 135 (218)
-...|..+|-| .|+ .-||+ .++-..+..|+.++...=+.++|.--++..|.+.+.+
T Consensus 7 l~~ia~~LG~dW~~LA-------~eLg~s~~dI~~i~~e~p~~~~~q~~~lL~~W~~r~g~~At~~~L~~aL~~------ 73 (84)
T cd08803 7 MAIVADHLGLSWTELA-------RELNFSVDEINQIRVENPNSLIAQSFMLLKKWVTRDGKNATTDALTSVLTK------ 73 (84)
T ss_pred HHHHHHHhhccHHHHH-------HHcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHH------
Confidence 55778888877 333 12443 2445667788888888888889888889999999987
Q ss_pred CCCCHHHHHHHH
Q 027804 136 EAVSEDDCLRAI 147 (218)
Q Consensus 136 ~~IS~dDI~rAi 147 (218)
|-.+||+.++
T Consensus 74 --i~R~DIv~~~ 83 (84)
T cd08803 74 --INRIDIVTLL 83 (84)
T ss_pred --CCcHHHHHhc
Confidence 7888998875
No 38
>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=53.25 E-value=29 Score=32.99 Aligned_cols=52 Identities=17% Similarity=0.284 Sum_probs=43.7
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhcccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSIL 192 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~~ 192 (218)
..|.+|+.++++.++....|+.+ +-.+|--.|.|=..|....++++...+.-
T Consensus 276 ~~t~~~~~~~v~~lr~~~~gi~i----~~d~IvG~PgET~ed~~~tl~~l~~l~~~ 327 (437)
T PRK14331 276 GYTKEEYLEKIELLKEYIPDITF----STDIIVGFPTETEEDFEETLDVLKKVEFE 327 (437)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----ecCEEEECCCCCHHHHHHHHHHHHhcCcc
Confidence 47999999999999987667765 44678889999999999999999987753
No 39
>TIGR02833 spore_III_AB stage III sporulation protein AB. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage III sporulation protein AB.
Probab=51.58 E-value=19 Score=30.14 Aligned_cols=55 Identities=15% Similarity=0.253 Sum_probs=44.5
Q ss_pred HHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCC
Q 027804 15 VARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGV 76 (218)
Q Consensus 15 ~~~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGV 76 (218)
++.+...++|.+|-..+.+.-.++++...+.|+.=..+.+.+.++| .+|+.++||
T Consensus 105 ~d~eiL~~lG~~LG~~D~e~Q~k~i~L~~~~L~~~~~~a~~~~~k~-------~Kmy~~LGv 159 (170)
T TIGR02833 105 SEKEILLQFGKTLGESDREGQQKHINLTLEHLERQLTEAEDEQKKN-------EKMYRYLGV 159 (170)
T ss_pred HHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-------ccHHHHHHH
Confidence 5688888999999988888888888888888888777777766666 578888886
No 40
>COG3877 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.77 E-value=53 Score=26.49 Aligned_cols=35 Identities=26% Similarity=0.467 Sum_probs=26.7
Q ss_pred HHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCC
Q 027804 45 QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASN 82 (218)
Q Consensus 45 ~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~ 82 (218)
+|.+--+.-+ .+-|++|.+|-+....+|..|.+-.
T Consensus 59 nlKEvEr~lg---~sYptvR~kld~vlramgy~p~~e~ 93 (122)
T COG3877 59 NLKEVERELG---ISYPTVRTKLDEVLRAMGYNPDSEN 93 (122)
T ss_pred CHHHHHHHHC---CccHHHHHHHHHHHHHcCCCCCCCC
Confidence 5554333333 3689999999999999999999854
No 41
>PRK08307 stage III sporulation protein SpoAB; Provisional
Probab=49.27 E-value=22 Score=29.85 Aligned_cols=55 Identities=13% Similarity=0.185 Sum_probs=44.7
Q ss_pred HHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCC
Q 027804 15 VARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGV 76 (218)
Q Consensus 15 ~~~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGV 76 (218)
++.+...++|.+|-..+.+.-.++++...+.|+.=..+.+.+.++|. +|+.++||
T Consensus 106 ~d~eiL~~lg~~LG~~D~e~Q~k~i~L~~e~L~~~~~~a~~~~~k~~-------Kmy~~LGv 160 (171)
T PRK08307 106 EDIEILLQFGKTLGQSDREGQQKHIRLALEHLEREEEEAEEEQKKNE-------KMYKYLGF 160 (171)
T ss_pred HHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-------cHHHHHHH
Confidence 67888889999999888888888888888888887777777776664 77888775
No 42
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=48.89 E-value=34 Score=25.57 Aligned_cols=51 Identities=20% Similarity=0.294 Sum_probs=36.1
Q ss_pred CcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcch
Q 027804 116 GLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNK 177 (218)
Q Consensus 116 Gli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~ 177 (218)
.-+|-++|-+.+ -+|...|-+.|+.|+ ..|++|..+.++-|.-.-|..|..
T Consensus 18 ~~~SGe~La~~L---------giSRtaVwK~Iq~Lr--~~G~~I~s~~~kGY~L~~~~~ll~ 68 (79)
T COG1654 18 NFVSGEKLAEEL---------GISRTAVWKHIQQLR--EEGVDIESVRGKGYLLPQLPDLLP 68 (79)
T ss_pred CcccHHHHHHHH---------CccHHHHHHHHHHHH--HhCCceEecCCCceeccCccccCc
Confidence 345555555444 389999999999999 567999999887665444445443
No 43
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=48.89 E-value=1.3e+02 Score=24.47 Aligned_cols=54 Identities=20% Similarity=0.328 Sum_probs=40.7
Q ss_pred HHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEEC
Q 027804 101 VQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVG 163 (218)
Q Consensus 101 VqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig 163 (218)
..|+++.....+. ++..||+..+.+.. +.||..=|-|+++.|.-+|- ...+..+
T Consensus 24 ~~vl~~L~~~~~~----~sAeei~~~l~~~~----p~islaTVYr~L~~l~e~Gl-v~~~~~~ 77 (145)
T COG0735 24 LAVLELLLEADGH----LSAEELYEELREEG----PGISLATVYRTLKLLEEAGL-VHRLEFE 77 (145)
T ss_pred HHHHHHHHhcCCC----CCHHHHHHHHHHhC----CCCCHhHHHHHHHHHHHCCC-EEEEEeC
Confidence 4566666654333 99999999999843 46999999999999998885 4444553
No 44
>COG0309 HypE Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=48.53 E-value=12 Score=35.30 Aligned_cols=37 Identities=24% Similarity=0.492 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhccccCChh---HHHHHHHHHHhcCCCCCC
Q 027804 44 SQLEDFARKHKNDIRKNPT---FRSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 44 ~~L~~FA~kH~~eI~~dP~---FR~~F~~MC~siGVDPLa 80 (218)
..|-++|.+-+-.|+=+.+ +|..-+.+|.-+|+|||.
T Consensus 232 ~aLnEmA~aSgvgi~I~ee~Ipv~~eVr~vce~lGiDPl~ 271 (339)
T COG0309 232 GALNEMAEASGVGISIEEEKIPVREEVRGVCELLGLDPLE 271 (339)
T ss_pred HHHHHHHHHcCCeEEEeeccccccHHHHHHHHHhCCCHHH
Confidence 3788999998886655444 777888999999999995
No 45
>PF09079 Cdc6_C: CDC6, C terminal ; InterPro: IPR015163 The C-terminal domain of CDC6 assumes a winged helix fold, with a five alpha-helical bundle (alpha15-alpha19) structure, backed on one side by three beta strands (beta6-beta8). It has been shown that this domain acts as a DNA-localisation factor, however its exact function is, as yet, unknown. Putative functions include: (1) mediation of protein-protein interactions and (2) regulation of nucleotide binding and hydrolysis. Mutagenesis studies have shown that this domain is essential for appropriate Cdc6 activity []. ; PDB: 2QBY_A 2V1U_A 1W5T_A 1W5S_B 1FNN_B.
Probab=48.53 E-value=17 Score=26.43 Aligned_cols=27 Identities=30% Similarity=0.794 Sum_probs=17.4
Q ss_pred hccccCChhHHHHHHHHHHhcCCCCCCC
Q 027804 54 KNDIRKNPTFRSQFHEMCAKVGVDPLAS 81 (218)
Q Consensus 54 ~~eI~~dP~FR~~F~~MC~siGVDPLas 81 (218)
..+++.-..+ ...++.|.++|+||++.
T Consensus 13 ~~~~~~~~vy-~~Y~~lc~~~~~~pls~ 39 (85)
T PF09079_consen 13 KEEVTTGEVY-EVYEELCESLGVDPLSY 39 (85)
T ss_dssp SSSEEHHHHH-HHHHHHHHHTTS----H
T ss_pred CCceeHHHHH-HHHHHHHHHcCCCCCCH
Confidence 3566665555 58999999999999984
No 46
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=47.14 E-value=22 Score=25.05 Aligned_cols=46 Identities=20% Similarity=0.285 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccccCChh-HHHHHHHHHHhcCCCC
Q 027804 32 TDLMKEQLATFRSQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDP 78 (218)
Q Consensus 32 ~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~-FR~~F~~MC~siGVDP 78 (218)
+++++.++..=...|+..=...-+.+ .+|. .|.-.+++|.-+|+||
T Consensus 13 l~~va~~t~I~~~~l~aiE~~~~~~l-p~~~y~rg~lr~Ya~~Lgld~ 59 (62)
T PF13413_consen 13 LEDVAEETKISVSYLEAIENGDFDSL-PSPVYARGYLRKYARFLGLDP 59 (62)
T ss_dssp HHHHHHHCS--HHHHHHHHCT-GCCS-SSHHHHHHHHHHHHHHTT--H
T ss_pred HHHHHHHhCCCHHHHHHHHCcChhhC-CcHHHHHHHHHHHHHHhCcCc
Confidence 55666666655555554322223333 3554 6999999999999996
No 47
>PF15112 DUF4559: Domain of unknown function (DUF4559)
Probab=46.70 E-value=92 Score=29.12 Aligned_cols=97 Identities=20% Similarity=0.298 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhccccCChhHH---HHHHHHHH---hcCCCCCCCCCCccccccCccchHHHHHHHHHHHhh
Q 027804 35 MKEQLATFRSQLEDFARKHKNDIRKNPTFR---SQFHEMCA---KVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICL 108 (218)
Q Consensus 35 L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR---~~F~~MC~---siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~ 108 (218)
-+.+|..|+.+|.+|++ +.+.+|+.- .+-.+|.. +++++++.-..|.-+ -.++|.+.. +|.|+|.
T Consensus 161 s~~wm~~~~~~i~nll~----~f~~ipe~~~a~~~Ie~ll~~d~~v~~~~~d~~Dg~~~----~~~~~~~~~-~i~e~e~ 231 (307)
T PF15112_consen 161 SSQWMRDFQMKIQNLLN----EFRNIPEIVAAGSRIEQLLTSDWAVHIPEEDQRDGCES----ETDVYLSES-QILEIEM 231 (307)
T ss_pred CHHHHHHHHHHHHHHHH----HhccChHHHHHHHHHHHHHhhhhhhcCchhhccchhhh----ccchhhhHH-HHHHHHH
Confidence 36789999999999999 556688754 44555553 377777754433322 246666653 4777776
Q ss_pred hccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc
Q 027804 109 ATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK 151 (218)
Q Consensus 109 ~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~ 151 (218)
+-..+- +.|++.. .+.+.++++.+.+.++.++
T Consensus 232 e~Lke~-----lqel~~~------~e~~~~~~ee~~~~l~~~~ 263 (307)
T PF15112_consen 232 ELLKEK-----LQELYLQ------AEEQEVLPEEDSKRLEVLK 263 (307)
T ss_pred HHHHHH-----HHHHHHH------HhhccccchhhhHHHHHHH
Confidence 643322 2333222 2224566666666666654
No 48
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=46.25 E-value=57 Score=21.38 Aligned_cols=37 Identities=32% Similarity=0.340 Sum_probs=28.8
Q ss_pred ccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEECCE
Q 027804 118 INLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKK 165 (218)
Q Consensus 118 i~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k 165 (218)
++.+||-+.++ ||+.-|.+-++.|+..| +.|....|+
T Consensus 16 it~~eLa~~l~---------vS~rTi~~~i~~L~~~~--~~I~~~~~~ 52 (55)
T PF08279_consen 16 ITAKELAEELG---------VSRRTIRRDIKELREWG--IPIESKRGK 52 (55)
T ss_dssp BEHHHHHHHCT---------S-HHHHHHHHHHHHHTT---EEEEETTT
T ss_pred cCHHHHHHHhC---------CCHHHHHHHHHHHHHCC--CeEEeeCCC
Confidence 89999887754 89999999999999988 666655554
No 49
>COG3710 CadC DNA-binding winged-HTH domains [Transcription]
Probab=45.38 E-value=19 Score=29.69 Aligned_cols=53 Identities=23% Similarity=0.291 Sum_probs=41.4
Q ss_pred HHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc-ccC
Q 027804 97 YELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK-VLG 154 (218)
Q Consensus 97 yeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~-~LG 154 (218)
+.|+-+-.++....-+.-|.+++=+||..+|=..|. ++++++-++|..|+ .|+
T Consensus 30 v~l~~~~~~lL~~L~e~~geVvsk~eL~~~VW~~~~-----v~~~~Ltq~I~~LRr~L~ 83 (148)
T COG3710 30 VKLGPRELKLLSLLLERAGEVVSKDELLDAVWPGRI-----VTVNTLTQAISALRRALR 83 (148)
T ss_pred EEecHHHHHHHHHHHhccCceecHHHHHHHhCCCce-----EccChHHHHHHHHHHHHh
Confidence 345555566666666678999999999999998775 88889999999995 454
No 50
>KOG1043 consensus Ca2+-binding transmembrane protein LETM1/MRS7 [Function unknown]
Probab=45.21 E-value=1.6e+02 Score=29.33 Aligned_cols=101 Identities=22% Similarity=0.295 Sum_probs=73.6
Q ss_pred HHHHHHHHHH--------HHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHH
Q 027804 34 LMKEQLATFR--------SQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVE 105 (218)
Q Consensus 34 ~L~~QL~~F~--------~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvE 105 (218)
++...+..|+ +.|..||+=-.+||.=|---|.+.-.||.-+++.|..+. .=+-|.|-.+|=+
T Consensus 257 ~fd~f~~kvr~~~~~~S~eeii~~aklf~de~~LdnLsR~qL~al~k~m~l~~~Gt~----------~~lr~~lr~kik~ 326 (499)
T KOG1043|consen 257 EFDRFLGKVRFIGLGVSTEEIIAFAKLFSDEITLDNLSRPQLVALCKYMDLNSFGTD----------KLLRYQLRKKIKE 326 (499)
T ss_pred HHHHHHHHhcccCCCccHHHHHHHHHHhccchhhhccCHHHHHHHHHhhcccccCch----------HHHHHHHHHHHHH
Confidence 7777788777 489999999999999999999999999999999988753 1345667777777
Q ss_pred HhhhccccC--CC--cccHHHHHHHHHhhcCCCCCCCCHHHHHH
Q 027804 106 ICLATRPHN--GG--LINLQELCNLLRQRRKSNREAVSEDDCLR 145 (218)
Q Consensus 106 vC~~tr~~N--GG--li~l~el~~~v~k~rg~~~~~IS~dDI~r 145 (218)
|-..-++.+ || ..++.|+...-+ .||+.+.-+++|++..
T Consensus 327 ik~dD~~I~~eg~v~~ls~~el~~aC~-~rgmra~gv~~e~l~~ 369 (499)
T KOG1043|consen 327 IKKDDKHIATEGAVESLSLLELQIACR-ERGMRALGVSEERLRE 369 (499)
T ss_pred hcccccchhhhhhhhHhhHHHHHHHHH-hhhcchhccchhhhhH
Confidence 766544444 43 344455554433 4777777788886443
No 51
>cd00213 S-100 S-100: S-100 domain, which represents the largest family within the superfamily of proteins carrying the Ca-binding EF-hand motif. Note that this S-100 hierarchy contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. Intracellularly, S100 proteins act as Ca-signaling or Ca-buffering proteins. The most unusual characteristic of certain S100 proteins is their occurrence in extracellular space, where they act in a cytokine-like manner through RAGE, the receptor for advanced glycation products. Structural data suggest that many S100 members exist within cells as homo- or heterodimers and even oligomers; oligomerization contributes to their functional diversification. Upon binding calcium, most S100 proteins change conformation to a more open structure exposing a hydrophobic cleft. This hydrophobic surface represents th
Probab=45.11 E-value=1.1e+02 Score=21.82 Aligned_cols=75 Identities=12% Similarity=0.179 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHHHH--HhhccccCChhHHHHHHHHHHh-cCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhc
Q 027804 34 LMKEQLATFRSQLEDFAR--KHKNDIRKNPTFRSQFHEMCAK-VGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLAT 110 (218)
Q Consensus 34 ~L~~QL~~F~~~L~~FA~--kH~~eI~~dP~FR~~F~~MC~s-iGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~t 110 (218)
++.+|+..++.....|-+ .+.+.|..+ .|.+++.. +|..+-.. ++ ...|-++....
T Consensus 2 ~~~~~~~~l~~~F~~~D~~~~~~G~Is~~-----el~~~l~~~~g~~~~~~----~~------------~~ei~~i~~~~ 60 (88)
T cd00213 2 ELEKAIETIIDVFHKYSGKEGDKDTLSKK-----ELKELLETELPNFLKNQ----KD------------PEAVDKIMKDL 60 (88)
T ss_pred hHHHHHHHHHHHHHHHhhccCCCCcCcHH-----HHHHHHHHHhhhhccCC----CC------------HHHHHHHHHHh
Confidence 567899999999999999 688888653 44555554 44321100 00 01122233333
Q ss_pred cccCCCcccHHHHHHHHHh
Q 027804 111 RPHNGGLINLQELCNLLRQ 129 (218)
Q Consensus 111 r~~NGGli~l~el~~~v~k 129 (218)
-..+.|.|+++|.+..+.+
T Consensus 61 d~~~~g~I~f~eF~~~~~~ 79 (88)
T cd00213 61 DVNKDGKVDFQEFLVLIGK 79 (88)
T ss_pred ccCCCCcCcHHHHHHHHHH
Confidence 3344688999999887765
No 52
>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=44.97 E-value=59 Score=31.24 Aligned_cols=51 Identities=10% Similarity=0.307 Sum_probs=43.9
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+++.+|++.++..+.|+.+- ..+|--.|.|=-.|....++++...++
T Consensus 282 ~~t~~~~~~~i~~lr~~~p~i~i~----td~IvGfPgET~edf~~tl~~v~~l~~ 332 (449)
T PRK14332 282 SYSKEEFLDVVKEIRNIVPDVGIT----TDIIVGFPNETEEEFEDTLAVVREVQF 332 (449)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEEE----EEEEeeCCCCCHHHHHHHHHHHHhCCC
Confidence 479999999999999887777663 368888999999999999999998775
No 53
>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=44.67 E-value=55 Score=31.26 Aligned_cols=52 Identities=17% Similarity=0.265 Sum_probs=44.7
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhcccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSIL 192 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~~ 192 (218)
..|.+|+.++++.++..+.|+.+ ...+|--.|.|=-.|...-++.+...++-
T Consensus 280 ~~t~e~~~~~v~~lr~~~~~i~i----~~d~IvG~PgET~ed~~~tl~~l~~~~~~ 331 (446)
T PRK14337 280 KYDMARYLDIVTDLRAARPDIAL----TTDLIVGFPGETEEDFEQTLEAMRTVGFA 331 (446)
T ss_pred CCCHHHHHHHHHHHHHhCCCCeE----EEeEEEECCCCCHHHHHHHHHHHHhcCCC
Confidence 47899999999999988777755 45688999999999999999999987763
No 54
>TIGR02384 RelB_DinJ addiction module antitoxin, RelB/DinJ family. Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all were found adjacent to toxin genes. The resulting model appears to describe a narrower set of proteins than Pfam model pfam04221, although many in the scope of this model are not obviously paired with toxin proteins. Several toxin/antitoxin pairs may occur in a single species.
Probab=44.52 E-value=18 Score=27.00 Aligned_cols=25 Identities=16% Similarity=0.388 Sum_probs=22.0
Q ss_pred cccCChhHHHHHHHHHHhcCCCCCC
Q 027804 56 DIRKNPTFRSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 56 eI~~dP~FR~~F~~MC~siGVDPLa 80 (218)
.+|=|++.+.++.+.|.++|++|-.
T Consensus 6 ~~Rvd~~lK~~a~~i~~~lGl~~s~ 30 (83)
T TIGR02384 6 SIRIDEELKKEAYAVFEELGLTPST 30 (83)
T ss_pred EEeeCHHHHHHHHHHHHHhCCCHHH
Confidence 4677999999999999999999753
No 55
>cd02905 Macro_GDAP2_like Macro domain, GDAP2_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly ADP-ribose as a ligand. Previously identified as displaying an Appr-1"-p (ADP-ribose-1"-monophosphate) processing activity, the macro domain may play roles in distinct ADP-ribose pathways, such as the ADP-ribosylation of proteins, an important post-translational modification which occurs in DNA repair, transcription, chromatin biology, and long-term memory formation, among other processes. This family contains proteins similar to human GDAP2, the ganglioside induced differentiation associated protein 2, whose gene is expressed at a higher level in differentiated Neuro2a cells compared with non-differentiated cells. GDAP2 contains an N-terminal macro domain and a C-terminal
Probab=44.08 E-value=30 Score=28.05 Aligned_cols=66 Identities=18% Similarity=0.214 Sum_probs=44.8
Q ss_pred HHHHHHHhhccccCCceEEEEECC----EEEEEec-CCC-----------cchhHHHHHHHHhhccccccccccCcchhH
Q 027804 141 DDCLRAISKLKVLGNGYEVISVGK----KKLVRSV-PTE-----------LNKDHNQILELAQVTSILYQCFPFPHISFG 204 (218)
Q Consensus 141 dDI~rAi~~L~~LG~Gf~vi~ig~----k~~vrSv-P~E-----------Ls~Dq~~vLe~a~~~~~~~~~~~~~~~~~~ 204 (218)
.++.+.|+.+..+..|=-+++-++ |+.|-.| |.- |..-...+|++|.++++ ..+-||-||=|
T Consensus 42 ~~l~~e~~~~~~~~~G~~~~T~~~~L~~k~VIH~vgP~~~~~~~~~~~~~L~~~~~~~L~~a~~~~~--~SIAfPai~tG 119 (140)
T cd02905 42 SELREEIQTLGGCRTGEAKLTKGYNLPARFIIHTVGPKYNVKYRTAAENALYSCYRNVLQLAKELGL--ESIALCVISSE 119 (140)
T ss_pred HHHHHHHHHhCCCCCCcEEEecCCCCCccEEEEecCCccCCCCCcHHHHHHHHHHHHHHHHHHHcCC--CEEEECCcccC
Confidence 356666777777777766666654 4555554 431 22234566899999998 89999999988
Q ss_pred HHHH
Q 027804 205 LFVF 208 (218)
Q Consensus 205 ~~~~ 208 (218)
.|-|
T Consensus 120 ~~gf 123 (140)
T cd02905 120 KRNY 123 (140)
T ss_pred CCCC
Confidence 7655
No 56
>cd07669 BAR_SNX33 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 33. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX33 interacts with Wiskott-Aldrich syndrome protein (WASP) and plays a role in the maintenance of cell shape and cell cycle progression. It modulates the shedding and endocytosis of cellular prion protein (PrP(c)) and amyloid precursor protein (APP). BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=43.65 E-value=51 Score=29.14 Aligned_cols=80 Identities=19% Similarity=0.315 Sum_probs=48.4
Q ss_pred HHHHHHHHHhhccccCChh-HHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHH
Q 027804 44 SQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQE 122 (218)
Q Consensus 44 ~~L~~FA~kH~~eI~~dP~-FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~e 122 (218)
..-.+|++++.+..+++=. .=..|+.|+.++.+||-..+.+.-..+-..|+=|-++|.-..|= ++. -++++.|
T Consensus 33 ~~~~e~~kk~~~~~kkEyqkiG~af~~LsqaFe~d~~~~s~~L~~Av~~tG~~y~~IG~~faeQ---pk~---D~~pl~d 106 (207)
T cd07669 33 NVASELVRKHLGGFRKEFQKLGNAFQAISHSFQLDPPYSSEALNNAISHTGRTYEAVGEMFAEQ---PKN---DLFQMLD 106 (207)
T ss_pred HHHHHHHHHHcccccHHHHHHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHhc---chh---hhhHHHH
Confidence 4567888888888887655 33459999999999986544333222222477777766544431 111 2455555
Q ss_pred HHHHHHh
Q 027804 123 LCNLLRQ 129 (218)
Q Consensus 123 l~~~v~k 129 (218)
.+..+..
T Consensus 107 ~L~~Y~G 113 (207)
T cd07669 107 TLSLYQG 113 (207)
T ss_pred HHHHHhC
Confidence 5554443
No 57
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=43.44 E-value=77 Score=25.74 Aligned_cols=30 Identities=7% Similarity=0.338 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 027804 29 KLRTDLMKEQLATFRSQLEDFARKHKNDIR 58 (218)
Q Consensus 29 ~~~~~~L~~QL~~F~~~L~~FA~kH~~eI~ 58 (218)
+.+...+..+++.|...|..|+..|+++..
T Consensus 38 ~~~~~~l~~~i~~l~~~l~~y~e~~r~e~~ 67 (149)
T PF07352_consen 38 EAEIAPLQNRIEYLEGLLQAYAEANRDELT 67 (149)
T ss_dssp HHHCHHHHHHHHHHHHHHHHHHHCTHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCHHhcc
Confidence 445568889999999999999999998655
No 58
>PF07240 Turandot: Stress-inducible humoral factor Turandot; InterPro: IPR010825 This family consists of several Drosophila species specific Turandot proteins. The Turandot A (TotA) gene encodes a humoral factor, which is secreted from the fat body and accumulates in the body fluids. TotA is strongly induced upon bacterial challenge, as well as by other types of stress such as high temperature, mechanical pressure, dehydration, UV irradiation, and oxidative agents. It is also upregulated during metamorphosis and at high age. Flies that overexpress TotA show prolonged survival and retain normal activity at otherwise lethal temperatures. Although TotA is only induced by severe stress, it responds to a much wider range of stimuli than heat shock genes such as hsp70 or immune genes such as Cecropin A1 [].
Probab=43.43 E-value=26 Score=26.84 Aligned_cols=29 Identities=17% Similarity=0.461 Sum_probs=19.7
Q ss_pred CCCCCCCCCCccccccCccchHHHHHHHHHH
Q 027804 75 GVDPLASNKGFWAELLGIGDFYYELGVQIVE 105 (218)
Q Consensus 75 GVDPLas~k~~ws~~lG~gdFyyeLaVqIvE 105 (218)
=||=+-+.+|+|+.+++ ..--.+|+.|++
T Consensus 49 lVDGvPaQGG~~~~i~~--~~i~~~a~~v~~ 77 (85)
T PF07240_consen 49 LVDGVPAQGGFWGKIVK--KIISPAAKSVAD 77 (85)
T ss_pred cccCcCCCCCchHHHHH--HHHHHHHHHHHH
Confidence 47866667899986643 566666766664
No 59
>cd07668 BAR_SNX9 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX9, also known as SH3PX1, is a cytosolic protein that interacts with proteins associated with clathrin-coated pits such as Cdc-42-associated tyrosine kinase 2 (ACK2). It binds class I polyproline sequences found in dynamin 1/2 and the WASP/N-WASP actin regulators. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosi
Probab=43.06 E-value=55 Score=28.96 Aligned_cols=78 Identities=10% Similarity=0.165 Sum_probs=48.3
Q ss_pred HHHHHHHHHhhccccCChh-HHHHHHHHHHhcCCCCCCCCCCccccccC-ccchHHHHHHHHHHHhhhccccCCCcccHH
Q 027804 44 SQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDPLASNKGFWAELLG-IGDFYYELGVQIVEICLATRPHNGGLINLQ 121 (218)
Q Consensus 44 ~~L~~FA~kH~~eI~~dP~-FR~~F~~MC~siGVDPLas~k~~ws~~lG-~gdFyyeLaVqIvEvC~~tr~~NGGli~l~ 121 (218)
..-.+|++++.+.++++=+ .=..|+.|+.++.+||-..+.+. ++.++ .|+=|-++|.-..|= ++. -++++.
T Consensus 33 ~~~~e~~kk~~~~~KkEyqkiG~af~~LsqaFe~d~~~~~~~L-~~Ai~~tg~~y~~IG~~faeQ---pk~---Dl~pl~ 105 (210)
T cd07668 33 TVGQEHWKRCTGPLPKEYQKIGKALQSLATVFSTSGYQGETDL-NDAITEAGKTYEEIASLVAEQ---PKK---DLHFLM 105 (210)
T ss_pred HHHHHHHHHHcccccHHHHHHHHHHHHHHHHHhcCCcccchHH-HHHHHHHHHHHHHHHHHHHhc---chh---hhHHHH
Confidence 4667889999998888765 44459999999999986544332 22232 367777766544331 111 255555
Q ss_pred HHHHHHH
Q 027804 122 ELCNLLR 128 (218)
Q Consensus 122 el~~~v~ 128 (218)
|.+..+.
T Consensus 106 d~L~~Y~ 112 (210)
T cd07668 106 ETNHEYK 112 (210)
T ss_pred HHHHHHh
Confidence 5554443
No 60
>smart00350 MCM minichromosome maintenance proteins.
Probab=42.95 E-value=50 Score=32.14 Aligned_cols=52 Identities=25% Similarity=0.300 Sum_probs=32.4
Q ss_pred HHHHHHHHHhhhccccCC-------------CcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc
Q 027804 98 ELGVQIVEICLATRPHNG-------------GLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK 151 (218)
Q Consensus 98 eLaVqIvEvC~~tr~~NG-------------Gli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~ 151 (218)
+....|++.+.++|.... .+++|-.+-+...|.++.. .|+++|+..|++.++
T Consensus 441 ~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~--~V~~~Dv~~ai~l~~ 505 (509)
T smart00350 441 EAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSD--VVEEADVEEAIRLLR 505 (509)
T ss_pred HHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCC--ccCHHHHHHHHHHHH
Confidence 445556677777775322 1244444444455555544 899999999999864
No 61
>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=41.60 E-value=66 Score=31.00 Aligned_cols=51 Identities=18% Similarity=0.297 Sum_probs=43.6
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+|+.++++.++..+.++.|- ..+|--.|.|=..|....++.+...++
T Consensus 304 ~~t~~~~~~~i~~ir~~~~~~~i~----~d~IvGfPgET~edf~~tl~~i~~l~~ 354 (467)
T PRK14329 304 KYTREWYLDRIDAIRRIIPDCGIS----TDMIAGFPTETEEDHQDTLSLMEEVGY 354 (467)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEEE----EeEEEeCCCCCHHHHHHHHHHHHhhCC
Confidence 578899999999999888777653 368889999999999999999998765
No 62
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=41.52 E-value=19 Score=32.82 Aligned_cols=21 Identities=19% Similarity=0.632 Sum_probs=16.4
Q ss_pred ChhHHHHHHHHHHhcCCCCCC
Q 027804 60 NPTFRSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 60 dP~FR~~F~~MC~siGVDPLa 80 (218)
-.++..+.+.+|..+|++|+.
