Query 027597
Match_columns 221
No_of_seqs 107 out of 220
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 12:17:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027597.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027597hhsearch_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 6.5E-84 1.4E-88 548.8 21.4 217 1-218 1-217 (249)
2 PF04157 EAP30: EAP30/Vps36 fa 100.0 1.5E-63 3.3E-68 430.6 18.3 211 5-218 1-217 (223)
3 KOG2760 Vacuolar sorting prote 100.0 6.6E-29 1.4E-33 227.5 18.2 199 3-215 196-405 (432)
4 PRK00135 scpB segregation and 95.9 0.098 2.1E-06 44.7 10.2 101 102-217 7-127 (188)
5 PF13412 HTH_24: Winged helix- 95.3 0.059 1.3E-06 35.2 5.3 44 175-218 1-44 (48)
6 PF05158 RNA_pol_Rpc34: RNA po 94.8 0.46 1E-05 43.8 11.5 111 96-217 7-126 (327)
7 PF09743 DUF2042: Uncharacteri 93.1 0.53 1.2E-05 42.4 8.3 93 120-218 2-97 (272)
8 PF09012 FeoC: FeoC like trans 92.4 0.27 5.9E-06 34.7 4.5 37 181-217 4-40 (69)
9 PF01978 TrmB: Sugar-specific 92.0 0.27 5.9E-06 34.3 4.0 44 174-217 5-48 (68)
10 PF04079 DUF387: Putative tran 91.5 2.6 5.6E-05 35.0 10.0 86 118-216 14-118 (159)
11 TIGR02147 Fsuc_second hypothet 90.7 0.95 2.1E-05 40.7 7.1 139 40-217 8-165 (271)
12 PLN03083 E3 UFM1-protein ligas 90.6 0.93 2E-05 46.5 7.7 95 119-218 4-101 (803)
13 PF08220 HTH_DeoR: DeoR-like h 90.3 0.79 1.7E-05 31.3 4.9 40 179-218 2-41 (57)
14 TIGR00281 segregation and cond 89.6 4.7 0.0001 34.4 10.2 101 102-217 4-124 (186)
15 PRK10512 selenocysteinyl-tRNA- 88.9 20 0.00043 35.9 15.4 104 92-215 487-590 (614)
16 cd08767 Cdt1_c The C-terminal 88.1 3.8 8.2E-05 32.7 8.1 79 97-184 44-123 (126)
17 smart00420 HTH_DEOR helix_turn 87.9 1.8 3.9E-05 27.6 5.1 40 179-218 2-41 (53)
18 PRK15466 carboxysome structura 86.0 1.2 2.6E-05 37.4 4.3 35 184-218 117-151 (166)
19 PLN02180 gamma-glutamyl transp 86.0 1.2 2.6E-05 44.8 5.0 73 45-126 216-299 (639)
20 PLN02198 glutathione gamma-glu 85.6 1.2 2.7E-05 44.0 4.8 75 45-128 166-251 (573)
21 PF01047 MarR: MarR family; I 85.2 2.5 5.5E-05 28.1 4.9 43 175-217 1-43 (59)
22 PF12324 HTH_15: Helix-turn-he 85.1 2 4.3E-05 31.8 4.6 37 179-215 26-62 (77)
23 PF09756 DDRGK: DDRGK domain; 84.8 1.4 3E-05 37.8 4.2 85 99-202 100-184 (188)
24 PF12802 MarR_2: MarR family; 84.6 3.3 7.1E-05 27.7 5.3 43 175-217 3-47 (62)
25 PF04967 HTH_10: HTH DNA bindi 84.5 4.7 0.0001 27.6 5.9 38 175-212 1-44 (53)
26 TIGR00066 g_glut_trans gamma-g 83.2 2.7 5.8E-05 41.0 5.9 32 91-126 191-223 (516)
27 cd05029 S-100A6 S-100A6: S-100 83.1 4.2 9.1E-05 30.2 5.8 55 101-156 10-66 (88)
28 PF08784 RPA_C: Replication pr 83.0 3.2 6.9E-05 31.2 5.1 45 174-218 44-92 (102)
29 smart00418 HTH_ARSR helix_turn 82.1 3.3 7.2E-05 26.9 4.5 36 182-218 2-37 (66)
30 PF06163 DUF977: Bacterial pro 81.4 2.9 6.4E-05 33.7 4.5 47 172-218 7-53 (127)
31 PF01019 G_glu_transpept: Gamm 81.2 2.1 4.6E-05 41.5 4.5 75 45-128 122-207 (510)
32 PF04703 FaeA: FaeA-like prote 81.0 2.6 5.6E-05 29.8 3.7 38 181-218 4-42 (62)
33 PF01726 LexA_DNA_bind: LexA D 80.7 4.9 0.00011 28.4 5.1 44 173-216 2-51 (65)
34 smart00347 HTH_MARR helix_turn 80.3 5.3 0.00011 28.6 5.4 46 173-218 6-51 (101)
35 smart00421 HTH_LUXR helix_turn 78.9 8.9 0.00019 24.3 5.6 46 172-219 1-46 (58)
36 PF09743 DUF2042: Uncharacteri 78.8 6.9 0.00015 35.3 6.6 122 67-214 30-154 (272)
37 PF04558 tRNA_synt_1c_R1: Glut 78.4 3.4 7.3E-05 34.6 4.2 84 49-155 15-99 (164)
38 COG5126 FRQ1 Ca2+-binding prot 78.1 12 0.00026 31.3 7.4 40 36-80 16-55 (160)
39 PF09107 SelB-wing_3: Elongati 77.5 5.7 0.00012 26.8 4.4 33 183-215 2-34 (50)
40 COG0055 AtpD F0F1-type ATP syn 77.3 3 6.6E-05 39.8 4.0 126 19-161 252-414 (468)
41 PF08784 RPA_C: Replication pr 76.8 4.5 9.7E-05 30.4 4.2 52 96-157 45-96 (102)
42 PRK09615 ggt gamma-glutamyltra 76.7 5.5 0.00012 39.6 5.8 33 91-127 239-272 (581)
43 PF08279 HTH_11: HTH domain; 76.5 9.9 0.00021 25.0 5.4 38 180-217 3-41 (55)
44 smart00550 Zalpha Z-DNA-bindin 75.5 9 0.0002 27.0 5.2 40 179-218 8-49 (68)
45 PF13463 HTH_27: Winged helix 74.2 9.9 0.00022 25.7 5.1 43 175-217 1-44 (68)
46 PF09907 DUF2136: Uncharacteri 73.0 7.2 0.00016 28.6 4.3 41 119-164 5-45 (76)
47 COG3355 Predicted transcriptio 72.9 9.8 0.00021 30.6 5.4 36 182-217 33-68 (126)
48 PRK11512 DNA-binding transcrip 71.1 13 0.00027 29.5 5.7 46 172-217 35-80 (144)
49 PF14848 HU-DNA_bdg: DNA-bindi 71.0 11 0.00025 29.6 5.3 52 113-169 24-81 (124)
50 cd00090 HTH_ARSR Arsenical Res 70.7 14 0.0003 24.4 5.2 40 177-217 7-46 (78)
51 PF04545 Sigma70_r4: Sigma-70, 70.6 21 0.00046 23.0 5.8 45 174-219 4-48 (50)
52 PTZ00184 calmodulin; Provision 70.3 45 0.00097 25.3 9.5 15 189-203 134-148 (149)
53 TIGR02337 HpaR homoprotocatech 69.8 12 0.00027 28.5 5.2 44 174-217 25-68 (118)
54 PF05600 DUF773: Protein of un 69.5 9 0.00019 37.5 5.3 47 32-78 126-172 (507)
55 PF13404 HTH_AsnC-type: AsnC-t 68.9 18 0.00039 23.3 5.0 37 179-215 5-41 (42)
56 PF11662 DUF3263: Protein of u 68.6 16 0.00035 27.0 5.2 44 174-217 2-48 (77)
57 COG3413 Predicted DNA binding 67.3 30 0.00065 29.4 7.6 41 173-213 154-200 (215)
58 PRK09334 30S ribosomal protein 67.1 9.5 0.0002 28.8 3.9 37 182-218 32-68 (86)
59 PLN02964 phosphatidylserine de 67.1 7.6 0.00016 39.2 4.3 92 35-157 138-231 (644)
60 PF05331 DUF742: Protein of un 67.1 11 0.00024 29.8 4.5 44 172-217 38-81 (114)
61 PRK00080 ruvB Holliday junctio 67.0 59 0.0013 29.3 9.8 64 136-217 236-303 (328)
62 TIGR03793 TOMM_pelo TOMM prope 66.4 16 0.00034 26.9 4.9 22 59-80 15-40 (77)
63 PRK13239 alkylmercury lyase; P 65.5 11 0.00024 32.8 4.5 37 179-215 24-60 (206)
64 TIGR01889 Staph_reg_Sar staphy 65.3 18 0.0004 27.4 5.3 44 174-217 22-69 (109)
65 PF09339 HTH_IclR: IclR helix- 65.2 11 0.00024 24.8 3.6 38 181-218 7-45 (52)
66 PF09733 VEFS-Box: VEFS-Box of 65.2 8.8 0.00019 31.3 3.7 32 43-74 91-122 (140)
67 PRK11179 DNA-binding transcrip 65.1 17 0.00037 29.3 5.4 44 175-218 7-50 (153)
68 TIGR01884 cas_HTH CRISPR locus 65.1 16 0.00035 30.8 5.5 44 174-217 140-183 (203)
69 TIGR02941 Sigma_B RNA polymera 63.8 85 0.0018 27.1 9.9 44 32-75 28-72 (255)
70 PF09397 Ftsk_gamma: Ftsk gamm 63.7 18 0.00038 25.8 4.5 38 180-217 9-46 (65)
71 PRK04217 hypothetical protein; 63.2 26 0.00057 27.4 5.9 47 172-219 40-86 (110)
72 cd08803 Death_ank3 Death domai 62.6 13 0.00029 27.6 3.9 66 67-147 7-83 (84)
73 cd06170 LuxR_C_like C-terminal 62.4 37 0.0008 21.5 5.8 43 176-220 2-44 (57)
74 TIGR02844 spore_III_D sporulat 62.2 17 0.00037 26.9 4.4 36 178-214 7-42 (80)
75 smart00344 HTH_ASNC helix_turn 61.7 23 0.0005 26.3 5.2 39 179-217 5-43 (108)
76 PRK03573 transcriptional regul 61.3 23 0.0005 27.8 5.4 46 172-217 26-72 (144)
77 PF07240 Turandot: Stress-indu 61.0 10 0.00022 28.6 3.0 29 75-105 49-77 (85)
78 PF13382 Adenine_deam_C: Adeni 61.0 19 0.00041 30.3 5.1 26 139-165 74-99 (171)
79 PF14394 DUF4423: Domain of un 60.7 21 0.00046 29.8 5.3 40 178-217 25-67 (171)
80 PF11994 DUF3489: Protein of u 60.3 24 0.00053 25.7 4.8 42 176-217 9-50 (72)
81 PRK11169 leucine-responsive tr 60.1 18 0.00039 29.6 4.7 47 172-218 9-55 (164)
82 KOG1767 40S ribosomal protein 59.9 16 0.00034 28.7 4.0 41 178-218 44-87 (110)
83 PF09079 Cdc6_C: CDC6, C termi 59.7 9.6 0.00021 27.6 2.7 29 53-82 12-40 (85)
84 PF01325 Fe_dep_repress: Iron 59.0 29 0.00062 23.9 4.9 36 182-217 13-48 (60)
85 cd05022 S-100A13 S-100A13: S-1 58.4 37 0.0008 25.3 5.8 71 34-129 2-75 (89)
86 PF07818 HCNGP: HCNGP-like pro 58.3 14 0.0003 28.3 3.4 41 59-102 41-84 (96)
87 cd07669 BAR_SNX33 The Bin/Amph 58.2 23 0.0005 30.9 5.2 78 44-128 33-112 (207)
88 cd07668 BAR_SNX9 The Bin/Amphi 58.1 25 0.00054 30.8 5.3 60 44-104 33-94 (210)
89 TIGR02147 Fsuc_second hypothet 57.8 43 0.00093 30.2 7.1 78 93-188 120-208 (271)
90 COG3879 Uncharacterized protei 57.0 35 0.00076 30.5 6.2 95 45-174 75-175 (247)
91 COG1386 scpB Chromosome segreg 56.8 1.2E+02 0.0027 25.7 9.4 76 139-214 37-129 (184)
92 PF03297 Ribosomal_S25: S25 ri 56.8 19 0.00042 28.0 4.1 32 187-218 55-86 (105)
93 COG2865 Predicted transcriptio 56.7 34 0.00074 33.3 6.6 43 175-217 400-442 (467)
94 smart00346 HTH_ICLR helix_turn 56.3 33 0.00072 24.4 5.1 37 181-217 9-46 (91)
95 PRK02899 adaptor protein; Prov 56.0 1.1E+02 0.0023 26.2 9.0 78 138-217 111-193 (197)
96 PF08280 HTH_Mga: M protein tr 56.0 38 0.00083 23.0 5.1 42 177-218 5-46 (59)
97 KOG0027 Calmodulin and related 55.9 1E+02 0.0022 24.4 8.7 96 37-157 5-101 (151)
98 PF15112 DUF4559: Domain of un 55.5 59 0.0013 30.0 7.5 98 35-152 161-264 (307)
99 KOG1043 Ca2+-binding transmemb 55.1 95 0.0021 30.6 9.3 101 34-145 257-369 (499)
100 PRK07598 RNA polymerase sigma 54.7 1.7E+02 0.0036 28.1 10.8 168 27-213 75-300 (415)
101 PF14538 Raptor_N: Raptor N-te 54.6 37 0.00081 27.9 5.7 80 69-165 10-100 (154)
102 PF14394 DUF4423: Domain of un 54.6 28 0.0006 29.1 5.0 61 93-171 22-83 (171)
103 PF03979 Sigma70_r1_1: Sigma-7 54.2 30 0.00064 25.2 4.6 34 182-215 12-48 (82)
104 COG3877 Uncharacterized protei 53.8 46 0.00099 26.3 5.7 25 58-82 69-93 (122)
105 cd00092 HTH_CRP helix_turn_hel 53.7 37 0.00079 22.6 4.7 29 190-218 24-52 (67)
106 PRK03902 manganese transport t 53.7 33 0.00071 27.1 5.1 36 182-217 13-48 (142)
107 cd08768 Cdc6_C Winged-helix do 52.9 16 0.00035 26.1 3.0 27 55-82 21-47 (87)
108 PF13413 HTH_25: Helix-turn-he 52.8 16 0.00034 25.5 2.7 46 32-78 13-59 (62)
109 PRK13558 bacterio-opsin activa 52.8 46 0.00099 32.6 7.0 68 139-206 564-645 (665)
110 COG2512 Predicted membrane-ass 52.6 31 0.00068 30.8 5.3 46 171-216 189-235 (258)
111 PF08221 HTH_9: RNA polymerase 52.0 40 0.00087 23.3 4.7 48 93-154 8-55 (62)
112 PRK03187 tgl transglutaminase; 51.9 21 0.00045 32.3 4.0 43 77-134 180-223 (272)
113 cd07670 BAR_SNX18 The Bin/Amph 51.7 34 0.00074 29.8 5.2 60 45-105 34-95 (207)
114 TIGR02833 spore_III_AB stage I 51.2 20 0.00044 29.8 3.7 55 15-76 105-159 (170)
115 PF07216 LcrG: LcrG protein; 50.7 10 0.00022 28.9 1.6 17 66-82 27-43 (93)
116 PRK08307 stage III sporulation 50.5 21 0.00046 29.8 3.6 55 15-76 106-160 (171)
117 cd08805 Death_ank1 Death domai 50.3 34 0.00074 25.4 4.4 67 66-147 6-83 (84)
118 smart00419 HTH_CRP helix_turn_ 48.7 29 0.00063 21.5 3.4 28 191-218 8-35 (48)
119 TIGR02573 LcrG_PcrG type III s 48.6 15 0.00032 27.9 2.2 18 65-82 23-40 (90)
120 PRK14333 (dimethylallyl)adenos 48.3 44 0.00096 31.8 5.9 49 138-190 287-335 (448)
121 TIGR01558 sm_term_P27 phage te 48.0 85 0.0018 24.1 6.5 26 57-82 66-97 (116)
122 PF04337 DUF480: Protein of un 48.0 1.6E+02 0.0035 24.4 8.3 99 118-217 25-133 (148)
123 PRK08215 sporulation sigma fac 47.9 1.8E+02 0.004 25.1 13.9 48 31-78 35-84 (258)
124 smart00345 HTH_GNTR helix_turn 47.4 35 0.00075 21.9 3.7 29 190-218 18-47 (60)
125 cd00213 S-100 S-100: S-100 dom 46.8 1E+02 0.0022 21.9 6.8 75 34-129 2-79 (88)
126 TIGR02384 RelB_DinJ addiction 46.7 17 0.00036 26.9 2.2 25 56-80 6-30 (83)
127 PF05402 PqqD: Coenzyme PQQ sy 46.6 90 0.002 21.1 6.0 45 174-220 14-62 (68)
128 smart00843 Ftsk_gamma This dom 46.4 43 0.00094 23.7 4.2 37 181-217 9-45 (63)
129 PRK05572 sporulation sigma fac 45.9 2E+02 0.0043 24.8 11.4 45 31-75 30-75 (252)
130 PF02002 TFIIE_alpha: TFIIE al 45.8 42 0.00091 25.2 4.4 43 175-217 11-53 (105)
131 PF01710 HTH_Tnp_IS630: Transp 45.8 1.4E+02 0.003 23.0 8.5 90 96-213 4-93 (119)
132 PRK14337 (dimethylallyl)adenos 45.5 46 0.001 31.7 5.6 50 137-190 280-329 (446)
133 PRK14339 (dimethylallyl)adenos 45.4 50 0.0011 31.2 5.8 50 137-190 261-310 (420)
134 PF09336 Vps4_C: Vps4 C termin 45.2 31 0.00067 24.1 3.3 26 118-147 30-55 (62)
135 PRK14331 (dimethylallyl)adenos 44.9 42 0.0009 31.8 5.1 50 137-190 276-325 (437)
136 PF04914 DltD_C: DltD C-termin 44.3 13 0.00028 29.9 1.4 53 57-109 29-87 (130)
137 PF10078 DUF2316: Uncharacteri 44.1 48 0.001 25.1 4.3 39 175-213 3-45 (89)
138 TIGR03060 PS_II_psb29 photosys 44.1 2.2E+02 0.0048 24.9 9.3 61 44-131 58-118 (214)
139 PRK15431 ferrous iron transpor 44.1 72 0.0016 23.6 5.2 36 182-217 7-42 (78)
140 COG1709 Predicted transcriptio 43.8 49 0.0011 29.4 4.9 142 44-208 9-172 (241)
141 PRK14332 (dimethylallyl)adenos 43.7 60 0.0013 31.1 6.0 50 137-190 282-331 (449)
142 PRK14335 (dimethylallyl)adenos 43.5 60 0.0013 31.0 6.0 50 137-190 289-338 (455)
143 PRK14330 (dimethylallyl)adenos 43.4 57 0.0012 30.8 5.8 50 137-190 271-320 (434)
144 PRK06266 transcription initiat 43.3 56 0.0012 27.5 5.2 39 179-217 24-62 (178)
145 PF08638 Med14: Mediator compl 43.2 1.2E+02 0.0025 25.9 7.2 85 93-178 84-188 (195)
146 COG0735 Fur Fe2+/Zn2+ uptake r 43.2 56 0.0012 26.4 5.0 46 101-154 24-69 (145)
147 PF05796 Chordopox_G2: Chordop 43.2 31 0.00067 30.2 3.6 104 57-174 16-119 (216)
148 PRK14338 (dimethylallyl)adenos 43.1 62 0.0013 31.0 6.0 49 138-190 287-335 (459)
149 cd08317 Death_ank Death domain 43.0 41 0.00089 24.4 3.8 67 66-147 6-83 (84)
150 PRK10870 transcriptional repre 42.8 64 0.0014 26.7 5.4 43 175-217 53-97 (176)
151 KOG1350 F0F1-type ATP synthase 42.6 41 0.00089 31.8 4.5 111 34-162 326-465 (521)
152 KOG0624 dsRNA-activated protei 42.5 16 0.00034 34.9 1.8 36 54-95 446-491 (504)
153 cd08804 Death_ank2 Death domai 42.4 51 0.0011 24.2 4.3 66 67-147 7-83 (84)
154 PF06971 Put_DNA-bind_N: Putat 41.6 41 0.00089 22.7 3.3 29 182-210 17-47 (50)
155 PRK09802 DNA-binding transcrip 41.4 52 0.0011 29.2 5.0 41 176-216 16-56 (269)
156 TIGR00475 selB selenocysteine- 41.4 3.7E+02 0.008 26.7 13.6 94 93-215 471-564 (581)
157 PLN03083 E3 UFM1-protein ligas 41.4 54 0.0012 34.1 5.6 124 67-215 33-158 (803)
158 PRK14334 (dimethylallyl)adenos 41.2 70 0.0015 30.3 6.1 49 138-190 269-317 (440)
159 COG0309 HypE Hydrogenase matur 41.0 18 0.0004 33.7 2.0 37 44-80 232-271 (339)
160 PF11972 HTH_13: HTH DNA bindi 40.9 77 0.0017 21.9 4.6 35 181-215 3-37 (54)
161 PRK14329 (dimethylallyl)adenos 40.7 62 0.0013 31.1 5.7 50 137-190 304-353 (467)
162 PF00888 Cullin: Cullin family 40.4 12 0.00027 35.9 0.8 131 56-216 421-559 (588)
163 PRK14325 (dimethylallyl)adenos 40.4 63 0.0014 30.6 5.6 50 137-190 280-329 (444)
164 PTZ00183 centrin; Provisional 40.2 1.7E+02 0.0036 22.4 8.2 11 189-199 140-150 (158)
165 PRK14340 (dimethylallyl)adenos 40.1 58 0.0013 31.1 5.3 50 137-190 279-328 (445)
166 PF04221 RelB: RelB antitoxin; 39.8 18 0.0004 26.4 1.5 23 57-79 6-28 (83)
167 PF09202 Rio2_N: Rio2, N-termi 39.7 83 0.0018 23.2 5.0 44 174-217 3-50 (82)
168 COG0159 TrpA Tryptophan syntha 39.6 2.5E+02 0.0055 25.3 9.0 137 59-219 103-259 (265)
169 TIGR02698 CopY_TcrY copper tra 39.5 80 0.0017 25.0 5.3 43 175-217 2-48 (130)
170 PTZ00111 DNA replication licen 39.4 1.1E+02 0.0023 32.5 7.4 91 116-218 775-898 (915)
171 smart00350 MCM minichromosome 39.2 62 0.0013 31.4 5.4 52 98-151 441-505 (509)
172 PF08279 HTH_11: HTH domain; 39.1 85 0.0018 20.3 4.6 37 117-164 15-51 (55)
173 PRK15201 fimbriae regulatory p 38.9 1E+02 0.0022 26.7 6.0 48 171-220 130-177 (198)
174 PF05597 Phasin: Poly(hydroxya 38.9 1.5E+02 0.0032 24.0 6.7 71 5-77 25-106 (132)
175 COG1522 Lrp Transcriptional re 38.8 86 0.0019 24.5 5.4 44 174-217 5-48 (154)
176 PF07352 Phage_Mu_Gam: Bacteri 38.6 77 0.0017 25.6 5.1 30 29-58 38-67 (149)
177 PF12840 HTH_20: Helix-turn-he 38.3 1.2E+02 0.0026 20.3 5.4 39 179-217 12-50 (61)
178 smart00088 PINT motif in prote 38.0 83 0.0018 22.3 4.8 39 180-218 13-51 (88)