T Consensus 318 ~~~i~~~y~~l~~~~~~~~~~ 338 (394)
T PRK00411 318 TGEVYEEYKELCEELGYEPRT 338 (394)
T ss_pred HHHHHHHHHHHHHHcCCCcCc
Confidence 345556788999999999985
No 63
>PHA02095 hypothetical protein
Probab=41.51 E-value=23 Score=26.64 Aligned_cols=23 Identities=30% Similarity=0.484 Sum_probs=20.7
Q ss_pred EEEEecCCCcchhHHHHHHHHhh
Q 027804 166 KLVRSVPTELNKDHNQILELAQV 188 (218)
Q Consensus 166 ~~vrSvP~ELs~Dq~~vLe~a~~ 188 (218)
..|.-||.+++.|.+.|++.|+.
T Consensus 58 ~~ii~vp~~~~~dyn~ii~wa~~ 80 (84)
T PHA02095 58 EHIVEVPDEMAGDYNEIISWAEK 80 (84)
T ss_pred eeeeeCchhhcccHHHHHHHHHh
Confidence 46788999999999999999986
No 64
>PF07818 HCNGP: HCNGP-like protein; InterPro: IPR012479 This family comprises sequences bearing significant similarity to the mouse transcriptional regulator protein HCNGP (Q02614 from SWISSPROT). This protein is localised to the nucleus and is thought to be involved in the regulation of beta-2-microglobulin genes.
Probab=41.03 E-value=35 Score=26.34 Aligned_cols=41 Identities=24% Similarity=0.489 Sum_probs=28.9
Q ss_pred CChhHHHHHHHHHHhcCCCCCCCC--CCccc-cccCccchHHHHHHH
Q 027804 59 KNPTFRSQFHEMCAKVGVDPLASN--KGFWA-ELLGIGDFYYELGVQ 102 (218)
Q Consensus 59 ~dP~FR~~F~~MC~siGVDPLas~--k~~ws-~~lG~gdFyyeLaVq 102 (218)
.||.+ +..+..-.|||..+|+ +..|- +.+.-.+||-+|+..
T Consensus 41 rNP~i---~ekLi~~~~Ide~gTn~p~~i~dP~~~~~~~y~e~L~k~ 84 (96)
T PF07818_consen 41 RNPSI---LEKLIEFFGIDEYGTNFPKDIFDPHGFPEEDYYEELAKA 84 (96)
T ss_pred CChHH---HHHHHHHcCCCcccCCCChhhcCCCCCCHHHHHHHHHHH
Confidence 47887 6677777899998765 44553 334457999998864
No 65
>TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125. This clade spans alpha and gamma proteobacteria, cyano bacteria, deinococcus, porphyromonas, aquifex, helicobacter, campylobacter, thermotoga, chlamydia, streptococcus coelicolor and clostridium, but does not include most other gram positive bacteria, archaea or eukaryotes.
Probab=40.82 E-value=73 Score=30.11 Aligned_cols=51 Identities=16% Similarity=0.239 Sum_probs=42.2
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+|+.++++.++..+.|+.+- -.+|--.|.|=..|....++++...++
T Consensus 266 ~~~~~~~~~~i~~l~~~~~~i~i~----~~~I~G~PgET~e~~~~t~~fl~~~~~ 316 (430)
T TIGR01125 266 PGSGEQQLDFIERLREKCPDAVLR----TTFIVGFPGETEEDFQELLDFVEEGQF 316 (430)
T ss_pred CCCHHHHHHHHHHHHHhCCCCeEe----EEEEEECCCCCHHHHHHHHHHHHhcCC
Confidence 468899999999999887776652 357777899988999999999998665
No 66
>PRK03187 tgl transglutaminase; Provisional
Probab=40.77 E-value=43 Score=30.77 Aligned_cols=43 Identities=30% Similarity=0.520 Sum_probs=29.0
Q ss_pred CCCCCC-CCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCC
Q 027804 77 DPLASN-KGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSN 134 (218)
Q Consensus 77 DPLas~-k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~ 134 (218)
||-.+. .|-|+-.|| +|.||.-+ =|+.+-++++..+|+.|...
T Consensus 180 ~p~tp~WqGeNaiyLg-n~~yyGHG--------------iGI~t~~~iI~~LN~~R~~~ 223 (272)
T PRK03187 180 NPATPEWQGENVIYLG-NGLYYGHG--------------IGIKTAEEIIYALNERRKPG 223 (272)
T ss_pred CCCCCcccceeEEEec-CCceeecc--------------cccccHHHHHHHHHhccCCC
Confidence 554332 344444466 45666643 49999999999999988754
No 67
>PHA02047 phage lambda Rz1-like protein
Probab=40.47 E-value=87 Score=24.70 Aligned_cols=30 Identities=13% Similarity=0.317 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHhhcccc
Q 027804 29 KLRTDLMKEQLATFRS---QLEDFARKHKNDIR 58 (218)
Q Consensus 29 ~~~~~~L~~QL~~F~~---~L~~FA~kH~~eI~ 58 (218)
+.|++.++.++...|. +|+..+.+-..||+
T Consensus 40 a~qLE~a~~r~~~~Q~~V~~l~~kae~~t~Ei~ 72 (101)
T PHA02047 40 TARLEALEVRYATLQRHVQAVEARTNTQRQEVD 72 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567777777777775 66666666666554
No 68
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=40.37 E-value=1.3e+02 Score=21.20 Aligned_cols=32 Identities=22% Similarity=0.559 Sum_probs=22.4
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCC
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT 173 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ 173 (218)
.+|.+++.+.++.| ||.+...++..|..++|.
T Consensus 18 ~i~~~~i~~~L~~l-----g~~~~~~~~~~~~v~vP~ 49 (70)
T PF03484_consen 18 DISPEEIIKILKRL-----GFKVEKIDGDTLEVTVPS 49 (70)
T ss_dssp ---HHHHHHHHHHT-----T-EEEE-CTTEEEEEEET
T ss_pred CCCHHHHHHHHHHC-----CCEEEECCCCEEEEEcCC
Confidence 58999998776665 577877799999999997
No 69
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=40.26 E-value=68 Score=24.14 Aligned_cols=67 Identities=13% Similarity=0.075 Sum_probs=48.9
Q ss_pred HHHHHHHhcCCC--CCCCCCCccccccCc---------cchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCC
Q 027804 66 QFHEMCAKVGVD--PLASNKGFWAELLGI---------GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSN 134 (218)
Q Consensus 66 ~F~~MC~siGVD--PLas~k~~ws~~lG~---------gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~ 134 (218)
++...|..||-| .|+ .-||+ .++=..+..|+.+....=++..|.-=+...|...+.+
T Consensus 6 ~l~~Ia~~LG~dW~~La-------r~L~vs~~dI~~I~~e~p~~l~~Q~~~~L~~W~~r~g~~At~~~L~~AL~~----- 73 (84)
T cd08805 6 KMAVIREHLGLSWAELA-------RELQFSVEDINRIRVENPNSLLEQSTALLNLWVDREGENAKMSPLYPALYS----- 73 (84)
T ss_pred HHHHHHHHhcchHHHHH-------HHcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcCccchHHHHHHHHHH-----
Confidence 377889999977 222 11443 2455557888888888888888888889999998887
Q ss_pred CCCCCHHHHHHHH
Q 027804 135 REAVSEDDCLRAI 147 (218)
Q Consensus 135 ~~~IS~dDI~rAi 147 (218)
+..+||+..+
T Consensus 74 ---i~R~div~~~ 83 (84)
T cd08805 74 ---IDRLTIVNML 83 (84)
T ss_pred ---CChHHHHHhh
Confidence 7788887654
No 70
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. 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-associati
Probab=39.83 E-value=39 Score=24.75 Aligned_cols=67 Identities=19% Similarity=0.244 Sum_probs=42.1
Q ss_pred HHHHHHHhcCCC--CCCCCCCccccccCcc---------chHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCC
Q 027804 66 QFHEMCAKVGVD--PLASNKGFWAELLGIG---------DFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSN 134 (218)
Q Consensus 66 ~F~~MC~siGVD--PLas~k~~ws~~lG~g---------dFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~ 134 (218)
+|...|..||-| .|+ .-||+. +.-..+-.|+.+....=+..+|.--++..|.+.+.+
T Consensus 6 ~l~~ia~~lG~dW~~LA-------r~Lg~~~~dI~~i~~~~~~~~~eq~~~mL~~W~~r~g~~at~~~L~~AL~~----- 73 (84)
T cd08317 6 RLADISNLLGSDWPQLA-------RELGVSETDIDLIKAENPNSLAQQAQAMLKLWLEREGKKATGNSLEKALKK----- 73 (84)
T ss_pred hHHHHHHHHhhHHHHHH-------HHcCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhcCCcchHHHHHHHHHH-----
Confidence 488899999877 333 124432 122234456666666667777777777777777776
Q ss_pred CCCCCHHHHHHHH
Q 027804 135 REAVSEDDCLRAI 147 (218)
Q Consensus 135 ~~~IS~dDI~rAi 147 (218)
|-..||...|
T Consensus 74 ---i~r~Di~~~~ 83 (84)
T cd08317 74 ---IGRDDIVEKC 83 (84)
T ss_pred ---cChHHHHHHh
Confidence 6667776654
No 71
>KOG1956 consensus DNA topoisomerase III alpha [Replication, recombination and repair]
Probab=39.68 E-value=25 Score=36.02 Aligned_cols=43 Identities=21% Similarity=0.430 Sum_probs=31.2
Q ss_pred HHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccC
Q 027804 98 ELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLG 154 (218)
Q Consensus 98 eLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG 154 (218)
-+|.+|++||++....- + |.|++=+ +||+.||..|++.|.-++
T Consensus 122 ~Ig~eI~~v~~~~~~~~-------~----V~RA~Fs---~it~~~I~sA~~nlreid 164 (758)
T KOG1956|consen 122 NIGWEIIDVCRAVKRLL-------Q----VRRARFS---EITRSAIKSAARNLREID 164 (758)
T ss_pred hhhHHHHHHHHhhCccc-------e----eehhhhh---cccHHHHHHHHhCccccc
Confidence 47999999999965522 2 4444432 599999999999876544
No 72
>PF14106 DUF4279: Domain of unknown function (DUF4279)
Probab=38.96 E-value=51 Score=24.99 Aligned_cols=50 Identities=14% Similarity=0.286 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccc---------cCC--hh--HHHHHHHHHHhcCCC
Q 027804 28 AKLRTDLMKEQLATFRSQLEDFARKHKNDI---------RKN--PT--FRSQFHEMCAKVGVD 77 (218)
Q Consensus 28 ~~~~~~~L~~QL~~F~~~L~~FA~kH~~eI---------~~d--P~--FR~~F~~MC~siGVD 77 (218)
.+.|+++|-++|+-.++.|.+++++|.-++ ..+ |. |-++...+|.++|.+
T Consensus 53 l~~~l~~ll~~L~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~l~~lg~e 115 (118)
T PF14106_consen 53 LEDHLEELLDRLEPKREIIKELKEKYNLEIQFFCYFSSISGGGFPAIYLSPEIIKFLAALGAE 115 (118)
T ss_pred HHHHHHHHHHHHcccHHHHHHHHHhcCcceEEEEEEEecCCCCCcccccCHHHHHHHHhhCCE
Confidence 457889999999999999999999998871 111 11 555666666666653
No 73
>PRK14325 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=38.95 E-value=80 Score=29.96 Aligned_cols=51 Identities=14% Similarity=0.243 Sum_probs=43.8
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+|+.+|++.++..+.|+.+ +-.+|--.|.|=-.|....++.+...++
T Consensus 280 ~~~~~~~~~~i~~lr~~~~gi~v----~~~~IvG~PgET~ed~~~tl~~i~~~~~ 330 (444)
T PRK14325 280 GHTALEYKSIIRKLRAARPDIAI----SSDFIVGFPGETDEDFEATMKLIEDVGF 330 (444)
T ss_pred CCCHHHHHHHHHHHHHHCCCCEE----EeeEEEECCCCCHHHHHHHHHHHHhcCC
Confidence 47899999999999998888766 4478888999999999999999998664
No 74
>PRK13436 F0F1 ATP synthase subunit delta; Provisional
Probab=38.85 E-value=1.6e+02 Score=24.57 Aligned_cols=131 Identities=16% Similarity=0.164 Sum_probs=68.6
Q ss_pred HHHHHhhHhHHHH--HHHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccc---cccCc
Q 027804 18 DQYRLLGENVAKL--RTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWA---ELLGI 92 (218)
Q Consensus 18 ~~y~~~g~~l~~~--~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws---~~lG~ 92 (218)
.+|+.-==+++.+ ++++...+|..+.+.+. +||+||.-|. ||..+....+. .+++
T Consensus 9 ~~YA~AL~~~a~e~~~l~~v~~~l~~~~~~~~-----------~~~~l~~~l~--------~P~i~~~~K~~~l~~l~~- 68 (179)
T PRK13436 9 YNYAEALFDIANEENNVEKYINEVFKIIEILK-----------NNKDLIKLLT--------SYFIDKEEKFKIIDKIFS- 68 (179)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH-----------cChHHHHHHc--------CCCCCHHHHHHHHHHHHh-
Confidence 4455433333332 45566666666555543 4788874332 56655433221 1122
Q ss_pred cchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHh----hcCCC------CCCCCHHHHHHHHhhcc-ccC-------
Q 027804 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQ----RRKSN------REAVSEDDCLRAISKLK-VLG------- 154 (218)
Q Consensus 93 gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k----~rg~~------~~~IS~dDI~rAi~~L~-~LG------- 154 (218)
+. .-+.....+.++. .||-+--+.+++..+.+ .++.. +.++|++.+.+-.+.|+ .+|
T Consensus 69 ~~-~~~~~~nfl~ll~----~~~R~~~l~~I~~~f~~~~~~~~~~~~~~V~sA~~Ls~~~~~~i~~~l~~~~g~~v~l~~ 143 (179)
T PRK13436 69 AK-IDIYLVNFLKILA----KNNLFIYIKQILKKFVKLSNEKLNITYGEIYTTEPLSEVQISRFESKLSKKLNKKVHLVN 143 (179)
T ss_pred cc-CCHHHHHHHHHHH----HCChHHHHHHHHHHHHHHHHHHcCeEEEEEEecCCCCHHHHHHHHHHHHHHHCCeEEEEe
Confidence 11 1222223333333 35666667776654443 44432 46899999988888886 222
Q ss_pred -------CceEEEEECCEEEEEecCCC
Q 027804 155 -------NGYEVISVGKKKLVRSVPTE 174 (218)
Q Consensus 155 -------~Gf~vi~ig~k~~vrSvP~E 174 (218)
+|+ ++.+|++-|=.|+-..
T Consensus 144 ~vDpslIGGi-~i~~gd~viD~Sik~~ 169 (179)
T PRK13436 144 KIDPKLIAGI-KIKVDNKVFENSIKSK 169 (179)
T ss_pred ecCHHHcCce-EEEECCEEeehhHHHH
Confidence 456 5677887775555433
No 75
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=38.76 E-value=1e+02 Score=26.89 Aligned_cols=15 Identities=20% Similarity=0.319 Sum_probs=12.5
Q ss_pred CCCHHHHHHHHhhcc
Q 027804 137 AVSEDDCLRAISKLK 151 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~ 151 (218)
.++++++.+|++.|.
T Consensus 112 ~~~~~~l~~~~~~i~ 126 (278)
T PRK11557 112 VNSEEKLHECVTMLR 126 (278)
T ss_pred hcCHHHHHHHHHHHh
Confidence 578899999988876
No 76
>PF04914 DltD_C: DltD C-terminal region; InterPro: IPR006998 The dlt operon (dltA to dltD) of Lactobacillus rhamnosus 7469 encodes four proteins responsible for the esterification of lipoteichoic acid (LTA) by D-alanine. These esters play an important role in controlling the net anionic charge of the poly (GroP) moiety of LTA. DltA and DltC encode the D-alanine-D-alanyl carrier protein ligase (Dcl) and D-alanyl carrier protein (Dcp), respectively. Whereas the functions of DltA and DltC are defined, the functions of DltB and DltD are unknown. In vitro assays showed that DltD bound Dcp for ligation with D-alanine by Dcl in the presence of ATP. In contrast, the homologue of Dcp, the Escherichia coli acyl carrier protein (ACP), involved in fatty acid biosynthesis, was not bound to DltD and thus was not ligated with D-alanine. DltD also catalyzed the hydrolysis of the mischarged D-alanyl-ACP. The hydrophobic N-terminal sequence of DltD was required for anchoring the protein in the membrane. It is hypothesized that this membrane-associated DltD facilitates the binding of Dcp and Dcl for ligation of Dcp with D-alanine and that the resulting D-alanyl-Dcp is translocated to the primary site of D-alanylation []. These sequences contain the C-terminal region of DltD.; PDB: 3BMA_C.
Probab=38.73 E-value=16 Score=29.69 Aligned_cols=54 Identities=20% Similarity=0.413 Sum_probs=36.4
Q ss_pred cccCChhHH--HHHHHHHHhcCCCCCC---CCCCccccccCc-cchHHHHHHHHHHHhhh
Q 027804 56 DIRKNPTFR--SQFHEMCAKVGVDPLA---SNKGFWAELLGI-GDFYYELGVQIVEICLA 109 (218)
Q Consensus 56 eI~~dP~FR--~~F~~MC~siGVDPLa---s~k~~ws~~lG~-gdFyyeLaVqIvEvC~~ 109 (218)
+-.+.||+. .-|.+.|...|||||. .-.|.|.+-.|+ -+-+.+.-.+|-++|.+
T Consensus 28 ~y~~SpEy~Dl~l~L~~~k~~g~~~lfVi~PvNg~wydytG~~~~~r~~~y~kI~~~~~~ 87 (130)
T PF04914_consen 28 SYTKSPEYDDLQLLLDVCKELGIDVLFVIQPVNGKWYDYTGLSKEMRQEYYKKIKYQLKS 87 (130)
T ss_dssp --SS-THHHHHHHHHHHHHHTT-EEEEEE----HHHHHHTT--HHHHHHHHHHHHHHHHT
T ss_pred cccCCccHHHHHHHHHHHHHcCCceEEEecCCcHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 445577764 2577889999999994 445889988887 47788888888888876
No 77
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=38.46 E-value=56 Score=27.28 Aligned_cols=45 Identities=29% Similarity=0.530 Sum_probs=33.6
Q ss_pred ccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc----ccCCceEEEEECCEEEEEecC
Q 027804 118 INLQELCNLLRQRRKSNREAVSEDDCLRAISKLK----VLGNGYEVISVGKKKLVRSVP 172 (218)
Q Consensus 118 i~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~----~LG~Gf~vi~ig~k~~vrSvP 172 (218)
+++++|...+. ++++|.++++.|+ .-+.|++|..++|.+-+++-|
T Consensus 14 vs~~~La~~l~----------~~~~v~~~l~~L~~~y~~~~~gl~l~~~~~~y~l~tk~ 62 (159)
T PF04079_consen 14 VSIEELAEILG----------SEDEVEEALEELQEEYNEEDRGLELVEVGGGYRLQTKP 62 (159)
T ss_dssp B-HHHHHHHCT-----------HHHHHHHHHHHHHHHHHCT-SEEEEEETTEEEEEE-G
T ss_pred CCHHHHHHHhC----------CHHHHHHHHHHHHHHhccCCCCEEEEEECCEEEEEEhH
Confidence 67777766532 6899999999885 358999999999999998877
No 78
>TIGR02573 LcrG_PcrG type III secretion protein LcrG. This protein is found in type III secretion operons, along with LcrR, H and V. Also known as PcrG in Pseudomonas, the protein is believed to make a 1:1 complex with PcrV (LcrV). Mutants of LcrG cause premature secretion of effector proteins into the medium.
Probab=38.21 E-value=26 Score=27.10 Aligned_cols=18 Identities=28% Similarity=0.576 Sum_probs=15.1
Q ss_pred HHHHHHHHhcCCCCCCCC
Q 027804 65 SQFHEMCAKVGVDPLASN 82 (218)
Q Consensus 65 ~~F~~MC~siGVDPLas~ 82 (218)
.=|++||+++||.|-+..
T Consensus 23 ~llqEm~~gLgl~p~ag~ 40 (90)
T TIGR02573 23 DLLQEMWQGLGLGPVAGE 40 (90)
T ss_pred HHHHHHHHHcCCChHHHH
Confidence 348999999999998743
No 79
>PRK09613 thiH thiamine biosynthesis protein ThiH; Reviewed
Probab=37.83 E-value=1.1e+02 Score=29.85 Aligned_cols=96 Identities=19% Similarity=0.283 Sum_probs=61.5
Q ss_pred HHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCc--ccHHHHH
Q 027804 47 EDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGL--INLQELC 124 (218)
Q Consensus 47 ~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGl--i~l~el~ 124 (218)
+.|.+=|...-+.|++.|-.-.+.+...|+|-+.+. -++|+++|.+|..--+...=.-.+...=|. |++.
T Consensus 204 ety~~~hp~g~k~~y~~Rl~t~~rA~~aGi~~Vg~G-----~L~GLge~~~E~~~l~~hl~~L~~~~gvgp~tIsvp--- 275 (469)
T PRK09613 204 PTYEKMHPSGPKSDYDWRLTAMDRAMEAGIDDVGIG-----VLFGLYDYKFEVLGLLMHAEHLEERFGVGPHTISVP--- 275 (469)
T ss_pred HHHHhcCCCCCCCCHHHHHHHHHHHHHcCCCeeCeE-----EEEcCCCCHHHHHHHHHHHHHHHHhhCCCCcccccc---
Confidence 556666766678999999999999999999987765 578999998876444332210000010011 3333
Q ss_pred HHHHhhcCC---CC-CCCCHHHHHHHHhhcc
Q 027804 125 NLLRQRRKS---NR-EAVSEDDCLRAISKLK 151 (218)
Q Consensus 125 ~~v~k~rg~---~~-~~IS~dDI~rAi~~L~ 151 (218)
++...-|. .. ..||++|++|.|-.++
T Consensus 276 -rl~P~~Gtpl~~~~~~vsd~e~lriiA~~R 305 (469)
T PRK09613 276 -RLRPADGSDLENFPYLVSDEDFKKIVAILR 305 (469)
T ss_pred -ceecCCCCCcccCCCCCCHHHHHHHHHHHH
Confidence 33333332 11 2489999999998886
No 80
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=37.82 E-value=86 Score=21.92 Aligned_cols=48 Identities=19% Similarity=0.272 Sum_probs=35.3
Q ss_pred cchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccC
Q 027804 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLG 154 (218)
Q Consensus 93 gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG 154 (218)
.|.|-|++.+|+++..+ -|-.++.++.+... ++++.|.+|+-.|--.|
T Consensus 8 ~~~fG~~~~~V~~~Ll~-----~G~ltl~~i~~~t~---------l~~~~Vk~~L~~LiQh~ 55 (62)
T PF08221_consen 8 EEHFGEIVAKVGEVLLS-----RGRLTLREIVRRTG---------LSPKQVKKALVVLIQHN 55 (62)
T ss_dssp HHHHHHHHHHHHHHHHH-----C-SEEHHHHHHHHT-----------HHHHHHHHHHHHHTT
T ss_pred HHHcChHHHHHHHHHHH-----cCCcCHHHHHHHhC---------CCHHHHHHHHHHHHHcC
Confidence 57899999999999976 46777888876532 79999999988775433
No 81
>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]
Probab=37.81 E-value=20 Score=34.68 Aligned_cols=22 Identities=36% Similarity=0.708 Sum_probs=18.6
Q ss_pred hccccCChhHHHHHHHHHHhcCCCCCC
Q 027804 54 KNDIRKNPTFRSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 54 ~~eI~~dP~FR~~F~~MC~siGVDPLa 80 (218)
.+|.-+||+-|++|-. |.|||-
T Consensus 446 AKEVLsd~EkRrqFDn-----GeDPLD 467 (504)
T KOG0624|consen 446 AKEVLSDPEKRRQFDN-----GEDPLD 467 (504)
T ss_pred HHHhhcCHHHHhhccC-----CCCCCC
Confidence 4577899999999965 999994
No 82
>PF04221 RelB: RelB antitoxin; InterPro: IPR007337 Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all were found adjacent to toxin genes. Several toxin/antitoxin pairs may occur in a single species. RelE and RelB form a toxin-antitoxin system; RelE represses translation, probably through binding ribosomes [, ]. RelB stably binds RelE, presumably deactivating it.; PDB: 2KC8_B 2K29_A.
Probab=37.69 E-value=20 Score=26.46 Aligned_cols=24 Identities=8% Similarity=0.310 Sum_probs=18.3
Q ss_pred cccCChhHHHHHHHHHHhcCCCCC
Q 027804 56 DIRKNPTFRSQFHEMCAKVGVDPL 79 (218)
Q Consensus 56 eI~~dP~FR~~F~~MC~siGVDPL 79 (218)
.+|=|++.+.+..++|..+|++|-
T Consensus 5 ~~Rid~~lK~~a~~il~~~Glt~s 28 (83)
T PF04221_consen 5 NVRIDEELKEEAEAILEELGLTLS 28 (83)
T ss_dssp EEEE-HHHHHHHHHHHHHTT--HH
T ss_pred EEEcCHHHHHHHHHHHHHcCCCHH
Confidence 367799999999999999999964
No 83
>PRK14981 DNA-directed RNA polymerase subunit F; Provisional
Probab=37.54 E-value=50 Score=25.99 Aligned_cols=48 Identities=19% Similarity=0.243 Sum_probs=36.1
Q ss_pred ccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027804 92 IGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (218)
Q Consensus 92 ~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~ 152 (218)
.+.+.-+-+++|+.+|-.+ .+|+...+.+.+. .+|++|+..-++.++.
T Consensus 62 ~~~l~e~~a~~I~nL~P~~---------~dElrai~~~~~~----~~~~e~l~~ILd~l~k 109 (112)
T PRK14981 62 LEKMKEKTAVKIADILPET---------RDELRAIFAKERY----TLSPEELDEILDIVKK 109 (112)
T ss_pred ccCCCHHHHHHHHhcCCCC---------HHHHHHHHHHhcc----CCCHHHHHHHHHHHHH
Confidence 3445567799999999986 5678888877643 5899999887776653
No 84
>COG1460 Uncharacterized protein conserved in archaea [Function unknown]
Probab=37.20 E-value=53 Score=26.46 Aligned_cols=62 Identities=18% Similarity=0.229 Sum_probs=45.8
Q ss_pred CChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCC
Q 027804 59 KNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAV 138 (218)
Q Consensus 59 ~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~I 138 (218)
=||+--+++..=..+|+.. =-.+||+|++||-.|+ +||...+.+.|. .+
T Consensus 48 ldpe~a~e~veEL~~i~~~------------------~e~~avkIadI~P~t~---------~ElRsIla~e~~----~~ 96 (114)
T COG1460 48 LDPEKARELVEELLSIVKM------------------SEKIAVKIADIMPRTP---------DELRSILAKERV----ML 96 (114)
T ss_pred CCHHHHHHHHHHHHhhccc------------------cHHHHHHHHHhCCCCH---------HHHHHHHHHccC----CC
Confidence 5787666777777777762 2368999999998864 689999998765 45
Q ss_pred CHHHHHHHHhhcc
Q 027804 139 SEDDCLRAISKLK 151 (218)
Q Consensus 139 S~dDI~rAi~~L~ 151 (218)
|+||+-.=+..++
T Consensus 97 s~E~l~~Ildiv~ 109 (114)
T COG1460 97 SDEELDKILDIVD 109 (114)
T ss_pred CHHHHHHHHHHHH
Confidence 8888776555443
No 85
>TIGR00762 DegV EDD domain protein, DegV family. This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each than to most homologs from other species. This suggests both recent paralogy and diversity of function. DegV itself is encoded immediately downstream of DegU, a transcriptional regulator of degradation, but is itself uncharacterized. Crystallography suggested a lipid-binding site, while comparison of the crystal structure to dihydroxyacetone kinase and to a mannose transporter EIIA domain suggests a conserved domain, EDD, with phosphotransferase activity.
Probab=37.19 E-value=1.5e+02 Score=26.20 Aligned_cols=63 Identities=19% Similarity=0.224 Sum_probs=49.8
Q ss_pred ccHHHHHHHHHhhcCC-CCCCCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhc
Q 027804 118 INLQELCNLLRQRRKS-NREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVT 189 (218)
Q Consensus 118 i~l~el~~~v~k~rg~-~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~ 189 (218)
|+.+++++++...... .....|++|+.++.+.|..=| ..|| +-++...||.=+..+..+++..
T Consensus 41 i~~~~~y~~~~~~~~~p~TS~ps~~~~~~~~~~l~~~~--~~vi-------~i~iSs~lSgty~~a~~aa~~~ 104 (275)
T TIGR00762 41 ITPEEFYEKLKESKELPKTSQPSPGEFLELYEKLLEEG--DEVL-------SIHLSSGLSGTYQSARQAAEMV 104 (275)
T ss_pred CCHHHHHHHHHhcCCCCCcCCCCHHHHHHHHHHHHhCC--CeEE-------EEEcCCchhHHHHHHHHHHhhC
Confidence 8899999999774432 445899999999999887644 5665 4578889999999988888775
No 86
>PF14538 Raptor_N: Raptor N-terminal CASPase like domain
Probab=36.57 E-value=1e+02 Score=25.59 Aligned_cols=30 Identities=10% Similarity=0.021 Sum_probs=21.3
Q ss_pred CCCCCHHHHHHHHhhcc-ccCCceEEEEECC
Q 027804 135 REAVSEDDCLRAISKLK-VLGNGYEVISVGK 164 (218)
Q Consensus 135 ~~~IS~dDI~rAi~~L~-~LG~Gf~vi~ig~ 164 (218)
..+-|.||+.+.+..++ .-+++--++.-+|
T Consensus 69 ~~dpt~e~~~~~~~~~R~~a~~~RvLFHYnG 99 (154)
T PF14538_consen 69 SLDPTVEDLKRLCQSLRRNAKDERVLFHYNG 99 (154)
T ss_pred ecCCCHHHHHHHHHHHHhhCCCceEEEEECC
Confidence 34789999999999996 3345555555544
No 87
>PRK14330 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=36.49 E-value=97 Score=29.33 Aligned_cols=51 Identities=16% Similarity=0.319 Sum_probs=42.8
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..+.+|+.++++.++..+.|+.+ +..+|--.|.|=-.|....++.+...++
T Consensus 271 ~~~~~~~~~~i~~lr~~~~~i~i----~~d~IvGfPgET~edf~~tl~fi~~~~~ 321 (434)
T PRK14330 271 RYTREEYLELIEKIRSKVPDASI----SSDIIVGFPTETEEDFMETVDLVEKAQF 321 (434)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----EEEEEEECCCCCHHHHHHHHHHHHhcCC
Confidence 36899999999999988777665 3468888999988899999999998764
No 88
>cd07670 BAR_SNX18 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 18. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX18 is localized to peripheral endosomal structures, and acts in a trafficking pathway that is clathrin-independent but relies on AP-1 and PACS1. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=36.39 E-value=76 Score=28.07 Aligned_cols=62 Identities=21% Similarity=0.326 Sum_probs=40.1
Q ss_pred HHHHHHHHHhhccccCChh-HHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHH
Q 027804 44 SQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVE 105 (218)
Q Consensus 44 ~~L~~FA~kH~~eI~~dP~-FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvE 105 (218)
..-.+|++++-+..+++=+ .=..|+.++.+..+||-..+.+.-..+-..|+=|-++|.-..|
T Consensus 33 ~~~~e~~kk~~~~~KkEyqkiG~af~~LsqaF~~d~~~~s~~L~~Av~~tg~~y~~IG~~fae 95 (207)
T cd07670 33 HTANEFARKQVTGFKKEYQKVGQSFKGLSQAFELDQQAFSAGLNQAIAFTGEAYEAIGELFAE 95 (207)
T ss_pred HHHHHHHHHHhccccHHHHHHHHHHHHHHHHHccCCcccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 3556788888888877655 3344999999999998654433322221246777776655443
No 89
>TIGR00281 segregation and condensation protein B. Shown to be required for chromosome segregation and condensation in B. subtilis.
Probab=36.31 E-value=81 Score=27.12 Aligned_cols=46 Identities=22% Similarity=0.309 Sum_probs=33.7
Q ss_pred ccHHHHHHHHHhhcCCCCCCCC-HHHHHHHHhhccc----cCCceEEEEECCEEEEEecC
Q 027804 118 INLQELCNLLRQRRKSNREAVS-EDDCLRAISKLKV----LGNGYEVISVGKKKLVRSVP 172 (218)
Q Consensus 118 i~l~el~~~v~k~rg~~~~~IS-~dDI~rAi~~L~~----LG~Gf~vi~ig~k~~vrSvP 172 (218)
+++.++...+. ++ ++++..+++.|+. -+.|++|+.++|.+-+++-|
T Consensus 18 ls~~~La~il~---------~~~~~~~~~~l~~l~~~~~~~~~gl~l~~~~~~y~l~tk~ 68 (186)
T TIGR00281 18 VTLAELVRILG---------KEKAEKLNAIMELLEDYLSRDTAGIEIIKFGQSYSLVTKP 68 (186)
T ss_pred CCHHHHHHHhC---------CCchHHHHHHHHHHHHHHhcCCCCEEEEEECCEEEEEEhH
Confidence 67888877764 23 4567777777753 36799999999988777766
No 90
>KOG1350 consensus F0F1-type ATP synthase, beta subunit [Energy production and conversion]
Probab=36.27 E-value=45 Score=32.09 Aligned_cols=111 Identities=23% Similarity=0.412 Sum_probs=72.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccccC------------ChhHHHHHH---------HHHHhcC----CCCCCCCCCcc-c
Q 027804 34 LMKEQLATFRSQLEDFARKHKNDIRK------------NPTFRSQFH---------EMCAKVG----VDPLASNKGFW-A 87 (218)
Q Consensus 34 ~L~~QL~~F~~~L~~FA~kH~~eI~~------------dP~FR~~F~---------~MC~siG----VDPLas~k~~w-s 87 (218)
.|.+.|-..|+++.. .+++.|++ ||.=-..|. +=.+.+| ||||-|.+..- -
T Consensus 326 TLaTdMG~mQERITt---TkkGSiTSvQAvYVPADDLtDPaPattFaHLDAttVLSR~iaelgIYPAVDPLDStSrimdp 402 (521)
T KOG1350|consen 326 TLATDMGTMQERITT---TKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRGIAELGIYPAVDPLDSTSRIMDP 402 (521)
T ss_pred ccccchhhhhHhhhc---cccCceeEEEEEEeehhccCCCCccceeeccchhhhhhhhhHhcCCccccCCccccccccCc
Confidence 456667777776643 45556653 554333343 2334466 58887654321 1
Q ss_pred cccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHH---HHHHHhhccccCCceEEEEE
Q 027804 88 ELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDD---CLRAISKLKVLGNGYEVISV 162 (218)
Q Consensus 88 ~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dD---I~rAi~~L~~LG~Gf~vi~i 162 (218)
.+ +|.=+|++|-++-++.+..+ +|.|++..+ |+. ++|++| +.||-|.=+-|.-.|.|-+|
T Consensus 403 ~i--vG~eHY~vA~~Vqk~LQ~YK-------sLQDIIAIL----GmD--ELSEeDkLTV~RARKiqRFLSQPF~VAEv 465 (521)
T KOG1350|consen 403 NI--VGEEHYNVARGVQKTLQDYK-------SLQDIIAIL----GMD--ELSEEDKLTVARARKIQRFLSQPFQVAEV 465 (521)
T ss_pred cc--cchHHHHHHHHHHHHHHHHH-------HHHHHHHHh----Cch--hhchhhhhhHHHHHHHHHHHcCchhhhhh
Confidence 22 57889999999999988855 466666654 333 789998 66888888888888888766
No 91
>PRK13429 F0F1 ATP synthase subunit delta; Provisional
Probab=35.97 E-value=2.5e+02 Score=23.11 Aligned_cols=133 Identities=23% Similarity=0.242 Sum_probs=65.5
Q ss_pred HHHHHhhHhHHHH--HHHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCC---CccccccCc
Q 027804 18 DQYRLLGENVAKL--RTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNK---GFWAELLGI 92 (218)
Q Consensus 18 ~~y~~~g~~l~~~--~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k---~~ws~~lG~ 92 (218)
.+|+.---+++.+ ++++...+|..+.+.+. +||+||. ++. ||..+.. .+..++++-
T Consensus 8 ~~YA~AL~~~a~~~~~l~~~~~~l~~i~~~~~-----------~~~~~~~----~l~----~p~i~~~~K~~~l~~~~~~ 68 (181)
T PRK13429 8 RRYAKALFQLAKEKGQLDSVYEELKQLAELLE-----------DSPELRD----ALS----NPVLSAEEKKAVLEKLLGK 68 (181)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH-----------cCHHHHH----HHh----CCCCCHHHHHHHHHHHHhc
Confidence 4555444444433 46666666766666553 4788773 222 5665432 223332221
Q ss_pred cchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHh----hcCCC------CCCCCHHHHHHHHhhcc-----------
Q 027804 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQ----RRKSN------REAVSEDDCLRAISKLK----------- 151 (218)
Q Consensus 93 gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k----~rg~~------~~~IS~dDI~rAi~~L~----------- 151 (218)
.++- +.-+..+.+.. .||-+--+.+++..+.+ .++.. +.++|++...+-.+.|+
T Consensus 69 ~~~~-~~~~nfl~~l~----~~~r~~~l~~I~~~f~~~~~~~~~~~~~~v~sa~~ls~~~~~~l~~~L~~~~~~~~~~~~ 143 (181)
T PRK13429 69 LKVS-PEVLNFLKLLA----DRRRLGILPEIAARYLELADEQKGIVRATVTSAVPLSEAQQEAIRQKLEKMTGKKVELDT 143 (181)
T ss_pred CCCC-HHHHHHHHHHH----HCCcHHHHHHHHHHHHHHHHHhCCEEEEEEEEeecCCHHHHHHHHHHHHHHHCCEEEEEe
Confidence 0010 11112222222 35555566666544433 33321 34678877777666554
Q ss_pred ----ccCCceEEEEECCEEEEEecCCCc
Q 027804 152 ----VLGNGYEVISVGKKKLVRSVPTEL 175 (218)
Q Consensus 152 ----~LG~Gf~vi~ig~k~~vrSvP~EL 175 (218)
.|-+|+. +.+|++.+=-|+...|
T Consensus 144 ~vd~sligG~~-i~~~~~~iD~Si~~~L 170 (181)
T PRK13429 144 AVDPSLIGGVV-VKIGDKVLDASVRTQL 170 (181)
T ss_pred eeChhhhCceE-EEECCEEEehhHHHHH
Confidence 3446674 5677777766655433
No 92
>PF07216 LcrG: LcrG protein; InterPro: IPR009863 This family consists of several bacterial LcrG proteins. Yersiniae are equipped with the Yop virulon, an apparatus that allows extracellular bacteria to deliver toxic Yop proteins inside the host cell cytosol in order to sabotage the communication networks of the host cell or even to cause cell death. LcrG is a component of the Yop virulon involved in the regulation of secretion of the Yops []. This protein is found in type III secretion operons, along with LcrR, H and V. Also known as PcrG in Pseudomonas, the prot ein is believed to make a 1:1 complex with PcrV (LcrV) []. Mutations in LcrG cause premature secretion of effector proteins into the medium [].
Probab=35.81 E-value=26 Score=27.22 Aligned_cols=17 Identities=29% Similarity=0.595 Sum_probs=14.9
Q ss_pred HHHHHHHhcCCCCCCCC
Q 027804 66 QFHEMCAKVGVDPLASN 82 (218)
Q Consensus 66 ~F~~MC~siGVDPLas~ 82 (218)
=|++||..+||+|-+..
T Consensus 27 llqEm~~gLg~~p~ag~ 43 (93)
T PF07216_consen 27 LLQEMLEGLGLGPVAGE 43 (93)
T ss_pred HHHHHHHhcCCChhHHH
Confidence 49999999999999853
No 93
>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=35.68 E-value=1.1e+02 Score=29.41 Aligned_cols=51 Identities=8% Similarity=0.149 Sum_probs=43.1
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+|+.++++.++..+.|+.+ +..+|--.|.|=-.|....++++...++
T Consensus 286 ~~t~e~~~~~i~~lr~~~pgi~i----~~d~IvG~PgET~ed~~~ti~~l~~l~~ 336 (459)
T PRK14338 286 GYTVARYRELIARIREAIPDVSL----TTDIIVGHPGETEEQFQRTYDLLEEIRF 336 (459)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----EEEEEEECCCCCHHHHHHHHHHHHHcCC
Confidence 36899999999999988777765 3467888999999999999999998765
No 94
>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=35.65 E-value=1.2e+02 Score=28.84 Aligned_cols=51 Identities=16% Similarity=0.288 Sum_probs=43.2
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.++++++++.++....|+.+-+ .+|---|.|=..|....++++....+
T Consensus 261 ~~t~~~~~~~v~~lr~~~p~i~i~~----d~IvGfPgETeedf~~Tl~fl~~l~~ 311 (420)
T PRK14339 261 GYTKEWFLNRAEKLRALVPEVSIST----DIIVGFPGESDKDFEDTMDVLEKVRF 311 (420)
T ss_pred CCCHHHHHHHHHHHHHHCCCCEEEE----EEEEECCCCCHHHHHHHHHHHHhcCC
Confidence 4789999999999999877776533 68888999999999999999988665
No 95
>TIGR00089 RNA modification enzyme, MiaB family. This subfamily is aparrently a part of a larger superfamily of enzymes utilizing both a 4Fe4S cluster and S-adenosyl methionine (SAM) to initiate radical reactions. MiaB acts on a particular isoprenylated Adenine base of certain tRNAs causing thiolation at an aromatic carbon, and probably also transferring a methyl grouyp from SAM to the thiol. The particular substrate of the three other clades is unknown but may be very closely related.
Probab=35.42 E-value=98 Score=29.13 Aligned_cols=51 Identities=14% Similarity=0.316 Sum_probs=43.5
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+|+.++++.++..|.++.+ .-.+|--.|.|=-.|....++.+...++
T Consensus 270 ~~~~~~~~~~i~~lr~~~~~i~i----~~~~IvG~PgET~ed~~~tl~~i~~~~~ 320 (429)
T TIGR00089 270 KYTREEYLDIVEKIRAKIPDAAI----TTDIIVGFPGETEEDFEETLDLVEEVKF 320 (429)
T ss_pred CCCHHHHHHHHHHHHHHCCCCEE----EeeEEEECCCCCHHHHHHHHHHHHhcCC
Confidence 36899999999999998877765 3468899999989999999999998765
No 96
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=34.71 E-value=1.6e+02 Score=20.50 Aligned_cols=47 Identities=13% Similarity=0.251 Sum_probs=25.8
Q ss_pred HHHHHHHhhHhHHH--HHHHHHHHHHHHH---HHHHHHHHHHhhccccCChh
Q 027804 16 ARDQYRLLGENVAK--LRTDLMKEQLATF---RSQLEDFARKHKNDIRKNPT 62 (218)
Q Consensus 16 ~~~~y~~~g~~l~~--~~~~~L~~QL~~F---~~~L~~FA~kH~~eI~~dP~ 62 (218)
.+++.+++-.++.+ ++.++|+.+++.. .+.++++|++.=+=++.|+.
T Consensus 22 ~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~AR~~lgm~~~~E~ 73 (80)
T PF04977_consen 22 LNQEIAELQKEIEELKKENEELKEEIERLKNDPDYIEKVAREKLGMVKPGEI 73 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcCCcCCCCE
Confidence 34444444444433 3344677777777 35777777765555555543
No 97
>PF04481 DUF561: Protein of unknown function (DUF561); InterPro: IPR007570 Protein in this entry are of unknown function and are found in cyanobacteria and the chloroplasts of algae. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=34.63 E-value=2.4e+02 Score=25.49 Aligned_cols=101 Identities=19% Similarity=0.250 Sum_probs=59.3
Q ss_pred cCccchHHHHHHHHHHHhhhccccCCCcccH---HHHHHHHHhhcCCC--CCCCCHHHHHHHHhhccccCCceEEEEECC
Q 027804 90 LGIGDFYYELGVQIVEICLATRPHNGGLINL---QELCNLLRQRRKSN--REAVSEDDCLRAISKLKVLGNGYEVISVGK 164 (218)
Q Consensus 90 lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l---~el~~~v~k~rg~~--~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~ 164 (218)
-|+++|-.+--.+|+..+...-.. .+++ .+|++.+....+.- ...|.|+.+..|++. |-.+++||+
T Consensus 19 sGLnNFd~~~V~~i~~AA~~ggAt---~vDIAadp~LV~~~~~~s~lPICVSaVep~~f~~aV~A------GAdliEIGN 89 (242)
T PF04481_consen 19 SGLNNFDAESVAAIVKAAEIGGAT---FVDIAADPELVKLAKSLSNLPICVSAVEPELFVAAVKA------GADLIEIGN 89 (242)
T ss_pred eCccccCHHHHHHHHHHHHccCCc---eEEecCCHHHHHHHHHhCCCCeEeecCCHHHHHHHHHh------CCCEEEecc
Confidence 478999999988998887662221 2333 45666555432211 136889999999886 888999984
Q ss_pred EEEEEecCCCcchhHHHHHHHHhh----ccccccccccCcc
Q 027804 165 KKLVRSVPTELNKDHNQILELAQV----TSILYQCFPFPHI 201 (218)
Q Consensus 165 k~~vrSvP~ELs~Dq~~vLe~a~~----~~~~~~~~~~~~~ 201 (218)
-.- +-+...--+-.+||++..+ +|-..=|+|-||+
T Consensus 90 fDs--FY~qGr~f~a~eVL~Lt~~tR~LLP~~~LsVTVPHi 128 (242)
T PF04481_consen 90 FDS--FYAQGRRFSAEEVLALTRETRSLLPDITLSVTVPHI 128 (242)
T ss_pred hHH--HHhcCCeecHHHHHHHHHHHHHhCCCCceEEecCcc
Confidence 100 0111111234457777665 2222237777775
No 98
>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=34.31 E-value=98 Score=29.69 Aligned_cols=51 Identities=20% Similarity=0.311 Sum_probs=43.4
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+|+.++++.++....|+.+ +..+|--.|.|=..|...-++++...++
T Consensus 289 ~~t~e~~~~~v~~ir~~~pgi~i----~~d~IvGfPgET~edf~~Tl~~i~~l~~ 339 (455)
T PRK14335 289 SYTREHYLSLVGKLKASIPNVAL----STDILIGFPGETEEDFEQTLDLMREVEF 339 (455)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----EEEEEEeCCCCCHHHHHHHHHHHHhcCC
Confidence 47899999999999988777765 4578888999988999999999988664
No 99
>TIGR02865 spore_II_E stage II sporulation protein E. Stage II sporulation protein E (SpoIIE) is a multiple membrane spanning protein with two separable functions. It plays a role in the switch to polar cell division during sporulation. By means of it protein phosphatase activity, located in the C-terminal region, it activates sigma-F. All proteins that score above the trusted cutoff to this model are found in endospore-forming Gram-positive bacteria. Surprisingly, a sequence from the Cyanobacterium-like (and presumably non-spore-forming) photosynthesizer Heliobacillus mobilis is homologous, and scores between the trusted and noise cutoffs.
Probab=34.18 E-value=1.7e+02 Score=30.22 Aligned_cols=48 Identities=21% Similarity=0.227 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCC
Q 027804 32 TDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPL 79 (218)
Q Consensus 32 ~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPL 79 (218)
.+-+..||..+.+.++++|++-+.+++.||....+..+.....||.+-
T Consensus 435 R~~va~Ql~~~s~~l~~~a~e~~~~~~~~~~~e~~i~~~L~~~gi~v~ 482 (764)
T TIGR02865 435 RRLVAEQLKGVAESVEDIAKEINLEIVFHQLLEEKIIRALNKNGIPYE 482 (764)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHCCCeeE
Confidence 467889999999999999999999999999999999999999999543
No 100
>TIGR01558 sm_term_P27 phage terminase, small subunit, putative, P27 family. Members tend to be adjacent to the phage terminase large subunit gene.
Probab=33.98 E-value=2e+02 Score=22.15 Aligned_cols=24 Identities=21% Similarity=0.475 Sum_probs=19.6
Q ss_pred ccCChhH------HHHHHHHHHhcCCCCCC
Q 027804 57 IRKNPTF------RSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 57 I~~dP~F------R~~F~~MC~siGVDPLa 80 (218)
++.||.+ .++++++|..+|.+|-+
T Consensus 66 ~k~nPa~~i~~~a~~~~~~l~~elGLtP~s 95 (116)
T TIGR01558 66 PKANPALTVVEDAFKQLRSIGSALGLTPSS 95 (116)
T ss_pred eecChHHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 4578876 56788999999999985
No 101
>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=33.91 E-value=1e+02 Score=29.39 Aligned_cols=51 Identities=14% Similarity=0.233 Sum_probs=44.0
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+|+.++++.++..+.|+.+ +-.+|--.|.|=..|....++++...++
T Consensus 286 ~~t~e~~~~~i~~lr~~~p~i~i----~~d~IvGfPgET~edf~~tl~~l~~~~~ 336 (448)
T PRK14333 286 GYTHEKYRRIIDKIREYMPDASI----SADAIVGFPGETEAQFENTLKLVEEIGF 336 (448)
T ss_pred CCCHHHHHHHHHHHHHhCCCcEE----EeeEEEECCCCCHHHHHHHHHHHHHcCC
Confidence 36999999999999998777766 4478888999999999999999998765
No 102
>cd00051 EFh EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to the activation or inactivation of target proteins. EF-hands tend to occur in pairs or higher copy numbers.
Probab=33.83 E-value=1.1e+02 Score=18.58 Aligned_cols=41 Identities=27% Similarity=0.375 Sum_probs=26.9
Q ss_pred ccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCc
Q 027804 112 PHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNG 156 (218)
Q Consensus 112 ~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~G 156 (218)
..+-|.|+.+|+...+.... ...+.+.+.+..+.+.+-+.|
T Consensus 11 ~~~~g~l~~~e~~~~l~~~~----~~~~~~~~~~~~~~~~~~~~~ 51 (63)
T cd00051 11 KDGDGTISADELKAALKSLG----EGLSEEEIDEMIREVDKDGDG 51 (63)
T ss_pred CCCCCcCcHHHHHHHHHHhC----CCCCHHHHHHHHHHhCCCCCC
Confidence 33457888888888777642 246777777777766554444
No 103
>cd08768 Cdc6_C Winged-helix domain of essential DNA replication protein Cell division control protein (Cdc6), which mediates DNA binding. This model characterizes the winged-helix, C-terminal domain of the Cell division control protein (Cdc6_C). Cdc6 (also known as Cell division cycle 6 or Cdc18) functions as a regulator at the early stages of DNA replication, by helping to recruit and load the Minichromosome Maintenance Complex (MCM) onto DNA and may have additional roles in the control of mitotic entry. Precise duplication of chromosomal DNA is required for genomic stability during replication. Cdc6 has an essential role in DNA replication and irregular expression of Cdc6 may lead to genomic instability. Cdc6 over-expression is observed in many cancerous lesions. DNA replication begins when an origin recognition complex (ORC) binds to a replication origin site on the chromatin. Studies indicate that Cdc6 interacts with ORC through the Orc1 subunit, and that this association increases
Probab=33.69 E-value=50 Score=23.59 Aligned_cols=26 Identities=27% Similarity=0.698 Sum_probs=19.6
Q ss_pred ccccCChhHHHHHHHHHHhcCCCCCCC
Q 027804 55 NDIRKNPTFRSQFHEMCAKVGVDPLAS 81 (218)
Q Consensus 55 ~eI~~dP~FR~~F~~MC~siGVDPLas 81 (218)
.+++... +....+.+|...|+||+..
T Consensus 21 ~~~~~~~-vy~~Y~~~c~~~~~~~l~~ 46 (87)
T cd08768 21 EEATTGE-VYEVYEELCEEIGVDPLTQ 46 (87)
T ss_pred CCccHHH-HHHHHHHHHHHcCCCCCcH
Confidence 4555444 4468999999999999974
No 104
>cd07291 PX_SNX5 The phosphoinositide binding Phox Homology domain of Sorting Nexin 5. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX5, abundantly expressed in macrophages, regulates macropinocytosis, a process that enables cells to internalize large amounts of external solutes. It may also be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting
Probab=33.44 E-value=72 Score=26.59 Aligned_cols=32 Identities=31% Similarity=0.506 Sum_probs=23.2
Q ss_pred HHHHHHHHH---HHHHHHHhhc--cccCChhHHHHHHH
Q 027804 37 EQLATFRSQ---LEDFARKHKN--DIRKNPTFRSQFHE 69 (218)
Q Consensus 37 ~QL~~F~~~---L~~FA~kH~~--eI~~dP~FR~~F~~ 69 (218)
+=|++|+.+ |+.|.+.=.. -+++||.|| .|.+
T Consensus 103 ~~~~~~kk~~a~lE~fL~Ria~HP~l~~d~~f~-~FLe 139 (141)
T cd07291 103 EYLAVFKKTVQVHEVFLQRLSSHPSLSKDRNFH-IFLE 139 (141)
T ss_pred hhhhHHHHHHHHHHHHHHHHhhCCeeccCcchh-hhcc
Confidence 347888865 8888876443 788999997 5654
No 105
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=33.18 E-value=1.9e+02 Score=25.41 Aligned_cols=112 Identities=12% Similarity=0.086 Sum_probs=56.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccccccC---ccchHHHHHHHHHHH-h
Q 027804 32 TDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLG---IGDFYYELGVQIVEI-C 107 (218)
Q Consensus 32 ~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG---~gdFyyeLaVqIvEv-C 107 (218)
+.+...+|..=...+.+|..+|.+++.... -+++....||.|-+-. .|. ..|| ..||-++|...+-.- -
T Consensus 19 i~~~~~~Lt~~e~~Ia~yil~~~~~v~~~s-----i~~lA~~~~vS~aTi~-Rf~-kkLGf~gf~efk~~l~~~~~~~~~ 91 (292)
T PRK11337 19 IRMKQEGLTPLESRVVEWLLKPGDLSEATA-----LKDIAEALAVSEAMIV-KVA-KKLGFSGFRNLRSALEDYFSQSEQ 91 (292)
T ss_pred HHHHHhhcCHHHHHHHHHHHhCHHHHHhcC-----HHHHHHHhCCChHHHH-HHH-HHcCCCCHHHHHHHHHHHhccccc
Confidence 344444455556688888888887765552 2466667777665311 111 2233 357888887654210 0
Q ss_pred hhccccCCCcccHHHHHHHHHhhcC----CCCCCCCHHHHHHHHhhcc
Q 027804 108 LATRPHNGGLINLQELCNLLRQRRK----SNREAVSEDDCLRAISKLK 151 (218)
Q Consensus 108 ~~tr~~NGGli~l~el~~~v~k~rg----~~~~~IS~dDI~rAi~~L~ 151 (218)
......... -+..++...+....- .....++++++.++++.|.
T Consensus 92 ~~~~~~~~~-~~~~~~~~~~~~~~~~~i~~t~~~l~~~~l~~~~~~i~ 138 (292)
T PRK11337 92 VLHSELSFD-DAPQDVVNKVFNTSLQAIEETQSILDVDEFHRAARFFY 138 (292)
T ss_pred cccCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 000000000 123343322221100 0012578899999998886
No 106
>PF13730 HTH_36: Helix-turn-helix domain
Probab=33.14 E-value=1.2e+02 Score=19.73 Aligned_cols=34 Identities=35% Similarity=0.464 Sum_probs=23.8
Q ss_pred ccCCCcc-cHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccC
Q 027804 112 PHNGGLI-NLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLG 154 (218)
Q Consensus 112 ~~NGGli-~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG 154 (218)
+.+||.- +.+++...+ -+|+.-|.||++.|+..|
T Consensus 19 ~~~~~~~pS~~~la~~~---------g~s~~Tv~~~i~~L~~~G 53 (55)
T PF13730_consen 19 NKNGGCFPSQETLAKDL---------GVSRRTVQRAIKELEEKG 53 (55)
T ss_pred CCCCCCCcCHHHHHHHH---------CcCHHHHHHHHHHHHHCc
Confidence 4555522 455555554 279999999999998876
No 107
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=33.03 E-value=1.1e+02 Score=22.07 Aligned_cols=15 Identities=20% Similarity=0.220 Sum_probs=12.6
Q ss_pred CCCHHHHHHHHhhcc
Q 027804 137 AVSEDDCLRAISKLK 151 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~ 151 (218)
.++..||..|.+.+.
T Consensus 58 ~~~~~Dv~~Al~~~g 72 (77)
T smart00576 58 EPNLGDVVLALENLG 72 (77)
T ss_pred CCCHHHHHHHHHHhC
Confidence 588999999988764
No 108
>PF10410 DnaB_bind: DnaB-helicase binding domain of primase; InterPro: IPR019475 This entry represents the C-terminal region three-helical domain of DNA primase []. Primases synthesise short RNA strands on single-stranded DNA templates, thereby generating the hybrid duplexes required for the initiation of synthesis by DNA polymerases. Primases are recruited to single-stranded DNA by helicases - this domain binds DnaB-helicase []. It is associated with the Toprim domain IPR006171 from INTERPRO, which is the central catalytic core. ; GO: 0016779 nucleotidyltransferase activity; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=32.72 E-value=1.1e+02 Score=20.29 Aligned_cols=29 Identities=21% Similarity=0.237 Sum_probs=16.7
Q ss_pred HHHHhhccccCChhHHHHHHHHHHh-cCCCC
Q 027804 49 FARKHKNDIRKNPTFRSQFHEMCAK-VGVDP 78 (218)
Q Consensus 49 FA~kH~~eI~~dP~FR~~F~~MC~s-iGVDP 78 (218)
.+...=..|+ ||..|..+.+.++. +|||+
T Consensus 27 ~~~~~i~~i~-~~i~r~~y~~~la~~~~i~~ 56 (59)
T PF10410_consen 27 EAAPLIAQIP-DPIERELYIRELAERLGISE 56 (59)
T ss_dssp HHHHHHTT---SHHHHHHHHHHHHHHCT-SS
T ss_pred HHHHHHHHCC-CHHHHHHHHHHHHHHhCcCc
Confidence 3444444555 88888877665554 89886
No 109
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. 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
Probab=32.61 E-value=71 Score=23.74 Aligned_cols=46 Identities=13% Similarity=0.035 Sum_probs=37.4
Q ss_pred chHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHH
Q 027804 94 DFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAI 147 (218)
Q Consensus 94 dFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi 147 (218)
|+...+.-|+.+....=+...|+=-+...|+..+.+ |-.+||+..+
T Consensus 38 ~~~~~~~eq~~~mL~~W~~r~g~~At~~~L~~aL~~--------i~r~Div~~~ 83 (84)
T cd08804 38 ENPNSLQDQSHALLKYWLERDGKHATDTNLMKCLTK--------INRMDIVHLM 83 (84)
T ss_pred HCcccHHHHHHHHHHHHHHccCCCchHHHHHHHHHH--------cChHHHHHHh
Confidence 566778999999998888888877778888888887 7788888764
No 110
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately.S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=32.25 E-value=92 Score=23.12 Aligned_cols=45 Identities=11% Similarity=0.011 Sum_probs=28.6
Q ss_pred ccCCCcccHHHHHHHHHhhcCC-CCCCCCHHHHHHHHhhccccCCc
Q 027804 112 PHNGGLINLQELCNLLRQRRKS-NREAVSEDDCLRAISKLKVLGNG 156 (218)
Q Consensus 112 ~~NGGli~l~el~~~v~k~rg~-~~~~IS~dDI~rAi~~L~~LG~G 156 (218)
+-|||.|+.+||...+.+..+. .....++++|.+-++.+..=|+|
T Consensus 23 dgdg~~Is~~EL~~ll~~~~~~~~~~~~~~~~v~~i~~elD~n~dG 68 (93)
T cd05026 23 EGDRYKLSKGELKELLQRELTDFLSSQKDPMLVDKIMNDLDSNKDN 68 (93)
T ss_pred CCCCCEECHHHHHHHHHHHhHHhcccccCHHHHHHHHHHhCCCCCC
Confidence 4556689999999988763221 11235777888777776543333
No 111
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=32.24 E-value=1.1e+02 Score=21.69 Aligned_cols=47 Identities=30% Similarity=0.432 Sum_probs=36.0
Q ss_pred CHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcc-----------hhHHHHHHHHhhcccccc
Q 027804 139 SEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELN-----------KDHNQILELAQVTSILYQ 194 (218)
Q Consensus 139 S~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs-----------~Dq~~vLe~a~~~~~~~~ 194 (218)
|..|.++|=+.|+..|=...+++ +|.+++ .|...+.++.+..++-|.
T Consensus 10 st~~a~~~ek~lk~~gi~~~liP---------~P~~i~~~CG~al~~~~~d~~~i~~~l~~~~i~~~ 67 (73)
T PF11823_consen 10 STHDAMKAEKLLKKNGIPVRLIP---------TPREISAGCGLALRFEPEDLEKIKEILEENGIEYE 67 (73)
T ss_pred CHHHHHHHHHHHHHCCCcEEEeC---------CChhccCCCCEEEEEChhhHHHHHHHHHHCCCCee
Confidence 67788889999998887777765 555544 488889999998887654
No 112
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=31.84 E-value=47 Score=34.03 Aligned_cols=46 Identities=17% Similarity=0.471 Sum_probs=40.9
Q ss_pred HHH-HHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCC
Q 027804 34 LMK-EQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPL 79 (218)
Q Consensus 34 ~L~-~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPL 79 (218)
+++ .-|+.||..|.+.=.++..-.++.-+++...+..|..+|+||-
T Consensus 156 dlsl~kLeelr~~L~~L~~ek~~Rlekv~~~~~~I~~l~~~Lg~~~~ 202 (660)
T KOG4302|consen 156 DLSLEKLEELREHLNELQKEKSDRLEKVLELKEEIKSLCSVLGLDFS 202 (660)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 444 6788889999888888888899999999999999999999988
No 113
>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=31.00 E-value=73 Score=23.64 Aligned_cols=62 Identities=23% Similarity=0.296 Sum_probs=36.8
Q ss_pred ChhHHHHHHHHHHhcCCC--CCCCCCCccccccCcc---------chHHHHHHHHHHHhhhccccCCCcccHHHHHHHHH
Q 027804 60 NPTFRSQFHEMCAKVGVD--PLASNKGFWAELLGIG---------DFYYELGVQIVEICLATRPHNGGLINLQELCNLLR 128 (218)
Q Consensus 60 dP~FR~~F~~MC~siGVD--PLas~k~~ws~~lG~g---------dFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~ 128 (218)
.|-=+.+|...|..||-| +|+ ..||+. | |..+..|+.++...=+..+|+--+++-|.+.+.