179 smart00753 PAM PCI/PINT associ 38.0 83 0.0018 22.3 4.8 39 180-218 13-51 (88)
180 cd01295 AdeC Adenine deaminase 38.0 67 0.0014 30.1 5.3 34 138-173 330-363 (422)
181 TIGR00762 DegV EDD domain prot 37.9 1.3E+02 0.0027 26.6 6.9 62 118-188 41-103 (275)
182 PRK05472 redox-sensing transcr 37.8 62 0.0013 27.4 4.7 37 179-215 18-56 (213)
183 cd07377 WHTH_GntR Winged helix 37.8 50 0.0011 21.6 3.4 26 192-217 26-51 (66)
184 TIGR00721 tfx DNA-binding prot 37.6 80 0.0017 25.7 5.0 44 174-219 6-49 (137)
185 TIGR01125 MiaB-like tRNA modif 37.6 74 0.0016 30.0 5.6 50 137-190 266-315 (430)
186 cd07291 PX_SNX5 The phosphoino 37.3 60 0.0013 26.7 4.2 33 37-70 103-140 (141)
187 PHA02591 hypothetical protein; 37.3 1.1E+02 0.0024 22.8 5.3 47 159-213 32-81 (83)
188 PRK07122 RNA polymerase sigma 37.0 2.9E+02 0.0063 24.2 9.4 30 190-219 230-259 (264)
189 cd06171 Sigma70_r4 Sigma70, re 36.9 97 0.0021 18.7 5.6 45 174-219 10-54 (55)
190 PF02082 Rrf2: Transcriptional 36.8 1.6E+02 0.0034 21.1 7.7 69 97-179 7-78 (83)
191 COG1846 MarR Transcriptional r 36.2 1.1E+02 0.0024 22.2 5.3 43 175-217 20-62 (126)
192 PF02796 HTH_7: Helix-turn-hel 35.4 1.2E+02 0.0026 19.3 4.8 39 172-212 3-42 (45)
193 PF06721 DUF1204: Protein of u 35.2 1.5E+02 0.0034 25.7 6.5 37 35-73 82-119 (228)
194 PRK14336 (dimethylallyl)adenos 35.1 1E+02 0.0022 29.1 6.1 49 138-190 256-304 (418)
195 PRK13436 F0F1 ATP synthase sub 34.9 2.6E+02 0.0057 23.1 8.2 39 113-151 84-132 (179)
196 TIGR01837 PHA_granule_1 poly(h 34.9 1.3E+02 0.0029 23.5 5.8 71 5-77 12-93 (118)
197 COG2996 Predicted RNA-bindinin 34.8 1.6E+02 0.0035 26.9 6.9 45 174-218 222-273 (287)
198 PF14106 DUF4279: Domain of un 34.6 61 0.0013 24.4 3.8 29 28-56 53-81 (118)
199 PF10136 SpecificRecomb: Site- 34.6 65 0.0014 32.7 4.9 65 57-128 42-110 (643)
200 COG4901 Ribosomal protein S25 34.5 59 0.0013 25.5 3.6 31 188-218 56-86 (107)
201 cd07626 BAR_SNX9_like The Bin/ 34.4 67 0.0015 27.7 4.3 66 34-99 15-81 (199)
202 PRK11557 putative DNA-binding 34.3 1.5E+02 0.0031 25.8 6.6 17 136-152 111-127 (278)
203 cd01301 rDP_like renal dipepti 34.3 61 0.0013 29.6 4.3 92 94-192 120-223 (309)
204 PRK14703 glutaminyl-tRNA synth 34.1 2.9E+02 0.0062 28.8 9.4 127 59-219 592-723 (771)
205 PF04977 DivIC: Septum formati 34.1 1.5E+02 0.0031 20.6 5.5 46 17-62 23-73 (80)
206 cd08318 Death_NMPP84 Death dom 34.0 44 0.00095 24.6 2.8 61 61-129 4-75 (86)
207 PF03837 RecT: RecT family; I 33.8 34 0.00075 28.5 2.4 22 59-80 20-41 (199)
208 PF10771 DUF2582: Protein of u 33.7 59 0.0013 23.1 3.2 38 181-218 12-49 (65)
209 KOG1106 Uncharacterized conser 33.5 49 0.0011 28.2 3.2 41 89-132 95-135 (177)
210 PRK14981 DNA-directed RNA poly 33.5 62 0.0013 25.2 3.7 47 93-152 63-109 (112)
211 PF12298 Bot1p: Eukaryotic mit 33.4 96 0.0021 26.2 5.0 41 180-221 23-63 (172)
212 TIGR00089 RNA modification enz 33.3 91 0.002 29.3 5.5 49 138-190 271-319 (429)
213 PF13730 HTH_36: Helix-turn-he 33.2 77 0.0017 20.5 3.7 44 174-217 2-51 (55)
214 PF04801 Sin_N: Sin-like prote 33.2 1.8E+02 0.004 27.4 7.5 100 99-217 271-377 (421)
215 PF14947 HTH_45: Winged helix- 33.2 95 0.0021 22.1 4.4 36 181-217 10-45 (77)
216 PF03102 NeuB: NeuB family; I 33.1 1.4E+02 0.003 26.4 6.2 85 64-160 58-146 (241)
217 COG1654 BirA Biotin operon rep 33.0 1E+02 0.0022 22.7 4.5 39 176-215 5-43 (79)
218 KOG4302 Microtubule-associated 33.0 48 0.0011 33.7 3.7 46 34-79 156-202 (660)
219 PRK10328 DNA binding protein, 33.0 1.4E+02 0.003 24.2 5.7 55 21-78 15-72 (134)
220 PF08221 HTH_9: RNA polymerase 32.8 1.2E+02 0.0027 20.8 4.8 38 180-217 16-53 (62)
221 PF02082 Rrf2: Transcriptional 32.7 90 0.0019 22.3 4.2 28 190-217 24-51 (83)
222 TIGR01579 MiaB-like-C MiaB-lik 32.6 1E+02 0.0022 28.8 5.6 50 137-190 269-318 (414)
223 COG5159 RPN6 26S proteasome re 32.6 1E+02 0.0022 28.9 5.3 65 6-74 264-329 (421)
224 PRK15369 two component system 32.4 1.5E+02 0.0033 22.9 5.9 47 172-220 147-193 (211)
225 TIGR01774 PFL2-3 pyruvate form 32.3 4.1E+02 0.0088 27.7 10.2 95 45-150 207-310 (786)
226 TIGR00635 ruvB Holliday juncti 32.2 3.2E+02 0.007 23.8 8.5 64 136-217 215-282 (305)
227 PRK13777 transcriptional regul 32.2 1.2E+02 0.0026 25.7 5.5 46 172-217 40-85 (185)
228 PF01399 PCI: PCI domain; Int 32.1 99 0.0022 22.1 4.5 36 183-218 52-87 (105)
229 PRK14327 (dimethylallyl)adenos 32.0 1E+02 0.0022 30.2 5.7 50 137-190 343-392 (509)
230 PF08726 EFhand_Ca_insen: Ca2+ 31.9 27 0.00059 25.1 1.3 18 185-202 15-32 (69)
231 PF10410 DnaB_bind: DnaB-helic 31.7 1.1E+02 0.0024 20.0 4.3 30 48-78 26-56 (59)
232 PRK10947 global DNA-binding tr 31.7 1.2E+02 0.0027 24.5 5.3 55 21-78 15-72 (135)
233 COG1001 AdeC Adenine deaminase 31.6 94 0.002 31.2 5.3 34 138-173 481-514 (584)
234 PRK14326 (dimethylallyl)adenos 31.6 1E+02 0.0022 29.9 5.6 50 137-190 288-337 (502)
235 PRK14328 (dimethylallyl)adenos 31.4 1.1E+02 0.0023 29.0 5.6 50 137-190 278-327 (439)
236 PHA02047 phage lambda Rz1-like 31.3 1.6E+02 0.0034 22.9 5.4 30 29-58 40-72 (101)
237 COG0405 Ggt Gamma-glutamyltran 31.2 1.3E+02 0.0027 30.0 6.1 35 91-129 206-241 (539)
238 PF04539 Sigma70_r3: Sigma-70 31.2 1.1E+02 0.0025 21.2 4.5 33 182-214 10-43 (78)
239 PF13499 EF-hand_7: EF-hand do 30.8 1.6E+02 0.0035 19.4 5.2 57 48-126 8-65 (66)
240 PLN02859 glutamine-tRNA ligase 30.7 71 0.0015 33.2 4.4 84 50-155 18-101 (788)
241 PF07862 Nif11: Nitrogen fixat 30.6 76 0.0016 20.6 3.2 22 44-69 4-25 (49)
242 TIGR00273 iron-sulfur cluster- 30.6 43 0.00092 32.1 2.7 80 18-98 32-111 (432)
243 PRK09430 djlA Dna-J like membr 30.3 3.3E+02 0.0073 24.2 8.3 102 45-152 110-226 (267)
244 PRK10027 cryptic adenine deami 30.3 1E+02 0.0022 30.8 5.4 33 138-172 483-515 (588)
245 KOG2916 Translation initiation 29.9 2.1E+02 0.0045 26.2 6.7 76 115-207 43-136 (304)
246 TIGR00373 conserved hypothetic 29.8 1.3E+02 0.0029 24.6 5.3 42 176-217 13-54 (158)
247 TIGR00738 rrf2_super rrf2 fami 29.7 1.2E+02 0.0026 23.2 4.8 29 189-217 23-51 (132)
248 TIGR00122 birA_repr_reg BirA b 29.7 1.4E+02 0.003 20.4 4.6 36 181-217 4-39 (69)
249 KOG2165 Anaphase-promoting com 29.6 1.9E+02 0.0041 29.9 7.1 74 140-217 553-642 (765)
250 TIGR02944 suf_reg_Xantho FeS a 29.2 1.2E+02 0.0027 23.3 4.8 29 189-217 23-51 (130)
251 TIGR02393 RpoD_Cterm RNA polym 29.1 1.4E+02 0.003 25.6 5.5 46 175-220 177-225 (238)
252 PRK15411 rcsA colanic acid cap 29.1 3.1E+02 0.0068 22.9 7.6 75 137-220 107-181 (207)
253 COG5296 Transcription factor i 29.0 26 0.00056 33.7 1.0 104 112-220 406-514 (521)
254 PF11744 ALMT: Aluminium activ 28.9 1.6E+02 0.0036 28.0 6.4 45 33-77 259-303 (406)
255 COG1460 Uncharacterized protei 28.9 1.2E+02 0.0026 24.1 4.5 61 59-150 48-108 (114)
256 PRK11235 bifunctional antitoxi 28.5 46 0.00099 24.7 2.0 24 57-80 6-29 (80)
257 TIGR01578 MiaB-like-B MiaB-lik 28.5 1.4E+02 0.003 28.2 5.7 50 137-190 264-313 (420)
258 KOG3233 RNA polymerase III, su 28.4 3.7E+02 0.008 24.7 8.1 103 99-214 12-123 (297)
259 KOG4127 Renal dipeptidase [Pos 28.4 1.3E+02 0.0028 28.8 5.4 82 136-219 314-398 (419)
260 TIGR02865 spore_II_E stage II 28.3 1.4E+02 0.003 30.7 6.2 47 32-78 435-481 (764)
261 TIGR02928 orc1/cdc6 family rep 28.1 1.3E+02 0.0029 26.9 5.5 19 63-81 313-331 (365)
262 TIGR01574 miaB-methiolase tRNA 28.1 1.2E+02 0.0027 28.6 5.4 50 137-190 278-327 (438)
263 KOG2607 CDK5 activator-binding 28.0 1.1E+02 0.0024 29.7 4.9 84 18-105 106-198 (505)
264 TIGR01178 ade adenine deaminas 27.9 1.2E+02 0.0026 30.0 5.4 34 138-173 451-484 (552)
265 PF01022 HTH_5: Bacterial regu 27.8 1.7E+02 0.0036 18.6 4.7 37 180-217 5-41 (47)
266 PF00392 GntR: Bacterial regul 27.8 1.9E+02 0.0042 19.4 5.5 50 96-154 2-52 (64)
267 TIGR01617 arsC_related transcr 27.8 84 0.0018 24.0 3.5 38 45-82 14-58 (117)
268 PRK14862 rimO ribosomal protei 27.7 1.2E+02 0.0027 28.8 5.3 49 138-190 278-326 (440)
269 PF12307 DUF3631: Protein of u 27.7 3.6E+02 0.0078 23.0 7.6 100 36-152 20-131 (184)
270 COG2178 Predicted RNA-binding 27.5 97 0.0021 27.0 4.1 29 74-109 106-134 (204)
271 cd04871 ACT_PSP_2 ACT domains 27.4 46 0.001 24.2 1.9 17 61-77 63-79 (84)
272 TIGR01610 phage_O_Nterm phage 27.3 1.9E+02 0.0041 21.4 5.3 43 175-217 23-73 (95)
273 PF02491 SHS2_FTSA: SHS2 domai 27.3 20 0.00044 25.7 -0.0 27 136-162 19-47 (80)
274 cd03036 ArsC_like Arsenate Red 27.3 65 0.0014 24.5 2.8 39 44-82 13-58 (111)
275 PF03484 B5: tRNA synthetase B 27.0 2.2E+02 0.0048 19.8 5.8 40 126-173 10-49 (70)
276 PF12381 Peptidase_C3G: Tungro 27.0 35 0.00076 30.1 1.4 18 135-152 213-230 (231)
277 PF13443 HTH_26: Cro/C1-type H 26.9 1.4E+02 0.0031 19.7 4.2 42 32-78 13-54 (63)
278 PF09548 Spore_III_AB: Stage I 26.9 78 0.0017 26.1 3.4 56 14-76 104-159 (170)
279 PF06407 BDV_P40: Borna diseas 26.8 1.2E+02 0.0026 28.0 4.8 43 34-76 132-175 (370)
280 PF10376 Mei5: Double-strand r 26.7 1.9E+02 0.0042 25.3 6.0 19 58-78 197-215 (221)
281 cd00314 plant_peroxidase_like 26.7 3.1E+02 0.0068 23.8 7.4 92 108-201 51-155 (255)
282 PRK00888 ftsB cell division pr 26.7 1.9E+02 0.0041 22.2 5.3 35 29-63 47-84 (105)
283 cd07153 Fur_like Ferric uptake 26.7 1.6E+02 0.0035 21.9 4.9 46 102-155 5-50 (116)
284 COG4396 Mu-like prophage host- 26.6 2E+02 0.0043 23.9 5.5 31 31-61 55-85 (170)
285 PRK05927 hypothetical protein; 26.5 1.4E+02 0.003 27.7 5.4 161 45-220 165-333 (350)
286 cd00051 EFh EF-hand, calcium b 26.5 1.6E+02 0.0034 17.9 5.2 33 116-152 15-47 (63)
287 PRK05469 peptidase T; Provisio 26.5 1E+02 0.0022 28.5 4.4 74 57-152 326-399 (408)
288 PF14528 LAGLIDADG_3: LAGLIDAD 26.4 51 0.0011 22.9 2.0 22 58-79 28-49 (77)
289 KOG1956 DNA topoisomerase III 26.3 53 0.0012 33.4 2.6 41 98-152 122-162 (758)
290 COG2433 Uncharacterized conser 26.3 7.1E+02 0.015 25.4 10.5 92 63-169 38-141 (652)
291 COG3333 Uncharacterized protei 26.1 1.1E+02 0.0023 30.1 4.5 83 70-164 178-271 (504)
292 PF05119 Terminase_4: Phage te 26.0 2.2E+02 0.0048 20.6 5.4 25 57-81 57-87 (100)
293 TIGR03569 NeuB_NnaB N-acetylne 25.9 2E+02 0.0043 26.6 6.2 79 65-156 79-161 (329)
294 PF13267 DUF4058: Protein of u 25.8 55 0.0012 29.4 2.4 30 75-110 7-36 (254)
295 PF05584 Sulfolobus_pRN: Sulfo 25.8 2E+02 0.0043 21.0 4.9 36 182-218 10-45 (72)
296 COG1241 MCM2 Predicted ATPase 25.8 4.8E+02 0.01 26.8 9.3 145 60-219 507-669 (682)
297 PRK11050 manganese transport r 25.6 1.5E+02 0.0033 23.8 4.9 33 185-217 45-77 (152)
298 PRK00411 cdc6 cell division co 25.6 1.9E+02 0.0042 26.2 6.1 68 136-216 268-350 (394)
299 PRK09652 RNA polymerase sigma 25.6 2.1E+02 0.0045 22.4 5.6 45 174-219 128-172 (182)
300 PRK09613 thiH thiamine biosynt 25.6 2.4E+02 0.0051 27.5 6.9 95 47-151 204-305 (469)
301 KOG0027 Calmodulin and related 25.5 3.4E+02 0.0073 21.4 7.5 73 66-157 65-137 (151)
302 PRK14101 bifunctional glucokin 25.5 3.3E+02 0.0071 27.1 8.0 106 34-152 349-467 (638)
303 PF05633 DUF793: Protein of un 25.5 2.8E+02 0.0061 26.5 7.2 78 66-153 82-163 (389)
304 PF09824 ArsR: ArsR transcript 25.4 1.6E+02 0.0034 24.8 4.8 38 176-214 16-53 (160)
305 PRK03975 tfx putative transcri 25.3 2.1E+02 0.0045 23.3 5.5 45 172-218 4-48 (141)
306 PF04465 DUF499: Protein of un 25.3 5.7E+02 0.012 27.6 10.0 51 115-170 664-715 (1035)
307 PRK11337 DNA-binding transcrip 25.2 3.5E+02 0.0076 23.7 7.5 106 36-151 23-138 (292)
308 PF14502 HTH_41: Helix-turn-he 25.1 1E+02 0.0023 20.7 3.1 26 192-217 7-32 (48)
309 PRK15482 transcriptional regul 24.5 3.9E+02 0.0084 23.3 7.6 111 34-151 9-133 (285)
310 COG3975 Predicted protease wit 24.4 4.9E+02 0.011 26.1 8.7 56 96-152 356-413 (558)
311 TIGR02985 Sig70_bacteroi1 RNA 24.3 2.3E+02 0.005 21.6 5.6 45 174-219 113-157 (161)
312 PF02319 E2F_TDP: E2F/DP famil 24.2 1.2E+02 0.0026 21.4 3.6 28 97-127 7-34 (71)
313 PHA02095 hypothetical protein 24.1 70 0.0015 23.5 2.3 22 167-188 59-80 (84)
314 TIGR02997 Sig70-cyanoRpoD RNA 24.1 2E+02 0.0043 25.7 5.7 29 191-219 269-297 (298)
315 PF06506 PrpR_N: Propionate ca 23.9 2.2E+02 0.0047 23.3 5.6 28 137-164 60-87 (176)
316 PF10456 BAR_3_WASP_bdg: WASP- 23.9 97 0.0021 27.4 3.6 69 33-102 51-121 (237)
317 cd05025 S-100A1 S-100A1: S-100 23.8 2.8E+02 0.0061 19.9 5.6 37 116-152 25-63 (92)
318 cd02646 R3H_G-patch R3H domain 23.8 1.3E+02 0.0027 20.4 3.5 38 40-77 2-42 (58)
319 PRK11753 DNA-binding transcrip 23.8 3.2E+02 0.0069 22.1 6.6 97 57-172 108-210 (211)
320 PRK10163 DNA-binding transcrip 23.7 1.5E+02 0.0032 26.1 4.8 36 182-217 30-66 (271)
321 COG1737 RpiR Transcriptional r 23.7 1E+02 0.0022 27.4 3.7 105 36-152 13-129 (281)
322 cd07377 WHTH_GntR Winged helix 23.7 2.1E+02 0.0046 18.4 5.3 47 99-154 6-53 (66)
323 TIGR02944 suf_reg_Xantho FeS a 23.6 2.5E+02 0.0054 21.6 5.6 74 99-188 10-85 (130)
324 PF11719 Drc1-Sld2: DNA replic 23.6 64 0.0014 30.9 2.6 36 34-72 3-43 (426)
325 PF00036 EF-hand_1: EF hand; 23.5 1.1E+02 0.0024 17.9 2.7 17 112-128 10-27 (29)
326 KOG0031 Myosin regulatory ligh 23.5 3.7E+02 0.0081 22.7 6.7 90 36-157 28-117 (171)
327 PF09566 RE_SacI: SacI restric 23.5 2.6E+02 0.0057 26.3 6.4 70 137-212 257-330 (351)
328 smart00027 EH Eps15 homology d 23.3 2.8E+02 0.0062 20.1 5.6 31 116-152 25-55 (96)
329 PF00403 HMA: Heavy-metal-asso 23.3 2.3E+02 0.0049 18.6 6.3 46 140-191 13-61 (62)
330 PF01088 Peptidase_C12: Ubiqui 23.2 40 0.00087 29.1 1.0 18 56-76 4-21 (214)
331 cd00052 EH Eps15 homology doma 23.1 2.1E+02 0.0045 18.5 4.4 33 115-153 13-45 (67)
332 PF11753 DUF3310: Protein of u 23.0 86 0.0019 21.7 2.5 54 93-151 5-59 (60)
333 PRK09841 cryptic autophosphory 23.0 1.9E+02 0.004 29.4 5.9 43 12-54 256-298 (726)
334 PF13012 MitMem_reg: Maintenan 22.8 19 0.00042 27.3 -0.9 69 3-75 4-74 (115)
335 PF07182 DUF1402: Protein of u 22.8 74 0.0016 29.0 2.6 39 42-80 37-75 (303)
336 TIGR00738 rrf2_super rrf2 fami 22.7 2.4E+02 0.0052 21.5 5.3 76 98-189 8-86 (132)
337 PF09724 DUF2036: Uncharacteri 22.6 5.7E+02 0.012 23.0 8.7 81 118-215 126-213 (325)
338 PHA03078 transcriptional elong 22.6 62 0.0014 28.4 2.1 23 57-79 13-35 (219)
339 PHA00542 putative Cro-like pro 22.4 2.1E+02 0.0045 20.7 4.6 40 172-212 13-52 (82)
340 PF07870 DUF1657: Protein of u 22.1 2.5E+02 0.0054 18.7 4.9 33 37-74 7-39 (50)
341 TIGR01029 rpsG_bact ribosomal 22.0 1.5E+02 0.0033 24.3 4.2 40 143-185 60-99 (154)
342 TIGR03017 EpsF chain length de 21.9 2.2E+02 0.0048 26.5 5.8 39 17-55 165-203 (444)
343 PRK00095 mutL DNA mismatch rep 21.8 3.9E+02 0.0084 26.7 7.8 79 137-217 488-588 (617)
344 COG1654 BirA Biotin operon rep 21.8 1.7E+02 0.0036 21.6 4.0 42 116-168 18-59 (79)
345 smart00139 MyTH4 Domain in Myo 21.8 1.7E+02 0.0037 23.6 4.4 68 66-153 25-92 (144)
346 cd05031 S-100A10_like S-100A10 21.8 2.6E+02 0.0056 20.2 5.1 37 116-152 25-62 (94)
347 TIGR02010 IscR iron-sulfur clu 21.7 2E+02 0.0044 22.5 4.8 36 182-217 14-51 (135)
348 COG1321 TroR Mn-dependent tran 21.7 1.8E+02 0.0039 23.9 4.5 40 177-216 9-49 (154)
349 KOG2410 Gamma-glutamyltransfer 21.6 51 0.0011 33.0 1.5 32 91-125 235-266 (579)
350 PF00808 CBFD_NFYB_HMF: Histon 21.6 1.4E+02 0.0029 20.4 3.3 11 137-147 55-65 (65)
351 PRK09642 RNA polymerase sigma 21.6 2.7E+02 0.0059 21.7 5.5 44 174-218 106-156 (160)
352 PF14338 Mrr_N: Mrr N-terminal 21.5 2.3E+02 0.005 20.6 4.8 42 96-146 2-43 (92)
353 COG4367 Uncharacterized protei 21.5 1.1E+02 0.0024 23.4 3.0 38 175-212 3-44 (97)
354 COG4800 Predicted transcriptio 21.4 94 0.002 25.8 2.8 74 56-129 10-90 (170)
355 PRK14999 histidine utilization 21.4 1.1E+02 0.0023 26.2 3.3 26 193-218 38-63 (241)
356 TIGR02325 C_P_lyase_phnF phosp 21.4 1.1E+02 0.0024 25.8 3.4 26 193-218 34-59 (238)
357 PF13833 EF-hand_8: EF-hand do 21.3 2.3E+02 0.005 17.9 4.3 12 116-127 3-14 (54)
358 KOG1463 26S proteasome regulat 21.2 1.5E+02 0.0032 28.3 4.3 42 32-73 285-330 (411)
359 PRK05773 3,4-dihydroxy-2-butan 21.2 1.8E+02 0.0039 25.5 4.6 50 96-148 162-218 (219)
360 PF08227 DASH_Hsk3: DASH compl 21.1 1.4E+02 0.0029 19.9 3.0 18 32-49 4-21 (45)
361 PF03909 BSD: BSD domain ; I 21.1 35 0.00077 23.4 0.2 33 57-101 21-54 (62)
362 PRK11430 putative CoA-transfer 21.0 2.4E+02 0.0051 26.4 5.8 72 65-145 257-328 (381)
363 PF13545 HTH_Crp_2: Crp-like h 20.9 1.5E+02 0.0033 20.2 3.5 28 191-218 28-55 (76)
364 PRK09240 thiH thiamine biosynt 20.9 2.9E+02 0.0062 25.7 6.3 100 45-154 180-289 (371)
365 PRK10079 phosphonate metabolis 20.8 1.1E+02 0.0024 26.1 3.4 26 193-218 37-62 (241)
366 PRK13430 F0F1 ATP synthase sub 20.7 6.1E+02 0.013 22.6 8.6 99 39-155 117-229 (271)
367 PF10007 DUF2250: Uncharacteri 20.7 3.4E+02 0.0074 20.5 5.5 44 174-217 4-47 (92)
368 COG4840 Uncharacterized protei 20.5 2.6E+02 0.0055 20.3 4.5 42 99-145 9-61 (71)
369 PF06627 DUF1153: Protein of u 20.5 52 0.0011 25.0 1.0 31 113-152 45-75 (90)
370 PF04458 DUF505: Protein of un 20.4 5E+02 0.011 26.2 8.0 115 92-213 413-566 (591)
371 CHL00081 chlI Mg-protoporyphyr 20.4 2E+02 0.0044 26.8 5.2 51 98-150 271-322 (350)
372 PRK11519 tyrosine kinase; Prov 20.2 2.3E+02 0.0049 28.8 5.8 44 12-55 256-299 (719)
373 PRK11402 DNA-binding transcrip 20.1 1.2E+02 0.0026 25.9 3.4 28 191-218 33-60 (241)
374 KOG0028 Ca2+-binding protein ( 20.0 2.5E+02 0.0054 23.8 5.0 52 102-156 70-121 (172)
No 1
>KOG3341 consensus RNA polymerase II transcription factor complex subunit [Transcription]
Probab=100.00 E-value=6.5e-84 Score=548.76 Aligned_cols=217 Identities=61% Similarity=1.015 Sum_probs=214.6
Q ss_pred CCCCcchhHhhccHHHHHHHHHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCC
Q 027597 1 MRRRPGIGGLQSAAVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLA 80 (221)
Q Consensus 1 mrR~~Gi~ai~~~~~~~~~~~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~ 80 (221)
||||+|++||++++ +..+|++.|++++++|+.+|++||++|+++|++||+||+.||++||+||++|+.||++||||||+
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 88999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEE
Q 027597 81 SNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVI 160 (221)
Q Consensus 81 s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi 160 (221)
++||||++++|+|||||||+|||||||++|.+.|||+|++.||++++.+.|+..++.||+||++|||++|++||+||+|+
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 99999999999999999999999999999999999999999999999999999889999999999999999999999999
Q ss_pred EeCCEEEEEecCcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 161 SVGKKKLVRSVPTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 161 ~i~~~~~v~Svp~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
+|||+++|||||.|||+||+.|||+|+..||||.+.|.++|+|+..||.+|||+||+|
T Consensus 160 ~iggK~~vrSVP~ELn~Dht~ILela~~~gyvt~s~l~~~l~We~~Ra~qaLe~lv~e 217 (249)
T KOG3341|consen 160 KIGGKKLVRSVPTELNMDHTVILELAEILGYVTISLLKANLGWERSRAIQALEHLVKE 217 (249)
T ss_pred EecCEEeeecCcchhcccHHHHHHHHHhcCceeHHHHHHhccchHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999999999999999999999999999999987
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=1.5e-63 Score=430.63 Aligned_cols=211 Identities=49% Similarity=0.792 Sum_probs=180.6
Q ss_pred cchhHhhccHHHHHHHHHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCC
Q 027597 5 PGIGGLQSAAVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKG 84 (221)
Q Consensus 5 ~Gi~ai~~~~~~~~~~~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~ 84 (221)
+||+||+++.+++++|++.+.+.+.+++++|.+|++.|++.+++|+++|+++|++||+||++|++||++|||||+++++
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-CccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhc-CCCCCCCCHHHHHHHHhhccccCCCeEEEEe
Q 027597 85 FWAELL-GIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRR-KSNREAVSEDDCLRAISKLKVLGNGYEVISV 162 (221)
Q Consensus 85 ~ws~~l-G~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~R-g~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i 162 (221)
+|++.+ |.++||||||+||+|||..+++.|||||+|+||+|++||+| |. ..|||+||++||+.|++||.||+++++
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 FWSESLKGSGDFYYELAVQIAEVCLATRSKNGGIISLSDLYCRYNRARGGS--ELISPEDILRACKLLEVLGLGFRLRKF 157 (223)
T ss_dssp CCCCCCSCHHHHHHHHHHHHHHHHHHHCCTTTSEEEHHHHHHHHHHCTTTS--ST--HHHHHHHHHHHCCCTSSEEEEEE
T ss_pred hhhhccccchhHHHHHHHHHHHHHHHHHhcCCCEEEHHHHHHHHHHhcccC--CCcCHHHHHHHHHHHHHcCCCeEEEEe
Confidence 999999 99999999999999999999999999999999999999999 54 799999999999999999999999999
Q ss_pred C-CEEEEEecC-cccchhHHHHHHHH--HhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 163 G-KKKLVRSVP-TELNKDHNQILELA--QAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 163 ~-~~~~v~Svp-~Els~D~~~vlel~--~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
+ |++||+|+| .|++.||++|++++ +..||+|+.+|++++||+..||+.+|+.|+++
T Consensus 158 ~sg~~vv~s~~~~e~~~~~~~il~~~~~~~~g~vt~~~l~~~~~ws~~~a~~~L~~~~~~ 217 (223)
T PF04157_consen 158 GSGVKVVQSVPYSELSKDQSRILELAEEENGGGVTASELAEKLGWSVERAKEALEELERE 217 (223)
T ss_dssp TTTEEEEECST-CHH-HHHHHHHHHH--TTTSEEEHHHHHHHHTB-HHHHHHHHHHHHHT
T ss_pred CCCcEEEEeCCchhhhHHHHHHHHHHHhhcCCCCCHHHHHHHhCCCHHHHHHHHHHHHhC
Confidence 9 999999999 89999999999999 77999999999999999999999999998865
No 3
>KOG2760 consensus Vacuolar sorting protein VPS36 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.96 E-value=6.6e-29 Score=227.45 Aligned_cols=199 Identities=20% Similarity=0.282 Sum_probs=170.0
Q ss_pred CCcchhHhhccHHHHHHHHHhcHhHHHHHHHHHHHHHHHHHH------HHHHHHHHhhcccccChhHHHHHHHHHHHcCC
Q 027597 3 RRPGIGGLQSAAVARDQYRLLGENVAKLRTDLMKEQLATFRS------QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGV 76 (221)
Q Consensus 3 R~~Gi~ai~~~~~~~~~~~~~g~~l~~~~~~~l~~ql~~F~~------~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGV 76 (221)
|++||++|+|+.+++.+-++...+.+ |++|++.|+.+++ ++.++.+..+++|.+|++.| |+++..++||
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 46999999999999999999999988 8888888888877 78888999999999999997 9999999999
Q ss_pred C-CCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCC
Q 027597 77 D-PLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGN 155 (221)
Q Consensus 77 D-PL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~ 155 (221)
+ |.. ..+|- +-..-|+.+||.||.|+...+.++|||||+|.|+||++||+||+ ++|||+|++.||+.|+.||.
T Consensus 271 ~dpvt-~~n~~---~s~~~Y~~~Lakqlse~l~~~lee~ggmisLtdvY~~~NRaRG~--eLiSPedl~~ACe~le~l~~ 344 (432)
T KOG2760|consen 271 LDPVT-KDNFG---LSLSLYHQELAKQLSEFLRLPLEENGGMISLTDVYCRYNRARGT--ELISPEDLVNACELLEHLGV 344 (432)
T ss_pred CCcch-hcccc---chHHHHHHHHHHHHHHHHhcchhhcCCEEEHHHHHHHHHHhccC--CCCCHHHHHHHHHHHHhcCC
Confidence 6 554 32331 00158999999999999999999999999999999999999998 99999999999999999999
Q ss_pred CeEEEEeC-CEEEEEecCcccchhHHHHHHH---HHhcCCccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 156 GYEVISVG-KKKLVRSVPTELNKDHNQILEL---AQAQGFVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 156 g~~vi~i~-~~~~v~Svp~Els~D~~~vlel---~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
|+++.+++ |..+||- .-..|..++..+ +...+.+|+++++..+||+..-|+..|-..
T Consensus 345 pl~L~kf~SGvlvvql---Ks~~~~e~l~~~l~~V~~~etl~a~e~A~~l~is~~lakErLl~A 405 (432)
T KOG2760|consen 345 PLRLRKFNSGVLVVQL---KSHSDEEKLVDALEDVSKSETLTASELAKKLGISLGLAKERLLNA 405 (432)
T ss_pred ceEEEEcCCceEEEEe---eccchHHHHHHHHHhccCcchhhHHHHHHHhCchHHHHHHHHHHH
Confidence 99999999 8888871 223334444444 445678899999999999999998877543
No 4
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=95.89 E-value=0.098 Score=44.66 Aligned_cols=101 Identities=19% Similarity=0.256 Sum_probs=76.8
Q ss_pred HHHHHhhhhcccCCCc-ccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc----cCCCeEEEEeCCEEEEEecC----
Q 027597 102 QIVEICLATRPHNGGL-INLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV----LGNGYEVISVGKKKLVRSVP---- 172 (221)
Q Consensus 102 qIvevC~~tr~~nGGl-i~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~----LG~g~~vi~i~~~~~v~Svp---- 172 (221)
.+||.++=. .|-= +++.+|...+. +++++|..+++.|.. -+.|++|+.++|.+.+++-|
T Consensus 7 ~~iEA~LF~---sg~pgls~~~La~~l~---------~~~~~v~~~l~~L~~~y~~~~~gi~i~~~~~~y~l~tk~e~~~ 74 (188)
T PRK00135 7 SIIEALLFV---SGEEGLSLEQLAEILE---------LEPTEVQQLLEELQEKYEGDDRGLKLIEFNDVYKLVTKEENAD 74 (188)
T ss_pred HHHHHHHHH---cCCCCCCHHHHHHHHC---------CCHHHHHHHHHHHHHHHhhCCCCEEEEEECCEEEEEEcHHHHH
Confidence 345555543 3332 67888887653 577899999999953 38899999999988777643
Q ss_pred -----------cccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 173 -----------TELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 173 -----------~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
..||.....+|.++.-++-||-.++.+..|-+. ..+|.+|+.
T Consensus 75 ~v~~~~~~~~~~~LS~aaLEtLaiIay~qPiTr~eI~~irGv~~---~~ii~~L~~ 127 (188)
T PRK00135 75 YLQKLVKTPIKQSLSQAALEVLAIIAYKQPITRIEIDEIRGVNS---DGALQTLLA 127 (188)
T ss_pred HHHHHhcccccCCCCHHHHHHHHHHHHcCCcCHHHHHHHHCCCH---HHHHHHHHH
Confidence 269988888999998899999999999999996 556666553
No 5
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=95.27 E-value=0.059 Score=35.16 Aligned_cols=44 Identities=20% Similarity=0.252 Sum_probs=36.6
Q ss_pred cchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 175 ls~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
||.-+..||.+....|.+|..+|++.+|++..-+...|+.|.++
T Consensus 1 l~~~~~~Il~~l~~~~~~t~~ela~~~~is~~tv~~~l~~L~~~ 44 (48)
T PF13412_consen 1 LDETQRKILNYLRENPRITQKELAEKLGISRSTVNRYLKKLEEK 44 (48)
T ss_dssp --HHHHHHHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHHHT
T ss_pred CCHHHHHHHHHHHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHC
Confidence 45667889999999999999999999999999999999999864
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=94.77 E-value=0.46 Score=43.82 Aligned_cols=111 Identities=15% Similarity=0.263 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEec----
Q 027597 96 YYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSV---- 171 (221)
Q Consensus 96 y~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Sv---- 171 (221)
..+++.+|.+.|.+. ..+..++.+||...+ ...+..+++.|++.|-.-| -+++++-++....+-+
T Consensus 7 ~~~~~~~l~~~~~~~--~~~~~~~~~~L~~~~--------~~~~~~~~~~~in~Ll~~~-~~~~~~~~~~l~~~~~~~~~ 75 (327)
T PF05158_consen 7 LSELEKKLLELCREN--PSPKGFSQEDLQQLI--------PGLDLQELVKAINELLSSG-LLKLLKKGGGLSYKAVSEEE 75 (327)
T ss_dssp HHHHHHHHHHHHHH-----SS-EEHHHHHHH---------TTS-HHHHHHHHHHHHHHT-SEEEEE-SSSEEEEE--SSS
T ss_pred HHHHHHHHHHHHHHh--cCCCCcCHHHHHhhc--------CCCCHHHHHHHHHHHHhCC-CEEEEEcCCEEEEEEeCHHH
Confidence 357899999999987 667889999999873 3479999999999997644 5888887666555544
Q ss_pred ---CcccchhHHHHHHHHHhcC--CccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 172 ---PTELNKDHNQILELAQAQG--FVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 172 ---p~Els~D~~~vlel~~~~G--~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
...|+.|+..|+.+++..| .+...+|+...|-.......+|..|..
T Consensus 76 a~k~~~l~~~e~lvy~~I~~ag~~GIw~~~i~~~t~l~~~~~~k~lk~Le~ 126 (327)
T PF05158_consen 76 AKKLKGLSDEERLVYQLIEEAGNKGIWTKDIKKKTNLHQTQLTKILKSLES 126 (327)
T ss_dssp -----SSSCCHHHHHHHHHHHTTT-EEHHHHHHHCT--HHHHHHHHHHHHH
T ss_pred HhhhcCCCHHHHHHHHHHHHhCCCCCcHHHHHHHcCCCHHHHHHHHHHHHh
Confidence 3468999999999999844 699999999999988888888877743
No 7
>PF09743 DUF2042: Uncharacterized conserved protein (DUF2042); InterPro: IPR018611 The ubiquitin fold modifier 1 (Ufm1) is the most recently discovered ubiquitin-like modifier whose conjugation (ufmylation) system is conserved in multicellular organisms. Ufm1 is known to covalently attach with cellular protein(s) via a specific E1-activating enzyme (Uba5), an E2-conjugating enzyme (Ufc1), and a E3-ligating enzyme []. This entry represents E3 UFM1-protein ligase 1.
Probab=93.10 E-value=0.53 Score=42.37 Aligned_cols=93 Identities=19% Similarity=0.292 Sum_probs=71.2
Q ss_pred HHHHHHHHHhhcC-CCCCCCCHHHHHHHHhhccccCCCeEEEEe-CCEEEEEecCcccchhHHHHH-HHHHhcCCccHHH
Q 027597 120 LQELCNLLRQRRK-SNREAVSEDDCLRAISKLKVLGNGYEVISV-GKKKLVRSVPTELNKDHNQIL-ELAQAQGFVTVDE 196 (221)
Q Consensus 120 l~el~~~v~k~Rg-~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i-~~~~~v~Svp~Els~D~~~vl-el~~~~G~vt~~~ 196 (221)
+.+|...+.++-- .....+|+-.++.=+.+|..++ .++|+.. +|+-|+ +|..| ...|- |+....|.|++-+
T Consensus 2 i~~L~~~~q~~Q~~~~~~rLSErnciEiv~kL~~~~-~ldli~T~dGkeyi--T~~~L---~~EI~~el~~~gGRv~~~d 75 (272)
T PF09743_consen 2 IEELQADFQRAQLASSSQRLSERNCIEIVNKLIEKK-LLDLIHTTDGKEYI--TPEQL---EKEIKDELYVHGGRVNLVD 75 (272)
T ss_pred HHHHHHHHHHHHHHhhhhhcchhhHHHHHHHHHHcC-CeeEEEECCCCEEE--CHHHH---HHHHHHHHHHcCCceEHHH
Confidence 4566655555422 2247899999999999998887 6666655 588888 67666 34455 4546689999999
Q ss_pred HHHhcCCCHHHHHHHHHHHHHH
Q 027597 197 VERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 197 L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
|...+|-+..-++..+++++++
T Consensus 76 L~~~LnVd~~~ie~~~~~i~~~ 97 (272)
T PF09743_consen 76 LAQALNVDLDHIERRAQEIVKS 97 (272)
T ss_pred HHHhcCcCHHHHHHHHHHHHhC
Confidence 9999999999999999999875
No 8
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=92.45 E-value=0.27 Score=34.73 Aligned_cols=37 Identities=19% Similarity=0.342 Sum_probs=30.9
Q ss_pred HHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 181 QILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 181 ~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.|.++....|.+|..+|+..+++++.-.+..|+.|++
T Consensus 4 ~i~~~l~~~~~~S~~eLa~~~~~s~~~ve~mL~~l~~ 40 (69)
T PF09012_consen 4 EIRDYLRERGRVSLAELAREFGISPEAVEAMLEQLIR 40 (69)
T ss_dssp HHHHHHHHS-SEEHHHHHHHTT--HHHHHHHHHHHHC
T ss_pred HHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 4788888899999999999999999999999999875
No 9
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=92.01 E-value=0.27 Score=34.31 Aligned_cols=44 Identities=20% Similarity=0.263 Sum_probs=39.5
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.||.+..+|+...-..|..|+++|++.+|.++..+..+|+.|.+
T Consensus 5 gLs~~E~~vy~~Ll~~~~~t~~eIa~~l~i~~~~v~~~L~~L~~ 48 (68)
T PF01978_consen 5 GLSENEAKVYLALLKNGPATAEEIAEELGISRSTVYRALKSLEE 48 (68)
T ss_dssp CHHHHHHHHHHHHHHHCHEEHHHHHHHHTSSHHHHHHHHHHHHH
T ss_pred CcCHHHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 57888888887776789999999999999999999999999975
No 10
>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=91.55 E-value=2.6 Score=35.00 Aligned_cols=86 Identities=23% Similarity=0.360 Sum_probs=62.9
Q ss_pred ccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc----cCCCeEEEEeCCEEEEEecCc---------------ccchh
Q 027597 118 INLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV----LGNGYEVISVGKKKLVRSVPT---------------ELNKD 178 (221)
Q Consensus 118 i~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~----LG~g~~vi~i~~~~~v~Svp~---------------Els~D 178 (221)
+++++|...+. ++++|..+++.|+. -+.|++|+.++|.+.+++-|. .||..