T Consensus 3 ~~~t~~~l~~ia~~iG~~Wk~La-------r~LGls~~dI~~i~~~-~~~~~eq~~~mL~~W~~r~g~~AT~~~L~~aL~ 74 (86)
T cd08318 3 KPVTGEQITVFANKLGEDWKTLA-------PHLEMKDKEIRAIESD-SEDIKMQAKQLLVAWQDREGSQATPETLITALN 74 (86)
T ss_pred CCCCHHHHHHHHHHHhhhHHHHH-------HHcCCCHHHHHHHHhc-CCCHHHHHHHHHHHHHHhcCccccHHHHHHHHH
Confidence 344456788888888866 333 124432 3 234556666666666666666666666666665
Q ss_pred h
Q 027804 129 Q 129 (218)
Q Consensus 129 k 129 (218)
+
T Consensus 75 ~ 75 (86)
T cd08318 75 A 75 (86)
T ss_pred H
Confidence 5
No 114
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=30.72 E-value=90 Score=30.05 Aligned_cols=43 Identities=26% Similarity=0.483 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHH-HHHHH---HHHhhccccCChhHHHHHHHHHHh
Q 027804 31 RTDLMKEQLATFRS-QLEDF---ARKHKNDIRKNPTFRSQFHEMCAK 73 (218)
Q Consensus 31 ~~~~L~~QL~~F~~-~L~~F---A~kH~~eI~~dP~FR~~F~~MC~s 73 (218)
+.+.|..--+.|+. +|..| .++|+.|+.+||..|.+|+..-..
T Consensus 284 ~i~AmkavAeA~~nRSLkdF~~AL~~yk~eL~~D~ivr~Hl~~Lyd~ 330 (411)
T KOG1463|consen 284 DIDAMKAVAEAFGNRSLKDFEKALADYKKELAEDPIVRSHLQSLYDN 330 (411)
T ss_pred chHHHHHHHHHhcCCcHHHHHHHHHHhHHHHhcChHHHHHHHHHHHH
Confidence 34445444444442 33333 357889999999999999876544
No 115
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=30.71 E-value=2e+02 Score=22.19 Aligned_cols=83 Identities=8% Similarity=0.145 Sum_probs=53.0
Q ss_pred HHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEE--CCEEEEEecCCCcc
Q 027804 99 LGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISV--GKKKLVRSVPTELN 176 (218)
Q Consensus 99 LaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~i--g~k~~vrSvP~ELs 176 (218)
-|..++..+.. .+++-++..|+-..+. ||+.-+.+.++.|+.-| +-.-.- +|.+.+-..|.+++
T Consensus 10 yal~~l~~la~---~~~~~~s~~eia~~l~---------is~~~v~~~l~~L~~~G--li~~~~g~~ggy~l~~~~~~it 75 (130)
T TIGR02944 10 YATLVLTTLAQ---NDSQPYSAAEIAEQTG---------LNAPTVSKILKQLSLAG--IVTSKRGVEGGYTLARAPRDIT 75 (130)
T ss_pred HHHHHHHHHHh---CCCCCccHHHHHHHHC---------cCHHHHHHHHHHHHHCC--cEEecCCCCCChhhcCCccccC
Confidence 35555555543 3467899999987764 89999999999998755 321111 34444444555666
Q ss_pred hhHHHHHHHHhhccccccccc
Q 027804 177 KDHNQILELAQVTSILYQCFP 197 (218)
Q Consensus 177 ~Dq~~vLe~a~~~~~~~~~~~ 197 (218)
-..|++..+..+.+..|..
T Consensus 76 --~~~v~~~l~~~~~v~~c~~ 94 (130)
T TIGR02944 76 --VADIVKAVEGPVALTECSD 94 (130)
T ss_pred --HHHHHHHHcCCCCcccccC
Confidence 4457777777777777753
No 116
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=30.65 E-value=1.2e+02 Score=24.79 Aligned_cols=47 Identities=17% Similarity=0.381 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH---hhccccCChhHHHHHHHHHHhcCCCC
Q 027804 32 TDLMKEQLATFRSQLEDFARK---HKNDIRKNPTFRSQFHEMCAKVGVDP 78 (218)
Q Consensus 32 ~~~L~~QL~~F~~~L~~FA~k---H~~eI~~dP~FR~~F~~MC~siGVDP 78 (218)
+++|..-++.|..-+++--.+ ...+..+-.+-..++++|...-|+||
T Consensus 23 ~e~Lee~~ekl~~vv~er~~~~~~~~~~~~er~~~l~~i~~~~~~~Git~ 72 (134)
T PRK10328 23 IDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKINTWLELMKADGINP 72 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCH
Confidence 556666666666544444333 33333444567788999999999996
No 117
>TIGR01361 DAHP_synth_Bsub phospho-2-dehydro-3-deoxyheptonate aldolase. The member of this family from Synechocystis PCC 6803, CcmA, was shown to be essential for carboxysome formation. However, no other candidate for this enzyme is present in that species, chorismate biosynthesis does occur, other species having this protein lack carboxysomes but appear to make chorismate, and a requirement of CcmA for carboxysome formation does not prohibit a role in chorismate biosynthesis.
Probab=30.64 E-value=2.6e+02 Score=24.90 Aligned_cols=113 Identities=13% Similarity=0.081 Sum_probs=66.2
Q ss_pred HHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCC----CCCCCCHH
Q 027804 66 QFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKS----NREAVSED 141 (218)
Q Consensus 66 ~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~----~~~~IS~d 141 (218)
.++++|...|++-+++- |. .-..+++ .++ ..--..-.+.+.=.+|+..+.+...- ...-.|.+
T Consensus 80 ~l~~~~~~~Gl~~~t~~---~d------~~~~~~l---~~~-~d~lkI~s~~~~n~~LL~~~a~~gkPVilk~G~~~t~~ 146 (260)
T TIGR01361 80 LLRRAADEHGLPVVTEV---MD------PRDVEIV---AEY-ADILQIGARNMQNFELLKEVGKQGKPVLLKRGMGNTIE 146 (260)
T ss_pred HHHHHHHHhCCCEEEee---CC------hhhHHHH---Hhh-CCEEEECcccccCHHHHHHHhcCCCcEEEeCCCCCCHH
Confidence 57889999999876532 11 1111222 233 34555667777778888888764211 12346999
Q ss_pred HHHHHHhhccccCCc-eEEEEECCEEEEEecCC-CcchhHHHHHHHHhh--cccccc
Q 027804 142 DCLRAISKLKVLGNG-YEVISVGKKKLVRSVPT-ELNKDHNQILELAQV--TSILYQ 194 (218)
Q Consensus 142 DI~rAi~~L~~LG~G-f~vi~ig~k~~vrSvP~-ELs~Dq~~vLe~a~~--~~~~~~ 194 (218)
|++.|++.+..-|+. +-+..=|-..|- |. ..+.|=..+-.+.+. .++.|+
T Consensus 147 e~~~Ave~i~~~Gn~~i~l~~rG~s~y~---~~~~~~~dl~~i~~lk~~~~~pV~~d 200 (260)
T TIGR01361 147 EWLYAAEYILSSGNGNVILCERGIRTFE---KATRNTLDLSAVPVLKKETHLPIIVD 200 (260)
T ss_pred HHHHHHHHHHHcCCCcEEEEECCCCCCC---CCCcCCcCHHHHHHHHHhhCCCEEEc
Confidence 999999999877763 333322333331 32 445555666555553 666553
No 118
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=30.47 E-value=1.2e+02 Score=30.89 Aligned_cols=43 Identities=5% Similarity=0.067 Sum_probs=35.5
Q ss_pred cHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027804 13 AAVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKN 55 (218)
Q Consensus 13 ~~~~~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH~~ 55 (218)
..+++.+-+....+..++|+.+++++|+.-..+|++|-++|+-
T Consensus 257 ~l~~k~~~a~~a~~fL~~qL~~l~~~L~~aE~~l~~fr~~~~~ 299 (726)
T PRK09841 257 NIARQAAQDSQSLEFLQRQLPEVRSELDQAEEKLNVYRQQRDS 299 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 3455666667778888999999999999999999999999853
No 119
>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=30.27 E-value=1.2e+02 Score=27.11 Aligned_cols=25 Identities=32% Similarity=0.735 Sum_probs=17.5
Q ss_pred cccCChhHHHHHHHHHHhcCCCCCCC
Q 027804 56 DIRKNPTFRSQFHEMCAKVGVDPLAS 81 (218)
Q Consensus 56 eI~~dP~FR~~F~~MC~siGVDPLas 81 (218)
.+.... +-.++..+|..+|++|++.
T Consensus 307 ~~~~~~-~~~~y~~~~~~~~~~~~~~ 331 (365)
T TIGR02928 307 PFRTGE-VYEVYKEVCEDIGVDPLTQ 331 (365)
T ss_pred CccHHH-HHHHHHHHHHhcCCCCCcH
Confidence 344333 4457889999999999873
No 120
>PRK11191 RNase E inhibitor protein; Provisional
Probab=30.10 E-value=92 Score=25.67 Aligned_cols=54 Identities=24% Similarity=0.297 Sum_probs=38.6
Q ss_pred CHHHHHHHHhhccccCCceEEE---EE----CCEEEEE-----ecCC--CcchhHHHHHHHHhhcccccc
Q 027804 139 SEDDCLRAISKLKVLGNGYEVI---SV----GKKKLVR-----SVPT--ELNKDHNQILELAQVTSILYQ 194 (218)
Q Consensus 139 S~dDI~rAi~~L~~LG~Gf~vi---~i----g~k~~vr-----SvP~--ELs~Dq~~vLe~a~~~~~~~~ 194 (218)
+.+++.+++..+..|| |+|. .+ |...|+- .+|. .++....+++.+|+..+.-|+
T Consensus 42 d~~~lek~a~~a~klG--yeV~~~ee~e~edg~~~~~~~~~~e~~l~~e~I~~~~~~L~~LA~k~~g~YD 109 (138)
T PRK11191 42 DFDKLEKAAVEAFKLG--YEVTDAEELELEDGDVIFCCDAVSEVALNAELIDAQVEQLLALAEKFDVEYD 109 (138)
T ss_pred CHHHHHHHHHHHHHcC--CeeecccccccCCCCeEEEEEEEecCCCCHHHHHHHHHHHHHHHHHhCCCcc
Confidence 6889999998887765 7774 12 2334442 3444 667778888999999999887
No 121
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=29.94 E-value=3.5e+02 Score=24.27 Aligned_cols=99 Identities=24% Similarity=0.319 Sum_probs=52.0
Q ss_pred cCChhHHHHHHHHHHhcCCCCCCCCC---CccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHH----HHHHhh
Q 027804 58 RKNPTFRSQFHEMCAKVGVDPLASNK---GFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELC----NLLRQR 130 (218)
Q Consensus 58 ~~dP~FR~~F~~MC~siGVDPLas~k---~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~----~~v~k~ 130 (218)
.+||+||.-+. ||..+.. .....+++ +. .-+..+..+.+... |+-+-.+.++. ..+++.
T Consensus 132 ~~~~~l~~~L~--------~p~i~~e~K~~ll~~l~~-~~-~~~~~~nfl~~lv~----~~R~~~l~~i~~~f~~l~~~~ 197 (271)
T PRK13430 132 ASNPELRLALS--------DRAAPAEAKRELLARLLY-GK-VTPVTERLAEQAVG----RPRGRSIEEGLDELSNLAAAR 197 (271)
T ss_pred HcCHHHHHHHh--------CCCCCHHHHHHHHHHHHh-cc-CCHHHHHHHHHHHh----CCChhhHHHHHHHHHHHHHHH
Confidence 36898874222 7776532 23333333 11 22333334444333 23333344443 344444
Q ss_pred cCCC------CCCCCHHHHHHHHhhcc-ccC--------------CceEEEEECCEEEEEec
Q 027804 131 RKSN------REAVSEDDCLRAISKLK-VLG--------------NGYEVISVGKKKLVRSV 171 (218)
Q Consensus 131 rg~~------~~~IS~dDI~rAi~~L~-~LG--------------~Gf~vi~ig~k~~vrSv 171 (218)
++.. +.++|++...+=.+.|+ .+| +|+ +|+||++-+=-||
T Consensus 198 ~~~~~a~VtSA~pLs~~q~~~L~~~L~k~~g~~V~l~~~VDpsLIGGi-vI~vGd~viD~Sv 258 (271)
T PRK13430 198 RGRSVATVTTAVPLSDEQKQRLAAALSRIYGRPVHLNSEVDPSVLGGM-RVQVGDEVIDGSV 258 (271)
T ss_pred cCeeEEEEEecCCCCHHHHHHHHHHHHHHHCCceEEEeeECccccCcE-EEEECCEEEehhH
Confidence 5432 46889998888888885 333 566 6678877664444
No 122
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=28.99 E-value=1.2e+02 Score=24.85 Aligned_cols=48 Identities=17% Similarity=0.322 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc---cccCChhHHHHHHHHHHhcCCCCC
Q 027804 32 TDLMKEQLATFRSQLEDFARKHKN---DIRKNPTFRSQFHEMCAKVGVDPL 79 (218)
Q Consensus 32 ~~~L~~QL~~F~~~L~~FA~kH~~---eI~~dP~FR~~F~~MC~siGVDPL 79 (218)
+++|..-++.|..-+++--.+... ++.+-.+-..++++|....|+||=
T Consensus 23 ~e~Lee~~ekl~~vv~er~ee~~~~~~~~~er~~kl~~~r~~m~~~Gis~~ 73 (135)
T PRK10947 23 LETLEEMLEKLEVVVNERREEESAAAAEVEERTRKLQQYREMLIADGIDPN 73 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHH
Confidence 566666666666655554444333 333334446789999999999963
No 123
>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=28.98 E-value=1.5e+02 Score=28.17 Aligned_cols=51 Identities=14% Similarity=0.231 Sum_probs=42.3
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+|++++++.++..|.++.+ +..+|--.|.|=-.|....++++...+.
T Consensus 268 ~~~~~~~~~~v~~lr~~~~~i~i----~~d~IvG~PgEt~ed~~~tl~~i~~l~~ 318 (440)
T PRK14334 268 EYRREKYLERIAEIREALPDVVL----STDIIVGFPGETEEDFQETLSLYDEVGY 318 (440)
T ss_pred CCCHHHHHHHHHHHHHhCCCcEE----EEeEEEECCCCCHHHHHHHHHHHHhcCC
Confidence 36899999999999998866543 3468888999988899999999988665
No 124
>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=28.91 E-value=1.2e+02 Score=29.11 Aligned_cols=51 Identities=18% Similarity=0.266 Sum_probs=43.4
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+|+.++++.++..-.|+.+ +..+|--.|.|=-.|....+++++..++
T Consensus 279 ~~t~~~~~~~v~~lr~~~pgi~i----~td~IvGfPgET~edf~~tl~~~~~~~~ 329 (445)
T PRK14340 279 GHTIEEYLEKIALIRSAIPGVTL----STDLIAGFCGETEEDHRATLSLMEEVRF 329 (445)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----eccEEEECCCCCHHHHHHHHHHHHhcCC
Confidence 57999999999999987667765 4467888999999999999999998765
No 125
>TIGR02933 nifM_nitrog nitrogen fixation protein NifM. Members of this protein family, found in a subset of nitrogen-fixing bacteria, are the nitrogen fixation protein NifM. NifM, homologous to peptidyl-prolyl cis-trans isomerases, appears to be an accessory protein for NifH, the Fe protein, also called component II or dinitrogenase reductase, of nitrogenase.
Probab=28.74 E-value=4e+02 Score=23.35 Aligned_cols=107 Identities=7% Similarity=0.002 Sum_probs=63.3
Q ss_pred ccHHHHHHHHHhhHhHHHHHHHHHHHHHHH---HHHHHHHHHHHhhccccCChh--HHHHHHHHHHhcCCCCCCCCCCcc
Q 027804 12 SAAVARDQYRLLGENVAKLRTDLMKEQLAT---FRSQLEDFARKHKNDIRKNPT--FRSQFHEMCAKVGVDPLASNKGFW 86 (218)
Q Consensus 12 ~~~~~~~~y~~~g~~l~~~~~~~L~~QL~~---F~~~L~~FA~kH~~eI~~dP~--FR~~F~~MC~siGVDPLas~k~~w 86 (218)
+-+...+.|..-+..++.++..++..|... -...+.+.|.+.+=.|.++.. -..+|++.+..-|+++
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lI~e~l~lq~A~~~gi~v~~~ev~~~~e~~~~~L~~~G~~~-------- 75 (256)
T TIGR02933 4 RWKLAHEMWNCAPGELSPDQLQQFDQAWQRQRHIEQAVVRAADEIGVVIPPSLLEEAPQALAQALDEQALDA-------- 75 (256)
T ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHcCCCH--------
Confidence 344667788888888888877777666433 112334455555444433322 1257888888888763
Q ss_pred ccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc
Q 027804 87 AELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK 151 (218)
Q Consensus 87 s~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~ 151 (218)
.+|...|-.+| .+..+...+.+.+ ..||++||....+..+
T Consensus 76 ------~~~r~~ir~~i---------------~~~~~~~~~~~~~----i~ise~ei~~yy~~~~ 115 (256)
T TIGR02933 76 ------AERRAMLAHHL---------------RLEAQLACVCAQA----PQPDDADVEAWYRRHA 115 (256)
T ss_pred ------HHHHHHHHHHH---------------HHHHHHHHHhcCC----CCCCHHHHHHHHHHHH
Confidence 35555554432 2444444444322 3689999999888765
No 126
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=28.74 E-value=1.5e+02 Score=22.69 Aligned_cols=85 Identities=16% Similarity=0.225 Sum_probs=53.5
Q ss_pred HHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEE-C--CEEEEEecCCC
Q 027804 98 ELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISV-G--KKKLVRSVPTE 174 (218)
Q Consensus 98 eLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~i-g--~k~~vrSvP~E 174 (218)
+.|.+++..... ..+++.++.+|+-+.+. +++.-+.+.++.|..-| + |... | |.+.+..-|.+
T Consensus 8 ~~al~~l~~la~--~~~~~~~s~~eia~~~~---------i~~~~v~~il~~L~~~g--l-i~~~~g~~ggy~l~~~~~~ 73 (132)
T TIGR00738 8 EYALRALLDLAL--NPDEGPVSVKEIAERQG---------ISRSYLEKILRTLRRAG--L-VESVRGPGGGYRLARPPEE 73 (132)
T ss_pred HHHHHHHHHHHh--CCCCCcCcHHHHHHHHC---------cCHHHHHHHHHHHHHCC--c-EEeccCCCCCccCCCCHHH
Confidence 456666666653 34556899999987754 78999999999998754 5 4333 2 23333333444
Q ss_pred cchhHHHHHHHHhhcccccccccc
Q 027804 175 LNKDHNQILELAQVTSILYQCFPF 198 (218)
Q Consensus 175 Ls~Dq~~vLe~a~~~~~~~~~~~~ 198 (218)
++-- .|++..+..+.++.|.+.
T Consensus 74 itl~--~I~~~~e~~~~~~~~~~~ 95 (132)
T TIGR00738 74 ITVG--DVVRAVEGPLAPVQCIGL 95 (132)
T ss_pred CCHH--HHHHHHcCcCcccccCCC
Confidence 4432 356666666666777763
No 127
>PF09548 Spore_III_AB: Stage III sporulation protein AB (spore_III_AB); InterPro: IPR014198 This entry represents the stage III sporulation protein AB, which is encoded in a spore formation operon: spoIIIAABCDEFGH that is under sigma G regulation []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=28.64 E-value=67 Score=26.67 Aligned_cols=56 Identities=14% Similarity=0.315 Sum_probs=40.6
Q ss_pred HHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCC
Q 027804 14 AVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGV 76 (218)
Q Consensus 14 ~~~~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGV 76 (218)
.++.+-..++|..+-..+.++-.++++...+.|+.=..+-+.+.+++ .+|+.++||
T Consensus 104 ~~d~e~L~~lg~~LG~~D~~~Q~k~i~l~~~~L~~~~~~a~~~~~~~-------~Klyr~LGv 159 (170)
T PF09548_consen 104 KEDKEILLELGKSLGYSDREMQEKHIELYLEQLEQQLEEAREEAKKK-------GKLYRSLGV 159 (170)
T ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-------ccHHHHHHH
Confidence 46788888999999877778777788888877776665555544444 567777765
No 128
>PF10376 Mei5: Double-strand recombination repair protein ; InterPro: IPR018468 Mei5 is one of a pair of meiosis-specific proteins which facilitate the loading of Dmc1 on to Rad51 on DNA at double-strand breaks during recombination. Recombination is carried out by a large protein complex based around the two RecA homologues, Rad51 and Dmc1 []. This complex may play both a catalytic and a structural role in the interaction between homologous chromosomes during meiosis. Mei5 is seen to contain a coiled-coli region.
Probab=28.61 E-value=1.7e+02 Score=25.82 Aligned_cols=18 Identities=22% Similarity=0.540 Sum_probs=15.1
Q ss_pred CChhHHHHHHHHHHhcCCCC
Q 027804 59 KNPTFRSQFHEMCAKVGVDP 78 (218)
Q Consensus 59 ~dP~FR~~F~~MC~siGVDP 78 (218)
++|+| .-.+++..+||||
T Consensus 198 e~~~~--TM~eL~~~l~ID~ 215 (221)
T PF10376_consen 198 EGEKF--TMGELIKRLGIDY 215 (221)
T ss_pred cccCc--cHHHHHHHhCCCc
Confidence 57777 4789999999996
No 129
>COG4396 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]
Probab=28.51 E-value=1.6e+02 Score=24.94 Aligned_cols=31 Identities=6% Similarity=0.408 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccccCCh
Q 027804 31 RTDLMKEQLATFRSQLEDFARKHKNDIRKNP 61 (218)
Q Consensus 31 ~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP 61 (218)
|+..|.+.........+.+...|++|++++-
T Consensus 55 q~~~lk~EI~~L~k~vq~yCeanrDELTe~G 85 (170)
T COG4396 55 QAAPLKAEIMSLTKRVQAYCEANRDELTENG 85 (170)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhCHHHHhcCC
Confidence 4567777777888889999999998888773
No 130
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=28.49 E-value=1.5e+02 Score=27.62 Aligned_cols=39 Identities=13% Similarity=0.089 Sum_probs=32.5
Q ss_pred HHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027804 17 RDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKN 55 (218)
Q Consensus 17 ~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH~~ 55 (218)
+..-+..+....++|+.++.++|..-..+|++|-++|+-
T Consensus 165 ~~~~~~~~~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~i 203 (444)
T TIGR03017 165 KVEPAQKAALWFVQQIAALREDLARAQSKLSAYQQEKGI 203 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 444455677788889999999999999999999999975
No 131
>PRK13434 F0F1 ATP synthase subunit delta; Provisional
Probab=28.33 E-value=3.1e+02 Score=22.82 Aligned_cols=64 Identities=17% Similarity=0.288 Sum_probs=40.3
Q ss_pred cCCCcccHHHHHHHHHh----hcCC------CCCCCCHHHHHHHHhhcc-cc--------------CCceEEEEECCEEE
Q 027804 113 HNGGLINLQELCNLLRQ----RRKS------NREAVSEDDCLRAISKLK-VL--------------GNGYEVISVGKKKL 167 (218)
Q Consensus 113 ~NGGli~l~el~~~v~k----~rg~------~~~~IS~dDI~rAi~~L~-~L--------------G~Gf~vi~ig~k~~ 167 (218)
+||-+-.+.++...+.+ .++. .+.++|++.+.+=.+.|+ .+ =+|+ +|.+|++-+
T Consensus 80 e~~R~~~l~~I~~~f~~l~~~~~~~~~~~V~sA~~Ls~~q~~~l~~~L~k~~g~~v~l~~~vDpsLIGG~-ii~igd~vi 158 (184)
T PRK13434 80 NKGRFIYLPEIQKDFTVELDKKKGRVRAQIVSYPSLEPAQVDKLGSILSEKFKSEFILEVSEDKNLLGGF-VVQFNDLKI 158 (184)
T ss_pred HCCcHHHHHHHHHHHHHHHHHHcCeEEEEEEEcCCCCHHHHHHHHHHHHHHHCCEeEEEeeeChHHcCce-EEEECCEEE
Confidence 46667777777765543 3332 146889888888777774 22 2466 677888877
Q ss_pred EEecCCCcch
Q 027804 168 VRSVPTELNK 177 (218)
Q Consensus 168 vrSvP~ELs~ 177 (218)
=-|+-..|..
T Consensus 159 D~Svk~~L~~ 168 (184)
T PRK13434 159 EKSIASQLGE 168 (184)
T ss_pred eHhHHHHHHH
Confidence 6666544443
No 132
>PF09336 Vps4_C: Vps4 C terminal oligomerisation domain; InterPro: IPR015415 This domain is found at the C-terminal of ATPase proteins involved in vacuolar sorting. It forms an alpha helix structure and is required for oligomerisation []. ; PDB: 1XWI_A 3EIH_C 2QPA_C 3EIE_A 2RKO_A 2QP9_X 3MHV_C 3CF3_C 3CF1_A 3CF2_A ....
Probab=28.33 E-value=84 Score=22.17 Aligned_cols=28 Identities=18% Similarity=0.304 Sum_probs=16.5
Q ss_pred ccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhh
Q 027804 118 INLQELCNLLRQRRKSNREAVSEDDCLRAISK 149 (218)
Q Consensus 118 i~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~ 149 (218)
|+++|....+.+.|. .||++||.+=.+-
T Consensus 30 it~~DF~~Al~~~kp----SVs~~dl~~ye~w 57 (62)
T PF09336_consen 30 ITMEDFEEALKKVKP----SVSQEDLKKYEEW 57 (62)
T ss_dssp BCHHHHHHHHHTCGG----SS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHcCC----CCCHHHHHHHHHH
Confidence 456666666666554 5677777664443
No 133
>cd02903 Macro_BAL_like Macro domain, BAL_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly ADP-ribose as a ligand. Previously identified as displaying an Appr-1"-p (ADP-ribose-1"-monophosphate) processing activity, the macro domain may play roles in distinct ADP-ribose pathways, such as the ADP-ribosylation of proteins, an important post-translational modification which occurs in DNA repair, transcription, chromatin biology, and long-term memory formation, among other processes. Members of this family show similarity to BAL (B-aggressive lymphoma) proteins, which contain one to three macro domains. Most BAL family macro domains belong to this family except for the most N-terminal domain in multiple-domain containing proteins. Most BAL proteins also contain a C-termin
Probab=28.11 E-value=97 Score=24.61 Aligned_cols=64 Identities=22% Similarity=0.239 Sum_probs=39.6
Q ss_pred HHHHHHhhccccC-CceEEEEECCE---EEEEecCCCcchh---------HHHHHHHHhhccccccccccCcchhHHHH
Q 027804 142 DCLRAISKLKVLG-NGYEVISVGKK---KLVRSVPTELNKD---------HNQILELAQVTSILYQCFPFPHISFGLFV 207 (218)
Q Consensus 142 DI~rAi~~L~~LG-~Gf~vi~ig~k---~~vrSvP~ELs~D---------q~~vLe~a~~~~~~~~~~~~~~~~~~~~~ 207 (218)
++..+|+.+...- .|=-+++-++. +||--+|.--..+ -..+|+.|..+++ ..+-||-|+=|.+-
T Consensus 44 ~l~~~~~~~~~~~~~G~~~vT~~~~L~~k~IiH~~~p~~~~~~~~~l~~~~~~~L~~a~~~~~--~SIAfP~igtG~~g 120 (137)
T cd02903 44 ELQKELDKAKLGQTVGSVIVTKGGNLPCKYVYHVVLPNWSNGALKILKDIVSECLEKCEELSY--TSISFPAIGTGNLG 120 (137)
T ss_pred HHHHHHHHHcCCCCCCeEEEecCCCCCCCEEEEecCCCCCCchHHHHHHHHHHHHHHHHHCCC--cEEEECCCcCcCCC
Confidence 4556666655443 24445555543 5666665422221 2557899999888 88999999877653
No 134
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=28.08 E-value=28 Score=29.25 Aligned_cols=49 Identities=14% Similarity=0.237 Sum_probs=40.9
Q ss_pred cchhhhhccHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027804 5 PGIGGLQSAAVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKH 53 (218)
Q Consensus 5 vGi~ai~~~~~~~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH 53 (218)
.+..+|++-..+...|+.+.-.+..+..+++.+.+..||..+.++|.+-
T Consensus 107 lA~~al~~~p~~~R~~s~~T~~vs~~~~~ki~~~i~~fRk~i~~i~~~~ 155 (171)
T PF14394_consen 107 LAQEALDRVPPEERDFSGLTMSVSREDYEKIKKEIREFRKKIIAIAEED 155 (171)
T ss_pred HHHHHHHhCCccccceeeeEEEeCHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3566677666667778888888889999999999999999999999874
No 135
>PF05796 Chordopox_G2: Chordopoxvirus protein G2; InterPro: IPR008446 This family consists of several Chordopoxvirus isatin-beta-thiosemicarbazone dependent protein (protein G2) sequences. Inactivation of the gene coding for this protein renders the virus dependent upon isatin-beta-thiosemicarbazone (IBT) for growth [].
Probab=28.07 E-value=76 Score=28.24 Aligned_cols=122 Identities=16% Similarity=0.223 Sum_probs=60.4
Q ss_pred ccCChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCC
Q 027804 57 IRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNRE 136 (218)
Q Consensus 57 I~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~ 136 (218)
.++||+.-.+|.++|...|||.-.-=..|. +.=|+..-.++++ |...-++= -+.=+++++..+-+.|=.
T Consensus 16 lTed~~s~~~~~SLCrgF~id~~~li~~f~------~~k~~k~iskal~-~~~ll~Ei-~~~FP~dil~eLv~LRL~--- 84 (216)
T PF05796_consen 16 LTEDEESMKMFISLCRGFGIDFEELISEFY------NKKYLKKISKALN-CADLLPEI-SLEFPDDILRELVRLRLC--- 84 (216)
T ss_pred hcCCHHHHHHHHHHhcccCCCHHHHHHHhh------hhHHHHHHHHHhh-ccccCHHH-heeCCHHHHHHHHHHHHH---
Confidence 479999999999999999999553111111 1112222233332 21111110 011122333333332210
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccccccccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSILYQCFP 197 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~~~~~~~ 197 (218)
-=.-.+|+.-+|..=+.|..+| =|+.-||+....|| --+-.-+=.|.+|--++
T Consensus 85 --kf~k~IK~SykL~~~m~Giaiv-k~~~V~v~~aNd~l-----l~fl~k~Y~P~iY~Y~~ 137 (216)
T PF05796_consen 85 --KFSKTIKRSYKLPASMKGIAIV-KDRNVYVRRANDEL-----LDFLFKEYNPQIYRYVE 137 (216)
T ss_pred --HHHHhhhHHhcCCcccCcEEEE-cCCEEEEEcCCHHH-----HHHHHHhcCchheEEec
Confidence 1112356666777778898887 46677777764332 11222233666666444
No 136
>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme. This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.
Probab=27.87 E-value=1.6e+02 Score=27.54 Aligned_cols=51 Identities=20% Similarity=0.414 Sum_probs=42.3
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.+++.++++.++....|+.+ .-.+|--.|.|=-.|...-++.+...+.