T Consensus 14 vs~~~La~~l~----------~~~~v~~~l~~L~~~y~~~~~gl~l~~~~~~y~l~tk~~~~~~v~~~~~~~~~~~LS~a 83 (159)
T PF04079_consen 14 VSIEELAEILG----------SEDEVEEALEELQEEYNEEDRGLELVEVGGGYRLQTKPEYAEYVEKLFKKPKPPKLSQA 83 (159)
T ss_dssp B-HHHHHHHCT-----------HHHHHHHHHHHHHHHHHCT-SEEEEEETTEEEEEE-GGGHHHHHHHHCTCCCHHHHHH
T ss_pred CCHHHHHHHhC----------CHHHHHHHHHHHHHHhccCCCCEEEEEECCEEEEEEhHHHHHHHHHHhccCccCCCCHH
Confidence 77777775532 68999999999962 589999999999888887653 67877
Q ss_pred HHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHH
Q 027597 179 HNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILL 216 (221)
Q Consensus 179 ~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~ 216 (221)
...+|.++.=+.=||-.++.+-.|-+ +..+|+.|+
T Consensus 84 alEtLAiIAY~QPiTr~eIe~IRGv~---s~~~i~~L~ 118 (159)
T PF04079_consen 84 ALETLAIIAYKQPITRAEIEEIRGVN---SDSVIKTLL 118 (159)
T ss_dssp HHHHHHHHHHH-SEEHHHHHHHHTS-----HCHHHHHH
T ss_pred HHHHHHHHHhcCCcCHHHHHHHcCCC---hHHHHHHHH
Confidence 77888888878899999999988887 555565554
No 11
>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=90.66 E-value=0.95 Score=40.75 Aligned_cols=139 Identities=19% Similarity=0.271 Sum_probs=82.3
Q ss_pred HHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCC------CCCC--------ccccccCccchHHHHHHHHHH
Q 027597 40 ATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLA------SNKG--------FWAELLGIGDFYYELGVQIVE 105 (221)
Q Consensus 40 ~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~------s~k~--------~ws~~lG~gdfy~eLavqIve 105 (221)
..+|.-|..|-...+. .||.|- ++.+|..+|++|.+ .+|. -+++.||++++=.+-=..+|.
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 3566667776666663 799995 99999999998731 1111 133344554443333333333
Q ss_pred HhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCC--EEEEEecCcccchhHHHHH
Q 027597 106 ICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGK--KKLVRSVPTELNKDHNQIL 183 (221)
Q Consensus 106 vC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~--~~~v~Svp~Els~D~~~vl 183 (221)
.|.+ -|+++=.+|.+++..+-..-.+..+++ -.|+. +=-+..|.
T Consensus 83 f~~a----------------------------k~~~~k~~~~~~~~~~~~~~~~~~L~~~~~~y~~------~W~~~vir 128 (271)
T TIGR02147 83 FGQA----------------------------KTDTEKQQFFEEMQALKPRPRLRVLAADQFEYYR------HWYNSVIR 128 (271)
T ss_pred Hhcc----------------------------CCHHHHHHHHHHHHHHhhhchheeccHHHHHHHH------HHHHHHHH
Confidence 3333 345555555555544322111111111 00000 23466788
Q ss_pred HHHHhcCCc-cHHHHHHhcC--CCHHHHHHHHHHHHH
Q 027597 184 ELAQAQGFV-TVDEVERRLS--WTSGRAIDALDILLE 217 (221)
Q Consensus 184 el~~~~G~v-t~~~L~~~l~--W~~~Ra~~~L~~l~~ 217 (221)
+++.-+++. ++..|++.++ .+...++.+|+-|++
T Consensus 129 el~~~~~~~~~~~~ia~~l~p~is~~ev~~sL~~L~~ 165 (271)
T TIGR02147 129 ELLGVMPFADDPEELAKRCFPKISAEQVKESLDLLER 165 (271)
T ss_pred HHhhcCCCCCCHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 999887776 9999999999 899999999988865
No 12
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=90.60 E-value=0.93 Score=46.47 Aligned_cols=95 Identities=17% Similarity=0.213 Sum_probs=71.1
Q ss_pred cHHHHHHHHHhhcC-CCCCCCCHHHHHHHHhhccccCC-Ce-EEEEeCCEEEEEecCcccchhHHHHHHHHHhcCCccHH
Q 027597 119 NLQELCNLLRQRRK-SNREAVSEDDCLRAISKLKVLGN-GY-EVISVGKKKLVRSVPTELNKDHNQILELAQAQGFVTVD 195 (221)
Q Consensus 119 ~l~el~~~v~k~Rg-~~~~~IS~~DI~rAi~~L~~LG~-g~-~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G~vt~~ 195 (221)
++.+|..++.++-- .....+|+-.++.=+.+|..++. +| -|.+.+|+-|| +|..|- ..|-......|.|++-
T Consensus 4 Ei~eLq~~fq~aQ~~~ss~rLSErNcIEiV~KLie~~~ld~dll~T~DGKEYi--T~~qL~---~EI~~El~~gGRvnlv 78 (803)
T PLN03083 4 ELLELQRQFEFAQQAKSSVRLSERNVVELVQKLQELGIIDFDLLHTVSGKEYI--TQDQLR---NEIEAEIKKLGRVSLV 78 (803)
T ss_pred HHHHHHHHHHHHHHHHhhhhcchhhHHHHHHHHHHhcccCcceEEecCCceee--CHHHHH---HHHHHHHHhCCCeeHH
Confidence 56777777776632 23478999999999999987771 22 35566799998 677774 2333323457999999
Q ss_pred HHHHhcCCCHHHHHHHHHHHHHH
Q 027597 196 EVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 196 ~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
+|...+|.+..+++..++.++++
T Consensus 79 dLa~~LnVD~~hiEr~~~~iv~~ 101 (803)
T PLN03083 79 DLADTIGVDLYHVERQAQQVVSD 101 (803)
T ss_pred HHhhhcCCCHHHHHHHHHHHhcC
Confidence 99999999999999999988764
No 13
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=90.29 E-value=0.79 Score=31.32 Aligned_cols=40 Identities=28% Similarity=0.329 Sum_probs=35.8
Q ss_pred HHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 179 HNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 179 ~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
+..++++....|.+|+++|++.||-|..=++.=|+.|.++
T Consensus 2 ~~~Il~~l~~~~~~s~~ela~~~~VS~~TiRRDl~~L~~~ 41 (57)
T PF08220_consen 2 QQQILELLKEKGKVSVKELAEEFGVSEMTIRRDLNKLEKQ 41 (57)
T ss_pred HHHHHHHHHHcCCEEHHHHHHHHCcCHHHHHHHHHHHHHC
Confidence 4568999999999999999999999999999999888654
No 14
>TIGR00281 segregation and condensation protein B. Shown to be required for chromosome segregation and condensation in B. subtilis.
Probab=89.64 E-value=4.7 Score=34.40 Aligned_cols=101 Identities=21% Similarity=0.268 Sum_probs=70.9
Q ss_pred HHHHHhhhhcccCCCc-ccHHHHHHHHHhhcCCCCCCCC-HHHHHHHHhhccc----cCCCeEEEEeCCEEEEEecCc--
Q 027597 102 QIVEICLATRPHNGGL-INLQELCNLLRQRRKSNREAVS-EDDCLRAISKLKV----LGNGYEVISVGKKKLVRSVPT-- 173 (221)
Q Consensus 102 qIvevC~~tr~~nGGl-i~l~el~~~v~k~Rg~~~~~IS-~~DI~rAi~~L~~----LG~g~~vi~i~~~~~v~Svp~-- 173 (221)
.+||.++=.. |-= +++.++...+. ++ ++++..+++.|+. -+.|++|+.++|.+.+++-|.
T Consensus 4 ~~iEAlLF~s---g~pgls~~~La~il~---------~~~~~~~~~~l~~l~~~~~~~~~gl~l~~~~~~y~l~tk~e~~ 71 (186)
T TIGR00281 4 AIIEALLFVS---GEPGVTLAELVRILG---------KEKAEKLNAIMELLEDYLSRDTAGIEIIKFGQSYSLVTKPAFA 71 (186)
T ss_pred HHHHHHHHHc---CCCCCCHHHHHHHhC---------CCchHHHHHHHHHHHHHHhcCCCCEEEEEECCEEEEEEhHHHH
Confidence 3455554433 322 67888877654 23 4567777777754 367999999999887775431
Q ss_pred ------------ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 174 ------------ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 174 ------------Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.||.....+|.++.=+.=||-.++.+-.|-+ +..+|..|+.
T Consensus 72 ~~i~~~~~~~~~~LS~aaLEtLAIIAY~QPITr~eIe~IRGv~---s~~~l~~L~e 124 (186)
T TIGR00281 72 DYIHRFLPAKLKNLNSASLEVLAIIAYKQPITRARINEIRGVK---SYQIVDDLVE 124 (186)
T ss_pred HHHHHHhccccccCCHHHHHHHHHHHHcCCcCHHHHHHHcCCC---HHHHHHHHHH
Confidence 3777777888888878899999999998988 4566666653
No 15
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=88.85 E-value=20 Score=35.87 Aligned_cols=104 Identities=15% Similarity=0.098 Sum_probs=74.2
Q ss_pred ccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEec
Q 027597 92 IGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSV 171 (221)
Q Consensus 92 ~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Sv 171 (221)
.++-+.++..+|.+.+. . .--.+.|++..++ +.+++....++.|-.-| .++.+++..|+ .
T Consensus 487 ~~~~~~~~~~~l~~~~~-~-----~p~~~~~~~~~l~---------~~~~~~~~~l~~l~~~g---~lv~l~~~~~~--~ 546 (614)
T PRK10512 487 FSEEQQALWQKAEPLFG-D-----EPWWVRDLAKETG---------TDEQAMRLTLRQAAQQG---IITAIVKDRYY--R 546 (614)
T ss_pred CCHHHHHHHHHHHHHHh-c-----CCCCHHHHHHHhC---------CCHHHHHHHHHHHHHCC---CEEEecCCEEE--C
Confidence 46677778888877665 1 1233566665443 56777777777776655 47777765555 3
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
+.-+..--..+.++.+..|.+|+.++++.+|-++-.|...||.|
T Consensus 547 ~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~g~sRK~~i~lLE~~ 590 (614)
T PRK10512 547 NDRIVQFANMIRELDQECGSTCAADFRDRLGVGRKLAIQILEYF 590 (614)
T ss_pred HHHHHHHHHHHHHHHhhCCcEeHHHHHHHhCccHHHHHHHHHHh
Confidence 33444445567777788899999999999999999999999986
No 16
>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=88.12 E-value=3.8 Score=32.65 Aligned_cols=79 Identities=16% Similarity=0.169 Sum_probs=60.8
Q ss_pred HHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccC-CCeEEEEeCCEEEEEecCccc
Q 027597 97 YELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLG-NGYEVISVGKKKLVRSVPTEL 175 (221)
Q Consensus 97 ~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG-~g~~vi~i~~~~~v~Svp~El 175 (221)
-+|+-.|--+|.+ .+.+.+++++++..+..... ..+|.+|+..-++.|.-+= .=+.++++++..||+..- +
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---SILSRGEVEEHLRLLAELAPDWISEKSLRKGDYLKIDK-K- 115 (126)
T ss_pred HHHHHHHHHHHHh---cccccccHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHHhChHHheeeeeCCceEEEECc-c-
Confidence 3566666666766 77899999999999998543 5699999999999997655 446788889999998743 3
Q ss_pred chhHHHHHH
Q 027597 176 NKDHNQILE 184 (221)
Q Consensus 176 s~D~~~vle 184 (221)
.|...|.+
T Consensus 116 -~~~~~V~~ 123 (126)
T cd08767 116 -VDLEKVRK 123 (126)
T ss_pred -ccHHHHHH
Confidence 66666654
No 17
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=87.86 E-value=1.8 Score=27.55 Aligned_cols=40 Identities=35% Similarity=0.356 Sum_probs=33.9
Q ss_pred HHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 179 HNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 179 ~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
+..+++.....+.+|+.+|++.++.++.-+...|..|.+.
T Consensus 2 ~~~il~~l~~~~~~s~~~l~~~l~~s~~tv~~~l~~L~~~ 41 (53)
T smart00420 2 QQQILELLAQQGKVSVEELAELLGVSEMTIRRDLNKLEEQ 41 (53)
T ss_pred HHHHHHHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 3457777777788999999999999999999999888754
No 18
>PRK15466 carboxysome structural protein EutK; Provisional
Probab=86.04 E-value=1.2 Score=37.38 Aligned_cols=35 Identities=26% Similarity=0.391 Sum_probs=30.2
Q ss_pred HHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 184 ELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 184 el~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.+++..-..|+.+...++||+-++++.+||+|..+
T Consensus 117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 (166)
T PRK15466 117 LLTSVRQGMTAGEVAAHFGWPLEKARNALEQLFSA 151 (166)
T ss_pred HHHHHHccccHHHHHHHhCCcHHHHHHHHHHHHhc
Confidence 44555777899999999999999999999999764
No 19
>PLN02180 gamma-glutamyl transpeptidase 4
Probab=85.97 E-value=1.2 Score=44.76 Aligned_cols=73 Identities=27% Similarity=0.464 Sum_probs=48.8
Q ss_pred HHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccc----cc------cCccchHH-HHHHHHHHHhhhhccc
Q 027597 45 QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWA----EL------LGIGDFYY-ELGVQIVEICLATRPH 113 (221)
Q Consensus 45 ~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws----~~------lG~gdfy~-eLavqIvevC~~tr~~ 113 (221)
.|.......+..+.++|.+|.-|.. =| .|+....-+.. ++ -|...||. ++|.+|++-+.+
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 4555566666677778888766653 13 45433211111 11 26678888 999999999874
Q ss_pred CCCcccHHHHHHH
Q 027597 114 NGGLINLQELCNL 126 (221)
Q Consensus 114 nGGli~l~el~~~ 126 (221)
+||+|+++|+-..
T Consensus 287 ~GG~lT~eDLa~Y 299 (639)
T PLN02180 287 AGGIITMDDLRSY 299 (639)
T ss_pred cCCCCCHHHHHhC
Confidence 8999999999865
No 20
>PLN02198 glutathione gamma-glutamylcysteinyltransferase
Probab=85.59 E-value=1.2 Score=44.01 Aligned_cols=75 Identities=23% Similarity=0.275 Sum_probs=46.9
Q ss_pred HHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCcc----ccc------cCccchHH-HHHHHHHHHhhhhccc
Q 027597 45 QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFW----AEL------LGIGDFYY-ELGVQIVEICLATRPH 113 (221)
Q Consensus 45 ~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~w----s~~------lG~gdfy~-eLavqIvevC~~tr~~ 113 (221)
.|.......+..|..+|.+|.-|.. =| .|+....-+. +++ -|...||. ++|.+|++-|. .
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-ELKKPGTICHNPKLALTLRLIGEYGPKAFYNGTVGVNLVRDIQ----K 236 (573)
T ss_pred HHHHHHHHHHHHHhcChhHHHHcCc----CC-CcCCCCCeecCHHHHHHHHHHHHhCcccccCCHHHHHHHHHHH----H
Confidence 3444455566667777877766642 12 3433221111 011 25678887 79999999996 4
Q ss_pred CCCcccHHHHHHHHH
Q 027597 114 NGGLINLQELCNLLR 128 (221)
Q Consensus 114 nGGli~l~el~~~v~ 128 (221)
+||+|+++|+-..=.
T Consensus 237 ~GG~lt~~DL~~y~~ 251 (573)
T PLN02198 237 SGGIITLKDLQSYRV 251 (573)
T ss_pred cCCCCCHHHHhhCCc
Confidence 999999999987633
No 21
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=85.16 E-value=2.5 Score=28.14 Aligned_cols=43 Identities=19% Similarity=0.260 Sum_probs=37.5
Q ss_pred cchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 175 ls~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
||..|-.+|..+...|.+|..+|++.++-++.-+-.+++.|.+
T Consensus 1 lt~~q~~iL~~l~~~~~~~~~~la~~~~~~~~~~t~~i~~L~~ 43 (59)
T PF01047_consen 1 LTPSQFRILRILYENGGITQSELAEKLGISRSTVTRIIKRLEK 43 (59)
T ss_dssp STHHHHHHHHHHHHHSSEEHHHHHHHHTS-HHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHcCCCCHHHHHHHHCCChhHHHHHHHHHHH
Confidence 4667888999998888899999999999999999999998876
No 22
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=85.08 E-value=2 Score=31.79 Aligned_cols=37 Identities=24% Similarity=0.352 Sum_probs=26.3
Q ss_pred HHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 179 HNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 179 ~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
...+|.+.....-||++.|+..+||+.++..++|+.+
T Consensus 26 ~r~LLr~LA~G~PVt~~~LA~a~g~~~e~v~~~L~~~ 62 (77)
T PF12324_consen 26 LRPLLRLLAKGQPVTVEQLAAALGWPVEEVRAALAAM 62 (77)
T ss_dssp HHHHHHHHTTTS-B-HHHHHHHHT--HHHHHHHHHH-
T ss_pred HHHHHHHHHcCCCcCHHHHHHHHCCCHHHHHHHHHhC
Confidence 3445666666678999999999999999999999876
No 23
>PF09756 DDRGK: DDRGK domain; InterPro: IPR019153 This is a family of proteins of approximately 300 residues. They contain a highly conserved DDRGK motif. The function is unknown. ; PDB: 1WI9_A.
Probab=84.77 E-value=1.4 Score=37.79 Aligned_cols=85 Identities=18% Similarity=0.309 Sum_probs=36.9
Q ss_pred HHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchh
Q 027597 99 LGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKD 178 (221)
Q Consensus 99 LavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D 178 (221)
|-...|+...... ++.|.||-..++ ++..|++.-|+.|..-|.=..|+.=.| +||-=.|.||.
T Consensus 100 lL~~Fi~yIK~~K-----vv~ledla~~f~---------l~t~~~i~ri~~L~~~g~ltGv~DdrG-kfIyIs~eE~~-- 162 (188)
T PF09756_consen 100 LLQEFINYIKEHK-----VVNLEDLAAEFG---------LRTQDVINRIQELEAEGRLTGVIDDRG-KFIYISEEEME-- 162 (188)
T ss_dssp HHHHHHHHHHH-S-----EE-HHHHHHHH----------S-HHHHHHHHHHHHHHSSS-EEE-TT---EEE---------
T ss_pred HHHHHHHHHHHcc-----eeeHHHHHHHcC---------CCHHHHHHHHHHHHHCCCceeeEcCCC-CeEEecHHHHH--
Confidence 5555566555543 667999888876 899999999999999887777776557 66665688884
Q ss_pred HHHHHHHHHhcCCccHHHHHHhcC
Q 027597 179 HNQILELAQAQGFVTVDEVERRLS 202 (221)
Q Consensus 179 ~~~vlel~~~~G~vt~~~L~~~l~ 202 (221)
.|-.++...|.||.++|....+
T Consensus 163 --~va~fi~~rGRvsi~el~~~~N 184 (188)
T PF09756_consen 163 --AVAKFIKQRGRVSISELAQESN 184 (188)
T ss_dssp ------------------------
T ss_pred --HHHHHHHHcCCccHHHHHHHHH
Confidence 3667777899999999987643
No 24
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=84.59 E-value=3.3 Score=27.68 Aligned_cols=43 Identities=16% Similarity=0.142 Sum_probs=36.0
Q ss_pred cchhHHHHHHHHHhcCC--ccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILELAQAQGF--VTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 175 ls~D~~~vlel~~~~G~--vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
|+.-|-.||-.....+- +|+.+|++.+++++.-+...++.|.+
T Consensus 3 lt~~q~~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~ 47 (62)
T PF12802_consen 3 LTPSQFRVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEK 47 (62)
T ss_dssp STHHHHHHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 56667788888887666 99999999999999999999998875
No 25
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=84.48 E-value=4.7 Score=27.59 Aligned_cols=38 Identities=24% Similarity=0.454 Sum_probs=31.4
Q ss_pred cchhHHHHHHHHHhcCC------ccHHHHHHhcCCCHHHHHHHH
Q 027597 175 LNKDHNQILELAQAQGF------VTVDEVERRLSWTSGRAIDAL 212 (221)
Q Consensus 175 ls~D~~~vlel~~~~G~------vt~~~L~~~l~W~~~Ra~~~L 212 (221)
|+..|..+|..|=.+|| +|.++|++.+|.++.=+..-|
T Consensus 1 LT~~Q~e~L~~A~~~GYfd~PR~~tl~elA~~lgis~st~~~~L 44 (53)
T PF04967_consen 1 LTDRQREILKAAYELGYFDVPRRITLEELAEELGISKSTVSEHL 44 (53)
T ss_pred CCHHHHHHHHHHHHcCCCCCCCcCCHHHHHHHhCCCHHHHHHHH
Confidence 56788999999999997 899999999999986444433
No 26
>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=83.17 E-value=2.7 Score=41.01 Aligned_cols=32 Identities=25% Similarity=0.580 Sum_probs=27.7
Q ss_pred CccchHH-HHHHHHHHHhhhhcccCCCcccHHHHHHH
Q 027597 91 GIGDFYY-ELGVQIVEICLATRPHNGGLINLQELCNL 126 (221)
Q Consensus 91 G~gdfy~-eLavqIvevC~~tr~~nGGli~l~el~~~ 126 (221)
|...||. ++|.+|++-+.+ +||+|+++||-..