T Consensus 269 ~~~~~~~~~~v~~l~~~~~gi~i----~~~~IvG~PgET~ed~~~tl~~i~~~~~ 319 (414)
T TIGR01579 269 KYTRDDFLKLVNKLRSVRPDYAF----GTDIIVGFPGESEEDFQETLRMVKEIEF 319 (414)
T ss_pred CCCHHHHHHHHHHHHHhCCCCee----eeeEEEECCCCCHHHHHHHHHHHHhCCC
Confidence 46889999999999985566655 3468889999999999999999998765
No 137
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=27.76 E-value=2.3e+02 Score=20.14 Aligned_cols=13 Identities=15% Similarity=0.222 Sum_probs=10.9
Q ss_pred CCCCHHHHHHHHh
Q 027804 136 EAVSEDDCLRAIS 148 (218)
Q Consensus 136 ~~IS~dDI~rAi~ 148 (218)
..+|.+||..|++
T Consensus 53 ktlt~~DI~~Alk 65 (65)
T smart00803 53 TTLTTSDIDSALR 65 (65)
T ss_pred CeecHHHHHHHhC
Confidence 3699999999874
No 138
>PRK11519 tyrosine kinase; Provisional
Probab=27.59 E-value=1.4e+02 Score=30.33 Aligned_cols=42 Identities=7% Similarity=0.083 Sum_probs=34.3
Q ss_pred HHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027804 14 AVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKN 55 (218)
Q Consensus 14 ~~~~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH~~ 55 (218)
.+.+..-+....+..++|+.++.++|+.-..+|++|-++|+-
T Consensus 258 ~~~k~~~a~~a~~fL~~ql~~l~~~L~~aE~~l~~fr~~~~~ 299 (719)
T PRK11519 258 IERKSEEASKSLAFLAQQLPEVRSRLDVAENKLNAFRQDKDS 299 (719)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 344555566777888899999999999999999999988874
No 139
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=27.22 E-value=2.2e+02 Score=27.17 Aligned_cols=45 Identities=11% Similarity=0.299 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh--ccccCChhHHHHHHHHHHhcC
Q 027804 31 RTDLMKEQLATFRSQLEDFARKHK--NDIRKNPTFRSQFHEMCAKVG 75 (218)
Q Consensus 31 ~~~~L~~QL~~F~~~L~~FA~kH~--~eI~~dP~FR~~F~~MC~siG 75 (218)
..++|.+.++..+..+++..+--. +++..||+||+..++.-..++
T Consensus 321 ~~~~L~qtl~sl~~t~~ni~~vs~dv~~ft~D~~~r~~Lr~li~~Ls 367 (370)
T PLN03094 321 NTELLRQSIYTLTKTLKHIESISSDISGFTGDEATRRNLKQLIQSLS 367 (370)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence 445666666667765555433332 367789999999998877664
No 140
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=27.09 E-value=1.5e+02 Score=18.97 Aligned_cols=39 Identities=26% Similarity=0.396 Sum_probs=29.0
Q ss_pred CCcccHHHHHHHHHhhcCCCCCC-CCHHHHHHHHhhccccCCce
Q 027804 115 GGLINLQELCNLLRQRRKSNREA-VSEDDCLRAISKLKVLGNGY 157 (218)
Q Consensus 115 GGli~l~el~~~v~k~rg~~~~~-IS~dDI~rAi~~L~~LG~Gf 157 (218)
.|.|+.+|+...+.+ -| .. +|++++..-++.+-+=++|+
T Consensus 2 ~G~i~~~~~~~~l~~-~g---~~~~s~~e~~~l~~~~D~~~~G~ 41 (54)
T PF13833_consen 2 DGKITREEFRRALSK-LG---IKDLSEEEVDRLFREFDTDGDGY 41 (54)
T ss_dssp SSEEEHHHHHHHHHH-TT---SSSSCHHHHHHHHHHHTTSSSSS
T ss_pred cCEECHHHHHHHHHH-hC---CCCCCHHHHHHHHHhcccCCCCC
Confidence 588999999999844 23 24 89999888888777666664
No 141
>KOG0027 consensus Calmodulin and related proteins (EF-Hand superfamily) [Signal transduction mechanisms]
Probab=27.08 E-value=3.2e+02 Score=21.63 Aligned_cols=73 Identities=19% Similarity=0.374 Sum_probs=49.1
Q ss_pred HHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHH
Q 027804 66 QFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLR 145 (218)
Q Consensus 66 ~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~r 145 (218)
.|..||...+..+.... +=...+.|+=..-=..+-|.|+..||...+.+... ..|.+++..
T Consensus 65 eF~~l~~~~~~~~~~~~---------------~~~~el~eaF~~fD~d~~G~Is~~el~~~l~~lg~----~~~~~e~~~ 125 (151)
T KOG0027|consen 65 EFLDLMEKLGEEKTDEE---------------ASSEELKEAFRVFDKDGDGFISASELKKVLTSLGE----KLTDEECKE 125 (151)
T ss_pred HHHHHHHhhhccccccc---------------ccHHHHHHHHHHHccCCCCcCcHHHHHHHHHHhCC----cCCHHHHHH
Confidence 67788887776644311 11123333333333345699999999999998543 578999999
Q ss_pred HHhhccccCCce
Q 027804 146 AISKLKVLGNGY 157 (218)
Q Consensus 146 Ai~~L~~LG~Gf 157 (218)
-++...+=|.|.
T Consensus 126 mi~~~d~d~dg~ 137 (151)
T KOG0027|consen 126 MIREVDVDGDGK 137 (151)
T ss_pred HHHhcCCCCCCe
Confidence 999888877765
No 142
>PTZ00183 centrin; Provisional
Probab=27.08 E-value=2.9e+02 Score=21.10 Aligned_cols=44 Identities=18% Similarity=0.332 Sum_probs=28.3
Q ss_pred hccccC-CCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCc
Q 027804 109 ATRPHN-GGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNG 156 (218)
Q Consensus 109 ~tr~~N-GGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~G 156 (218)
+..+.+ -|.|+..|+...+... + ..++++++...+..+..=+.|
T Consensus 97 ~~~D~~~~G~i~~~e~~~~l~~~-~---~~l~~~~~~~~~~~~d~~~~g 141 (158)
T PTZ00183 97 RLFDDDKTGKISLKNLKRVAKEL-G---ETITDEELQEMIDEADRNGDG 141 (158)
T ss_pred HHhCCCCCCcCcHHHHHHHHHHh-C---CCCCHHHHHHHHHHhCCCCCC
Confidence 344444 4778888888777653 2 247888887777776654554
No 143
>PF03837 RecT: RecT family; InterPro: IPR018330 All proteins in this family for which functions are known bind single-stranded DNA and are involved in the the pairing of homologous DNA. RecT from Escherichia coli is a homotetramer which binds to single-stranded DNA and promotes the renaturation of complementary single-stranded DNA, and also plays a role in recombination. It is able to promote the annealing of complementary single DNA strands and can catalyze the formation of joint molecules [].; GO: 0003677 DNA binding, 0006259 DNA metabolic process
Probab=26.98 E-value=49 Score=27.68 Aligned_cols=22 Identities=18% Similarity=0.288 Sum_probs=16.9
Q ss_pred CChhHHHHHHHHHHhcCCCCCC
Q 027804 59 KNPTFRSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 59 ~dP~FR~~F~~MC~siGVDPLa 80 (218)
-||+=-..|.-.|+.+|.||..
T Consensus 20 ~~~~s~~~a~~~~a~~GL~P~~ 41 (199)
T PF03837_consen 20 CTPESIAGALMQAAQLGLNPFK 41 (199)
T ss_pred CCHHHHHHHHHHHHHhCcCCCc
Confidence 3444334788999999999997
No 144
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=26.69 E-value=2.1e+02 Score=22.18 Aligned_cols=35 Identities=23% Similarity=0.411 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHhhccccCChhH
Q 027804 29 KLRTDLMKEQLATFRS---QLEDFARKHKNDIRKNPTF 63 (218)
Q Consensus 29 ~~~~~~L~~QL~~F~~---~L~~FA~kH~~eI~~dP~F 63 (218)
+++.++|..+++..++ .+++-|+++=+=++.|+++
T Consensus 47 ~~~n~~L~~eI~~L~~~~dyiEe~AR~~Lg~vk~gEiv 84 (105)
T PRK00888 47 KARNDQLFAEIDDLKGGQEAIEERARNELGMVKPGETF 84 (105)
T ss_pred HHHHHHHHHHHHHhhCcHHHHHHHHHHHcCCCCCCCEE
Confidence 4556789999998875 7999999999999999886
No 145
>TIGR01617 arsC_related transcriptional regulator, Spx/MgsR family. This model represents a portion of the proteins within the larger set covered by Pfam model pfam03960. That larger family includes a glutaredoxin-dependent arsenate reductase (TIGR00014). Characterized members of this family include Spx and MgsR from Bacillus subtili. Spx is a global regulator for response to thiol-specific oxidative stress. It interacts with RNA polymerase. MgsR (modulator of the general stress response, also called YqgZ) provides a second level of regulation for more than a third of the proteins in the B. subtilis general stress regulon controlled by Sigma-B.
Probab=26.68 E-value=92 Score=23.93 Aligned_cols=38 Identities=16% Similarity=0.330 Sum_probs=28.8
Q ss_pred HHHHHHHHhh-----ccccCChhHHHHHHHHHHhcC--CCCCCCC
Q 027804 45 QLEDFARKHK-----NDIRKNPTFRSQFHEMCAKVG--VDPLASN 82 (218)
Q Consensus 45 ~L~~FA~kH~-----~eI~~dP~FR~~F~~MC~siG--VDPLas~ 82 (218)
+..+|..+|+ -+|.++|.-+.++.++++..| +++|.+.
T Consensus 14 ka~~~L~~~~i~~~~idi~~~~~~~~el~~l~~~~~~~~~~lin~ 58 (117)
T TIGR01617 14 KARRWLEANGIEYQFIDIGEDGPTREELLDILSLLEDGIDPLLNT 58 (117)
T ss_pred HHHHHHHHcCCceEEEecCCChhhHHHHHHHHHHcCCCHHHheeC
Confidence 3345555565 578899999999999999998 6767543
No 146
>cd05031 S-100A10_like S-100A10_like: S-100A10 domain found in proteins similar to S100A10. S100A10 is a member of the S100 family of EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1_like group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. A unique feature of S100A10 is that it contains mutation in both of the calcium binding sites, making it calcium insensitive. S100A10 has been detected in brain, heart, gastrointestinal tract, kidney, liver, lung, spleen, testes, epidermis, aorta, and thymus. Structural data supports the homo- and hetero-dimeric as well as hetero-tetrameric nature of the protein. S100A10 has multiple binding partners in its calcium free state and is therefore involved in many diverse biological functions.
Probab=26.50 E-value=1.7e+02 Score=21.33 Aligned_cols=55 Identities=11% Similarity=0.146 Sum_probs=33.0
Q ss_pred HHHHHhhhccccCC--CcccHHHHHHHHHhhcCC-CCCCCCHHHHHHHHhhccccCCc
Q 027804 102 QIVEICLATRPHNG--GLINLQELCNLLRQRRKS-NREAVSEDDCLRAISKLKVLGNG 156 (218)
Q Consensus 102 qIvEvC~~tr~~NG--Gli~l~el~~~v~k~rg~-~~~~IS~dDI~rAi~~L~~LG~G 156 (218)
++.++-..--..|| |.|+..||...+...-+. -...+|+++|.+-++.+..=|.|
T Consensus 9 ~l~~~F~~~D~~dg~dG~Is~~El~~~l~~~~g~~lg~~~s~~ei~~~~~~~D~~~dg 66 (94)
T cd05031 9 SLILTFHRYAGKDGDKNTLSRKELKKLMEKELSEFLKNQKDPMAVDKIMKDLDQNRDG 66 (94)
T ss_pred HHHHHHHHHhccCCCCCeECHHHHHHHHHHHhHHHhhccccHHHHHHHHHHhCCCCCC
Confidence 34443333323364 899999999888652221 11247888888888776554443
No 147
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=26.32 E-value=1.4e+02 Score=28.36 Aligned_cols=66 Identities=9% Similarity=0.139 Sum_probs=44.3
Q ss_pred cchhhhhccHHHHHHHHHhhHhHHHHHHHHHH-HHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhc
Q 027804 5 PGIGGLQSAAVARDQYRLLGENVAKLRTDLMK-EQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKV 74 (218)
Q Consensus 5 vGi~ai~~~~~~~~~y~~~g~~l~~~~~~~L~-~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~si 74 (218)
--|.++-+.+.+.+.|.+.++.....-.+... .-|..|..+|. ++.++|-.||-.|.+|+..-..+
T Consensus 263 ~evk~vl~~K~t~~~y~~r~I~am~avaea~~NRsL~df~~aL~----qY~~el~~D~~iRsHl~~LYD~L 329 (421)
T COG5159 263 EEVKAVLRNKNTLKHYDDRMIRAMLAVAEAFGNRSLKDFSDALA----QYSDELHQDSFIRSHLQYLYDVL 329 (421)
T ss_pred HHHHHHHccchhHhhhhhhhHHHHHHHHHHhCCCcHhhHHHHHH----HhhHHhccCHHHHHHHHHHHHHH
Confidence 35677777777777887777665433333222 23556666665 56788999999999999876543
No 148
>PF06627 DUF1153: Protein of unknown function (DUF1153); InterPro: IPR009534 This family consists of several short, hypothetical bacterial proteins of unknown function.; PDB: 2OA4_A 2JRT_A.
Probab=26.21 E-value=25 Score=27.25 Aligned_cols=41 Identities=22% Similarity=0.336 Sum_probs=27.8
Q ss_pred HHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027804 100 GVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (218)
Q Consensus 100 aVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~ 152 (218)
|.+=++|-.+ ..||+|+.+|.++++ .+|++++..=....+.
T Consensus 35 a~RKAaVV~a---V~~Glis~~EA~~rY---------~Ls~eEf~~W~~av~r 75 (90)
T PF06627_consen 35 ARRKAAVVRA---VRGGLISVEEACRRY---------GLSEEEFESWQRAVDR 75 (90)
T ss_dssp HHHHHHHHHH---HHCTTS-HHHHHHCT---------TSSHHHHHHHHHHCCT
T ss_pred hhHHHHHHHH---HHcCCCCHHHHHHHh---------CCCHHHHHHHHHHHHH
Confidence 3444444443 679999999999764 4899999876665543
No 149
>PRK15482 transcriptional regulator MurR; Provisional
Probab=26.13 E-value=3.6e+02 Score=23.66 Aligned_cols=66 Identities=14% Similarity=0.242 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccccccC---ccchHHHHHHHHH
Q 027804 32 TDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLG---IGDFYYELGVQIV 104 (218)
Q Consensus 32 ~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG---~gdFyyeLaVqIv 104 (218)
+.+...+|..=...+.+|..+|..++..-. -++++...||.|-+-. .|+ +.|| ..||-++|+..+.
T Consensus 7 i~~~~~~Lt~~e~~Ia~yIl~n~~~v~~~s-----i~elA~~~~vS~aTv~-Rf~-kkLGf~Gf~efk~~l~~~~~ 75 (285)
T PRK15482 7 IRNAESEFTENEQKIADFLRANVSELKSVS-----SRKMAKQLGISQSSIV-KFA-QKLGAQGFTELRMALIGEYS 75 (285)
T ss_pred HHHHHhhcCHHHHHHHHHHHhCHHHHHhcC-----HHHHHHHhCCCHHHHH-HHH-HHhCCCCHHHHHHHHHHHHh
Confidence 344444555556678888888877665432 2355555665544311 122 2233 3578888876654
No 150
>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional
Probab=26.07 E-value=1.6e+02 Score=28.17 Aligned_cols=51 Identities=16% Similarity=0.313 Sum_probs=43.5
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.++++++++.++..+.|+.|- ..+|-=-|.|=-.|....+++++..++
T Consensus 277 ~~~~~~~~~~i~~lr~~~~~i~i~----t~~IvGfPgET~edf~~tl~fi~e~~~ 327 (440)
T PRK14862 277 PASVEKTLERIKKWREICPDLTIR----STFIVGFPGETEEDFQMLLDFLKEAQL 327 (440)
T ss_pred CCCHHHHHHHHHHHHHHCCCceec----ccEEEECCCCCHHHHHHHHHHHHHcCC
Confidence 358899999999999988888763 367888899999999999999999775
No 151
>PF10264 Stork_head: Winged helix Storkhead-box1 domain; InterPro: IPR019391 In humans the Storkhead-box protein controls polyploidization of extravillus trophoblast and is implicated in pre-eclampsia []. This entry represents the conserved N-terminal winged-helix domain, which is likely to bind DNA.
Probab=25.80 E-value=1.7e+02 Score=22.15 Aligned_cols=47 Identities=19% Similarity=0.252 Sum_probs=35.6
Q ss_pred cCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc------ccCCceEEE
Q 027804 113 HNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK------VLGNGYEVI 160 (218)
Q Consensus 113 ~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~------~LG~Gf~vi 160 (218)
..|...+++.|++.+.+..... ..=|.|.|..|+.+|= .-|.||-|+
T Consensus 25 ~~~~~at~E~l~~~L~~~yp~i-~~Ps~e~l~~~L~~Li~erkIY~tg~GYfiv 77 (80)
T PF10264_consen 25 AAGQPATQETLREHLRKHYPGI-AIPSQEVLYNTLGTLIKERKIYHTGEGYFIV 77 (80)
T ss_pred ccCCcchHHHHHHHHHHhCCCC-CCCCHHHHHHHHHHHHHcCceeeCCCceEee
Confidence 4488889999999999986533 2458899999998884 456677665
No 152
>PF10136 SpecificRecomb: Site-specific recombinase; InterPro: IPR011385 This group represents a site-specific recombinase Gcr. Please see the following relevant reference: [].
Probab=25.66 E-value=1.1e+02 Score=31.42 Aligned_cols=87 Identities=24% Similarity=0.430 Sum_probs=54.2
Q ss_pred ccCChhHHHHHHHHHHh--cCCCCC--CCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcC
Q 027804 57 IRKNPTFRSQFHEMCAK--VGVDPL--ASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRK 132 (218)
Q Consensus 57 I~~dP~FR~~F~~MC~s--iGVDPL--as~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg 132 (218)
++.||+.|.+|+.+... -+.|+. .+.-|+-+ -..|+.||..++-+=-...-+... ++.||...+.....
T Consensus 42 L~~~p~~~~~l~~~l~~~l~~~~~~~L~~d~Gi~~----~~gF~~El~~Rl~~r~lP~~~d~~---~l~~lf~~lF~~~~ 114 (643)
T PF10136_consen 42 LERNPELRAALRRYLRRLLRERRQYPLLTDSGILS----RSGFFSELSRRLYERLLPAPPDPN---DLSDLFNLLFPRPS 114 (643)
T ss_pred HHhCHHHHHHHHHHHHHHHhcCCcchHHHhcCCCC----CccHHHHHHHHHHhhcCCCCCChh---HHHHHHHHHCCCCC
Confidence 34699999999998877 467744 34444443 368999999999987766555443 56677766665433
Q ss_pred CCC--CCCCHHHHHHHHhhc
Q 027804 133 SNR--EAVSEDDCLRAISKL 150 (218)
Q Consensus 133 ~~~--~~IS~dDI~rAi~~L 150 (218)
... ..|.+++..+=...|
T Consensus 115 D~~Wl~ai~~~~w~~L~~lL 134 (643)
T PF10136_consen 115 DAEWLEAIPDETWLRLFELL 134 (643)
T ss_pred cHHHHHhCCHHHHHHHHHHh
Confidence 221 134444444444444
No 153
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=25.61 E-value=2.5e+02 Score=22.19 Aligned_cols=71 Identities=14% Similarity=0.288 Sum_probs=37.5
Q ss_pred cchhhhhccHHHHHHH----HHhhHhHHHHHHHHHHHHHHHHHHHHHH-------HHHHhhccccCChhHHHHHHHHHHh
Q 027804 5 PGIGGLQSAAVARDQY----RLLGENVAKLRTDLMKEQLATFRSQLED-------FARKHKNDIRKNPTFRSQFHEMCAK 73 (218)
Q Consensus 5 vGi~ai~~~~~~~~~y----~~~g~~l~~~~~~~L~~QL~~F~~~L~~-------FA~kH~~eI~~dP~FR~~F~~MC~s 73 (218)
.||||+.+..+.-.++ -..|....++--.-+...+...++.+.. -|..+.+++ ++.|..++++++..
T Consensus 12 AGLGa~a~~~ek~~k~~~~LVkkGe~~~ee~k~~~~e~~~~~~e~~~~~~~~~~~~~~~~~~~l--e~~~~~~v~~~L~~ 89 (118)
T TIGR01837 12 AGIGALARVQEEGSKFFNRLVKEGELAEKRGQKRFDESVDAAREEVKTALEQTRDQVQRNWDKL--EKAFDERVEQALNR 89 (118)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhHHHH--HHHHHHHHHHHHHH
Confidence 4777777665443332 2334443333333344444444432211 122333333 45788899999999
Q ss_pred cCCC
Q 027804 74 VGVD 77 (218)
Q Consensus 74 iGVD 77 (218)
+|+-
T Consensus 90 lg~~ 93 (118)
T TIGR01837 90 LNIP 93 (118)
T ss_pred cCCC
Confidence 9975
No 154
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=25.58 E-value=1.7e+02 Score=21.58 Aligned_cols=41 Identities=24% Similarity=0.300 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHH
Q 027804 96 YYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLR 145 (218)
Q Consensus 96 yyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~r 145 (218)
|.++-..|+++. ...||-++.+|++..|.+.-+ +|++|...
T Consensus 2 ~~~~~~piL~~L----~~~g~~~~~~ei~~~v~~~~~-----ls~e~~~~ 42 (92)
T PF14338_consen 2 YDELMPPILEAL----KDLGGSASRKEIYERVAERFG-----LSDEERNE 42 (92)
T ss_pred HHHHHHHHHHHH----HHcCCCcCHHHHHHHHHHHhC-----CCHHHHHH
Confidence 455556666665 456999999999999988653 77776554
No 155
>KOG0031 consensus Myosin regulatory light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=25.47 E-value=3.1e+02 Score=23.60 Aligned_cols=38 Identities=16% Similarity=0.400 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCC
Q 027804 36 KEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDP 78 (218)
Q Consensus 36 ~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDP 78 (218)
++|.+.|+++.. +.-+.++.|-.-..+| .|.+|+|=+|
T Consensus 28 q~QIqEfKEAF~-~mDqnrDG~IdkeDL~----d~~aSlGk~~ 65 (171)
T KOG0031|consen 28 QSQIQEFKEAFN-LMDQNRDGFIDKEDLR----DMLASLGKIA 65 (171)
T ss_pred HHHHHHHHHHHH-HHhccCCCcccHHHHH----HHHHHcCCCC
Confidence 478889998874 5778888887777776 7889999774
No 156
>CHL00119 atpD ATP synthase CF1 delta subunit; Validated
Probab=25.23 E-value=4e+02 Score=22.14 Aligned_cols=67 Identities=21% Similarity=0.231 Sum_probs=38.5
Q ss_pred cCCCcccHHHHHHHH----HhhcCCC------CCCCCHHHHHHHHhhccc----------------cCCceEEEEECCEE
Q 027804 113 HNGGLINLQELCNLL----RQRRKSN------REAVSEDDCLRAISKLKV----------------LGNGYEVISVGKKK 166 (218)
Q Consensus 113 ~NGGli~l~el~~~v----~k~rg~~------~~~IS~dDI~rAi~~L~~----------------LG~Gf~vi~ig~k~ 166 (218)
.||-+--+.+++..+ .+.++.. +.++|++.+.+-.+.|+. |.+|+. +.+|++.
T Consensus 85 ~~~r~~~l~~I~~~f~~~~~~~~~~~~~~v~sa~~L~~~~~~~l~~~L~~~~~~~~v~l~~~vD~~ligGi~-i~~g~~~ 163 (184)
T CHL00119 85 DRGRIALLDAIIEKYLELVYKLASIKIAEVSTAVPLSSAQEEALIEKLKEMTNAKEIKLVITVDPSLIGGFL-IKIGSKV 163 (184)
T ss_pred HcCcHHHHHHHHHHHHHHHHHhcCeEEEEEEeccCCCHHHHHHHHHHHHHHhCCCeEEEEeeeChHHhCcEE-EEECCEE
Confidence 355555555555433 3333321 357888877776666642 346664 5778888
Q ss_pred EEEecCCCcchhHH
Q 027804 167 LVRSVPTELNKDHN 180 (218)
Q Consensus 167 ~vrSvP~ELs~Dq~ 180 (218)
|=.|+...|..=+.
T Consensus 164 ~D~Si~~~L~~l~~ 177 (184)
T CHL00119 164 IDTSIKGQLKQLAS 177 (184)
T ss_pred EeHhHHHHHHHHHH
Confidence 87777655544333
No 157
>PRK11235 bifunctional antitoxin/transcriptional repressor RelB; Provisional
Probab=25.21 E-value=55 Score=24.59 Aligned_cols=24 Identities=21% Similarity=0.430 Sum_probs=21.2
Q ss_pred ccCChhHHHHHHHHHHhcCCCCCC
Q 027804 57 IRKNPTFRSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 57 I~~dP~FR~~F~~MC~siGVDPLa 80 (218)
+|=|++...+..+.|..+|++|-.
T Consensus 6 vRiD~~lK~~A~~vl~~lGls~S~ 29 (80)
T PRK11235 6 VRVDDELKARAYAVLEKLGVTPSE 29 (80)
T ss_pred EEeCHHHHHHHHHHHHHhCCCHHH
Confidence 577999999999999999999754
No 158
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=25.11 E-value=1.6e+02 Score=29.73 Aligned_cols=55 Identities=18% Similarity=0.381 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHhhh--ccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc
Q 027804 96 YYELGVQIVEICLA--TRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK 151 (218)
Q Consensus 96 yyeLaVqIvEvC~~--tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~ 151 (218)
||..+-.| -.|+. -|++.||=-||+++++.+-+..+.....+|++|+.-+++...
T Consensus 356 YY~kG~lv-~L~lDl~iR~r~~~~~SLDdvmram~~~~~~~~~~~t~e~v~av~~~~t 412 (558)
T COG3975 356 YYQKGALV-ALLLDLLIRERGGGQKSLDDVMRALWKEFGRAERGYTPEDVQAVLENVT 412 (558)
T ss_pred hhhchhHH-HHHHHHHHHhcCCCcccHHHHHHHHHHHhCcCccCCCHHHHHHHHHhhc
Confidence 55555443 44443 467889999999999999998887767899999999998875
No 159
>PF03102 NeuB: NeuB family; InterPro: IPR013132 NeuB is the prokaryotic N-acetylneuraminic acid synthase (Neu5Ac). It catalyses the direct formation of Neu5Ac (the most common sialic acid) by condensation of phosphoenolpyruvate (PEP) and N-acetylmannosamine (ManNAc). This reaction has only been observed in prokaryotes; eukaryotes synthesise the 9-phosphate form, Neu5Ac-9-P, and utilise ManNAc-6-P instead of ManNAc. Such eukaryotic enzymes are not present in this family []. This family also contains SpsE spore coat polysaccharide biosynthesis proteins.; GO: 0016051 carbohydrate biosynthetic process; PDB: 3G8R_B 1XUU_A 1XUZ_A 3CM4_A 2ZDR_A 1VLI_A 2WQP_A.
Probab=25.03 E-value=2.1e+02 Score=25.46 Aligned_cols=107 Identities=19% Similarity=0.244 Sum_probs=52.0
Q ss_pred hhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCC---CCCC
Q 027804 61 PTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKS---NREA 137 (218)
Q Consensus 61 P~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~---~~~~ 137 (218)
++.-.++.++|.+.|||.++|-=+..+ =||.-++.+. --+.--|-+.=-.+++.+.+.... ...-
T Consensus 55 ~e~~~~L~~~~~~~gi~f~stpfd~~s-----~d~l~~~~~~-------~~KIaS~dl~n~~lL~~~A~tgkPvIlSTG~ 122 (241)
T PF03102_consen 55 EEQHKELFEYCKELGIDFFSTPFDEES-----VDFLEELGVP-------AYKIASGDLTNLPLLEYIAKTGKPVILSTGM 122 (241)
T ss_dssp HHHHHHHHHHHHHTT-EEEEEE-SHHH-----HHHHHHHT-S-------EEEE-GGGTT-HHHHHHHHTT-S-EEEE-TT
T ss_pred HHHHHHHHHHHHHcCCEEEECCCCHHH-----HHHHHHcCCC-------EEEeccccccCHHHHHHHHHhCCcEEEECCC
Confidence 333346899999999998875311111 2444444332 222333444456677777763211 0124
Q ss_pred CCHHHHHHHHhhc-cccCCceEEEEECCEEEEEecCCCcchhHHHHHH
Q 027804 138 VSEDDCLRAISKL-KVLGNGYEVISVGKKKLVRSVPTELNKDHNQILE 184 (218)
Q Consensus 138 IS~dDI~rAi~~L-~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe 184 (218)
-|.+||.+|++.+ +.-+..+.++. =+.+=|.....=+..+++
T Consensus 123 stl~EI~~Av~~~~~~~~~~l~llH-----C~s~YP~~~e~~NL~~i~ 165 (241)
T PF03102_consen 123 STLEEIERAVEVLREAGNEDLVLLH-----CVSSYPTPPEDVNLRVIP 165 (241)
T ss_dssp --HHHHHHHHHHHHHHCT--EEEEE-----E-SSSS--GGG--TTHHH
T ss_pred CCHHHHHHHHHHHHhcCCCCEEEEe-----cCCCCCCChHHcChHHHH
Confidence 5899999999999 55455555543 233446555544444443
No 160
>TIGR01578 MiaB-like-B MiaB-like tRNA modifying enzyme, archaeal-type. This clade is a member of a subfamily (TIGR00089) and spans the archaea and eukaryotes. The only archaeal miaB-like genes are in this clade, while eukaryotes have sequences described by this model as well as ones falling within the scope of the MiaB equivalog model.
Probab=24.93 E-value=2e+02 Score=27.20 Aligned_cols=51 Identities=16% Similarity=0.219 Sum_probs=42.4
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..+.+|+.++++.++....|+.+ ...+|--.|.|=-.|....+++++..++
T Consensus 264 ~~~~~~~~~~i~~i~~~~~~i~i----~~~~IvG~PgET~ed~~~t~~~~~~~~~ 314 (420)
T TIGR01578 264 EYTVSDFEDIVDKFRERFPDLTL----STDIIVGFPTETDDDFEETMELLRKYRP 314 (420)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----EeeEEEeCCCCCHHHHHHHHHHHHHhCC
Confidence 47899999999999887667765 3467888999988999999999998664
No 161
>cd05027 S-100B S-100B: S-100B domain found in proteins similar to S100B. S100B is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100B group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100B is most abundant in glial cells of the central nervous system, predominately in astrocytes. S100B is involved in signal transduction via the inhibition of protein phoshorylation, regulation of enzyme activity and by affecting the calcium homeostasis. Upon calcium binding the S100B homodimer changes conformation to expose a hydrophobic cleft, which represents the interaction site of S100B with its more than 20 known target proteins. These target proteins include several cellular architecture proteins such as tubulin and GFAP; S100B can inhibit polymerization of these oligomeric molecules. Furthermore, S100B i
Probab=24.92 E-value=1.7e+02 Score=21.69 Aligned_cols=43 Identities=16% Similarity=0.200 Sum_probs=28.5
Q ss_pred CCCcccHHHHHHHHHhhc-CCCCCCCCHHHHHHHHhhccccCCc
Q 027804 114 NGGLINLQELCNLLRQRR-KSNREAVSEDDCLRAISKLKVLGNG 156 (218)
Q Consensus 114 NGGli~l~el~~~v~k~r-g~~~~~IS~dDI~rAi~~L~~LG~G 156 (218)
+|..|+.+||...+...- .......|++||.+-++.+.+=|.|
T Consensus 23 dG~~I~~~eL~~ll~~~~~~~lg~~~~~~~v~~~i~~~D~n~dG 66 (88)
T cd05027 23 DKHKLKKSELKELINNELSHFLEEIKEQEVVDKVMETLDSDGDG 66 (88)
T ss_pred CcCEECHHHHHHHHHHHhHHHhcCCCCHHHHHHHHHHhCCCCCC
Confidence 333799999999987610 0011247999999998887654433
No 162
>PRK02899 adaptor protein; Provisional
Probab=24.88 E-value=2.7e+02 Score=23.96 Aligned_cols=53 Identities=13% Similarity=0.068 Sum_probs=39.4
Q ss_pred CHHHHHHHHhhccccCCc-eEEEEECCEEEEEecCCCcchh-HHHHHHHHhhccc
Q 027804 139 SEDDCLRAISKLKVLGNG-YEVISVGKKKLVRSVPTELNKD-HNQILELAQVTSI 191 (218)
Q Consensus 139 S~dDI~rAi~~L~~LG~G-f~vi~ig~k~~vrSvP~ELs~D-q~~vLe~a~~~~~ 191 (218)
+-|||+.+++.|...+.+ =.+..-.|++|+.-.+.+.+.+ ...++.++.+-|-
T Consensus 112 ~fEdvi~la~~l~~~~~~~s~LY~~~~~YYL~l~~~~~~~~~~~~~~ail~EYg~ 166 (197)
T PRK02899 112 TFEDVINLSHRLYNLGVTGGKLYSYDGRFYLWLEEEELIQLLKADFIAILAEYGN 166 (197)
T ss_pred CHHHHHHHHHhhcccCCCCcceEEECCEEEEEEecCCCCHhhHHHHHHHHHhhCC
Confidence 679999999999765543 5566779999988776666664 6677777776554
No 163
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=24.21 E-value=2e+02 Score=25.85 Aligned_cols=113 Identities=14% Similarity=0.098 Sum_probs=63.3
Q ss_pred HHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHH-HHhhhccccCCCcccHHHHHHHHHhhcC----CCCCCCC
Q 027804 65 SQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIV-EICLATRPHNGGLINLQELCNLLRQRRK----SNREAVS 139 (218)
Q Consensus 65 ~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIv-EvC~~tr~~NGGli~l~el~~~v~k~rg----~~~~~IS 139 (218)
...+++|...|++-+++ .+.+-.++.+ ++ ..--..-.+.+.=.++++.+.+... +....-|
T Consensus 81 ~~l~~~~~~~Gl~~~te-------------~~d~~~~~~l~~~-vd~~kIga~~~~n~~LL~~~a~~gkPV~lk~G~~~s 146 (266)
T PRK13398 81 KILKEVGDKYNLPVVTE-------------VMDTRDVEEVADY-ADMLQIGSRNMQNFELLKEVGKTKKPILLKRGMSAT 146 (266)
T ss_pred HHHHHHHHHcCCCEEEe-------------eCChhhHHHHHHh-CCEEEECcccccCHHHHHHHhcCCCcEEEeCCCCCC
Confidence 46888999999986552 1111122222 22 2344455666666788888865321 0123469
Q ss_pred HHHHHHHHhhccccCCceEEEEECCEEEEEecCC--CcchhHHHHHHHHh--hcccccc
Q 027804 140 EDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT--ELNKDHNQILELAQ--VTSILYQ 194 (218)
Q Consensus 140 ~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~--ELs~Dq~~vLe~a~--~~~~~~~ 194 (218)
.+|++.|++.+..=|+.--++.-.|. +++|. -.+.|-..+-.+.+ ..++.||
T Consensus 147 ~~e~~~A~e~i~~~Gn~~i~L~~rG~---~t~~~Y~~~~vdl~~i~~lk~~~~~pV~~D 202 (266)
T PRK13398 147 LEEWLYAAEYIMSEGNENVVLCERGI---RTFETYTRNTLDLAAVAVIKELSHLPIIVD 202 (266)
T ss_pred HHHHHHHHHHHHhcCCCeEEEEECCC---CCCCCCCHHHHHHHHHHHHHhccCCCEEEe
Confidence 99999999999887875333333321 22332 33445444444433 3567665
No 164
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=24.16 E-value=1.7e+02 Score=19.45 Aligned_cols=42 Identities=14% Similarity=0.301 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCC
Q 027804 32 TDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDP 78 (218)
Q Consensus 32 ~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDP 78 (218)
..+|++.+.+=+..+....... ..+|.+ .....+|..+||+|
T Consensus 13 ~~~La~~~gis~~tl~~~~~~~----~~~~~~-~~l~~ia~~l~~~~ 54 (63)
T PF13443_consen 13 QKDLARKTGISRSTLSRILNGK----PSNPSL-DTLEKIAKALNCSP 54 (63)
T ss_dssp HHHHHHHHT--HHHHHHHHTTT---------H-HHHHHHHHHHT--H
T ss_pred HHHHHHHHCcCHHHHHHHHhcc----cccccH-HHHHHHHHHcCCCH
Confidence 4578888888888888877744 246666 37899999999986
No 165
>cd07626 BAR_SNX9_like The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9 and Similar Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX9, SNX18, SNX33, and similar proteins. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosis, while SNX18 is localized to peripheral endosomal structures, and acts in a trafficking pathway that is clathrin-independent but relies on AP-1 and PACS1. BAR domains for
Probab=24.09 E-value=1.2e+02 Score=26.38 Aligned_cols=50 Identities=14% Similarity=0.270 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccccCChh-HHHHHHHHHHhcCCCCCCCC
Q 027804 33 DLMKEQLATFRSQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDPLASN 82 (218)
Q Consensus 33 ~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~-FR~~F~~MC~siGVDPLas~ 82 (218)
..|..=+..+.+...+++++|..-.+++=. +=..|+.|+.++.+|+-..+
T Consensus 14 ~~md~svk~l~~~~~~~~kk~~~~~kkeyqk~G~af~~L~~af~~d~~~~~ 64 (199)
T cd07626 14 KSMDDSVKNLINIAQEQAKKHQGPYKKEYQKIGQAFTSLGTAFELDETPTS 64 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHccCCCccc
Confidence 356666667778888999999888876644 65669999999999976444
No 166
>cd00052 EH Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A hydrophobic binding pocket is formed by residues from both EF-hand motifs. The EH domain binds to proteins containing NPF (class I), [WF]W or SWG (class II), or H[TS]F (class III) sequence motifs.
Probab=23.84 E-value=1.9e+02 Score=18.82 Aligned_cols=37 Identities=16% Similarity=0.135 Sum_probs=25.0
Q ss_pred CCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCc
Q 027804 114 NGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNG 156 (218)
Q Consensus 114 NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~G 156 (218)
+.|.|+.+|+...+.+. + ++++++.+-++.+..=+.|
T Consensus 12 ~~G~i~~~el~~~l~~~-g-----~~~~~~~~i~~~~d~~~~g 48 (67)
T cd00052 12 GDGLISGDEARPFLGKS-G-----LPRSVLAQIWDLADTDKDG 48 (67)
T ss_pred CCCcCcHHHHHHHHHHc-C-----CCHHHHHHHHHHhcCCCCC
Confidence 45888999988877653 2 4777777777666554444
No 167
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=23.74 E-value=2.4e+02 Score=19.09 Aligned_cols=50 Identities=24% Similarity=0.296 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHhhhccccCCCcc-cHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccC
Q 027804 96 YYELGVQIVEICLATRPHNGGLI-NLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLG 154 (218)
Q Consensus 96 yyeLaVqIvEvC~~tr~~NGGli-~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG 154 (218)
|.+++..|.+--..-+-..|=.+ +..+|.+++. ||..=+.+|++.|...|
T Consensus 2 ~~~i~~~l~~~I~~g~~~~g~~lps~~~la~~~~---------vsr~tvr~al~~L~~~g 52 (64)
T PF00392_consen 2 YEQIYDQLRQAILSGRLPPGDRLPSERELAERYG---------VSRTTVREALRRLEAEG 52 (64)
T ss_dssp HHHHHHHHHHHHHTTSS-TTSBE--HHHHHHHHT---------S-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHcCCCCCCCEeCCHHHHHHHhc---------cCCcHHHHHHHHHHHCC
Confidence 45566666666666666667777 8888887764 89999999999999877
No 168
>TIGR01029 rpsG_bact ribosomal protein S7, bacterial/organelle. This model describes the bacterial and organellar branch of the ribosomal protein S7 family (includes prokaroytic S7 and eukaryotic S5). The eukaryotic and archaeal branch is described by model TIGR01028.
Probab=23.68 E-value=3.2e+02 Score=22.58 Aligned_cols=40 Identities=23% Similarity=0.249 Sum_probs=29.9
Q ss_pred HHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHH
Q 027804 142 DCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILE 184 (218)
Q Consensus 142 DI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe 184 (218)
=+.+||....|+ -....+.+||.+| -||.+++.++..-|.
T Consensus 59 vl~~Ai~nv~P~-~evk~~r~gG~~y--qvP~~v~~~rr~~lA 98 (154)
T TIGR01029 59 VFEQALENVKPL-VEVKSRRVGGATY--QVPVEVRPSRRYALA 98 (154)
T ss_pred HHHHHHHhCCCC-eeeEEeecCCEEE--EEeeEcCHHHHHHHH
Confidence 356799999887 3566677799988 468889988876543
No 169
>KOG0028 consensus Ca2+-binding protein (centrin/caltractin), EF-Hand superfamily protein [Cytoskeleton; Cell cycle control, cell division, chromosome partitioning]
Probab=23.59 E-value=1.8e+02 Score=24.99 Aligned_cols=68 Identities=12% Similarity=0.267 Sum_probs=47.2
Q ss_pred HHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcch
Q 027804 102 QIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNK 177 (218)
Q Consensus 102 qIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~ 177 (218)
+|-.+........-|.|+..+++..+...-+.. .|.+||.+|++.....+.|= | +-+.++.|-.||+.
T Consensus 70 ei~kll~d~dk~~~g~i~fe~f~~~mt~k~~e~---dt~eEi~~afrl~D~D~~Gk----i-s~~~lkrvakeLge 137 (172)
T KOG0028|consen 70 EILKLLADVDKEGSGKITFEDFRRVMTVKLGER---DTKEEIKKAFRLFDDDKTGK----I-SQRNLKRVAKELGE 137 (172)
T ss_pred HHHHHHHhhhhccCceechHHHHHHHHHHHhcc---CcHHHHHHHHHcccccCCCC----c-CHHHHHHHHHHhCc
Confidence 344455555555569999999998877766644 49999999999888877771 1 12334566677776
No 170
>PF08227 DASH_Hsk3: DASH complex subunit Hsk3 like; InterPro: IPR013183 This is a family of fungal proteins of unknown function.
Probab=23.57 E-value=1.1e+02 Score=20.68 Aligned_cols=18 Identities=28% Similarity=0.375 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027804 32 TDLMKEQLATFRSQLEDF 49 (218)
Q Consensus 32 ~~~L~~QL~~F~~~L~~F 49 (218)
...|..||+..+.+|.++
T Consensus 4 ~s~L~~qL~qL~aNL~~t 21 (45)
T PF08227_consen 4 YSHLASQLAQLQANLADT 21 (45)
T ss_pred HHHHHHHHHHHHHhHHHH
Confidence 344444444444444444
No 171
>TIGR01201 HU_rel DNA-binding protein, histone-like, putative. This model describes a set of proteins related to but longer than DNA-binding protein HU. Its distinctive domain architecture compared to HU and related histone-like DNA-binding proteins justifies the designation as superfamily. Members include, so far, one from Bacteroides fragilis, a gut bacterium, and ten from Porphyromonas gingivalis, an oral anaerobe.
Probab=23.53 E-value=1e+02 Score=25.12 Aligned_cols=45 Identities=29% Similarity=0.535 Sum_probs=33.4
Q ss_pred cCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc-----ccCCceEEEEEC
Q 027804 113 HNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK-----VLGNGYEVISVG 163 (218)
Q Consensus 113 ~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~-----~LG~Gf~vi~ig 163 (218)
...|.|+.+||.+++.+.. .+|+.||...++.|. .|-.|..| +++
T Consensus 26 ~~~~~mt~~el~~~Ia~~s-----~~s~~dv~~vl~~l~~~i~~~L~~G~~V-~L~ 75 (145)
T TIGR01201 26 VKSGVIDFEEIAELIAEES-----SLSPGDVKGIIDRLAYVLRRELANGKTV-RLG 75 (145)
T ss_pred eeCCCcCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHHHHHHHHhCCCeE-EeC
Confidence 4457899999999999864 389999999988774 45555533 444
No 172
>PF13012 MitMem_reg: Maintenance of mitochondrial structure and function; PDB: 2O96_B 2O95_A.
Probab=23.39 E-value=17 Score=27.84 Aligned_cols=69 Identities=16% Similarity=0.295 Sum_probs=8.1
Q ss_pred CCcchhhhhccHHHHHHHHHhhHhHHHHH--HHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcC
Q 027804 3 RRPGIGGLQSAAVARDQYRLLGENVAKLR--TDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVG 75 (218)
Q Consensus 3 R~vGi~ai~~~~~~~~~y~~~g~~l~~~~--~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siG 75 (218)
+|+||.++.+ ...+..|..+...+...+ +..|.+.+..-...|+.+ -.+++.-|++.-++.+.+|.++-
T Consensus 4 Erigv~~l~~-~~~~~~~s~~~~~l~~~~~al~~L~~~l~~i~~Yl~~v---~~g~~~~d~~i~r~l~~l~~~lp 74 (115)
T PF13012_consen 4 ERIGVDHLAR-GLGDHYYSSLSSQLENEQNALKMLHKRLWQILDYLEDV---ISGEIPPDHEILRQLQDLLSSLP 74 (115)
T ss_dssp HHHHHHHHHH-H--S------------------------------------------------------------
T ss_pred HHHHHHHHHc-cCCCccccHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH---HcCcCCCchhHHHHHHHHHHhcc
Confidence 4578888887 233333433332222111 124444444444455554 24578889998889999998874
No 173
>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=23.39 E-value=2.2e+02 Score=26.91 Aligned_cols=51 Identities=16% Similarity=0.239 Sum_probs=42.8
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..+.+|++++++.++....|+.+ +..+|--.|.|=..|....++.+...++
T Consensus 255 ~~~~~~~~~~i~~lr~~~pgi~i----~~d~IvGfPGET~edf~~tl~fi~~~~~ 305 (418)
T PRK14336 255 GYTNQQYRELVERLKTAMPDISL----QTDLIVGFPSETEEQFNQSYKLMADIGY 305 (418)
T ss_pred CCCHHHHHHHHHHHHhhCCCCEE----EEEEEEECCCCCHHHHHHHHHHHHhcCC
Confidence 36899999999999988777866 4578888999988899999999888654
No 174
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=23.21 E-value=1.7e+02 Score=27.61 Aligned_cols=51 Identities=22% Similarity=0.260 Sum_probs=34.2
Q ss_pred HHHHHHHHHhhhcccc-CCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhc
Q 027804 98 ELGVQIVEICLATRPH-NGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKL 150 (218)
Q Consensus 98 eLaVqIvEvC~~tr~~-NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L 150 (218)
++-.-|+++|.+++.. .=|-|.+-..-+...-.+|.. .|++|||..++...
T Consensus 271 ~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~--~V~pdDv~~~a~~v 322 (350)
T CHL00081 271 DLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRT--EVTPKDIFKVITLC 322 (350)
T ss_pred HHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCC--CCCHHHHHHHHHHH
Confidence 4566688999998852 334454555555555445544 89999999998763
No 175
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=23.10 E-value=3.6e+02 Score=26.94 Aligned_cols=111 Identities=19% Similarity=0.275 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccccccC---ccchHHHHHHHHHHHhh
Q 027804 32 TDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLG---IGDFYYELGVQIVEICL 108 (218)
Q Consensus 32 ~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG---~gdFyyeLaVqIvEvC~ 108 (218)
+.+...+|..=...+.+|..+|..++... .-++++...||.|-+-. .| .+.|| ..||-++|...+.+-=.
T Consensus 347 I~~~~~~Lt~~E~~IA~yIl~n~~~v~~~-----si~eLA~~~~vS~aTV~-Rf-~kkLGf~Gf~efK~~L~~~~~~~~~ 419 (638)
T PRK14101 347 IRQMRDALTPAERRVADLALNHPRSIIND-----PIVDIARKADVSQPTVI-RF-CRSLGCQGLSDFKLKLATGLTGTIP 419 (638)
T ss_pred HHHHHhhcCHHHHHHHHHHHhCHHHHHhc-----cHHHHHHHhCCCHHHHH-HH-HHHhCCCCHHHHHHHHHHHhhhccc
Confidence 44444455555678889999888876533 23356666666554311 01 12233 46888888866543100
Q ss_pred -hccc-cCCCcccHHHHHHHHHhhc----CCCCCCCCHHHHHHHHhhcc
Q 027804 109 -ATRP-HNGGLINLQELCNLLRQRR----KSNREAVSEDDCLRAISKLK 151 (218)
Q Consensus 109 -~tr~-~NGGli~l~el~~~v~k~r----g~~~~~IS~dDI~rAi~~L~ 151 (218)
..+. .++. +.+++...+.... ......++++++.++++.|.
T Consensus 420 ~~~~~~~~~~--~~~~~~~~~~~~~~~~i~~t~~~id~~~l~~aa~~L~ 466 (638)
T PRK14101 420 MSHSQVHLGD--TATDFGAKVLDNTVSAILQLREHLNFEHVEQAIDILN 466 (638)
T ss_pred cccccCCCCC--CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHh
Confidence 0011 0111 1222221111100 00012589999999999886
No 176
>PF11744 ALMT: Aluminium activated malate transporter; InterPro: IPR020966 This entry represents an malate transporter which has been is identified as being critical for aluminium tolerance in Arabidopsis thaliana [].; GO: 0010044 response to aluminum ion
Probab=22.99 E-value=2.6e+02 Score=26.96 Aligned_cols=43 Identities=21% Similarity=0.407 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCC
Q 027804 35 MKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVD 77 (218)
Q Consensus 35 L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVD 77 (218)
+...|..+-..++....--..||...+++|.+|++=|..+|..
T Consensus 261 ig~~lR~cay~v~AL~gcl~seiq~p~~~r~~~~~~~~~~~~e 303 (406)
T PF11744_consen 261 IGALLRHCAYCVEALHGCLNSEIQAPPELRQKFQEECTRVSSE 303 (406)
T ss_pred HHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHH
Confidence 3334444444444443334678999999999999999998844
No 177
>KOG2607 consensus CDK5 activator-binding protein [Signal transduction mechanisms]
Probab=22.95 E-value=1.7e+02 Score=28.82 Aligned_cols=85 Identities=24% Similarity=0.420 Sum_probs=57.5
Q ss_pred HHHHHHhhHhHHHHHHH----HHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCcccccc--
Q 027804 17 RDQYRLLGENVAKLRTD----LMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELL-- 90 (218)
Q Consensus 17 ~~~y~~~g~~l~~~~~~----~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~l-- 90 (218)
.+-|-.-..++--++.+ -|.+|++..+....+..+||.+==+.-..-|.+|-.-|..+|+- +.+.-.++|
T Consensus 105 d~~YlaEaAQIlvrnvnYEIP~LkKQiaK~qQq~tE~~RKe~d~~k~aa~~r~qfe~~c~qlglk----G~nvr~ElLel 180 (505)
T KOG2607|consen 105 DHIYLAEAAQILVRNVNYEIPYLKKQIAKVQQQMTELDRKEADIKKSAALSRTQFEDACRQLGLK----GNNVRRELLEL 180 (505)
T ss_pred CceeHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHhCCc----cchHHHHHHHH
Confidence 44555555565555555 79999999999999988888754455566999999999999986 212222332
Q ss_pred --Cc-cchHHHHHHHHHH
Q 027804 91 --GI-GDFYYELGVQIVE 105 (218)
Q Consensus 91 --G~-gdFyyeLaVqIvE 105 (218)
++ +.||--+.|-|-.
T Consensus 181 asdLPs~fyei~~v~i~~ 198 (505)
T KOG2607|consen 181 ASDLPSTFYEILEVIISD 198 (505)
T ss_pred HhcCcHHHHHHHHHHHhh
Confidence 22 3677666665544
No 178
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=22.77 E-value=4.2e+02 Score=21.56 Aligned_cols=71 Identities=18% Similarity=0.291 Sum_probs=39.8
Q ss_pred cchhhhhccHHHHHHH----HHhhHhHHHHHHHHHHHHHHHHH-------HHHHHHHHHhhccccCChhHHHHHHHHHHh
Q 027804 5 PGIGGLQSAAVARDQY----RLLGENVAKLRTDLMKEQLATFR-------SQLEDFARKHKNDIRKNPTFRSQFHEMCAK 73 (218)
Q Consensus 5 vGi~ai~~~~~~~~~y----~~~g~~l~~~~~~~L~~QL~~F~-------~~L~~FA~kH~~eI~~dP~FR~~F~~MC~s 73 (218)
.|+||+.+..++-.+| -..|..+....-....++++..+ +.+..-|...-+.+ .-.|-..+......
T Consensus 25 AGLGA~ak~~~EG~k~F~~LVk~Ge~~e~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~dkl--E~~fd~rV~~aL~r 102 (132)
T PF05597_consen 25 AGLGAYAKAQEEGSKVFEALVKEGEKLEKKTRKKAEEQVEEARDQVKSRVDDVKERATGQWDKL--EQAFDERVARALNR 102 (132)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHh
Confidence 4889988765443222 23344444444444444444444 44444444444433 33466678899999
Q ss_pred cCCC
Q 027804 74 VGVD 77 (218)
Q Consensus 74 iGVD 77 (218)
|||-
T Consensus 103 LgvP 106 (132)
T PF05597_consen 103 LGVP 106 (132)
T ss_pred cCCC
Confidence 9986
No 179
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=22.68 E-value=5.1e+02 Score=25.37 Aligned_cols=73 Identities=10% Similarity=0.009 Sum_probs=45.6
Q ss_pred cchhhhhccHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCC
Q 027804 5 PGIGGLQSAAVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLAS 81 (218)
Q Consensus 5 vGi~ai~~~~~~~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas 81 (218)
+|+.+.++-..+-.++..+-.+-.+++..++-..|+.++..| .-.+--+--||..=-...+.+..+|+.|...
T Consensus 271 iGi~~Td~fLr~Ia~~~G~~pe~l~~Er~rl~dal~d~~~~L----~GKrvai~Gdp~~~i~LarfL~elGmevV~v 343 (457)
T CHL00073 271 IGPDGTRAWIEKICSVFGIEPQGLEEREEQIWESLKDYLDLV----RGKSVFFMGDNLLEISLARFLIRCGMIVYEI 343 (457)
T ss_pred CcHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHHHH----CCCEEEEECCCcHHHHHHHHHHHCCCEEEEE
Confidence 477777766655555554322212344445555555555544 2222247889888888999999999999964
No 180
>PF05633 DUF793: Protein of unknown function (DUF793); InterPro: IPR008511 This entry includes Protein BYPASS 1 which is required for normal root and shoot development. Prevents constitutive production of a root mobile carotenoid-derived signaling compound that is capable of arresting shoot and leaf development [, ].
Probab=22.67 E-value=1.9e+02 Score=27.96 Aligned_cols=79 Identities=24% Similarity=0.405 Sum_probs=47.8
Q ss_pred HHHHHHHhcCCCCCCCC-CCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcC-C-CCCCCCHHH
Q 027804 66 QFHEMCAKVGVDPLASN-KGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRK-S-NREAVSEDD 142 (218)
Q Consensus 66 ~F~~MC~siGVDPLas~-k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg-~-~~~~IS~dD 142 (218)
.|+.....+..-|++.. -..|- |-|.+-+|+..|||.+-++ ||=.+..-...+.-+-. . ....+++.-
T Consensus 82 efr~li~~~~~~~~s~~~~dk~v------~eylD~sVKlLDvCNA~~~---gi~~lr~~~~ll~~al~~L~~~~~~~~~~ 152 (389)
T PF05633_consen 82 EFRALITNLRDLPLSKPPDDKWV------DEYLDRSVKLLDVCNAIRD---GISQLRQWQLLLQIALHALDSSRPLGEGQ 152 (389)
T ss_pred HHHHHHhcccccccCCchHHHHH------HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhcCCCCCcHHH
Confidence 35565555553366632 13454 7899999999999999765 44443332222221100 0 113799999
Q ss_pred HHHHHhhcccc
Q 027804 143 CLRAISKLKVL 153 (218)
Q Consensus 143 I~rAi~~L~~L 153 (218)
+.||-+.|.-|
T Consensus 153 ~rRAr~aL~dl 163 (389)
T PF05633_consen 153 LRRARKALSDL 163 (389)
T ss_pred HHHHHHHHHHH
Confidence 99999888633
No 181
>PF13031 DUF3892: Protein of unknown function (DUF3892)
Probab=22.64 E-value=1.5e+02 Score=21.61 Aligned_cols=42 Identities=19% Similarity=0.200 Sum_probs=25.7
Q ss_pred CCHHHHHHHHhhc-------cccCCceEEE-EECCEEEEEecCCCcchhH
Q 027804 138 VSEDDCLRAISKL-------KVLGNGYEVI-SVGKKKLVRSVPTELNKDH 179 (218)
Q Consensus 138 IS~dDI~rAi~~L-------~~LG~Gf~vi-~ig~k~~vrSvP~ELs~Dq 179 (218)
.|.++++..|+.= ...-.+..|. .-+|.+||||.|..-..|-
T Consensus 31 ~s~~~~i~~ie~g~~~~yv~~~~~~~V~V~~~~~G~kYirT~~Dg~~~dN 80 (85)
T PF13031_consen 31 YSREEAIAWIENGKWSFYVEGGWIAGVNVVTSRNGEKYIRTDADGTESDN 80 (85)
T ss_pred ccHHHHHHHHHcCCceEEeCCCCCccEEEEECCCCCeeEeeCCCCCCCch
Confidence 3666666666652 0122345555 3467999999998655554
No 182
>PF13267 DUF4058: Protein of unknown function (DUF4058)
Probab=22.63 E-value=66 Score=29.28 Aligned_cols=30 Identities=27% Similarity=0.481 Sum_probs=25.8
Q ss_pred CCCCCCCCCCccccccCccchHHHHHHHHHHHhhhc
Q 027804 75 GVDPLASNKGFWAELLGIGDFYYELGVQIVEICLAT 110 (218)
Q Consensus 75 GVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~t 110 (218)
|.||.--...+|+ |+|..|.+.|.+.....
T Consensus 7 GMdPYLE~P~lWp------dVH~rLI~aiad~L~Pq 36 (254)
T PF13267_consen 7 GMDPYLEHPDLWP------DVHNRLIVAIADSLQPQ 36 (254)
T ss_pred CCCccccCcchHH------HHHHHHHHHHHHHhhhc
Confidence 8999988889998 89999999998877653
No 183
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=22.60 E-value=3.7e+02 Score=21.80 Aligned_cols=64 Identities=22% Similarity=0.276 Sum_probs=40.2
Q ss_pred cchHHHHHHHHHHHhhhccc--cCCC---cccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEECCEEE
Q 027804 93 GDFYYELGVQIVEICLATRP--HNGG---LINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKL 167 (218)
Q Consensus 93 gdFyyeLaVqIvEvC~~tr~--~NGG---li~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~ 167 (218)
.+-...++--+.+.|..... ..+| -++.+|+-+.+. +|++=+-|+++.|+.-| +|.++++++
T Consensus 139 ~~~~~Rl~~~L~~l~~~~~~~~~~~~~~~~~t~~~lA~~lG---------~tr~tvsR~l~~l~~~g----ii~~~~~~i 205 (211)
T PRK11753 139 LDVTGRIAQTLLDLAKQPDAMTHPDGMQIKITRQEIGRIVG---------CSREMVGRVLKMLEDQG----LISAHGKTI 205 (211)
T ss_pred cChhhHHHHHHHHHHHhcCCcCCCCceecCCCHHHHHHHhC---------CCHHHHHHHHHHHHHCC----CEEecCCEE
Confidence 34445566666666654322 1122 234455555543 79999999999999877 778877766
Q ss_pred EE
Q 027804 168 VR 169 (218)
Q Consensus 168 vr 169 (218)
+.
T Consensus 206 ~i 207 (211)
T PRK11753 206 VV 207 (211)
T ss_pred EE
Confidence 53
No 184
>PF09566 RE_SacI: SacI restriction endonuclease; InterPro: IPR019066 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This family includes the SacI restriction endonuclease, which recognises and cleaves GAGCT^C.
Probab=22.52 E-value=1.5e+02 Score=28.16 Aligned_cols=47 Identities=19% Similarity=0.267 Sum_probs=35.3
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCC--CcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT--ELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~--ELs~Dq~~vLe~a~~~~~ 191 (218)
.+|++||+.|+++...-|.+=.++- .-|. -++.|++.+++-|..+++
T Consensus 257 ~~t~~Dv~hav~Kaa~aG~~k~lfi--------~gpra~~~~~~~t~~~~~a~~~~v 305 (351)
T PF09566_consen 257 NFTQEDVEHAVDKAAEAGINKVLFI--------FGPRATPVDLDRTQVIERAKECGV 305 (351)
T ss_pred cCCHHHHHHHHHHHHhcccceeEEE--------ecCccCcccchHHHHHHhhhcCeE
Confidence 6999999999999998775333322 2442 466699999999988776
No 185
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=22.40 E-value=2.3e+02 Score=21.18 Aligned_cols=46 Identities=24% Similarity=0.403 Sum_probs=35.7
Q ss_pred HHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCC
Q 027804 102 QIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGN 155 (218)
Q Consensus 102 qIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~ 155 (218)
.|+++-.+ +++-++.+||+..+.+.. ..|+..-|-|+++.|...|-
T Consensus 5 ~Il~~l~~----~~~~~sa~ei~~~l~~~~----~~i~~~TVYR~L~~L~~~Gl 50 (116)
T cd07153 5 AILEVLLE----SDGHLTAEEIYERLRKKG----PSISLATVYRTLELLEEAGL 50 (116)
T ss_pred HHHHHHHh----CCCCCCHHHHHHHHHhcC----CCCCHHHHHHHHHHHHhCCC
Confidence 34555543 257789999999998742 36999999999999998885
No 186
>TIGR02530 flg_new flagellar operon protein. Members of this family are found in a subset of bacterial flagellar operons, generally between genes designated flgD and flgE, in species as diverse as Bacillus halodurans and various other Firmicutes, Geobacter sulfurreducens, and Bdellovibrio bacteriovorus. The specific molecular function is unknown.
Probab=22.26 E-value=3.9e+02 Score=20.90 Aligned_cols=49 Identities=22% Similarity=0.324 Sum_probs=36.8
Q ss_pred HHHHHHHHhhcCCCCCCCCHHHH---HHHHhhccccCCceEEEEECCEEEEEecCC
Q 027804 121 QELCNLLRQRRKSNREAVSEDDC---LRAISKLKVLGNGYEVISVGKKKLVRSVPT 173 (218)
Q Consensus 121 ~el~~~v~k~rg~~~~~IS~dDI---~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ 173 (218)
....+|+.. |+. .+|++|+ ..|+++.+.=|.-=.+|-.++.-||.|||.