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 5678988 999999998874 9999999999865
No 27
>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=83.14 E-value=4.2 Score=30.16 Aligned_cols=55 Identities=13% Similarity=0.176 Sum_probs=39.9
Q ss_pred HHHHHHhhhhcccCC--CcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCC
Q 027597 101 VQIVEICLATRPHNG--GLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNG 156 (221)
Q Consensus 101 vqIvevC~~tr~~nG--Gli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g 156 (221)
..||+++...-..|| |.|+..|+...+.+.... ...+|++||.+-++.+..=|+|
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 457787777666554 799999999999764322 2568999999988877654444
No 28
>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=82.96 E-value=3.2 Score=31.20 Aligned_cols=45 Identities=24% Similarity=0.361 Sum_probs=37.5
Q ss_pred ccchhHHHHHHHHHh----cCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQA----QGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 174 Els~D~~~vlel~~~----~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.++.-+..||+++.. .-.|++++|++.++.+....+.+|++|+.|
T Consensus 44 ~~~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~~~~v~~al~~L~~e 92 (102)
T PF08784_consen 44 GLSPLQDKVLNFIKQQPNSEEGVHVDEIAQQLGMSENEVRKALDFLSNE 92 (102)
T ss_dssp -S-HHHHHHHHHHHC----TTTEEHHHHHHHSTS-HHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHHHhcCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHhC
Confidence 477778999999886 346999999999999999999999999876
No 29
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=82.10 E-value=3.3 Score=26.86 Aligned_cols=36 Identities=28% Similarity=0.302 Sum_probs=30.7
Q ss_pred HHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 182 ILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 182 vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
|++... .+.+|.+++++.+|+++.-+..+|+.|.+.
T Consensus 2 il~~l~-~~~~~~~~i~~~l~is~~~v~~~l~~L~~~ 37 (66)
T smart00418 2 ILKLLA-EGELCVCELAEILGLSQSTVSHHLKKLREA 37 (66)
T ss_pred HHHHhh-cCCccHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 455555 788999999999999999999999998853
No 30
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=81.41 E-value=2.9 Score=33.70 Aligned_cols=47 Identities=19% Similarity=0.275 Sum_probs=40.1
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
|.|-..=...|+|++...|.+|..++....|-+..-++..+.+|+..
T Consensus 7 ~eer~eLk~rIvElVRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~ 53 (127)
T PF06163_consen 7 PEEREELKARIVELVREHGRITIKQLVAKTGASRNTVKRYLRELVAR 53 (127)
T ss_pred HHHHHHHHHHHHHHHHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence 44444445679999999999999999999999999999999999863
No 31
>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=81.17 E-value=2.1 Score=41.48 Aligned_cols=75 Identities=28% Similarity=0.411 Sum_probs=46.0
Q ss_pred HHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCcc----ccc------cCccchHH-HHHHHHHHHhhhhccc
Q 027597 45 QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFW----AEL------LGIGDFYY-ELGVQIVEICLATRPH 113 (221)
Q Consensus 45 ~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~w----s~~------lG~gdfy~-eLavqIvevC~~tr~~ 113 (221)
.|..+++..+..|+.+|..|.-|.. +=.|+....-+- +++ -|...||. +||.+|++...+
T Consensus 122 ~la~~l~~~~~~l~~~~~~~~~f~~-----~G~~~~~Gd~l~~p~LA~TL~~ia~~G~~~FY~G~lA~~iv~~~~~---- 192 (510)
T PF01019_consen 122 SLARALARNADKLRRDPGSRALFLP-----DGRPPREGDILRQPELADTLERIAEEGPDAFYRGELAEKIVADVQA---- 192 (510)
T ss_dssp HHHHHHHHHHHHHTTSHHHHHHHST-----TSSE--TTSEE--HHHHHHHHHHHHHTTHHHHSCHHHHHHHHHHHH----
T ss_pred hHHhHHHhHHHHHhhhhhHHHHhcc-----CCCcCCCCCEEEHHHHHHHHHHHHhcCchhhcCChHHHHHHHHHHh----
Confidence 7778888888889999999877743 112332221110 011 25678888 799999998665
Q ss_pred CCCcccHHHHHHHHH
Q 027597 114 NGGLINLQELCNLLR 128 (221)
Q Consensus 114 nGGli~l~el~~~v~ 128 (221)
+||+|+++|+-..-.
T Consensus 193 ~GG~lt~~Dla~Y~~ 207 (510)
T PF01019_consen 193 NGGLLTLEDLAAYQV 207 (510)
T ss_dssp TT-S--HHHHHH---
T ss_pred ccCCccHHHHhhcCC
Confidence 899999999987633
No 32
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=81.01 E-value=2.6 Score=29.79 Aligned_cols=38 Identities=24% Similarity=0.227 Sum_probs=32.8
Q ss_pred HHHHHHHh-cCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 181 QILELAQA-QGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 181 ~vlel~~~-~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.||++... .+-+|..++++.+|.+...|+.-|+.|.+|
T Consensus 4 ~Il~~i~~~~~p~~T~eiA~~~gls~~~aR~yL~~Le~e 42 (62)
T PF04703_consen 4 KILEYIKEQNGPLKTREIADALGLSIYQARYYLEKLEKE 42 (62)
T ss_dssp CHHHHHHHHTS-EEHHHHHHHHTS-HHHHHHHHHHHHHC
T ss_pred HHHHHHHHcCCCCCHHHHHHHhCCCHHHHHHHHHHHHHC
Confidence 38888887 889999999999999999999999999875
No 33
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=80.75 E-value=4.9 Score=28.39 Aligned_cols=44 Identities=25% Similarity=0.428 Sum_probs=31.6
Q ss_pred cccchhHHHHHHHHHh----cCC-ccHHHHHHhcCCC-HHHHHHHHHHHH
Q 027597 173 TELNKDHNQILELAQA----QGF-VTVDEVERRLSWT-SGRAIDALDILL 216 (221)
Q Consensus 173 ~Els~D~~~vlel~~~----~G~-vt~~~L~~~l~W~-~~Ra~~~L~~l~ 216 (221)
.+|+.-|..||+++.. .|| -|+.+|++.+|++ ..-+..-|+.|.
T Consensus 2 ~~LT~rQ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S~~tv~~~L~~Le 51 (65)
T PF01726_consen 2 KELTERQKEVLEFIREYIEENGYPPTVREIAEALGLKSTSTVQRHLKALE 51 (65)
T ss_dssp ----HHHHHHHHHHHHHHHHHSS---HHHHHHHHTSSSHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHHHHH
Confidence 3678889999998764 676 7999999999997 777777777665
No 34
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=80.34 E-value=5.3 Score=28.59 Aligned_cols=46 Identities=22% Similarity=0.294 Sum_probs=40.5
Q ss_pred cccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 173 TELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 173 ~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.+++..+..+|.+....|.+|..+|++.++.+..-....|+.|.+.
T Consensus 6 ~~l~~~~~~il~~l~~~~~~~~~~la~~~~~s~~~i~~~l~~L~~~ 51 (101)
T smart00347 6 LGLTPTQFLVLRILYEEGPLSVSELAKRLGVSPSTVTRVLDRLEKK 51 (101)
T ss_pred cCCCHHHHHHHHHHHHcCCcCHHHHHHHHCCCchhHHHHHHHHHHC
Confidence 3678888889999988889999999999999999999999988763
No 35
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=78.94 E-value=8.9 Score=24.33 Aligned_cols=46 Identities=24% Similarity=0.364 Sum_probs=36.7
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHh
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVL 219 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~ 219 (221)
|..|+.++..++.+. ..| .|..++++.+|++..-+...+..+.+.|
T Consensus 1 ~~~l~~~e~~i~~~~-~~g-~s~~eia~~l~is~~tv~~~~~~~~~kl 46 (58)
T smart00421 1 LASLTPREREVLRLL-AEG-LTNKEIAERLGISEKTVKTHLSNIMRKL 46 (58)
T ss_pred CCCCCHHHHHHHHHH-HcC-CCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 346788888887764 334 6999999999999999999988877665
No 36
>PF09743 DUF2042: Uncharacterized conserved protein (DUF2042); InterPro: IPR018611 The ubiquitin fold modifier 1 (Ufm1) is the most recently discovered ubiquitin-like modifier whose conjugation (ufmylation) system is conserved in multicellular organisms. Ufm1 is known to covalently attach with cellular protein(s) via a specific E1-activating enzyme (Uba5), an E2-conjugating enzyme (Ufc1), and a E3-ligating enzyme []. This entry represents E3 UFM1-protein ligase 1.
Probab=78.83 E-value=6.9 Score=35.26 Aligned_cols=122 Identities=20% Similarity=0.273 Sum_probs=78.7
Q ss_pred HHHHHHHcCCCCCCCCCCccccccCccchH--HHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHH
Q 027597 67 FHEMCAKVGVDPLASNKGFWAELLGIGDFY--YELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCL 144 (221)
Q Consensus 67 F~~mC~siGVDPL~s~k~~ws~~lG~gdfy--~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~ 144 (221)
.+.++..=.+|-+.+..|. .|+ -+|..+|.+-|.. +||=+++.||-..+| |..+.|.
T Consensus 30 v~kL~~~~~ldli~T~dGk--------eyiT~~~L~~EI~~el~~----~gGRv~~~dL~~~Ln---------Vd~~~ie 88 (272)
T PF09743_consen 30 VNKLIEKKLLDLIHTTDGK--------EYITPEQLEKEIKDELYV----HGGRVNLVDLAQALN---------VDLDHIE 88 (272)
T ss_pred HHHHHHcCCeeEEEECCCC--------EEECHHHHHHHHHHHHHH----cCCceEHHHHHHhcC---------cCHHHHH
Confidence 4456666667855554321 221 3677888876654 699999999998776 8999999
Q ss_pred HHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHH-HHHHH
Q 027597 145 RAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAI-DALDI 214 (221)
Q Consensus 145 rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~-~~L~~ 214 (221)
+.++.+-.=..++.+ ++|. ++..- =++.=-..+-+..+..|.||+++|+..++.+.+=.+ .+++.
T Consensus 89 ~~~~~i~~~~~~~~l--~~ge-lit~~--Yld~l~~Eine~Lqe~G~vsi~eLa~~~~Lp~efl~~~li~~ 154 (272)
T PF09743_consen 89 RRAQEIVKSDKSLQL--VQGE-LITDS--YLDSLAEEINEKLQESGQVSISELAKQYDLPSEFLKEELISK 154 (272)
T ss_pred HHHHHHHhCCCcEEE--ECCE-EccHH--HHHHHHHHHHHHHHHcCeEeHHHHHHhcCCcHHHHHHHHhhh
Confidence 999998765555544 2332 22110 011111223344456799999999999999887776 55543
No 37
>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=78.43 E-value=3.4 Score=34.56 Aligned_cols=84 Identities=15% Similarity=0.235 Sum_probs=50.4
Q ss_pred HHHHhhcccccChhHHHHHHHHHHHcCCC-CCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHH
Q 027597 49 FARKHKNDIRKNPTFRSQFHEMCAKVGVD-PLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLL 127 (221)
Q Consensus 49 Fa~kh~~eI~~dp~fR~~F~~mC~siGVD-PL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v 127 (221)
|..+...|+-+||.+...|...-..-|++ |.-.. .|..-|.||.++-.-+..+ ...|...|
T Consensus 15 L~e~kAket~KN~kls~~L~~iI~ea~~~~~~dk~---------~g~LLy~lAtk~k~~~~~~---------r~~iv~~I 76 (164)
T PF04558_consen 15 LSEKKAKETLKNKKLSASLKAIINEAGVDSGCDKK---------QGNLLYQLATKLKPQALPH---------RPFIVKYI 76 (164)
T ss_dssp --HHHHHHHTTSHHHHHHHHHHHHTS-TT----HH---------HHHHHHHHHHHHTT---TT---------HHHHHHHH
T ss_pred CChhhHHHHHhCHHHHHHHHHHHHHhcccCCCCHH---------HHHHHHHHHHhcCCCcchh---------HHHHHHHH
Confidence 44567779999999999999999999887 33222 4788999998765544333 34445555
Q ss_pred HhhcCCCCCCCCHHHHHHHHhhccccCC
Q 027597 128 RQRRKSNREAVSEDDCLRAISKLKVLGN 155 (221)
Q Consensus 128 ~k~Rg~~~~~IS~~DI~rAi~~L~~LG~ 155 (221)
...+ .-|+..|--|++.|+.-+.
T Consensus 77 ~~gk-----lkt~~Ql~AA~~Yl~~~~~ 99 (164)
T PF04558_consen 77 VDGK-----LKTNLQLDAALKYLKSNPS 99 (164)
T ss_dssp HTTS-------SHHHHHHHHHHHHHHGG
T ss_pred HhCC-----CCCHHHHHHHHHHHHHCCC
Confidence 5422 1255666666666655443
No 38
>COG5126 FRQ1 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]
Probab=78.09 E-value=12 Score=31.30 Aligned_cols=40 Identities=20% Similarity=0.446 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCC
Q 027597 36 KEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLA 80 (221)
Q Consensus 36 ~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~ 80 (221)
..|.+.++++..-|.++..+-|..+ .|..|..++|-.|..
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 4567778888888888888888766 688999999998764
No 39
>PF09107 SelB-wing_3: Elongation factor SelB, winged helix ; InterPro: IPR015191 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 3". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2PJP_A 2UWM_A 1WSU_B 1LVA_A 2PLY_A.
Probab=77.47 E-value=5.7 Score=26.79 Aligned_cols=33 Identities=36% Similarity=0.373 Sum_probs=28.7
Q ss_pred HHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 183 LELAQAQGFVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 183 lel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
-++++..|.+|+.++++.+|-+.--|...||.|
T Consensus 2 ~~~~~~~~~itv~~~rd~lg~sRK~ai~lLE~l 34 (50)
T PF09107_consen 2 RELLQKNGEITVAEFRDLLGLSRKYAIPLLEYL 34 (50)
T ss_dssp HHHHHTTSSBEHHHHHHHHTS-HHHHHHHHHHH
T ss_pred hHHHhcCCcCcHHHHHHHHCccHHHHHHHHHHH
Confidence 456677899999999999999999999999987
No 40
>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]
Probab=77.27 E-value=3 Score=39.80 Aligned_cols=126 Identities=22% Similarity=0.375 Sum_probs=84.0
Q ss_pred HHHHhcHhHHHHHH---------HHHHHHHHHHHHHHHHHHHHhhccccc------------ChhHHHHHHHH-------
Q 027597 19 QYRLLGENVAKLRT---------DLMKEQLATFRSQLEDFARKHKNDIRK------------NPTFRSQFHEM------- 70 (221)
Q Consensus 19 ~~~~~g~~l~~~~~---------~~l~~ql~~F~~~L~~Fa~kh~~eI~~------------dp~fR~~F~~m------- 70 (221)
+|+..|.+++.--= -.|.+.|..+|+.+. +.+++.|++ ||.=-.-|.-.
T Consensus 252 RftQAGsEVSalLGr~PSavGYQpTLatemg~lQERIt---stk~GSITSiQavyvPaDDlTDPapattFaHLDat~vLs 328 (468)
T COG0055 252 RFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERIT---STKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLS 328 (468)
T ss_pred HHhhcchHHHHHhccCccccccCchhHHHHHHHHHHHh---cCCCCceEEEEEEEeccccCCCcchhhhhhhcccceeee
Confidence 47777777652210 167888889998875 466667764 77655556433
Q ss_pred --HHHcC----CCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHH--
Q 027597 71 --CAKVG----VDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDD-- 142 (221)
Q Consensus 71 --C~siG----VDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~D-- 142 (221)
.+++| ||||.|++..-.-. =+|+=+|++|.++-.+..+.. +|.|++..+ |+ +++|++|
T Consensus 329 R~ia~~GIyPAvDPL~StSr~l~p~-ivGe~Hy~va~~vq~iLqrYk-------eLqDIIaIL----Gm--dELseedk~ 394 (468)
T COG0055 329 RQIAALGIYPAVDPLDSTSRALDPK-IVGEEHYEVAREVQSILQRYK-------ELQDIIAIL----GM--DELSEEDKL 394 (468)
T ss_pred HhHHhcCCCcccCcccccccccCcc-cccHHHHHHHHHHHHHHHHHH-------HHHHHHHHh----Cc--hhcChhHHH
Confidence 45566 59999874332211 168999999999999999843 466666554 44 7899999
Q ss_pred -HHHHHhhccccCCCeEEEE
Q 027597 143 -CLRAISKLKVLGNGYEVIS 161 (221)
Q Consensus 143 -I~rAi~~L~~LG~g~~vi~ 161 (221)
+.||-+.=+=|.-+|-+-.
T Consensus 395 ~V~rArki~~FlSQpF~vAE 414 (468)
T COG0055 395 TVARARKIQRFLSQPFFVAE 414 (468)
T ss_pred HHHHHHHHHHHhcCcchhhh
Confidence 4566655556777776543
No 41
>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=76.82 E-value=4.5 Score=30.38 Aligned_cols=52 Identities=19% Similarity=0.314 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCe
Q 027597 96 YYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGY 157 (221)
Q Consensus 96 y~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~ 157 (221)
...+..+|.++|.......-| +++.+|.+.+ . ++++||..||+.|..-|-=|
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 467899999999995555556 8899999887 2 79999999999998877444
No 42
>PRK09615 ggt gamma-glutamyltranspeptidase; Reviewed
Probab=76.70 E-value=5.5 Score=39.58 Aligned_cols=33 Identities=33% Similarity=0.502 Sum_probs=28.2
Q ss_pred CccchHH-HHHHHHHHHhhhhcccCCCcccHHHHHHHH
Q 027597 91 GIGDFYY-ELGVQIVEICLATRPHNGGLINLQELCNLL 127 (221)
Q Consensus 91 G~gdfy~-eLavqIvevC~~tr~~nGGli~l~el~~~v 127 (221)
|...||. ++|.+|++-+.+ +||+|+++||-..=
T Consensus 239 G~~~FY~G~iA~~iv~~~~~----~GG~lt~~DLa~y~ 272 (581)
T PRK09615 239 GPDAFYKGTIADQIAQEMQK----NGGLITKEDLAAYK 272 (581)
T ss_pred CcccccCCHHHHHHHHHHHH----cCCCCCHHHHhhCC
Confidence 5678888 799999999874 89999999998763
No 43
>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=76.52 E-value=9.9 Score=24.95 Aligned_cols=38 Identities=24% Similarity=0.280 Sum_probs=29.7
Q ss_pred HHHHHHH-HhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 180 NQILELA-QAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 180 ~~vlel~-~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
..++.+. +..+++|.++|++.+|.|.-=+..-|+.|-.
T Consensus 3 ~~il~~L~~~~~~it~~eLa~~l~vS~rTi~~~i~~L~~ 41 (55)
T PF08279_consen 3 KQILKLLLESKEPITAKELAEELGVSRRTIRRDIKELRE 41 (55)
T ss_dssp HHHHHHHHHTTTSBEHHHHHHHCTS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCcCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 4566666 6677899999999999999888888877744
No 44
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=75.49 E-value=9 Score=26.97 Aligned_cols=40 Identities=20% Similarity=0.197 Sum_probs=34.4
Q ss_pred HHHHHHHHHhcCC--ccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 179 HNQILELAQAQGF--VTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 179 ~~~vlel~~~~G~--vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
...||++....|- +|+.+|++.+|.++.=+..+|..|.++
T Consensus 8 ~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~ 49 (68)
T smart00550 8 EEKILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKK 49 (68)
T ss_pred HHHHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 3468999988877 999999999999999888888887653
No 45
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=74.24 E-value=9.9 Score=25.70 Aligned_cols=43 Identities=21% Similarity=0.287 Sum_probs=32.1
Q ss_pred cchhHHHHHHHHH-hcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILELAQ-AQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 175 ls~D~~~vlel~~-~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
|+..|..||..+. ..+..|..+|++.++-++.-+..+|+.|++
T Consensus 1 lt~~q~~vL~~l~~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~ 44 (68)
T PF13463_consen 1 LTRPQWQVLRALAHSDGPMTQSDLAERLGISKSTVSRIIKKLEE 44 (68)
T ss_dssp --HHHHHHHHHHT--TS-BEHHHHHHHTT--HHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHccCCCcCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 3555777777777 689999999999999999999999999875
No 46
>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=73.03 E-value=7.2 Score=28.57 Aligned_cols=41 Identities=10% Similarity=0.197 Sum_probs=34.1
Q ss_pred cHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCC
Q 027597 119 NLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGK 164 (221)
Q Consensus 119 ~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~ 164 (221)
+|...+..+.++ ..=|++||.........+|+++-|+.|+|
T Consensus 5 ~L~~W~~~~~~a-----~w~~~~elk~~f~~ad~v~~~~~vFnI~G 45 (76)
T PF09907_consen 5 ALEAWYREVKKA-----DWKNPAELKQQFPSADIVKNNRVVFNIGG 45 (76)
T ss_pred HHHHHHHHHHHc-----cCCCHHHHHHHCcchhhhcCCEEEEEcCC
Confidence 466677777765 45699999999999999999999999975
No 47
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=72.88 E-value=9.8 Score=30.64 Aligned_cols=36 Identities=31% Similarity=0.369 Sum_probs=31.9
Q ss_pred HHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 182 ILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 182 vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
...+.+..|-.|+++|++.++-++..++.+|+.|+.
T Consensus 33 ~~~LL~~~~~~tvdelae~lnr~rStv~rsl~~L~~ 68 (126)
T COG3355 33 YKALLEENGPLTVDELAEILNRSRSTVYRSLQNLLE 68 (126)
T ss_pred HHHHHhhcCCcCHHHHHHHHCccHHHHHHHHHHHHH
Confidence 455566789999999999999999999999999875
No 48
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=71.14 E-value=13 Score=29.49 Aligned_cols=46 Identities=22% Similarity=0.262 Sum_probs=39.2
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
|..|+.-|-.||......|.+|..+|++.++.++.-.-.+|+.|.+
T Consensus 35 ~~glt~~q~~vL~~l~~~~~~t~~eLa~~l~i~~~tvsr~l~~Le~ 80 (144)
T PRK11512 35 PLDITAAQFKVLCSIRCAACITPVELKKVLSVDLGALTRMLDRLVC 80 (144)
T ss_pred ccCCCHHHHHHHHHHHHcCCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3456666888888777778899999999999999999999999875
No 49
>PF14848 HU-DNA_bdg: DNA-binding domain
Probab=71.03 E-value=11 Score=29.63 Aligned_cols=52 Identities=21% Similarity=0.365 Sum_probs=40.8
Q ss_pred cCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc-----ccCCCeEEEEeC-CEEEEE
Q 027597 113 HNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK-----VLGNGYEVISVG-KKKLVR 169 (221)
Q Consensus 113 ~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~-----~LG~g~~vi~i~-~~~~v~ 169 (221)
.+-|-++++|+..++.+.+. .+|+.||+.+++.|. -|-+|+.|. +| +...+.
T Consensus 24 ~~~~~~tl~~Ia~~i~~~~s----~~t~~di~~vl~~~~~~~~~~l~~G~sV~-~glg~~sls 81 (124)
T PF14848_consen 24 VSSGTLTLEDIAEEIAKEGS----TLTRADIEAVLNALKDEMIEALMNGYSVN-LGLGYFSLS 81 (124)
T ss_pred EecCccCHHHHHHHHHHhCC----CCCHHHHHHHHHHHHHHHHHHHhCCCEEE-cCCEEEEEE
Confidence 56789999999999987653 489999999999996 378888886 46 444443
No 50
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=70.74 E-value=14 Score=24.43 Aligned_cols=40 Identities=28% Similarity=0.287 Sum_probs=33.9
Q ss_pred hhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 177 KDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 177 ~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
..+..|+..+...+ ++.+++++.++-+..-+..+|+.|.+
T Consensus 7 ~~~~~il~~l~~~~-~~~~ei~~~~~i~~~~i~~~l~~L~~ 46 (78)
T cd00090 7 PTRLRILRLLLEGP-LTVSELAERLGLSQSTVSRHLKKLEE 46 (78)
T ss_pred hHHHHHHHHHHHCC-cCHHHHHHHHCcCHhHHHHHHHHHHH
Confidence 45667888777767 99999999999999999999999865
No 51
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, 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 []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=70.60 E-value=21 Score=23.03 Aligned_cols=45 Identities=20% Similarity=0.266 Sum_probs=36.4
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHh
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVL 219 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~ 219 (221)
.|+.++..|+.+.-. ...|.+++++.+|.+..+++..+...++.|
T Consensus 4 ~L~~~er~vi~~~y~-~~~t~~eIa~~lg~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 4 QLPPREREVIRLRYF-EGLTLEEIAERLGISRSTVRRILKRALKKL 48 (50)
T ss_dssp TS-HHHHHHHHHHHT-ST-SHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHhc-CCCCHHHHHHHHCCcHHHHHHHHHHHHHHh
Confidence 477888888887664 567899999999999999999998888766
No 52
>PTZ00184 calmodulin; Provisional
Probab=70.31 E-value=45 Score=25.26 Aligned_cols=15 Identities=13% Similarity=0.246 Sum_probs=10.7
Q ss_pred cCCccHHHHHHhcCC
Q 027597 189 QGFVTVDEVERRLSW 203 (221)
Q Consensus 189 ~G~vt~~~L~~~l~W 203 (221)
.|.|+.++...-+.|
T Consensus 134 ~g~i~~~ef~~~~~~ 148 (149)
T PTZ00184 134 DGQINYEEFVKMMMS 148 (149)
T ss_pred CCcCcHHHHHHHHhc
Confidence 577887777766666
No 53
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=69.80 E-value=12 Score=28.47 Aligned_cols=44 Identities=16% Similarity=0.171 Sum_probs=37.8
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.++.-|-.+|......|.+|..+|++.++.++.-+-..|+.|.+
T Consensus 25 ~lt~~q~~iL~~l~~~~~~t~~ela~~~~~~~~tvs~~l~~Le~ 68 (118)
T TIGR02337 25 GLTEQQWRILRILAEQGSMEFTQLANQACILRPSLTGILARLER 68 (118)
T ss_pred CCCHHHHHHHHHHHHcCCcCHHHHHHHhCCCchhHHHHHHHHHH
Confidence 45666778888888888999999999999999988888888865
No 54
>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=69.51 E-value=9 Score=37.49 Aligned_cols=47 Identities=26% Similarity=0.503 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCC
Q 027597 32 TDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDP 78 (221)
Q Consensus 32 ~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDP 78 (221)
.=.+++|+...+..+++.-+|...--+.-..++.+|+++|..+||..
T Consensus 126 IP~lkKqi~k~~q~~~d~~kk~~e~~~~~~~~~~~~~~~c~~lGI~G 172 (507)
T PF05600_consen 126 IPALKKQIAKCQQQLEDLDKKEEELQRSAAEARERYKKACKQLGIKG 172 (507)
T ss_pred chHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhCCcc
Confidence 33789999999999988666665545555579999999999999983
No 55
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=68.95 E-value=18 Score=23.26 Aligned_cols=37 Identities=22% Similarity=0.283 Sum_probs=28.4
Q ss_pred HHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 179 HNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 179 ~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
..++|.+.+..|..|..+|.+.+|+|..-+..-+..|
T Consensus 5 D~~Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 5 DRKILRLLQEDGRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHH-TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 3468888888899999999999999998887766654
No 56
>PF11662 DUF3263: Protein of unknown function (DUF3263); InterPro: IPR021678 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=68.60 E-value=16 Score=27.02 Aligned_cols=44 Identities=16% Similarity=0.348 Sum_probs=39.7
Q ss_pred ccchhHHHHHHHHHh---cCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQA---QGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 174 Els~D~~~vlel~~~---~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
+||.++..||++-.. .|....+.+.+.+|.++.|--+.|+.||.
T Consensus 2 ~Ls~~d~~iL~fE~~ww~~~GaKe~aIre~fGls~~rYyq~Ln~LiD 48 (77)
T PF11662_consen 2 GLSDRDRAILDFERRWWRHGGAKEEAIREEFGLSPTRYYQRLNALID 48 (77)
T ss_pred CCCHHHHHHHHHHHHhCcCCCCcHHHHHHHHCCCHHHHHHHHHHHhC
Confidence 588999999999875 67789999999999999999999999985
No 57
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=67.26 E-value=30 Score=29.43 Aligned_cols=41 Identities=20% Similarity=0.425 Sum_probs=35.0
Q ss_pred cccchhHHHHHHHHHhcCC------ccHHHHHHhcCCCHHHHHHHHH
Q 027597 173 TELNKDHNQILELAQAQGF------VTVDEVERRLSWTSGRAIDALD 213 (221)
Q Consensus 173 ~Els~D~~~vlel~~~~G~------vt~~~L~~~l~W~~~Ra~~~L~ 213 (221)
.+|+.-|..+|..|=.+|| +|..+|++.+|.++.=+..-|.
T Consensus 154 ~~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst~~ehLR 200 (215)
T COG3413 154 NDLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKSTLSEHLR 200 (215)
T ss_pred ccCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHHHHHHHH
Confidence 3799999999999999997 9999999999999865544443
No 58
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=67.14 E-value=9.5 Score=28.78 Aligned_cols=37 Identities=14% Similarity=0.058 Sum_probs=30.5
Q ss_pred HHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 182 ILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 182 vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
++.=+...-+||++.|++.|+.+...|+.+|++|..+
T Consensus 32 l~kEV~~~K~ITps~lserlkI~~SlAr~~Lr~L~~k 68 (86)
T PRK09334 32 VAKEVKKEKIVTPYTLASKYGIKISVAKKVLRELEKR 68 (86)
T ss_pred HHHHhccCcEEcHHHHHHHhcchHHHHHHHHHHHHHC
Confidence 3333334679999999999999999999999999764
No 59
>PLN02964 phosphatidylserine decarboxylase
Probab=67.12 E-value=7.6 Score=39.19 Aligned_cols=92 Identities=13% Similarity=0.277 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcC-CCCCCCCCCccccccCccchHHHHHHHHHHHhhhhccc
Q 027597 35 MKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVG-VDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPH 113 (221)
Q Consensus 35 l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siG-VDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~ 113 (221)
+++|++.+++.+..|-.+..+.| +...+.++| .+|-.....||.+ +++. -+.
T Consensus 138 ~~kqi~elkeaF~lfD~dgdG~i---------Lg~ilrslG~~~pte~e~~fi~~--------------mf~~----~D~ 190 (644)
T PLN02964 138 VTQEPESACESFDLLDPSSSNKV---------VGSIFVSCSIEDPVETERSFARR--------------ILAI----VDY 190 (644)
T ss_pred cHHHHHHHHHHHHHHCCCCCCcC---------HHHHHHHhCCCCCCHHHHHHHHH--------------HHHH----hCC
Confidence 45677888888888877776654 556777788 4665433222322 2222 122
Q ss_pred C-CCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCe
Q 027597 114 N-GGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGY 157 (221)
Q Consensus 114 n-GGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~ 157 (221)
+ .|.|++.|+...+.+.. ...+++|+..|.+.+..=|+|+
T Consensus 191 DgdG~IdfdEFl~lL~~lg----~~~seEEL~eaFk~fDkDgdG~ 231 (644)
T PLN02964 191 DEDGQLSFSEFSDLIKAFG----NLVAANKKEELFKAADLNGDGV 231 (644)
T ss_pred CCCCeEcHHHHHHHHHHhc----cCCCHHHHHHHHHHhCCCCCCc
Confidence 3 37888888887776532 2346666666666666555553
No 60
>PF05331 DUF742: Protein of unknown function (DUF742); InterPro: IPR007995 This family consists of several uncharacterised Streptomyces proteins as well as one from Mycobacterium tuberculosis. The function of these proteins is unknown.
Probab=67.12 E-value=11 Score=29.75 Aligned_cols=44 Identities=30% Similarity=0.413 Sum_probs=39.7
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
+..++.+|..|+++|.. ..|+.|++..++-...=++-.+.+|+.
T Consensus 38 ~~~l~pE~~~Il~lC~~--~~SVAEiAA~L~lPlgVvrVLvsDL~~ 81 (114)
T PF05331_consen 38 PAGLGPEHRAILELCRR--PLSVAEIAARLGLPLGVVRVLVSDLAD 81 (114)
T ss_pred CCCCCHHHHHHHHHHCC--CccHHHHHHhhCCCchhhhhhHHHHHh
Confidence 35799999999999998 999999999999999888888888875
No 61
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=66.97 E-value=59 Score=29.27 Aligned_cols=64 Identities=17% Similarity=0.234 Sum_probs=48.7
Q ss_pred CCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHH-HHHh--cCCccHHHHHHhcCCCHHHHHHHH
Q 027597 136 EAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILE-LAQA--QGFVTVDEVERRLSWTSGRAIDAL 212 (221)
Q Consensus 136 ~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vle-l~~~--~G~vt~~~L~~~l~W~~~Ra~~~L 212 (221)
..||.+++..+++.+.. ....|+..+...|. ++.. .|.++.+.++..+|++..-++.++
T Consensus 236 ~~I~~~~v~~~l~~~~~------------------~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~ 297 (328)
T PRK00080 236 GVITKEIADKALDMLGV------------------DELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVY 297 (328)
T ss_pred CCCCHHHHHHHHHHhCC------------------CcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHh
Confidence 56999999999876421 11234555666675 5655 578999999999999999999999
Q ss_pred H-HHHH
Q 027597 213 D-ILLE 217 (221)
Q Consensus 213 ~-~l~~ 217 (221)
| .|++
T Consensus 298 e~~Li~ 303 (328)
T PRK00080 298 EPYLIQ 303 (328)
T ss_pred hHHHHH
Confidence 9 7776
No 62
>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=66.35 E-value=16 Score=26.85 Aligned_cols=22 Identities=23% Similarity=0.413 Sum_probs=19.4
Q ss_pred cChhHHHHH----HHHHHHcCCCCCC
Q 027597 59 KNPTFRSQF----HEMCAKVGVDPLA 80 (221)
Q Consensus 59 ~dp~fR~~F----~~mC~siGVDPL~ 80 (221)
+||+||+++ +..|..+|++...
T Consensus 15 ~Dp~Fr~~Ll~DPraaL~e~G~~~P~ 40 (77)
T TIGR03793 15 EDEAFKQALLTNPKEALEREGVQVPA 40 (77)
T ss_pred cCHHHHHHHHHCHHHHHHHhCCCCCC
Confidence 799999999 8899999999553
No 63
>PRK13239 alkylmercury lyase; Provisional
Probab=65.51 E-value=11 Score=32.77 Aligned_cols=37 Identities=19% Similarity=0.284 Sum_probs=31.1
Q ss_pred HHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 179 HNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 179 ~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
+..+|.+.....-||+++|+..+||+.+.++.+|++|
T Consensus 24 ~~~llr~la~G~pvt~~~lA~~~~~~~~~v~~~L~~l 60 (206)
T PRK13239 24 LVPLLRLLAKGRPVSVTTLAAALGWPVEEVEAVLEAM 60 (206)
T ss_pred HHHHHHHHHcCCCCCHHHHHHHhCCCHHHHHHHHHhC
Confidence 4556666566667999999999999999999999886
No 64
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=65.35 E-value=18 Score=27.38 Aligned_cols=44 Identities=16% Similarity=0.218 Sum_probs=37.2
Q ss_pred ccchhHHHHHHHHH----hcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQ----AQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 174 Els~D~~~vlel~~----~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.++..|-.+|.... ..|.+|..+|++.+++++.-+-.+++.|.+
T Consensus 22 ~ls~~q~~vL~~l~~~~~~~~~~t~~eL~~~l~~~~stvs~~i~~Le~ 69 (109)
T TIGR01889 22 NLSLEELLILYYLGKLENNEGKLTLKEIIKEILIKQSALVKIIKKLSK 69 (109)
T ss_pred CCCHHHHHHHHHHHhhhccCCcCcHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 56777777887766 458899999999999999999999988875
No 65
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=65.25 E-value=11 Score=24.78 Aligned_cols=38 Identities=29% Similarity=0.370 Sum_probs=29.5
Q ss_pred HHHHHHHh-cCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 181 QILELAQA-QGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 181 ~vlel~~~-~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.||++... .+.+|..+|++.+|+++.=+...|..|.++
T Consensus 7 ~iL~~l~~~~~~~t~~eia~~~gl~~stv~r~L~tL~~~ 45 (52)
T PF09339_consen 7 RILEALAESGGPLTLSEIARALGLPKSTVHRLLQTLVEE 45 (52)
T ss_dssp HHHHCHHCTBSCEEHHHHHHHHTS-HHHHHHHHHHHHHT
T ss_pred HHHHHHHcCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHC
Confidence 35665554 456899999999999999999999888753
No 66
>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=65.17 E-value=8.8 Score=31.30 Aligned_cols=32 Identities=22% Similarity=0.326 Sum_probs=27.3
Q ss_pred HHHHHHHHHHhhcccccChhHHHHHHHHHHHc
Q 027597 43 RSQLEDFARKHKNDIRKNPTFRSQFHEMCAKV 74 (221)
Q Consensus 43 ~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~si 74 (221)
-.+.+.|++.|+.+|.++|.++..|.-.+.++
T Consensus 91 p~ac~~Fv~~~~~~L~~~~~l~~~f~lHl~~L 122 (140)
T PF09733_consen 91 PWACEAFVREHGQWLVEKPNLRREFLLHLINL 122 (140)
T ss_pred HHHHHHHHHHhHHHHhhChhHHHHHHHHHHHH
Confidence 34899999999999999999999998765553
No 67
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=65.12 E-value=17 Score=29.27 Aligned_cols=44 Identities=11% Similarity=0.172 Sum_probs=38.1
Q ss_pred cchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 175 ls~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
|+.-..++|++.+..|..|.++|++.+|++..-+..-++.|..+
T Consensus 7 lD~~D~~Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~ 50 (153)
T PRK11179 7 IDNLDRGILEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQA 50 (153)
T ss_pred cCHHHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHC
Confidence 45456679999999999999999999999999999999888653
No 68
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=65.10 E-value=16 Score=30.80 Aligned_cols=44 Identities=20% Similarity=0.314 Sum_probs=39.7
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.++..+..+|......|.+|..+|++.++.++.-+...|..|.+
T Consensus 140 ~ls~~~~~IL~~l~~~g~~s~~eia~~l~is~stv~r~L~~Le~ 183 (203)
T TIGR01884 140 GLSREELKVLEVLKAEGEKSVKNIAKKLGKSLSTISRHLRELEK 183 (203)
T ss_pred CCCHHHHHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 57888889999998889999999999999999999999988765
No 69
>TIGR02941 Sigma_B RNA polymerase sigma-B factor. This sigma factor is restricted to certain lineages of the order Bacillales including Staphylococcus, Listeria and Bacillus.
Probab=63.83 E-value=85 Score=27.10 Aligned_cols=44 Identities=5% Similarity=0.061 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc-cccChhHHHHHHHHHHHcC
Q 027597 32 TDLMKEQLATFRSQLEDFARKHKND-IRKNPTFRSQFHEMCAKVG 75 (221)
Q Consensus 32 ~~~l~~ql~~F~~~L~~Fa~kh~~e-I~~dp~fR~~F~~mC~siG 75 (221)
.+........+...+-.||.++.++ .-.+.-+..-|-.+..++.
T Consensus 28 ~~a~~~l~~~y~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~ 72 (255)
T TIGR02941 28 GEAQEKLVDHYQNLVYSIAYKYSKGGPMHEDLVQVGMLGLLGAIR 72 (255)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 4467888888999999999988753 3334456666777776655
No 70
>PF09397 Ftsk_gamma: Ftsk gamma domain; InterPro: IPR018541 This domain directs oriented DNA translocation and forms a winged helix structure []. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding []. ; PDB: 2VE9_B 2VE8_E 2J5O_A 2J5P_A.
Probab=63.66 E-value=18 Score=25.80 Aligned_cols=38 Identities=21% Similarity=0.341 Sum_probs=31.2
Q ss_pred HHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 180 NQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 180 ~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
..+.+++-..+.+|++.|+..|+.-=.||-..++.|-+
T Consensus 9 ~~a~~~V~~~~~~S~S~lQR~~rIGynrAariid~LE~ 46 (65)
T PF09397_consen 9 EEAVEFVIEEGKASISLLQRKFRIGYNRAARIIDQLEE 46 (65)
T ss_dssp HHHHHHHHHCTCECHHHHHHHHT--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCccHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 34677777789999999999999999999999998854
No 71
>PRK04217 hypothetical protein; Provisional
Probab=63.25 E-value=26 Score=27.42 Aligned_cols=47 Identities=21% Similarity=0.324 Sum_probs=35.5
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHh
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVL 219 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~ 219 (221)
|.-|+.++..++.+....|+ |.+++++.+|.+..=+...|....+.|
T Consensus 40 ~~~Lt~eereai~l~~~eGl-S~~EIAk~LGIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 40 PIFMTYEEFEALRLVDYEGL-TQEEAGKRMGVSRGTVWRALTSARKKV 86 (110)
T ss_pred cccCCHHHHHHHHHHHHcCC-CHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 34689999888877766454 999999999999877766666555443
No 72
>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=62.62 E-value=13 Score=27.56 Aligned_cols=66 Identities=15% Similarity=0.138 Sum_probs=50.9
Q ss_pred HHHHHHHcCCC--CCCCCCCccccccCc---------cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCC
Q 027597 67 FHEMCAKVGVD--PLASNKGFWAELLGI---------GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNR 135 (221)
Q Consensus 67 F~~mC~siGVD--PL~s~k~~ws~~lG~---------gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~ 135 (221)
....|..||-| .|+. -||+ .++-..+..|+.++...=+.++|.--++..|++.+.+
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 MAIVADHLGLSWTELAR-------ELNFSVDEINQIRVENPNSLIAQSFMLLKKWVTRDGKNATTDALTSVLTK------ 73 (84)
T ss_pred HHHHHHHhhccHHHHHH-------HcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHH------
Confidence 66788899988 3332 2554 3555667888899888888899888888899999887
Q ss_pred CCCCHHHHHHHH
Q 027597 136 EAVSEDDCLRAI 147 (221)
Q Consensus 136 ~~IS~~DI~rAi 147 (221)
|--+||+.++
T Consensus 74 --i~R~DIv~~~ 83 (84)
T cd08803 74 --INRIDIVTLL 83 (84)
T ss_pred --CCcHHHHHhc
Confidence 7888998775
No 73
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental
Probab=62.43 E-value=37 Score=21.47 Aligned_cols=43 Identities=16% Similarity=0.138 Sum_probs=33.4
Q ss_pred chhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHhc
Q 027597 176 NKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVLQ 220 (221)
Q Consensus 176 s~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~~ 220 (221)
+.++..++.+.. +..|..++++.++++..-++.-+..+.+.+.