T Consensus 19 kHA~~RL~~-R~I---~l~~~~~~~i~~av~~A~~KG~kesLvl~~d~AlVvsv~N 70 (96)
T TIGR02530 19 KHALERMRE-RNI---SINPDDWKKLLEAVEEAESKGVKDSLILMNDAALVVSLKN 70 (96)
T ss_pred HHHHHHHHH-cCC---CCCHHHHHHHHHHHHHHHhcCCCceEEEeCCEEEEEEcCC
Confidence 344566666 443 4888875 568888887787777888899999999996
No 187
>cd02901 Macro_Poa1p_like Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly ADP-ribose as a ligand. Previously identified as displaying an Appr-1"-p (ADP-ribose-1"-monophosphate) processing activity, the macro domain may play roles in distinct ADP-ribose pathways, such as the ADP-ribosylation of proteins, an important post-translational modification which occurs in DNA repair, transcription, chromatin biology, and long-term memory formation, among other processes. Members of this family show similarity to the yeast protein Poa1p, reported to be a phosphatase specific for Appr-1"-p, a tRNA splicing metabolite. Poa1p may play a role in tRNA splicing regulation.
Probab=22.17 E-value=2.6e+02 Score=21.78 Aligned_cols=67 Identities=21% Similarity=0.335 Sum_probs=39.7
Q ss_pred HHHHHHHHhhccccCCceEEEEECC---EEEEEecCCCcc----hhH-------HHHHHHHhhccccccccccCcchhHH
Q 027804 140 EDDCLRAISKLKVLGNGYEVISVGK---KKLVRSVPTELN----KDH-------NQILELAQVTSILYQCFPFPHISFGL 205 (218)
Q Consensus 140 ~dDI~rAi~~L~~LG~Gf~vi~ig~---k~~vrSvP~ELs----~Dq-------~~vLe~a~~~~~~~~~~~~~~~~~~~ 205 (218)
++...++++.....-+|-.+++.++ .+||-..|..-. .|. ..+++.|...+. ..+-+|.|+-|+
T Consensus 44 ~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~I~~~~t~~~~~~~~~~~~l~~~l~~~~~~a~~~~~--~sva~P~iG~G~ 121 (140)
T cd02901 44 VEEYRAACKKKELLLGGVAVLERGSSLVSRYIYNLPTKVHYGPKSRYEAIEKSLRELRAHARDNGI--KSVAMPRIGCGL 121 (140)
T ss_pred HHHHHHHHHhcCCCCCcEEEEecCCCCCceEEEEeeccCCCCCCCcHHHHHHHHHHHHHHHHHcCC--CEEeeCCCCCcC
Confidence 3345555665554445566777765 367766664221 121 234555666665 688999999887
Q ss_pred HHH
Q 027804 206 FVF 208 (218)
Q Consensus 206 ~~~ 208 (218)
+-+
T Consensus 122 ~G~ 124 (140)
T cd02901 122 GGL 124 (140)
T ss_pred CCC
Confidence 644
No 188
>COG3343 RpoE DNA-directed RNA polymerase, delta subunit [Transcription]
Probab=22.15 E-value=1.6e+02 Score=25.41 Aligned_cols=59 Identities=20% Similarity=0.266 Sum_probs=42.7
Q ss_pred HHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhc-cccCCceEEEEECCEEE
Q 027804 104 VEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKL-KVLGNGYEVISVGKKKL 167 (218)
Q Consensus 104 vEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L-~~LG~Gf~vi~ig~k~~ 167 (218)
|+|-.+-...+|=-|.+.+++.-+.+.-| +|.++|..+|..+ .-|.--=+-|.+|..+|
T Consensus 17 IevA~~ile~~~~~~~F~dii~EI~~~~~-----~s~~ei~~~i~~FYTdln~DgrFi~LGdn~W 76 (175)
T COG3343 17 IEVAHAILEEKKKPFNFSDIINEIQKLLG-----VSKEEIRSRIGQFYTDLNIDGRFISLGDNKW 76 (175)
T ss_pred HHHHHHHHHHcCCCccHHHHHHHHHHHhC-----cCHHHHHHHHHHHHHHhccCCceeecccccc
Confidence 44444445556668999999999999754 8999999999887 34443334578887776
No 189
>PF07182 DUF1402: Protein of unknown function (DUF1402); InterPro: IPR009842 This family consists of several hypothetical bacterial proteins of around 310 residues in length. Members of this family seem to be found exclusively in Agrobacterium, Rhizobium and Brucella species. The function of this family is unknown.
Probab=22.07 E-value=72 Score=29.46 Aligned_cols=39 Identities=18% Similarity=0.474 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCC
Q 027804 42 FRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 42 F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLa 80 (218)
++++.+++=+|-..-++.|..++.+.++-...-||||.-
T Consensus 37 ~~ttyd~Ky~Kv~~lL~~D~~L~~kIk~~a~~Y~IdPIH 75 (303)
T PF07182_consen 37 FKTTYDAKYEKVRDLLARDRKLRGKIKKVAAAYGIDPIH 75 (303)
T ss_pred ccccHHHHHHHHHHHHhhcHHHHHHHHHHHHHcCCCchh
Confidence 444555556666677889999999999999999999993
No 190
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=22.05 E-value=1.3e+02 Score=20.78 Aligned_cols=32 Identities=19% Similarity=0.325 Sum_probs=20.4
Q ss_pred cchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHH
Q 027804 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAI 147 (218)
Q Consensus 93 gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi 147 (218)
..|-.+|+.+-.++|..... ..|+++||..|+
T Consensus 34 e~Fi~~l~~~A~~~a~~~~r-----------------------kti~~~Dv~~Av 65 (65)
T PF00808_consen 34 EEFIQYLAKEANEIAQRDKR-----------------------KTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHHHHHHHHHHHTTS-----------------------SEE-HHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcCC-----------------------CccCHHHHHHHC
Confidence 46666777776666664211 158999999885
No 191
>PRK13441 F0F1 ATP synthase subunit delta; Provisional
Probab=22.03 E-value=4.6e+02 Score=21.66 Aligned_cols=117 Identities=17% Similarity=0.192 Sum_probs=61.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHH-----HHHHhcC--CCCCCCCCCccccccCccchHHHHHHH
Q 027804 30 LRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFH-----EMCAKVG--VDPLASNKGFWAELLGIGDFYYELGVQ 102 (218)
Q Consensus 30 ~~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~-----~MC~siG--VDPLas~k~~ws~~lG~gdFyyeLaVq 102 (218)
.+.++...+|..+.+.+.++ .++-.||.+...=+ ..|...| +||... +|..-|
T Consensus 22 ~~l~~v~~~l~~~~~~~~~~-----~~~l~~p~i~~~~K~~~l~~~~~~~~~~~~~~~~------------nfl~vL--- 81 (180)
T PRK13441 22 EKEEEYGEFLDLVCQIYESA-----KEFFDNPIVKPEKKVSLIKEIMKEFGQEMDEFFE------------NFLNLV--- 81 (180)
T ss_pred CCHHHHHHHHHHHHHHHHHH-----HHHHhCCCCCHHHHHHHHHHHHHHhccccCHHHH------------HHHHHH---
Confidence 34678888888888877764 24555676543322 1221222 333221 222211
Q ss_pred HHHHhhhccccCCCcccHHHHHHHH----HhhcCC------CCCCCCHHHHHHHHhhcc---------------ccCCce
Q 027804 103 IVEICLATRPHNGGLINLQELCNLL----RQRRKS------NREAVSEDDCLRAISKLK---------------VLGNGY 157 (218)
Q Consensus 103 IvEvC~~tr~~NGGli~l~el~~~v----~k~rg~------~~~~IS~dDI~rAi~~L~---------------~LG~Gf 157 (218)
-.||-+-.+.++...+ ++.++. .+.++|++.+.+-.+.|+ .|-+|+
T Consensus 82 ---------~~~~R~~~l~~I~~~f~~l~~~~~~~~~~~V~sA~~L~~~~~~~i~~~l~k~~~~~v~l~~~vD~sliGG~ 152 (180)
T PRK13441 82 ---------FENKRQKLLPQIRALFEYEKILSEQKVPVNLTTAHELSDEELKLLRKFVRKYVLRDPVFEETIDESLIAGA 152 (180)
T ss_pred ---------HHCChHHHHHHHHHHHHHHHHHhcCeeEEEEEecccCCHHHHHHHHHHHHHHHCCcceEEeeeChHHhCcE
Confidence 2344455555554333 332332 135788877777777664 233566
Q ss_pred EEEEECCEEEEEecCCCcc
Q 027804 158 EVISVGKKKLVRSVPTELN 176 (218)
Q Consensus 158 ~vi~ig~k~~vrSvP~ELs 176 (218)
++.+|++.|=.|+...|.
T Consensus 153 -~i~ig~~~~D~Sik~~L~ 170 (180)
T PRK13441 153 -VVEFEGKRLDVTVQGRLK 170 (180)
T ss_pred -EEEECCEEEeHhHHHHHH
Confidence 567888887666654443
No 192
>PF11791 Aconitase_B_N: Aconitate B N-terminal domain; InterPro: IPR015933 Aconitase (aconitate hydratase; 4.2.1.3 from EC) is an iron-sulphur protein that contains a [4Fe-4S]-cluster and catalyses the interconversion of isocitrate and citrate via a cis-aconitate intermediate. Aconitase functions in both the TCA and glyoxylate cycles, however unlike the majority of iron-sulphur proteins that function as electron carriers, the [4Fe-4S]-cluster of aconitase reacts directly with an enzyme substrate. In eukaryotes there is a cytosolic form (cAcn) and a mitochondrial form (mAcn) of the enzyme. In bacteria there are also 2 forms, aconitase A (AcnA) and B (AcnB). Several aconitases are known to be multi-functional enzymes with a second non-catalytic, but essential function that arises when the cellular environment changes, such as when iron levels drop [, ]. Eukaryotic cAcn and mAcn, and bacterial AcnA have the same domain organisation, consisting of three N-terminal alpha/beta/alpha domains, a linker region, followed by a C-terminal 'swivel' domain with a beta/beta/alpha structure (1-2-3-linker-4), although mAcn is small than cAcn. However, bacterial AcnB has a different organisation: it contains an N-terminal HEAT-like domain, followed by the 'swivel' domain, then the three alpha/beta/alpha domains (HEAT-4-1-2-3) []. Below is a description of some of the multi-functional activities associated with different aconitases. Eukaryotic mAcn catalyses the second step of the mitochondrial TCA cycle, which is important for energy production, providing high energy electrons in the form of NADH and FADH2 to the mitochondrial oxidative phosphorylation pathway []. The TCA cycle also provides precursors for haem and amino acid production. This enzyme has a second, non-catalytic but essential role in mitochondrial DNA (mtDNA) maintenance: mAcn acts to stabilise mtDNA, forming part of mtDNA protein-DNA complexes known as nucleoids. mAcn is thought to reversibly model nucleoids to directly influence mitochondrial gene expression in response to changes in the cellular environment. Therefore, mAcn can influence the expression of components of the oxidative phosphorylation pathway encoded in mtDNA. Eukaryotic cAcn enzyme balances the amount of citrate and isocitrate in the cytoplasm, which in turn creates a balance between the amount of NADPH generated from isocitrate by isocitrate dehydrogenase with the amount of acetyl-CoA generated from citrate by citrate lyase. Fatty acid synthesis requires both NADPH and acetyl-CoA, as do other metabolic processes, including the need for NADPH to combat oxidative stress. The enzymatic form of cAcn predominates when iron levels are normal, but if they drop sufficiently to cause the disassembly of the [4Fe-4S]-cluster, then cAcn undergoes a conformational change from a compact enzyme to a more open L-shaped protein known as iron regulatory protein 1 (IRP1; or IRE-binding protein 1, IREBP1) [, ]. As IRP1, the catalytic site and the [4Fe-4S]-cluster are lost, and two new RNA-binding sites appear. IRP1 functions in the post-transcriptional regulation of genes involved in iron metabolism - it binds to mRNA iron-responsive elements (IRE), 30-nucleotide stem-loop structures at the 3' or 5' end of specific transcripts. Transcripts containing an IRE include ferritin L and H subunits (iron storage), transferrin (iron plasma chaperone), transferrin receptor (iron uptake into cells), ferroportin (iron exporter), mAcn, succinate dehydrogenase, erythroid aminolevulinic acid synthetase (tetrapyrrole biosynthesis), among others. If the IRE is in the 5'-UTR of the transcript (e.g. in ferritin mRNA), then IRP1-binding prevents its translation by blocking the transcript from binding to the ribosome. If the IRE is in the 3'-UTR of the transcript (e.g. transferrin receptor), then IRP1-binding protects it from endonuclease degradation, thereby prolonging the half-life of the transcript and enabling it to be translated []. IRP2 is another IRE-binding protein that binds to the same transcripts as IRP1. However, since IRP1 is predominantly in the enzymatic cAcn form, it is IRP2 that acts as the major metabolic regulator that maintains iron homeostasis []. Although IRP2 is homologous to IRP1, IRP2 lacks aconitase activity, and is known only to have a single function in the post-transcriptional regulation of iron metabolism genes []. In iron-replete cells, IRP2 activity is regulated primarily by iron-dependent degradation through the ubiquitin-proteasomal system. Bacterial AcnB is also known to be multi-functional. In addition to its role in the TCA cycle, AcnB was shown to be a post-transcriptional regulator of gene expression in Escherichia coli and Salmonella enterica [, ]. In S. enterica, AcnB initiates a regulatory cascade controlling flagella biosynthesis through an interaction with the ftsH transcript, an alternative RNA polymerase sigma factor. This binding lowers the intracellular concentration of FtsH protease, which in turn enhances the amount of RNA polymerase sigma32 factor (normally degraded by FtsH protease), and sigma32 then increases the synthesis of chaperone DnaK, which in turn promotes the synthesis of the flagellar protein FliC. AcnB regulates the synthesis of other proteins as well, such as superoxide dismutase (SodA) and other enzymes involved in oxidative stress. This entry represents the N-terminal HEAT-like domain, which is present in bacterial aconitase (AcnB), but not in AcnA or eukaryotic cAcn/IRP2 or mAcn. This domain is multi-helical, forming two curved layers in a right-handed alpha-alpha superhelix. HEAT-like domains are usually implicated in protein-protein interactions. The HEAT-like domain and the 'swivel' domain that follows it were shown to be sufficient for dimerisation and for AcnB binding to mRNA. An iron-mediated dimerisation mechanism may be responsible for switching AcnB between its catalytic and regulatory roles, as dimerisation requires iron while mRNA binding is inhibited by iron. More information about these proteins can be found at Protein of the Month: Aconitase [].; GO: 0003994 aconitate hydratase activity, 0006099 tricarboxylic acid cycle; PDB: 1L5J_B.
Probab=21.95 E-value=94 Score=26.29 Aligned_cols=66 Identities=27% Similarity=0.345 Sum_probs=32.7
Q ss_pred HhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhc--------------------
Q 027804 72 AKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRR-------------------- 131 (218)
Q Consensus 72 ~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~r-------------------- 131 (218)
...||-|+..+ |.|+.++|.-.++-.-| .-+.++..+..+-
T Consensus 10 a~~GipPlPL~-----------------a~Qt~~lielLk~~~~~--~~~~lldLL~~RV~PGVD~AA~VKA~FL~~ia~ 70 (154)
T PF11791_consen 10 AALGIPPLPLN-----------------AEQTAELIELLKNPPAG--EEAFLLDLLTNRVPPGVDEAAYVKAEFLAAIAK 70 (154)
T ss_dssp HCTT------------------------HHHHHHHHHHHHS--TT---HHHHHHHHHHSS--TT-HHHHHHHHHHHHHHT
T ss_pred HHCCCCCCCCC-----------------HHHHHHHHHHHhCCCCc--cHHHHHHHHHhcCCCCCChHHHHHHHHHHHHHc
Confidence 34688888643 56666666665555444 3444554444321
Q ss_pred C-CCCCCCCHHHHHHHHhhccccCCceEE
Q 027804 132 K-SNREAVSEDDCLRAISKLKVLGNGYEV 159 (218)
Q Consensus 132 g-~~~~~IS~dDI~rAi~~L~~LG~Gf~v 159 (218)
| ...+.||+ .+|++.|.++-+||.|
T Consensus 71 g~~~~~~Is~---~~Av~LLGtM~GGYNV 96 (154)
T PF11791_consen 71 GEISSPLISP---AEAVELLGTMLGGYNV 96 (154)
T ss_dssp TSS-BTTB-H---HHHHHHHTTS-SSTTH
T ss_pred CCccCCCcCH---HHHHHHHhhccCCCcH
Confidence 1 11246665 5899999999999987
No 193
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=21.95 E-value=1.8e+02 Score=26.25 Aligned_cols=47 Identities=28% Similarity=0.376 Sum_probs=37.6
Q ss_pred cCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEECCEEEEE
Q 027804 113 HNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVR 169 (218)
Q Consensus 113 ~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vr 169 (218)
.+||-|.-+||.+.+. .|..=+-|+++.|+..|= .+..+.|++.+|+
T Consensus 206 ~~GGri~Q~eL~r~lg---------lsktTvsR~L~~LEk~Gl-Ie~~K~G~~n~V~ 252 (258)
T COG2512 206 ERGGRITQAELRRALG---------LSKTTVSRILRRLEKRGL-IEKEKKGRTNIVE 252 (258)
T ss_pred HhCCEEeHHHHHHhhC---------CChHHHHHHHHHHHhCCc-eEEEEeCCeeEEE
Confidence 5789998888876643 788888899999999885 6777778877765
No 194
>PF11719 Drc1-Sld2: DNA replication and checkpoint protein; InterPro: IPR021110 Genome duplication is precisely regulated by cyclin-dependent kinases CDKs, which bring about the onset of S phase by activating replication origins and then prevent relicensing of origins until mitosis is completed. The optimum sequence motif for CDK phosphorylation is S/T-P-K/R-K/R, and Drc1-Sld2 is found to have at least 11 potential phosphorylation sites. Drc1 is required for DNA synthesis and S-M replication checkpoint control. Drc1 associates with Cdc2 and is phosphorylated at the onset of S phase when Cdc2 is activated. Thus Cdc2 promotes DNA replication by phosphorylating Drc1 and regulating its association with Cut5 []. Sld2 and Sld3 represent the minimal set of S-CDK substrates required for DNA replication []. This entry also includes ATP-dependent DNA helicase Q4, which may be involved in chromosome segregation and has been associated with various diseases.; PDB: 2KMU_A.
Probab=21.77 E-value=73 Score=30.67 Aligned_cols=36 Identities=25% Similarity=0.571 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhh-----ccccCChhHHHHHHHHHH
Q 027804 34 LMKEQLATFRSQLEDFARKHK-----NDIRKNPTFRSQFHEMCA 72 (218)
Q Consensus 34 ~L~~QL~~F~~~L~~FA~kH~-----~eI~~dP~FR~~F~~MC~ 72 (218)
+|..+|..+. .+|+.+|+ .||+.||+++.+.++|-.
T Consensus 3 ~Lr~eLK~WE---~~F~~~hgRkP~k~DIk~~p~I~~~YK~Y~~ 43 (426)
T PF11719_consen 3 QLRAELKQWE---RAFAAQHGRKPSKEDIKANPEIAAKYKEYNK 43 (426)
T ss_dssp HHHHHHHHHH---HHHHHHT-S---HHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHH---HHHHHHhCCCCCHHHHHhCHHHHHHHHHHHH
Confidence 4555555554 46899995 499999999999988854
No 195
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=21.76 E-value=1.3e+02 Score=19.61 Aligned_cols=22 Identities=27% Similarity=0.644 Sum_probs=14.7
Q ss_pred HHHHHHHHHhhccccCChhHHHHHHH
Q 027804 44 SQLEDFARKHKNDIRKNPTFRSQFHE 69 (218)
Q Consensus 44 ~~L~~FA~kH~~eI~~dP~FR~~F~~ 69 (218)
+.|+.|..+ +++||+||.++++
T Consensus 4 ~~l~~Fl~~----~~~d~~l~~~l~~ 25 (49)
T PF07862_consen 4 ESLKAFLEK----VKSDPELREQLKA 25 (49)
T ss_pred HHHHHHHHH----HhcCHHHHHHHHh
Confidence 345555553 3479999988877
No 196
>COG1769 CRISPR system related protein, RAMP superfamily [Defense mechanisms]
Probab=21.75 E-value=1.2e+02 Score=28.30 Aligned_cols=33 Identities=24% Similarity=0.315 Sum_probs=21.6
Q ss_pred cccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc
Q 027804 111 RPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK 151 (218)
Q Consensus 111 r~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~ 151 (218)
+.-|| .|++++|....++ .|-..||..|=+.++
T Consensus 115 e~~nG-fi~fSdL~~~~~~-------~I~~f~~v~~ekifK 147 (335)
T COG1769 115 ESTNG-FIEFSDLELLRSN-------GICKFDLVSAEKIFK 147 (335)
T ss_pred cccCC-cEEehhHHHHHhC-------CcccchhhhHHHHhh
Confidence 44555 9999999887766 255555555555544
No 197
>COG0405 Ggt Gamma-glutamyltransferase [Amino acid transport and metabolism]
Probab=21.72 E-value=1.8e+02 Score=29.18 Aligned_cols=73 Identities=25% Similarity=0.378 Sum_probs=42.5
Q ss_pred HHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCC----CCCccccc------cCccchH-HHHHHHHHHHhhhcccc
Q 027804 45 QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLAS----NKGFWAEL------LGIGDFY-YELGVQIVEICLATRPH 113 (218)
Q Consensus 45 ~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas----~k~~ws~~------lG~gdFy-yeLaVqIvEvC~~tr~~ 113 (218)
.|..........+.++|+.++.|..- |.-|-.- ++.+ ++. .|-..|| -|||.+|++.-.+.
T Consensus 155 ~~~~~~~~~~~~l~~~~~~~~~fl~~----G~~~~~Gd~~~qp~l-A~TL~~Ia~~G~~~FY~G~iA~~iv~~~~~~--- 226 (539)
T COG0405 155 RLAALIASAAERLAKDPETAAIFLPP----GKPLKAGDLLKQPDL-AKTLEEIAEKGPDAFYKGEIADAIVKAVQKA--- 226 (539)
T ss_pred HHHHHHhhhhHHHhhChhhhhhhcCC----CCCCCCCchhcCHHH-HHHHHHHHHhCcccccCcHHHHHHHHHHHHc---
Confidence 35555556666667777775555432 3222110 0000 011 2444566 58999998877764
Q ss_pred CCCcccHHHHHHH
Q 027804 114 NGGLINLQELCNL 126 (218)
Q Consensus 114 NGGli~l~el~~~ 126 (218)
||+|+++||-..
T Consensus 227 -gG~lt~eDla~Y 238 (539)
T COG0405 227 -GGLLTLEDLAGY 238 (539)
T ss_pred -CCcccHHHHhhC
Confidence 999999999754
No 198
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=21.62 E-value=2.3e+02 Score=20.67 Aligned_cols=53 Identities=9% Similarity=0.157 Sum_probs=28.3
Q ss_pred HHHHhhhccccCC--CcccHHHHHHHHHhhcCCC-CCCCCHHHHHHHHhhccccCC
Q 027804 103 IVEICLATRPHNG--GLINLQELCNLLRQRRKSN-REAVSEDDCLRAISKLKVLGN 155 (218)
Q Consensus 103 IvEvC~~tr~~NG--Gli~l~el~~~v~k~rg~~-~~~IS~dDI~rAi~~L~~LG~ 155 (218)
|+++=.+.-...| |.|+.+|+...+.+.-+.. ....+++|+..-++.+..-+.
T Consensus 10 ~~~~f~~y~~~~~~~~~Is~~El~~ll~~~~g~~~t~~~~~~~v~~i~~~~D~d~d 65 (88)
T cd05030 10 IINVFHQYSVRKGHPDTLYKKEFKQLVEKELPNFLKKEKNQKAIDKIFEDLDTNQD 65 (88)
T ss_pred HHHHHHHHhccCCCcccCCHHHHHHHHHHHhhHhhccCCCHHHHHHHHHHcCCCCC
Confidence 4444444333332 5788888887776533211 011237777777766655443
No 199
>PF01346 FKBP_N: Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; InterPro: IPR000774 Peptidyl-prolyl cis-trans isomerase (PPIase) catalyses the cis-trans isomerisation of proline imidic peptide bonds in oligopeptides [, ]. This alpha helical domain is found at the N terminus of proteins belonging to the FKBP-type peptidyl-prolyl cis-trans isomerase(IPR001179 from INTERPRO) family. Peptidyl-prolyl cis-trans isomerase has been shown to accelerate the refolding of several proteins in vitro [, , ]; the FKPB-type enzymes probably act in the folding of extracytoplasmic proteins.; GO: 0006457 protein folding; PDB: 1FD9_A 2VCD_A 3OE2_A 2UZ5_A 3B09_A 1Q6H_B 1Q6I_B 1Q6U_A.
Probab=21.60 E-value=2.9e+02 Score=21.10 Aligned_cols=56 Identities=16% Similarity=0.304 Sum_probs=37.7
Q ss_pred cchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc
Q 027804 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK 151 (218)
Q Consensus 93 gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~ 151 (218)
..+=|-+|+.|..--....... +..+.++..+...-......+|++++..++..+.
T Consensus 23 ~k~SYalG~~iG~~l~~~~~~~---ld~~~~~~Gi~dal~~~~~~l~~~e~~~~l~~~~ 78 (124)
T PF01346_consen 23 DKLSYALGVQIGQQLKQQGFEQ---LDIDAFLAGIRDALAGKKPKLSDEEAQEALQAFQ 78 (124)
T ss_dssp HHHHHHHHHHHHHHHHHHCHCC-----HHHHHHHHHHHHCTT--SS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhhhhc---cCHHHHHHHHHHHHhcCCcCCCHHHHHHHHHHHH
Confidence 3666777777776665544433 9999999999998744557899999998887653
No 200
>cd05022 S-100A13 S-100A13: S-100A13 domain found in proteins similar to S100A13. S100A13 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A13 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100A13 is involved in the cellular export of interleukin-1 (IL-1) and of fibroblast growth factor-1 (FGF-1), which plays an important role in angiogenesis and tissue regeneration. Export is based on the CuII-dependent formation of multiprotein complexes containing the S100A13 protein. Assembly of these complexes occurs near the inner surface of the plasma membrane. Binding of two Ca(II) ions per monomer triggers key conformational changes leading to the creation of two identical and symmetrical Cu(II)-binding sites on the surface of the protein, close to the interface between the two monomers. These Cu
Probab=21.57 E-value=98 Score=23.23 Aligned_cols=71 Identities=13% Similarity=0.222 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHHHHH-HhhccccCChhHHHHHHHHHHh-cCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhcc
Q 027804 34 LMKEQLATFRSQLEDFAR-KHKNDIRKNPTFRSQFHEMCAK-VGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATR 111 (218)
Q Consensus 34 ~L~~QL~~F~~~L~~FA~-kH~~eI~~dP~FR~~F~~MC~s-iGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr 111 (218)
+|++.|...+.....|++ .+++-|..+ .|+.++.+ +| +.+... .-++--....
T Consensus 2 ~lE~ai~~l~~~F~~fd~~~~~g~i~~~-----ELk~ll~~elg-~~ls~~-------------------~~v~~mi~~~ 56 (89)
T cd05022 2 ELEKAIETLVSNFHKASVKGGKESLTAS-----EFQELLTQQLP-HLLKDV-------------------EGLEEKMKNL 56 (89)
T ss_pred hHHHHHHHHHHHHHHHhCCCCCCeECHH-----HHHHHHHHHhh-hhccCH-------------------HHHHHHHHHh
Confidence 577888889999999999 788788765 57788888 87 323210 1122222333
Q ss_pred cc-CCCcccHHHHHHHHHh
Q 027804 112 PH-NGGLINLQELCNLLRQ 129 (218)
Q Consensus 112 ~~-NGGli~l~el~~~v~k 129 (218)
+. ..|-|+.+|-+..+.+
T Consensus 57 D~d~DG~I~F~EF~~l~~~ 75 (89)
T cd05022 57 DVNQDSKLSFEEFWELIGE 75 (89)
T ss_pred CCCCCCCCcHHHHHHHHHH
Confidence 43 3578888888777665
No 201
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=21.52 E-value=81 Score=30.45 Aligned_cols=79 Identities=10% Similarity=0.159 Sum_probs=51.9
Q ss_pred HHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchH
Q 027804 17 RDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFY 96 (218)
Q Consensus 17 ~~~y~~~g~~l~~~~~~~L~~QL~~F~~~L~~FA~kH~~eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFy 96 (218)
-+..++.+.++...-++.|.+.++.|.++++. ..-|-..-+...+.+....++|...|..-++-+|+--.+-.|++++.
T Consensus 31 ~~~~r~~~~~ik~~~~~~ld~~l~~~~~~~~~-~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~eeigl~~~L 109 (432)
T TIGR00273 31 WEEWRELVKEIKLKVLENLDFYLDQLKENVTQ-RGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEEIGLNEVL 109 (432)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH-CCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHHhCCHHHH
Confidence 44556677777777788899999999888854 22223334444677778999999999887754443322334555443
No 202
>smart00411 BHL bacterial (prokaryotic) histone like domain.
Probab=21.46 E-value=1.3e+02 Score=21.67 Aligned_cols=40 Identities=20% Similarity=0.339 Sum_probs=29.5
Q ss_pred ccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc-----ccCCceEEEEEC
Q 027804 118 INLQELCNLLRQRRKSNREAVSEDDCLRAISKLK-----VLGNGYEVISVG 163 (218)
Q Consensus 118 i~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~-----~LG~Gf~vi~ig 163 (218)
|+-+||+..+.+..+ +|..|+...++.|- .|..|-.| .|+
T Consensus 1 mtk~eli~~ia~~~~-----~~~~~v~~vl~~l~~~i~~~L~~g~~V-~i~ 45 (90)
T smart00411 1 MTKSELIDAIAEKAG-----LSKKDAKAAVDAFLEIITEALKKGEKV-ELR 45 (90)
T ss_pred CCHHHHHHHHHHHhC-----CCHHHHHHHHHHHHHHHHHHHhCCCeE-EEe
Confidence 467899999988654 89999999988774 56666543 354
No 203
>PF05119 Terminase_4: Phage terminase, small subunit; InterPro: IPR006448 This entry is represented by Streptococcus phage 7201, Orf21. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This group of sequences describe the distinct family of phage (and integrated prophage) putative terminase small subunit sequnces. Members tend to be encoded by the gene adjacent to the phage terminase large subunit gene.
Probab=21.45 E-value=3.1e+02 Score=19.97 Aligned_cols=24 Identities=25% Similarity=0.587 Sum_probs=20.4
Q ss_pred ccCChhH------HHHHHHHHHhcCCCCCC
Q 027804 57 IRKNPTF------RSQFHEMCAKVGVDPLA 80 (218)
Q Consensus 57 I~~dP~F------R~~F~~MC~siGVDPLa 80 (218)
.+.||.+ ..++++++..+|..|-+
T Consensus 57 ~~~nP~~~~~~~~~~~~~~l~~~lGLtP~s 86 (100)
T PF05119_consen 57 PKKNPAVSILNKAMKQMRSLASELGLTPAS 86 (100)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 7899986 35789999999999985
No 204
>PRK05469 peptidase T; Provisional
Probab=21.44 E-value=1.2e+02 Score=27.99 Aligned_cols=75 Identities=19% Similarity=0.232 Sum_probs=43.7
Q ss_pred cccCChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCC
Q 027804 56 DIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNR 135 (218)
Q Consensus 56 eI~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~ 135 (218)
.+..|+.+-+.+++-|..+|+.|.......+++ ..||...++..+-+.. |+. .-+...