T Consensus 2 ~~~e~~i~~~~~--~~~s~~eia~~l~~s~~tv~~~~~~~~~~l~ 44 (57)
T cd06170 2 TPREREVLRLLA--EGKTNKEIADILGISEKTVKTHLRNIMRKLG 44 (57)
T ss_pred CHHHHHHHHHHH--cCCCHHHHHHHHCCCHHHHHHHHHHHHHHhC
Confidence 455666776653 4569999999999999999988888877653
No 74
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID. Members of this protein are the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if and only if the species is capable of endospore formation as occurs in the model species Bacillus subtilis. SpoIIID is a DNA binding protein that, in B. subtilis, downregulates many genes but also turns on ten genes.
Probab=62.17 E-value=17 Score=26.90 Aligned_cols=36 Identities=11% Similarity=-0.004 Sum_probs=32.0
Q ss_pred hHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHH
Q 027597 178 DHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDI 214 (221)
Q Consensus 178 D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~ 214 (221)
=+..|++++.. |.+|..++++.+|-|...+..+|..
T Consensus 7 R~~~I~e~l~~-~~~ti~dvA~~~gvS~~TVsr~L~~ 42 (80)
T TIGR02844 7 RVLEIGKYIVE-TKATVRETAKVFGVSKSTVHKDVTE 42 (80)
T ss_pred HHHHHHHHHHH-CCCCHHHHHHHhCCCHHHHHHHhcC
Confidence 36678999999 9999999999999999999888853
No 75
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=61.70 E-value=23 Score=26.30 Aligned_cols=39 Identities=18% Similarity=0.301 Sum_probs=34.6
Q ss_pred HHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 179 HNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 179 ~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
...+|.+.+..|.+|.++|++.+|-+..-+...++.|.+
T Consensus 5 D~~il~~L~~~~~~~~~~la~~l~~s~~tv~~~l~~L~~ 43 (108)
T smart00344 5 DRKILEELQKDARISLAELAKKVGLSPSTVHNRVKRLEE 43 (108)
T ss_pred HHHHHHHHHHhCCCCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 456888888889999999999999999999999988875
No 76
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=61.31 E-value=23 Score=27.81 Aligned_cols=46 Identities=20% Similarity=0.190 Sum_probs=37.8
Q ss_pred CcccchhHHHHHHHHHh-cCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 172 PTELNKDHNQILELAQA-QGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 172 p~Els~D~~~vlel~~~-~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
|..|+.-|-.+|..+.. .+..|..+|++.+++++.-...+++.|.+
T Consensus 26 ~~glt~~q~~vL~~l~~~~~~~t~~eLa~~l~~~~~tvt~~v~~Le~ 72 (144)
T PRK03573 26 PLELTQTHWVTLHNIHQLPPEQSQIQLAKAIGIEQPSLVRTLDQLEE 72 (144)
T ss_pred hcCCCHHHHHHHHHHHHcCCCCCHHHHHHHhCCChhhHHHHHHHHHH
Confidence 44567778778877765 46799999999999999999999998875
No 77
>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=61.01 E-value=10 Score=28.62 Aligned_cols=29 Identities=17% Similarity=0.461 Sum_probs=21.0
Q ss_pred CCCCCCCCCCccccccCccchHHHHHHHHHH
Q 027597 75 GVDPLASNKGFWAELLGIGDFYYELGVQIVE 105 (221)
Q Consensus 75 GVDPL~s~k~~ws~~lG~gdfy~eLavqIve 105 (221)
=||=+-+.+|+|+.++ +.+--.+|+.|++
T Consensus 49 lVDGvPaQGG~~~~i~--~~~i~~~a~~v~~ 77 (85)
T PF07240_consen 49 LVDGVPAQGGFWGKIV--KKIISPAAKSVAD 77 (85)
T ss_pred cccCcCCCCCchHHHH--HHHHHHHHHHHHH
Confidence 4787778889998766 3666677777664
No 78
>PF13382 Adenine_deam_C: Adenine deaminase C-terminal domain; PDB: 3T8L_B 3T81_A 3NQB_A.
Probab=60.95 E-value=19 Score=30.28 Aligned_cols=26 Identities=23% Similarity=0.423 Sum_probs=22.7
Q ss_pred CHHHHHHHHhhccccCCCeEEEEeCCE
Q 027597 139 SEDDCLRAISKLKVLGNGYEVISVGKK 165 (221)
Q Consensus 139 S~~DI~rAi~~L~~LG~g~~vi~i~~~ 165 (221)
+++|+.+|++.|..+|+|+.++. +|+
T Consensus 74 ~~~dm~~A~n~l~~~gGG~vvv~-~g~ 99 (171)
T PF13382_consen 74 NDEDMALAANRLIEMGGGIVVVD-DGE 99 (171)
T ss_dssp SHHHHHHHHHHHHHTTSEEEEEE-TTE
T ss_pred CHHHHHHHHHHHHHhCCCEEEEE-CCE
Confidence 79999999999999999998875 443
No 79
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=60.70 E-value=21 Score=29.78 Aligned_cols=40 Identities=25% Similarity=0.323 Sum_probs=35.9
Q ss_pred hHHHHHHHHHhcCCc-cHHHHHHhc--CCCHHHHHHHHHHHHH
Q 027597 178 DHNQILELAQAQGFV-TVDEVERRL--SWTSGRAIDALDILLE 217 (221)
Q Consensus 178 D~~~vlel~~~~G~v-t~~~L~~~l--~W~~~Ra~~~L~~l~~ 217 (221)
-+..|++++.-+++. ++..|++.+ +.+.+.++.+|+-|++
T Consensus 25 ~~~~ir~l~~l~~~~~d~~~iak~l~p~is~~ev~~sL~~L~~ 67 (171)
T PF14394_consen 25 YHPAIRELLPLMPFAPDPEWIAKRLRPKISAEEVRDSLEFLEK 67 (171)
T ss_pred HHHHHHHHhhcCCCCCCHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence 467789999988887 999999999 9999999999988875
No 80
>PF11994 DUF3489: Protein of unknown function (DUF3489); InterPro: IPR021880 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 84 to 211 amino acids in length. This protein has a single completely conserved residue W that may be functionally important.
Probab=60.31 E-value=24 Score=25.74 Aligned_cols=42 Identities=19% Similarity=0.294 Sum_probs=35.9
Q ss_pred chhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 176 NKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 176 s~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
++-|..++++...-+.+|+++|.+..||...=++.+|--+++
T Consensus 9 ~tKqa~li~mL~rp~GATi~ei~~atGWq~HTvRgalsg~~k 50 (72)
T PF11994_consen 9 GTKQAQLIAMLRRPEGATIAEICEATGWQPHTVRGALSGLLK 50 (72)
T ss_pred ccHHHHHHHHHcCCCCCCHHHHHHhhCCchhhHHHHHHHHHH
Confidence 455777999998888899999999999999999888877654
No 81
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=60.15 E-value=18 Score=29.55 Aligned_cols=47 Identities=17% Similarity=0.269 Sum_probs=40.3
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
+..|+.-..++|.+.+..|.+|..+|++.+|.+..-+..=++.|.++
T Consensus 9 ~~~lD~~D~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~ 55 (164)
T PRK11169 9 GKDLDRIDRNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQ 55 (164)
T ss_pred hhhHHHHHHHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHC
Confidence 44566667789999999999999999999999999999888888653
No 82
>KOG1767 consensus 40S ribosomal protein S25 [Translation, ribosomal structure and biogenesis]
Probab=59.88 E-value=16 Score=28.66 Aligned_cols=41 Identities=22% Similarity=0.165 Sum_probs=32.4
Q ss_pred hHHHHHHHHHh---cCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 178 DHNQILELAQA---QGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 178 D~~~vlel~~~---~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
||...=.+..+ --+||++.|.+.|...-..|+.||.+|..+
T Consensus 44 dqatydkl~kevp~~k~it~svl~dRlkIngsLAr~alr~L~~k 87 (110)
T KOG1767|consen 44 DQATYDKLLKEVPKYKLITPSVLSDRLKINGSLARAALRELSNK 87 (110)
T ss_pred cHHHHHHHHHhcccceeecHHHhhhhhhhchHHHHHHHHHHHhc
Confidence 45444444444 358999999999999999999999999764
No 83
>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=59.72 E-value=9.6 Score=27.57 Aligned_cols=29 Identities=28% Similarity=0.726 Sum_probs=18.4
Q ss_pred hhcccccChhHHHHHHHHHHHcCCCCCCCC
Q 027597 53 HKNDIRKNPTFRSQFHEMCAKVGVDPLASN 82 (221)
Q Consensus 53 h~~eI~~dp~fR~~F~~mC~siGVDPL~s~ 82 (221)
+..+++.-..+ ...+..|.++|+||++..
T Consensus 12 ~~~~~~~~~vy-~~Y~~lc~~~~~~pls~~ 40 (85)
T PF09079_consen 12 GKEEVTTGEVY-EVYEELCESLGVDPLSYR 40 (85)
T ss_dssp TSSSEEHHHHH-HHHHHHHHHTTS----HH
T ss_pred CCCceeHHHHH-HHHHHHHHHcCCCCCCHH
Confidence 33566666555 489999999999999853
No 84
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=59.03 E-value=29 Score=23.91 Aligned_cols=36 Identities=28% Similarity=0.397 Sum_probs=29.7
Q ss_pred HHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 182 ILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 182 vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
|+++-+..+.|+..+|++.+|.++.=+-.+|..|.+
T Consensus 13 Iy~l~~~~~~v~~~~iA~~L~vs~~tvt~ml~~L~~ 48 (60)
T PF01325_consen 13 IYELSEEGGPVRTKDIAERLGVSPPTVTEMLKRLAE 48 (60)
T ss_dssp HHHHHHCTSSBBHHHHHHHHTS-HHHHHHHHHHHHH
T ss_pred HHHHHcCCCCccHHHHHHHHCCChHHHHHHHHHHHH
Confidence 566667789999999999999999988888887754
No 85
>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=58.43 E-value=37 Score=25.29 Aligned_cols=71 Identities=14% Similarity=0.232 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHHHHH-HhhcccccChhHHHHHHHHHHH-cCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhc
Q 027597 34 LMKEQLATFRSQLEDFAR-KHKNDIRKNPTFRSQFHEMCAK-VGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATR 111 (221)
Q Consensus 34 ~l~~ql~~F~~~L~~Fa~-kh~~eI~~dp~fR~~F~~mC~s-iGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr 111 (221)
+|.+-|.+.+.....|++ .+++-|..+ .|+.++.+ +| +.+... .-++--+...
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 477888888999999999 888888876 67788888 87 322210 1222223444
Q ss_pred ccCC-CcccHHHHHHHHHh
Q 027597 112 PHNG-GLINLQELCNLLRQ 129 (221)
Q Consensus 112 ~~nG-Gli~l~el~~~v~k 129 (221)
+.|| |-|+..|-+..+.+
T Consensus 57 D~d~DG~I~F~EF~~l~~~ 75 (89)
T cd05022 57 DVNQDSKLSFEEFWELIGE 75 (89)
T ss_pred CCCCCCCCcHHHHHHHHHH
Confidence 5555 78888888777665
No 86
>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=58.29 E-value=14 Score=28.26 Aligned_cols=41 Identities=24% Similarity=0.489 Sum_probs=29.5
Q ss_pred cChhHHHHHHHHHHHcCCCCCCCC--CCccc-cccCccchHHHHHHH
Q 027597 59 KNPTFRSQFHEMCAKVGVDPLASN--KGFWA-ELLGIGDFYYELGVQ 102 (221)
Q Consensus 59 ~dp~fR~~F~~mC~siGVDPL~s~--k~~ws-~~lG~gdfy~eLavq 102 (221)
.||.+ +..+..-.|||..+|+ +.+|. ..+.-.+||-+|+..
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 48888 6777888899998765 44554 234457999999864
No 87
>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=58.25 E-value=23 Score=30.86 Aligned_cols=78 Identities=22% Similarity=0.390 Sum_probs=48.2
Q ss_pred HHHHHHHHHhhcccccChh-HHHHHHHHHHHcCCCCCCCCCCccccccC-ccchHHHHHHHHHHHhhhhcccCCCcccHH
Q 027597 44 SQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDPLASNKGFWAELLG-IGDFYYELGVQIVEICLATRPHNGGLINLQ 121 (221)
Q Consensus 44 ~~L~~Fa~kh~~eI~~dp~-fR~~F~~mC~siGVDPL~s~k~~ws~~lG-~gdfy~eLavqIvevC~~tr~~nGGli~l~ 121 (221)
..-.+|++++.+..+++=. +=..|+.|+.++.+||-..+.++-. .++ .|+=|.+.|.-..| . +++ -++++.
T Consensus 33 ~~~~e~~kk~~~~~kkEyqkiG~af~~LsqaFe~d~~~~s~~L~~-Av~~tG~~y~~IG~~fae----Q-pk~-D~~pl~ 105 (207)
T cd07669 33 NVASELVRKHLGGFRKEFQKLGNAFQAISHSFQLDPPYSSEALNN-AISHTGRTYEAVGEMFAE----Q-PKN-DLFQML 105 (207)
T ss_pred HHHHHHHHHHcccccHHHHHHHHHHHHHHHHHhcCCCccchHHHH-HHHHHHHHHHHHHHHHHh----c-chh-hhhHHH
Confidence 3567889999888888765 3344999999999998665433322 222 47777776654433 1 222 255555
Q ss_pred HHHHHHH
Q 027597 122 ELCNLLR 128 (221)
Q Consensus 122 el~~~v~ 128 (221)
|.+....
T Consensus 106 d~L~~Y~ 112 (207)
T cd07669 106 DTLSLYQ 112 (207)
T ss_pred HHHHHHh
Confidence 5554443
No 88
>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=58.14 E-value=25 Score=30.76 Aligned_cols=60 Identities=7% Similarity=0.174 Sum_probs=40.5
Q ss_pred HHHHHHHHHhhcccccChh-HHHHHHHHHHHcCCCCCCCCCCccccccC-ccchHHHHHHHHH
Q 027597 44 SQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDPLASNKGFWAELLG-IGDFYYELGVQIV 104 (221)
Q Consensus 44 ~~L~~Fa~kh~~eI~~dp~-fR~~F~~mC~siGVDPL~s~k~~ws~~lG-~gdfy~eLavqIv 104 (221)
..-.+|++++.+.++++=. +=..|+.|+.++.+||-..+.+. ++.++ .|+=|.++|.-..
T Consensus 33 ~~~~e~~kk~~~~~KkEyqkiG~af~~LsqaFe~d~~~~~~~L-~~Ai~~tg~~y~~IG~~fa 94 (210)
T cd07668 33 TVGQEHWKRCTGPLPKEYQKIGKALQSLATVFSTSGYQGETDL-NDAITEAGKTYEEIASLVA 94 (210)
T ss_pred HHHHHHHHHHcccccHHHHHHHHHHHHHHHHHhcCCcccchHH-HHHHHHHHHHHHHHHHHHH
Confidence 3567899999999888765 44459999999999986554332 22232 3677766654433
No 89
>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=57.82 E-value=43 Score=30.16 Aligned_cols=78 Identities=15% Similarity=0.182 Sum_probs=49.5
Q ss_pred cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeC-CEEEEEec
Q 027597 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVG-KKKLVRSV 171 (221)
Q Consensus 93 gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~-~~~~v~Sv 171 (221)
.+|||-.--.++ +..+|=-++.++-.+++ +.||.++|..|++.|..+| +++-+ .-.|+++.
T Consensus 120 ~~W~~~virel~-------~~~~~~~~~~~ia~~l~-------p~is~~ev~~sL~~L~~~g----likk~~~g~y~~t~ 181 (271)
T TIGR02147 120 RHWYNSVIRELL-------GVMPFADDPEELAKRCF-------PKISAEQVKESLDLLERLG----LIKKNEDGFYKQTD 181 (271)
T ss_pred HHHHHHHHHHHh-------hcCCCCCCHHHHHHHhC-------CCCCHHHHHHHHHHHHHCC----CeeECCCCcEEeec
Confidence 577776433333 34455555666666655 6799999999999999988 66554 33576643
Q ss_pred -----Cccc-----chhHHHHHHHHHh
Q 027597 172 -----PTEL-----NKDHNQILELAQA 188 (221)
Q Consensus 172 -----p~El-----s~D~~~vlel~~~ 188 (221)
|.+. -.=|..++++|..
T Consensus 182 ~~l~~~~~~~~~avr~~h~q~l~lA~~ 208 (271)
T TIGR02147 182 KAVSTGDEVIPLAVRQYQKQMIDLAKE 208 (271)
T ss_pred ceeecCCccchHHHHHHHHHHHHHHHH
Confidence 3232 2236667777763
No 90
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.05 E-value=35 Score=30.53 Aligned_cols=95 Identities=19% Similarity=0.324 Sum_probs=53.8
Q ss_pred HHHHHHHHhh-cccccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHH
Q 027597 45 QLEDFARKHK-NDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQEL 123 (221)
Q Consensus 45 ~L~~Fa~kh~-~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el 123 (221)
.+++++...+ .+++.+-+.-++...+-..+|--|.+.. |. .|+++|.
T Consensus 75 ~~~~~~~s~~~~~~t~~~~ie~~l~~l~~~aG~v~V~G~-Gl-------------------------------~ITi~d~ 122 (247)
T COG3879 75 DLENKLDSVRRSVLTDDAALEDRLEKLRMLAGSVPVTGP-GL-------------------------------VITIDDP 122 (247)
T ss_pred HHHHHHHHHHHhHHhHHHHHHHHHHHHHHHhccCCCcCC-cE-------------------------------EEEecCC
Confidence 4555555444 5667777777778888888888887654 21 1222222
Q ss_pred HHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeC-----CEEEEEecCcc
Q 027597 124 CNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVG-----KKKLVRSVPTE 174 (221)
Q Consensus 124 ~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~-----~~~~v~Svp~E 174 (221)
....+-.+ ...+.|.++|+..=|+.|..-| -+-|.|+ ..++|+.++.-
T Consensus 123 ~~~~~~~~-~~~~vv~~~dl~~viNeL~~sG--AEaIsIn~~RI~~~t~Ir~v~g~ 175 (247)
T COG3879 123 GYSPNGVG-PNSQVVHDDDLQAVINELNISG--AEAISINGQRIGSNTTIRCVGGT 175 (247)
T ss_pred CCCcccCC-CCccccCHHHHHHHHHHHHhcc--chheeECCEEeecceEEEecCCe
Confidence 22221112 2236788888888888887644 3444444 34455555443
No 91
>COG1386 scpB Chromosome segregation and condensation protein B [DNA replication, recombination and repair]
Probab=56.85 E-value=1.2e+02 Score=25.71 Aligned_cols=76 Identities=24% Similarity=0.279 Sum_probs=57.2
Q ss_pred CHHHHHHHHhhccc--cCCCeEEEEeCCEEEEEe--------------cCc-ccchhHHHHHHHHHhcCCccHHHHHHhc
Q 027597 139 SEDDCLRAISKLKV--LGNGYEVISVGKKKLVRS--------------VPT-ELNKDHNQILELAQAQGFVTVDEVERRL 201 (221)
Q Consensus 139 S~~DI~rAi~~L~~--LG~g~~vi~i~~~~~v~S--------------vp~-Els~D~~~vlel~~~~G~vt~~~L~~~l 201 (221)
...++..++..|+. =+.|+.++.+++..-.++ .|. +||.-...+|.++.-+.=||-+++.+-.
T Consensus 37 ~~~~~~~~l~~l~~~y~~rg~~L~~~~~~~r~~t~~~~~~~~~~l~~~~~~~~LSraalEtLAiIAY~QPiTR~eI~~iR 116 (184)
T COG1386 37 SADAIIDALAELKEEYEDRGLELVEVAEGWRLQTKQEYAEYLEKLQEQRPKRELSRAALETLAIIAYKQPVTRSEIEEIR 116 (184)
T ss_pred chHHHHHHHHHHHHhhcCCCeeEEEEcCceeEEehHHHHHHHHHHhcccccccccHHHHHHHHHHHHcCCccHHHHHHHh
Confidence 66777788877764 578888888886444433 233 6998888889888877779999999999
Q ss_pred CCCHHHHHHHHHH
Q 027597 202 SWTSGRAIDALDI 214 (221)
Q Consensus 202 ~W~~~Ra~~~L~~ 214 (221)
|-...++-..|.+
T Consensus 117 Gv~~~~~i~~L~e 129 (184)
T COG1386 117 GVAVSQVISTLLE 129 (184)
T ss_pred CccHHHHHHHHHH
Confidence 9999886555543
No 92
>PF03297 Ribosomal_S25: S25 ribosomal protein; InterPro: IPR004977 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S25 ribosomal protein is a component of the 40S ribosomal subunit.; PDB: 2XZM_8 2XZN_8 3O30_Q 3U5G_Z 3IZB_V 3U5C_Z 3O2Z_Q 3IZ6_V.
Probab=56.84 E-value=19 Score=28.02 Aligned_cols=32 Identities=22% Similarity=0.146 Sum_probs=28.5
Q ss_pred HhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 187 QAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 187 ~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
...-+||+..|++.|+.+-..|+.+|++|...