T Consensus 325 ~~~~~~~lv~~~~~a~~~~g~~~~~~~~~ggtD----~~~~~~~giP~v~~gp------G~~----------~~H~~~-- 382 (408)
T PRK05469 325 KIEPHPHIVDLAKQAMEDLGIEPIIKPIRGGTD----GSQLSFMGLPCPNIFT------GGH----------NFHGKF-- 382 (408)
T ss_pred hhcCCHHHHHHHHHHHHHcCCCcEEecCCCccc----HHHHhhCCCceEEECc------Ccc----------cCcCcc--
Confidence 356788888899999999999877432222332 1333333444432221 221 111111
Q ss_pred CCCCHHHHHHHHhhccc
Q 027804 136 EAVSEDDCLRAISKLKV 152 (218)
Q Consensus 136 ~~IS~dDI~rAi~~L~~ 152 (218)
..|+.+|+.++++.+..
T Consensus 383 E~v~i~~l~~~~~~~~~ 399 (408)
T PRK05469 383 EFVSLESMEKAVEVIVE 399 (408)
T ss_pred eeeEHHHHHHHHHHHHH
Confidence 36999999999998753
No 205
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=21.17 E-value=2.8e+02 Score=20.62 Aligned_cols=53 Identities=15% Similarity=0.112 Sum_probs=35.3
Q ss_pred cCccchHHHHHHHHHHHhhhcc-ccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhc
Q 027804 90 LGIGDFYYELGVQIVEICLATR-PHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKL 150 (218)
Q Consensus 90 lG~gdFyyeLaVqIvEvC~~tr-~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L 150 (218)
|+..+|+.++...+++.|+... ..| =-...|..++.+. ..+|++++..|+..+
T Consensus 28 L~~~~~~~~vv~~~i~~~le~~~~~~---~~~~~Ll~~L~~~-----~~~~~~~~~~~f~~~ 81 (113)
T smart00544 28 LKLPEQHHEVVKVLLTCALEEKRTYR---EMYSVLLSRLCQA-----NVISTKQFEKGFWRL 81 (113)
T ss_pred hCCCcchHHHHHHHHHHHHcCCccHH---HHHHHHHHHHHHc-----CCcCHHHHHHHHHHH
Confidence 3455799999999999999752 122 1123334444432 269999999998874
No 206
>CHL00053 rps7 ribosomal protein S7
Probab=21.10 E-value=1.7e+02 Score=24.24 Aligned_cols=41 Identities=20% Similarity=0.199 Sum_probs=30.1
Q ss_pred HHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHH
Q 027804 141 DDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILE 184 (218)
Q Consensus 141 dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe 184 (218)
+=+..||....|+= +...+.+||++| -||.+++.++..=|.
T Consensus 60 ~vl~~Ai~N~~P~~-evk~~r~gG~~~--qvPv~v~~~rr~~lA 100 (155)
T CHL00053 60 SVLRQAIRNVTPDV-EVKARRVGGSTY--QVPIEIGSTRGKALA 100 (155)
T ss_pred HHHHHHHHhCCCcE-EEEEEeeCCEEE--EEeeEcCHHHHHHHH
Confidence 34568999999873 355677799876 578889998876543
No 207
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=21.09 E-value=3.2e+02 Score=19.54 Aligned_cols=67 Identities=19% Similarity=0.249 Sum_probs=44.6
Q ss_pred HHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEE---CCEEEEEecCC
Q 027804 97 YELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISV---GKKKLVRSVPT 173 (218)
Q Consensus 97 yeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~i---g~k~~vrSvP~ 173 (218)
.+.|+++.-.+.. ..+++-++.+|+.++++ +++.-+.+-++.|+.-| + |-.. +|-+++.--|.
T Consensus 7 ~~~Al~~l~~la~--~~~~~~~s~~eiA~~~~---------i~~~~l~kil~~L~~~G--l-i~s~~G~~GGy~L~~~~~ 72 (83)
T PF02082_consen 7 TDYALRILLYLAR--HPDGKPVSSKEIAERLG---------ISPSYLRKILQKLKKAG--L-IESSRGRGGGYRLARPPE 72 (83)
T ss_dssp HHHHHHHHHHHHC--TTTSC-BEHHHHHHHHT---------S-HHHHHHHHHHHHHTT--S-EEEETSTTSEEEESS-CC
T ss_pred HHHHHHHHHHHHh--CCCCCCCCHHHHHHHHC---------cCHHHHHHHHHHHhhCC--e-eEecCCCCCceeecCCHH
Confidence 3567777766633 33344599999998765 89999999999998854 4 4444 35666666776
Q ss_pred Ccch
Q 027804 174 ELNK 177 (218)
Q Consensus 174 ELs~ 177 (218)
+++-
T Consensus 73 ~Itl 76 (83)
T PF02082_consen 73 EITL 76 (83)
T ss_dssp GSBH
T ss_pred HCCH
Confidence 6663
No 208
>KOG1106 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.08 E-value=1.1e+02 Score=26.55 Aligned_cols=42 Identities=21% Similarity=0.346 Sum_probs=31.8
Q ss_pred cccCccchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhcC
Q 027804 88 ELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRK 132 (218)
Q Consensus 88 ~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~rg 132 (218)
++-+++-+||++|.|+ |.--+++|=|.+-.+-+++|+...-+
T Consensus 94 dL~s~~phFY~fg~kl---~~l~s~~~l~~~~se~l~~R~~~~l~ 135 (177)
T KOG1106|consen 94 DLRSLCPHFYEFGMKL---LPLDSGENLGIILSETLRSRVREILD 135 (177)
T ss_pred eccccccHHHHHHHHH---hhcccCcchhHHHHHHHHHHHHHHHH
Confidence 4456789999999886 66677888666666888888887544
No 209
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=21.04 E-value=1e+02 Score=28.78 Aligned_cols=107 Identities=21% Similarity=0.309 Sum_probs=67.3
Q ss_pred HHHHHHHHHHhcCCC-CCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcccHH-HHHHHHHhhcCCC-CCCCC
Q 027804 63 FRSQFHEMCAKVGVD-PLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQ-ELCNLLRQRRKSN-REAVS 139 (218)
Q Consensus 63 FR~~F~~MC~siGVD-PLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli~l~-el~~~v~k~rg~~-~~~IS 139 (218)
.-+-....|+.+|+| -++.-+++|- --.+++.|.+-.+.+||=++++ |....+.-+---. -.++|
T Consensus 165 v~nSl~~~~a~~G~dv~ia~Pk~~~p------------~~~~~~~a~~~a~~~g~~i~~t~d~~eAv~gADvvyTDvWvS 232 (310)
T COG0078 165 VANSLLLAAAKLGMDVRIATPKGYEP------------DPEVVEKAKENAKESGGKITLTEDPEEAVKGADVVYTDVWVS 232 (310)
T ss_pred HHHHHHHHHHHhCCeEEEECCCcCCc------------CHHHHHHHHHHHHhcCCeEEEecCHHHHhCCCCEEEecCccc
Confidence 344678888999999 5566777775 3567788888778889888776 4555554331100 12566
Q ss_pred HHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccccccccccCc
Q 027804 140 EDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSILYQCFPFPH 200 (218)
Q Consensus 140 ~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~~~~~~~~~~ 200 (218)
--+-..+-+....+-.+|+| ...++++|...-+.--|.|+-|
T Consensus 233 MGee~e~~~~~~~~~~~yQV-------------------n~~lm~~a~~~~ifmHCLPA~r 274 (310)
T COG0078 233 MGEEAEAEERRIAFLPPYQV-------------------NEELMALAGPDAIFMHCLPAHR 274 (310)
T ss_pred CcchhhhHHHHHhhCCCcee-------------------CHHHHhhcCCCeEEEeCCCCCC
Confidence 55555555556667777876 1345666666555555777655
No 210
>KOG0854 consensus Alkyl hydroperoxide reductase, thiol specific antioxidant and related enzymes [Posttranslational modification, protein turnover, chaperones]
Probab=21.01 E-value=86 Score=27.63 Aligned_cols=32 Identities=22% Similarity=0.434 Sum_probs=23.0
Q ss_pred CCCCHHHHHHHHhhccccCCceEEEEE-CCEEEEEecCC
Q 027804 136 EAVSEDDCLRAISKLKVLGNGYEVISV-GKKKLVRSVPT 173 (218)
Q Consensus 136 ~~IS~dDI~rAi~~L~~LG~Gf~vi~i-g~k~~vrSvP~ 173 (218)
+.||+||.- +-++.||..+.+ .||.|+|.+|.
T Consensus 191 PtV~~eeak------klFp~gf~t~~lPSgk~YlR~T~~ 223 (224)
T KOG0854|consen 191 PTVSDEEAK------KLFPKGFNTIELPSGKGYLRFTEQ 223 (224)
T ss_pred CcCChHHHH------HhcccccceecCCCCcceeEecCC
Confidence 456766542 246778999888 58999998873
No 211
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=20.98 E-value=1.3e+02 Score=23.78 Aligned_cols=30 Identities=27% Similarity=0.412 Sum_probs=20.3
Q ss_pred CCCCCCCHHHHHHHHhhcc--------ccCCceEEEEE
Q 027804 133 SNREAVSEDDCLRAISKLK--------VLGNGYEVISV 162 (218)
Q Consensus 133 ~~~~~IS~dDI~rAi~~L~--------~LG~Gf~vi~i 162 (218)
+..+.+++++|.+|.+.|+ ..++||-+|-+
T Consensus 68 sD~P~l~~~~l~~A~~~L~~~d~VlgPa~DGGy~LiG~ 105 (122)
T PF09837_consen 68 SDCPDLTPDDLEQAFEALQRHDVVLGPAEDGGYYLIGL 105 (122)
T ss_dssp SS-TT--HHHHHHHHHHTTT-SEEEEEBTTSSEEEEEE
T ss_pred CCCCCCCHHHHHHHHHHhccCCEEEeeccCCCEEEEec
Confidence 3457899999999999997 34467766543
No 212
>PF08638 Med14: Mediator complex subunit MED14; InterPro: IPR013947 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Saccharomyces cerevisiae (Baker's yeast) RGR1 mediator complex subunit affects chromatin structure, transcriptional regulation of diverse genes, and sporulation. It is required for glucose repression, HO repression, RME1 repression and sporulation [, ]. This subunit is also found in higher eukaryotes and MED14 is the agreed unified nomenclature for this subunit []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=20.98 E-value=1.2e+02 Score=25.94 Aligned_cols=86 Identities=13% Similarity=0.192 Sum_probs=50.2
Q ss_pred cchHHHHHHHHHHHhhhccccCCCcccHHHHHHHHHhhc-C-------CCCCCCCHHHHHHHHhhcc-----------cc
Q 027804 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRR-K-------SNREAVSEDDCLRAISKLK-----------VL 153 (218)
Q Consensus 93 gdFyyeLaVqIvEvC~~tr~~NGGli~l~el~~~v~k~r-g-------~~~~~IS~dDI~rAi~~L~-----------~L 153 (218)
..+|.+.+-.+..++.....----.-++.-.++-+..+| . .....+|+++++++++.|. .+
T Consensus 84 ~~~~~~~~~~L~~~~~~l~~Ar~p~~Dl~tAldVL~tGr~p~~~~~~~~~~~~l~~~e~l~~l~~ln~~i~~RL~~~~~i 163 (195)
T PF08638_consen 84 NMCFEDAADRLFRLKEQLQNARLPNPDLPTALDVLSTGRLPWMPKDGFIPPPPLSPEEILKTLRRLNTLIRIRLALHEDI 163 (195)
T ss_pred HHHHHHHHHHHHHHHHHhhhccCCCCchHHHHHHHhcCCcccccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 456666666666664433222222222333333333331 1 1135799999999998854 56
Q ss_pred CCceEEEEECCEEEEEecCCCcchh
Q 027804 154 GNGYEVISVGKKKLVRSVPTELNKD 178 (218)
Q Consensus 154 G~Gf~vi~ig~k~~vrSvP~ELs~D 178 (218)
-.+|..++|.+=...-+||+|..-|
T Consensus 164 P~~~~~~~I~dGrv~f~V~~EFev~ 188 (195)
T PF08638_consen 164 PKQFRNYSIKDGRVTFTVPGEFEVD 188 (195)
T ss_pred CcccceEEEECCEEEEEECCeEEEE
Confidence 6889999996544556799986543
No 213
>TIGR01145 ATP_synt_delta ATP synthase, F1 delta subunit. This model describes the ATP synthase delta subunit in bacteria, mitochondria, and chloroplasts. It is sometimes called OSCP for Oligomycin Sensitivity Conferring Protein. F1/F0-ATP synthase is a multisubunit, membrane associated enzyme found in bacteria and organelles of higher eukaryotes, namely, mitochondria and chloroplast. This enzyme is principally involved in the synthesis of ATP from ADP and inorganic phosphate by coupling the energy derived from the proton electrochemical gradient across the biological membrane. A brief description of this multisubunit enzyme complex: F1 and F0 represent two major clusters of subunits. Delta subunit belongs to the F1 cluster or sector and functionally implicated in the overall stability of the complex. Expression of truncated forms of this subunit results in low ATPase activity.
Probab=20.93 E-value=2.4e+02 Score=23.05 Aligned_cols=59 Identities=24% Similarity=0.401 Sum_probs=33.3
Q ss_pred CCCcccHHHHHHH----HHhhcCCC------CCCCCHHHHHHHHhhcc-c---------------cCCceEEEEECCEEE
Q 027804 114 NGGLINLQELCNL----LRQRRKSN------REAVSEDDCLRAISKLK-V---------------LGNGYEVISVGKKKL 167 (218)
Q Consensus 114 NGGli~l~el~~~----v~k~rg~~------~~~IS~dDI~rAi~~L~-~---------------LG~Gf~vi~ig~k~~ 167 (218)
|+-+--+.+++.. +.+.++.. +.++|++...+-.+.|+ . |-+|+ ++.+|++.|
T Consensus 79 ~~r~~~l~~I~~~~~~~~~~~~~~~~~~v~sa~~L~~~~~~~l~~~l~~~~~~~~v~~~~~vd~~ligGi-~i~~~~~~i 157 (172)
T TIGR01145 79 NGRLAALPDILDQFLKLSYEAQQTADVEVISAKPLTEDQQAKIAEKLEKITGAAKVKLNCKVDKDLIGGV-IIRIGDRVI 157 (172)
T ss_pred CCcHHHHHHHHHHHHHHHHHhcCEEEEEEEEccCCCHHHHHHHHHHHHHHhCCCeEEEEEeECHHHhCce-EEEECCEEE
Confidence 4444555555443 33333321 35788888777777664 2 23566 456777777
Q ss_pred EEecCC
Q 027804 168 VRSVPT 173 (218)
Q Consensus 168 vrSvP~ 173 (218)
=-|+..
T Consensus 158 D~Si~~ 163 (172)
T TIGR01145 158 DGSVRG 163 (172)
T ss_pred ehhHHH
Confidence 666653
No 214
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=20.83 E-value=76 Score=22.19 Aligned_cols=22 Identities=9% Similarity=0.298 Sum_probs=17.0
Q ss_pred cCChhHHHHHHHHHHhcCCCCC
Q 027804 58 RKNPTFRSQFHEMCAKVGVDPL 79 (218)
Q Consensus 58 ~~dP~FR~~F~~MC~siGVDPL 79 (218)
..|+++...++.++.++||.|-
T Consensus 28 ~~s~~ll~~v~~lL~~lGi~~~ 49 (77)
T PF14528_consen 28 SKSKELLEDVQKLLLRLGIKAS 49 (77)
T ss_dssp ES-HHHHHHHHHHHHHTT--EE
T ss_pred ECCHHHHHHHHHHHHHCCCeeE
Confidence 4678999999999999999984
No 215
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=20.80 E-value=2.9e+02 Score=19.88 Aligned_cols=45 Identities=20% Similarity=0.161 Sum_probs=34.3
Q ss_pred CCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEECCEEEEE
Q 027804 115 GGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVR 169 (218)
Q Consensus 115 GGli~l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vr 169 (218)
.|-++++||.+. . .++++|+..||.=|..-|. ..+...++.-||+
T Consensus 20 ~~~~s~~el~k~----~-----~l~~~~~~~AiGWLarE~K-I~~~~~~~~~~v~ 64 (65)
T PF10771_consen 20 NGEWSVSELKKA----T-----GLSDKEVYLAIGWLARENK-IEFEEKNGELYVS 64 (65)
T ss_dssp SSSEEHHHHHHH----C-----T-SCHHHHHHHHHHHCTTS-EEEEEETTEEEEE
T ss_pred CCCcCHHHHHHH----h-----CcCHHHHHHHHHHHhccCc-eeEEeeCCEEEEE
Confidence 567899998833 2 3799999999999988776 6677777777764
No 216
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=20.70 E-value=1.1e+02 Score=17.87 Aligned_cols=13 Identities=8% Similarity=0.092 Sum_probs=7.8
Q ss_pred CCCHHHHHHHHhh
Q 027804 137 AVSEDDCLRAISK 149 (218)
Q Consensus 137 ~IS~dDI~rAi~~ 149 (218)
.||.+|+..++++
T Consensus 16 ~I~~~el~~~l~~ 28 (31)
T PF13405_consen 16 FIDFEELRAILRK 28 (31)
T ss_dssp EEEHHHHHHHHHH
T ss_pred cCcHHHHHHHHHH
Confidence 4666666666653
No 217
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=20.64 E-value=1.5e+02 Score=21.20 Aligned_cols=26 Identities=23% Similarity=0.270 Sum_probs=19.0
Q ss_pred HHHHHHHhhcCCCCCCCCHHHHHHHHhh
Q 027804 122 ELCNLLRQRRKSNREAVSEDDCLRAISK 149 (218)
Q Consensus 122 el~~~v~k~rg~~~~~IS~dDI~rAi~~ 149 (218)
+--+.+.+.|+.. .|+.+||.-|++.
T Consensus 41 ~~a~~lAkHr~~~--tv~~~Di~l~l~r 66 (72)
T cd07981 41 EDACRLAKHRKSD--TLEVKDVQLHLER 66 (72)
T ss_pred HHHHHHHHHcCCC--CCCHHHHHHHHHH
Confidence 3445677777765 6999999888775
No 218
>PRK09983 pflD putative formate acetyltransferase 2; Provisional
Probab=20.62 E-value=9.9e+02 Score=25.02 Aligned_cols=132 Identities=8% Similarity=0.007 Sum_probs=74.6
Q ss_pred HHHHHHHHhhcc------ccCChhHHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhccccCCCcc
Q 027804 45 QLEDFARKHKND------IRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLI 118 (218)
Q Consensus 45 ~L~~FA~kH~~e------I~~dP~FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLaVqIvEvC~~tr~~NGGli 118 (218)
++.+||..|.+. -..||+=+.+..+|....+-.|--.-++||- .+-.= |++.|+++ .+.||+-+
T Consensus 198 av~~~a~Rya~lA~~~a~~e~d~~rk~EL~~iA~~c~~vp~~pa~tF~E-AlQ~~-wf~~l~~~--------~e~ng~~~ 267 (765)
T PRK09983 198 ASQKHILRYAELAETMAANCTDAQRREELLTIAEISRHNAQHKPQTFWQ-ACQLF-WYMNIILQ--------YESNASSL 267 (765)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHhccCcccCCCCHHH-HHHHH-HHHHHHHH--------HhcCcccc
Confidence 445555555432 3569998999999999999888876667774 32222 44444433 23466655
Q ss_pred c---HHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc-------c--------cC---CceEEEEECCEEEEEecCCCcch
Q 027804 119 N---LQELCNLLRQRRKSNREAVSEDDCLRAISKLK-------V--------LG---NGYEVISVGKKKLVRSVPTELNK 177 (218)
Q Consensus 119 ~---l~el~~~v~k~rg~~~~~IS~dDI~rAi~~L~-------~--------LG---~Gf~vi~ig~k~~vrSvP~ELs~ 177 (218)
+ ++.++.-+-++- .+.. +|+++...-++.+= . +- ..|..++|||.. + -.....+
T Consensus 268 s~GR~Dq~L~Pyy~~D-l~~G-~t~e~A~Ell~~~~iK~~~~~~~~~~~~~~~~~G~~~~~~i~iGG~~--~-dG~da~N 342 (765)
T PRK09983 268 SLGRFDQYMLPFYQAS-LTQG-EDPAFLKELLESLWVKCNDIVLLRSTSSARYFAGFPTGYTALLGGLT--E-NGRSAVN 342 (765)
T ss_pred CCCcHHHHHHHHHHHH-HHcC-CCHHHHHHHHHHHHHHhccccccCCcccccccCCCCCceeEEEeccc--C-CCCcccC
Confidence 5 444444333321 1222 68877554444221 1 11 235678999865 1 1225556
Q ss_pred hHHH-HHHHHhhccc
Q 027804 178 DHNQ-ILELAQVTSI 191 (218)
Q Consensus 178 Dq~~-vLe~a~~~~~ 191 (218)
|=+- +|+++.....
T Consensus 343 ~lS~l~Lea~~~l~l 357 (765)
T PRK09983 343 VLSFLCLDAYQSVQL 357 (765)
T ss_pred HHHHHHHHHHHhCCC
Confidence 6555 6788777643
No 219
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=20.60 E-value=1.7e+02 Score=20.84 Aligned_cols=31 Identities=26% Similarity=0.240 Sum_probs=19.3
Q ss_pred HHHHHHHHhhhccccCCCcccHHHHHHHHHh
Q 027804 99 LGVQIVEICLATRPHNGGLINLQELCNLLRQ 129 (218)
Q Consensus 99 LaVqIvEvC~~tr~~NGGli~l~el~~~v~k 129 (218)
+..|+.++...=+..+|+--++..|++.+.+
T Consensus 45 ~~~~~~~lL~~W~~~~g~~at~~~L~~aL~~ 75 (88)
T smart00005 45 LAEQSVQLLRLWEQREGKNATLGTLLEALRK 75 (88)
T ss_pred HHHHHHHHHHHHHHccchhhHHHHHHHHHHH
Confidence 4456666666666666655666666666665
No 220
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=20.56 E-value=2.5e+02 Score=19.23 Aligned_cols=23 Identities=4% Similarity=0.330 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 027804 28 AKLRTDLMKEQLATFRSQLEDFA 50 (218)
Q Consensus 28 ~~~~~~~L~~QL~~F~~~L~~FA 50 (218)
..+|.+.|+.|+...|.++..+-
T Consensus 4 LrqQv~aL~~qv~~Lq~~fs~yK 26 (46)
T PF09006_consen 4 LRQQVEALQGQVQRLQAAFSQYK 26 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 35778999999999999887653
No 221
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=20.54 E-value=6.3e+02 Score=26.07 Aligned_cols=117 Identities=19% Similarity=0.193 Sum_probs=82.7
Q ss_pred HHHHHHHHHHhcCCCCCCCCCCccccccCccchHHHHH---HHHHHHhhhccc---------cCCCcccHHHHHHHHHhh
Q 027804 63 FRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELG---VQIVEICLATRP---------HNGGLINLQELCNLLRQR 130 (218)
Q Consensus 63 FR~~F~~MC~siGVDPLas~k~~ws~~lG~gdFyyeLa---VqIvEvC~~tr~---------~NGGli~l~el~~~v~k~ 130 (218)
=+++.-+||.+--.|-+|. |=-|||+ .+++.+....-+ .+|+.-+|.+|-.+..=.
T Consensus 38 s~~rllrli~~~kpDIvAv------------DnvyEL~~~~~~li~il~~lP~~tkLVQVTg~~g~~~sL~~lArr~G~~ 105 (652)
T COG2433 38 SLRRLLRLIWSYKPDIVAV------------DNVYELGADKRDLIRILKRLPEGTKLVQVTGRPGEQESLWELARRHGIR 105 (652)
T ss_pred hHHHHHHHHHhcCCCEEEe------------ccHHHHhcChhHHHHHHHhCCCCceEEEEeCCCCCcchHHHHHHHhCCC
Confidence 4567788999888887763 5568898 788887766544 457788888877665432
Q ss_pred cCCCCCCCCHHHHHHHHhhccccCCceEEEEECCEEEEE------ecCCCcchh------HHHHHHHHhh-------ccc
Q 027804 131 RKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVR------SVPTELNKD------HNQILELAQV-------TSI 191 (218)
Q Consensus 131 rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vr------SvP~ELs~D------q~~vLe~a~~-------~~~ 191 (218)
-+ ...+|.|=-.+|..|..+|-|++|.-.-.++.|. .-|+..|.| |..|.+.+.. .|+
T Consensus 106 ~~---~~~~P~eeA~~~A~LA~~GvG~ev~~fEdeT~I~VsR~RS~g~GGwSq~RY~R~vh~av~~~~reIee~L~~agl 182 (652)
T COG2433 106 VN---GKLNPYEEAYACARLASKGVGTEVSVFEDETKITVSRGRSLGPGGWSQNRYRRRVHGAVKRVVREIEEKLDEAGL 182 (652)
T ss_pred CC---CCCChHHHHHHHHHHHhcCCCceeEeeeeeeEEEEEecccCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 22 2589999999999999999999987776655542 245677776 6666665543 565
Q ss_pred ccc
Q 027804 192 LYQ 194 (218)
Q Consensus 192 ~~~ 194 (218)
=|+
T Consensus 183 dyD 185 (652)
T COG2433 183 DYD 185 (652)
T ss_pred Cce
Confidence 555
No 222
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=20.50 E-value=3.8e+02 Score=22.33 Aligned_cols=54 Identities=11% Similarity=0.196 Sum_probs=31.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH---HHHHhhccccCChhHHHHHHHHHHhcCCCCC
Q 027804 26 NVAKLRTDLMKEQLATFRSQLED---FARKHKNDIRKNPTFRSQFHEMCAKVGVDPL 79 (218)
Q Consensus 26 ~l~~~~~~~L~~QL~~F~~~L~~---FA~kH~~eI~~dP~FR~~F~~MC~siGVDPL 79 (218)
.+..++.+++.++++..+..... ....-...-..+.....+..+|...+|+||=
T Consensus 77 ~~L~~~~~~l~~ei~~L~~~~~~l~~ll~~~~~~~~~~~V~~~~w~~l~~~~g~~~~ 133 (172)
T cd04790 77 DVLRRRLAELNREIQRLRQQQRAIATLLKQPTLLKEQRLVTKEKWVAILKAAGMDEA 133 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCHHHHHHHHHHcCCChH
Confidence 34566777777777766653333 3322222222333446678888888888764
No 223
>cd05022 S-100A13 S-100A13: S-100A13 domain found in proteins similar to S100A13. S100A13 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A13 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100A13 is involved in the cellular export of interleukin-1 (IL-1) and of fibroblast growth factor-1 (FGF-1), which plays an important role in angiogenesis and tissue regeneration. Export is based on the CuII-dependent formation of multiprotein complexes containing the S100A13 protein. Assembly of these complexes occurs near the inner surface of the plasma membrane. Binding of two Ca(II) ions per monomer triggers key conformational changes leading to the creation of two identical and symmetrical Cu(II)-binding sites on the surface of the protein, close to the interface between the two monomers. These Cu
Probab=20.50 E-value=2.3e+02 Score=21.17 Aligned_cols=51 Identities=14% Similarity=0.145 Sum_probs=33.6
Q ss_pred HHHHhhhccc-cCCCcccHHHHHHHHHhhcCCCCCCCCH-HHHHHHHhhccccCCc
Q 027804 103 IVEICLATRP-HNGGLINLQELCNLLRQRRKSNREAVSE-DDCLRAISKLKVLGNG 156 (218)
Q Consensus 103 IvEvC~~tr~-~NGGli~l~el~~~v~k~rg~~~~~IS~-dDI~rAi~~L~~LG~G 156 (218)
++++...--. .+-|.|+.+||...+.+--| ..+|. +|+..-++.+.+=|.|
T Consensus 10 l~~~F~~fd~~~~~g~i~~~ELk~ll~~elg---~~ls~~~~v~~mi~~~D~d~DG 62 (89)
T cd05022 10 LVSNFHKASVKGGKESLTASEFQELLTQQLP---HLLKDVEGLEEKMKNLDVNQDS 62 (89)
T ss_pred HHHHHHHHhCCCCCCeECHHHHHHHHHHHhh---hhccCHHHHHHHHHHhCCCCCC
Confidence 4445544444 57789999999988887322 23777 8888777776654443
No 224
>PRK08599 coproporphyrinogen III oxidase; Provisional
Probab=20.24 E-value=2.3e+02 Score=26.09 Aligned_cols=66 Identities=27% Similarity=0.410 Sum_probs=43.0
Q ss_pred HHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc----cccccc
Q 027804 122 ELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI----LYQCFP 197 (218)
Q Consensus 122 el~~~v~k~rg~~~~~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~----~~~~~~ 197 (218)
+++..++| .-|.+|+.+|++.++..| |..+.+ .++--.|.|=-.|-...++.+...+. +|...|
T Consensus 124 ~~l~~l~r-------~~~~~~~~~~i~~l~~~g--~~~v~~---dli~GlPgqt~~~~~~~l~~~~~l~~~~i~~y~l~~ 191 (377)
T PRK08599 124 ELLKKIGR-------THNEEDVYEAIANAKKAG--FDNISI---DLIYALPGQTIEDFKESLAKALALDIPHYSAYSLIL 191 (377)
T ss_pred HHHHHcCC-------CCCHHHHHHHHHHHHHcC--CCcEEE---eeecCCCCCCHHHHHHHHHHHHccCCCEEeeeceee
Confidence 45555544 368899999999999876 443322 56677888755666667777766553 444444
Q ss_pred cC
Q 027804 198 FP 199 (218)
Q Consensus 198 ~~ 199 (218)
.|
T Consensus 192 ~p 193 (377)
T PRK08599 192 EP 193 (377)
T ss_pred cC
Confidence 44
No 225
>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=20.01 E-value=2.7e+02 Score=27.52 Aligned_cols=51 Identities=14% Similarity=0.261 Sum_probs=42.4
Q ss_pred CCCHHHHHHHHhhccccCCceEEEEECCEEEEEecCCCcchhHHHHHHHHhhccc
Q 027804 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQVTSI 191 (218)
Q Consensus 137 ~IS~dDI~rAi~~L~~LG~Gf~vi~ig~k~~vrSvP~ELs~Dq~~vLe~a~~~~~ 191 (218)
..|.++++++++.++..+.|+.+ +..+|--.|.|=..|...-++++...++
T Consensus 343 ~~t~e~~~~~v~~lr~~~p~i~i----~tdiIvGfPgET~edf~~Tl~~v~~l~~ 393 (509)
T PRK14327 343 KYTRESYLELVRKIKEAIPNVAL----TTDIIVGFPNETDEQFEETLSLYREVGF 393 (509)
T ss_pred CCCHHHHHHHHHHHHHhCCCcEE----eeeEEEeCCCCCHHHHHHHHHHHHHcCC
Confidence 47899999999999988777765 3457778899988999999999888654
Done!