T Consensus 55 ~~~K~ITp~~lserlkI~~SlAr~~Lr~L~~k 86 (105)
T PF03297_consen 55 PKMKLITPSVLSERLKINGSLARKALRELESK 86 (105)
T ss_dssp TTSSCECHHHHHHHHCCSCHHHHHHHHHHHHC
T ss_pred ccCcEeeHHHHHHhHhhHHHHHHHHHHHHHHC
Confidence 34678999999999999999999999999753
No 93
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=56.70 E-value=34 Score=33.30 Aligned_cols=43 Identities=28% Similarity=0.366 Sum_probs=38.2
Q ss_pred cchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 175 ls~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
++.-|..+++++...|++|..+|+..++-+..=+..-|..|++
T Consensus 400 ~~~~~~~il~~~~en~~~T~~~L~~~l~is~~~i~r~i~~Lv~ 442 (467)
T COG2865 400 LSERQEKILELIKENGKVTARELREILGISSETIRRRIANLVK 442 (467)
T ss_pred hhHHHHHHHHHHhhccccCHHHHHHHhCcchhhHHHHHHHHhc
Confidence 5555678999999999999999999999999999999988875
No 94
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=56.30 E-value=33 Score=24.41 Aligned_cols=37 Identities=27% Similarity=0.361 Sum_probs=31.2
Q ss_pred HHHHHHHhc-CCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 181 QILELAQAQ-GFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 181 ~vlel~~~~-G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.|+++.... |.+|+.+|++.+|.++.-+...|+.|.+
T Consensus 9 ~Il~~l~~~~~~~t~~~ia~~l~i~~~tv~r~l~~L~~ 46 (91)
T smart00346 9 AVLRALAEEPGGLTLAELAERLGLSKSTAHRLLNTLQE 46 (91)
T ss_pred HHHHHHHhCCCCcCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 467776665 7899999999999999999999988865
No 95
>PRK02899 adaptor protein; Provisional
Probab=56.03 E-value=1.1e+02 Score=26.19 Aligned_cols=78 Identities=17% Similarity=0.141 Sum_probs=53.8
Q ss_pred CCHHHHHHHHhhccccCCC-eEEEEeCCEEEEEecCcccchh-HHHHHHHHHhcC---CccHHHHHHhcCCCHHHHHHHH
Q 027597 138 VSEDDCLRAISKLKVLGNG-YEVISVGKKKLVRSVPTELNKD-HNQILELAQAQG---FVTVDEVERRLSWTSGRAIDAL 212 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g-~~vi~i~~~~~v~Svp~Els~D-~~~vlel~~~~G---~vt~~~L~~~l~W~~~Ra~~~L 212 (221)
=+-+||+.+++.|.+.+.+ =.+-+..|++|+.-.+.+.+.+ ...++.++.+-| .+|..-|.+. | ...-..+||
T Consensus 111 ~~fEdvi~la~~l~~~~~~~s~LY~~~~~YYL~l~~~~~~~~~~~~~~ail~EYg~~s~~t~~~l~Eh-G-k~I~~~~Al 188 (197)
T PRK02899 111 ATFEDVINLSHRLYNLGVTGGKLYSYDGRFYLWLEEEELIQLLKADFIAILAEYGNPSTVTIYRLEEY-G-KELMASQAV 188 (197)
T ss_pred CCHHHHHHHHHhhcccCCCCcceEEECCEEEEEEecCCCCHhhHHHHHHHHHhhCCCCcccHHHHHHh-h-HHHhHhhHH
Confidence 3689999999999765533 6677789999998666555544 455666666533 5777666654 4 566667777
Q ss_pred HHHHH
Q 027597 213 DILLE 217 (221)
Q Consensus 213 ~~l~~ 217 (221)
+.+.+
T Consensus 189 ~~l~~ 193 (197)
T PRK02899 189 EQIHR 193 (197)
T ss_pred HHHHH
Confidence 76653
No 96
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=56.02 E-value=38 Score=22.96 Aligned_cols=42 Identities=21% Similarity=0.361 Sum_probs=34.0
Q ss_pred hhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 177 KDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 177 ~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.++..++++.-+.+.+|..+|++.+|.|.--.+.-|++|=..
T Consensus 5 ~rq~~Ll~~L~~~~~~~~~ela~~l~~S~rti~~~i~~L~~~ 46 (59)
T PF08280_consen 5 KRQLKLLELLLKNKWITLKELAKKLNISERTIKNDINELNEF 46 (59)
T ss_dssp HHHHHHHHHHHHHTSBBHHHHHHHCTS-HHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHcCCCCcHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 356678888877899999999999999999888888777543
No 97
>KOG0027 consensus Calmodulin and related proteins (EF-Hand superfamily) [Signal transduction mechanisms]
Probab=55.92 E-value=1e+02 Score=24.43 Aligned_cols=96 Identities=15% Similarity=0.347 Sum_probs=60.1
Q ss_pred HHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCC
Q 027597 37 EQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGG 116 (221)
Q Consensus 37 ~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGG 116 (221)
.+...++.....|-..+.+-|... .+.....++|..|-... +.++-...-....|
T Consensus 5 ~~~~el~~~F~~fD~d~~G~i~~~-----el~~~lr~lg~~~t~~e--------------------l~~~~~~~D~dg~g 59 (151)
T KOG0027|consen 5 EQILELKEAFQLFDKDGDGKISVE-----ELGAVLRSLGQNPTEEE--------------------LRDLIKEIDLDGDG 59 (151)
T ss_pred HHHHHHHHHHHHHCCCCCCcccHH-----HHHHHHHHcCCCCCHHH--------------------HHHHHHHhCCCCCC
Confidence 455667778888877777766654 57788888888865322 11111111222558
Q ss_pred cccHHHHHHHHHhhcCCCCCC-CCHHHHHHHHhhccccCCCe
Q 027597 117 LINLQELCNLLRQRRKSNREA-VSEDDCLRAISKLKVLGNGY 157 (221)
Q Consensus 117 li~l~el~~~v~k~Rg~~~~~-IS~~DI~rAi~~L~~LG~g~ 157 (221)
-|++.|.+..+.+........ -+.+++..|.+.+-.=|+||
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 899999988888765432122 25567777777777667665
No 98
>PF15112 DUF4559: Domain of unknown function (DUF4559)
Probab=55.49 E-value=59 Score=30.03 Aligned_cols=98 Identities=20% Similarity=0.293 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccChh---HHHHHHHHHH---HcCCCCCCCCCCccccccCccchHHHHHHHHHHHhh
Q 027597 35 MKEQLATFRSQLEDFARKHKNDIRKNPT---FRSQFHEMCA---KVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICL 108 (221)
Q Consensus 35 l~~ql~~F~~~L~~Fa~kh~~eI~~dp~---fR~~F~~mC~---siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~ 108 (221)
-+..|..|..+|.+|++ +.+.+|+ +..+-.+|.. .++++++.-..|.=++ .++|.+.. +|.|+|.
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----EFRNIPEIVAAGSRIEQLLTSDWAVHIPEEDQRDGCESE----TDVYLSES-QILEIEM 231 (307)
T ss_pred CHHHHHHHHHHHHHHHH----HhccChHHHHHHHHHHHHHhhhhhhcCchhhccchhhhc----cchhhhHH-HHHHHHH
Confidence 35789999999999999 5566886 4455556654 3777777654333221 46666653 4777776
Q ss_pred hhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 109 ATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 109 ~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
....+- +.|+|..+. .+.++++.+...++.++.
T Consensus 232 e~Lke~-----lqel~~~~e------~~~~~~ee~~~~l~~~~~ 264 (307)
T PF15112_consen 232 ELLKEK-----LQELYLQAE------EQEVLPEEDSKRLEVLKE 264 (307)
T ss_pred HHHHHH-----HHHHHHHHh------hccccchhhhHHHHHHHH
Confidence 644433 334433322 245666666666666553
No 99
>KOG1043 consensus Ca2+-binding transmembrane protein LETM1/MRS7 [Function unknown]
Probab=55.09 E-value=95 Score=30.59 Aligned_cols=101 Identities=22% Similarity=0.312 Sum_probs=73.9
Q ss_pred HHHHHHHHHH--------HHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHH
Q 027597 34 LMKEQLATFR--------SQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVE 105 (221)
Q Consensus 34 ~l~~ql~~F~--------~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIve 105 (221)
++...+..|+ +.|..||.=-.+||.=|---|.+.-.||.-++..|..+. .=+-|.|-.+|=+
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 6777777776 489999999999999999999999999999999988664 2345667777777
Q ss_pred Hhhhhccc--CCCc--ccHHHHHHHHHhhcCCCCCCCCHHHHHH
Q 027597 106 ICLATRPH--NGGL--INLQELCNLLRQRRKSNREAVSEDDCLR 145 (221)
Q Consensus 106 vC~~tr~~--nGGl--i~l~el~~~v~k~Rg~~~~~IS~~DI~r 145 (221)
+--.-++. -||. .++.|++..-+ .||+.+..+++++...
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 76644443 3433 55566664443 4777767788886443
No 100
>PRK07598 RNA polymerase sigma factor SigC; Validated
Probab=54.71 E-value=1.7e+02 Score=28.12 Aligned_cols=168 Identities=14% Similarity=0.237 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHH-------------------HHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCC------CC
Q 027597 27 VAKLRTDLMKEQLATFRS-------------------QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPL------AS 81 (221)
Q Consensus 27 l~~~~~~~l~~ql~~F~~-------------------~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL------~s 81 (221)
|+..+--+|.+|.+.+-. .|++.=.+-..++-..|++- +.+..+|+|+- ..
T Consensus 75 L~~~eEv~l~~~vq~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~g~~pt~~----ewa~~~~~~~~~l~~~l~~ 150 (415)
T PRK07598 75 LGRDEEVSEAQKVQRYMKLIVLANAAKEGDEVIKPYLRLIEVRERLTSELGHRPSLE----RWAKTADISLADLKPTLAE 150 (415)
T ss_pred CCHHHHHHHHHHHHHHHHHhhhhhhhhcccchhhhHHHHHHHHHHHHHHhCCCCCHH----HHHHHhCCcHHHHHHhhhh
Q ss_pred CCCccccccCc----------------cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHH
Q 027597 82 NKGFWAELLGI----------------GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLR 145 (221)
Q Consensus 82 ~k~~ws~~lG~----------------gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~r 145 (221)
.+..|++..|+ ...+..---.|+-+|......+ +++.||++-.+-+ +.+
T Consensus 151 ~~~~~~~~~~l~~~eL~~~l~~G~~A~e~LI~~nlrLVvsiAkky~~~g---~~~eDLiQEG~iG------------L~r 215 (415)
T PRK07598 151 GKRRWAEIAKLTVEELEQIQKQGLRAKEHMIKANLRLVVSVAKKYQNRG---LELLDLVQEGTLG------------LER 215 (415)
T ss_pred hhhhhhhhccCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHccCC---CCHHHHHHHHHHH------------HHH
Q ss_pred HHhhcccc-CCCeEEEEe-----------CCEEEEEecCcccchhHHHH----HHHHHhcCC-ccHHHHHHhcCCCHHHH
Q 027597 146 AISKLKVL-GNGYEVISV-----------GKKKLVRSVPTELNKDHNQI----LELAQAQGF-VTVDEVERRLSWTSGRA 208 (221)
Q Consensus 146 Ai~~L~~L-G~g~~vi~i-----------~~~~~v~Svp~Els~D~~~v----lel~~~~G~-vt~~~L~~~l~W~~~Ra 208 (221)
|++++.+= |..|..--+ ........+|.-++.-...+ -++.+..|. -|.+++++.+|++..+.
T Consensus 216 avekFDp~rG~rFSTYa~wwIRqaI~r~i~~~srtIrlP~~i~e~l~~lrk~~r~L~~~lgR~pt~~EiA~~l~is~~~v 295 (415)
T PRK07598 216 AVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIEDIAQELEMTPTQV 295 (415)
T ss_pred HHHHcCcccCCCHHHHHHHHHHHHHHHHHHHcCCceehhHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHH
Q ss_pred HHHHH
Q 027597 209 IDALD 213 (221)
Q Consensus 209 ~~~L~ 213 (221)
+.++.
T Consensus 296 r~~l~ 300 (415)
T PRK07598 296 REVLL 300 (415)
T ss_pred HHHHH
No 101
>PF14538 Raptor_N: Raptor N-terminal CASPase like domain
Probab=54.60 E-value=37 Score=27.94 Aligned_cols=80 Identities=19% Similarity=0.265 Sum_probs=47.4
Q ss_pred HHHHHcCCCCCCCCC-------CccccccCc--cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHh-hcCCCCCCC
Q 027597 69 EMCAKVGVDPLASNK-------GFWAELLGI--GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQ-RRKSNREAV 138 (221)
Q Consensus 69 ~mC~siGVDPL~s~k-------~~ws~~lG~--gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k-~Rg~~~~~I 138 (221)
-||..+|+||.-..+ -.|-+.... .++-.+++.+ +..-|..++. .|-+....-
T Consensus 10 ~lcln~g~dppd~~~~~~~ar~~cW~dp~~~~~~~~~~~I~~~-----------------l~~qY~~~~~~~~~~~~~dp 72 (154)
T PF14538_consen 10 VLCLNIGVDPPDVVKTSPCARLECWIDPSNMPPSKASEEIGKN-----------------LQSQYESWQPRARYKQSLDP 72 (154)
T ss_pred EEeecCCCCCCCccccCCCceEEEecCCcccCchhHHHHHHHH-----------------HHHHHHHhCccCcEEEecCC
Confidence 489999999986332 146543321 2333333222 3333444421 122223578
Q ss_pred CHHHHHHHHhhccc-cCCCeEEEEeCCE
Q 027597 139 SEDDCLRAISKLKV-LGNGYEVISVGKK 165 (221)
Q Consensus 139 S~~DI~rAi~~L~~-LG~g~~vi~i~~~ 165 (221)
|.+|+.+.|..++. -+++--++.++|-
T Consensus 73 t~e~~~~~~~~~R~~a~~~RvLFHYnGh 100 (154)
T PF14538_consen 73 TVEDLKRLCQSLRRNAKDERVLFHYNGH 100 (154)
T ss_pred CHHHHHHHHHHHHhhCCCceEEEEECCC
Confidence 99999999999964 5667777777654
No 102
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=54.59 E-value=28 Score=29.06 Aligned_cols=61 Identities=16% Similarity=0.185 Sum_probs=41.8
Q ss_pred cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCE-EEEEec
Q 027597 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKK-KLVRSV 171 (221)
Q Consensus 93 gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~-~~v~Sv 171 (221)
.+|||-.--.+++ ..+|=-++.++-.++. +.||.+++..|++.|..+| +|+-++. .|+++.
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-------LMPFAPDPEWIAKRLR-------PKISAEEVRDSLEFLEKLG----LIKKDGDGKYVQTD 83 (171)
T ss_pred hhhHHHHHHHHhh-------cCCCCCCHHHHHHHhc-------CCCCHHHHHHHHHHHHHCC----CeEECCCCcEEEec
Confidence 4667665444443 3344446777777665 4699999999999999998 6666543 677643
No 103
>PF03979 Sigma70_r1_1: Sigma-70 factor, region 1.1; InterPro: IPR007127 The bacterial core RNA polymerase complex, which consists of five subunits, 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 []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This entry represents Region 1.1 which modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase [, ]. Region 1.1 is also involved in promoter binding.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2K6X_A.
Probab=54.24 E-value=30 Score=25.20 Aligned_cols=34 Identities=24% Similarity=0.459 Sum_probs=21.8
Q ss_pred HHHHHHhcCCccHHHHHHhcC---CCHHHHHHHHHHH
Q 027597 182 ILELAQAQGFVTVDEVERRLS---WTSGRAIDALDIL 215 (221)
Q Consensus 182 vlel~~~~G~vt~~~L~~~l~---W~~~Ra~~~L~~l 215 (221)
+++.+...||||.++|.+.|. +++.....++..|
T Consensus 12 Li~~gK~~G~lT~~eI~~~L~~~~~~~e~id~i~~~L 48 (82)
T PF03979_consen 12 LIEKGKKKGYLTYDEINDALPEDDLDPEQIDEIYDTL 48 (82)
T ss_dssp HHHHHHHHSS-BHHHHHHH-S-S---HHHHHHHHHHH
T ss_pred HHHHHhhcCcCCHHHHHHHcCccCCCHHHHHHHHHHH
Confidence 566666799999999999886 6666655555443
No 104
>COG3877 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.82 E-value=46 Score=26.34 Aligned_cols=25 Identities=28% Similarity=0.498 Sum_probs=22.6
Q ss_pred ccChhHHHHHHHHHHHcCCCCCCCC
Q 027597 58 RKNPTFRSQFHEMCAKVGVDPLASN 82 (221)
Q Consensus 58 ~~dp~fR~~F~~mC~siGVDPL~s~ 82 (221)
-+-|++|.+|-+....+|..|.+-.
T Consensus 69 ~sYptvR~kld~vlramgy~p~~e~ 93 (122)
T COG3877 69 ISYPTVRTKLDEVLRAMGYNPDSEN 93 (122)
T ss_pred CccHHHHHHHHHHHHHcCCCCCCCC
Confidence 3679999999999999999999865
No 105
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=53.66 E-value=37 Score=22.61 Aligned_cols=29 Identities=24% Similarity=0.093 Sum_probs=25.9
Q ss_pred CCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 190 GFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 190 G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
+.+|..+|++.+|-++.-+...|+.|.++
T Consensus 24 ~~~s~~ela~~~g~s~~tv~r~l~~L~~~ 52 (67)
T cd00092 24 LPLTRQEIADYLGLTRETVSRTLKELEEE 52 (67)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 47999999999999999999999988763
No 106
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=53.65 E-value=33 Score=27.14 Aligned_cols=36 Identities=19% Similarity=0.314 Sum_probs=25.5
Q ss_pred HHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 182 ILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 182 vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
++.+....|++++++|++.+++++.-+...|..|.+
T Consensus 13 I~~l~~~~~~~~~~ela~~l~vs~~svs~~l~~L~~ 48 (142)
T PRK03902 13 IYLLIEEKGYARVSDIAEALSVHPSSVTKMVQKLDK 48 (142)
T ss_pred HHHHHhcCCCcCHHHHHHHhCCChhHHHHHHHHHHH
Confidence 344455567788888888888887777777776654
No 107
>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=52.93 E-value=16 Score=26.06 Aligned_cols=27 Identities=26% Similarity=0.759 Sum_probs=20.0
Q ss_pred cccccChhHHHHHHHHHHHcCCCCCCCC
Q 027597 55 NDIRKNPTFRSQFHEMCAKVGVDPLASN 82 (221)
Q Consensus 55 ~eI~~dp~fR~~F~~mC~siGVDPL~s~ 82 (221)
.+++....+ ..++.+|...|+||+..+
T Consensus 21 ~~~~~~~vy-~~Y~~~c~~~~~~~l~~~ 47 (87)
T cd08768 21 EEATTGEVY-EVYEELCEEIGVDPLTQR 47 (87)
T ss_pred CCccHHHHH-HHHHHHHHHcCCCCCcHH
Confidence 455544444 589999999999998753
No 108
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=52.80 E-value=16 Score=25.46 Aligned_cols=46 Identities=22% Similarity=0.250 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccccChh-HHHHHHHHHHHcCCCC
Q 027597 32 TDLMKEQLATFRSQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDP 78 (221)
Q Consensus 32 ~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~-fR~~F~~mC~siGVDP 78 (221)
+++++.++..=...|+..=...- +.-.+|. .|.-+++||.-+|+||
T Consensus 13 l~~va~~t~I~~~~l~aiE~~~~-~~lp~~~y~rg~lr~Ya~~Lgld~ 59 (62)
T PF13413_consen 13 LEDVAEETKISVSYLEAIENGDF-DSLPSPVYARGYLRKYARFLGLDP 59 (62)
T ss_dssp HHHHHHHCS--HHHHHHHHCT-G-CCSSSHHHHHHHHHHHHHHTT--H
T ss_pred HHHHHHHhCCCHHHHHHHHCcCh-hhCCcHHHHHHHHHHHHHHhCcCc
Confidence 45555555554555554322222 3333555 5889999999999996
No 109
>PRK13558 bacterio-opsin activator; Provisional
Probab=52.76 E-value=46 Score=32.63 Aligned_cols=68 Identities=18% Similarity=0.234 Sum_probs=51.2
Q ss_pred CHHHHHHHHhhccccCCCeEEEEeCCEEE-EE-------ecCcccchhHHHHHHHHHhcCC------ccHHHHHHhcCCC
Q 027597 139 SEDDCLRAISKLKVLGNGYEVISVGKKKL-VR-------SVPTELNKDHNQILELAQAQGF------VTVDEVERRLSWT 204 (221)
Q Consensus 139 S~~DI~rAi~~L~~LG~g~~vi~i~~~~~-v~-------Svp~Els~D~~~vlel~~~~G~------vt~~~L~~~l~W~ 204 (221)
+.+|+-..+..|..-..+++++.+....= .. .....|+..|..+|+.|-..|| +|.++|++.||.+
T Consensus 564 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lt~~q~e~l~~a~~~gyf~~pr~~~~~e~a~~l~is 643 (665)
T PRK13558 564 TEAAGRAVVETLRDRYAGAELVSYTERDDPGETPDEFRASLENDLTDRQLTALQKAYVSGYFEWPRRVEGEELAESMGIS 643 (665)
T ss_pred CCccHHHHHHHHHhhcCCcEEEEEEeecCCCcchhhHHHHhhhhCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCC
Confidence 56777777777777666888877653210 00 1113699999999999999999 6999999999998
Q ss_pred HH
Q 027597 205 SG 206 (221)
Q Consensus 205 ~~ 206 (221)
+.
T Consensus 644 ~~ 645 (665)
T PRK13558 644 RS 645 (665)
T ss_pred HH
Confidence 75
No 110
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=52.60 E-value=31 Score=30.83 Aligned_cols=46 Identities=28% Similarity=0.363 Sum_probs=38.4
Q ss_pred cCcccchhHHHHHHHHHh-cCCccHHHHHHhcCCCHHHHHHHHHHHH
Q 027597 171 VPTELNKDHNQILELAQA-QGFVTVDEVERRLSWTSGRAIDALDILL 216 (221)
Q Consensus 171 vp~Els~D~~~vlel~~~-~G~vt~~~L~~~l~W~~~Ra~~~L~~l~ 216 (221)
.+..|+.|...|+++... .|.++.++|++.+|.++.-.-..|.+|-
T Consensus 189 ~~~~L~~~e~~il~~i~~~GGri~Q~eL~r~lglsktTvsR~L~~LE 235 (258)
T COG2512 189 NEYDLNEDEKEILDLIRERGGRITQAELRRALGLSKTTVSRILRRLE 235 (258)
T ss_pred ccCCCCHHHHHHHHHHHHhCCEEeHHHHHHhhCCChHHHHHHHHHHH
Confidence 346799999999999876 6779999999999999887777776664
No 111
>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=52.02 E-value=40 Score=23.33 Aligned_cols=48 Identities=19% Similarity=0.272 Sum_probs=36.2
Q ss_pred cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccC
Q 027597 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLG 154 (221)
Q Consensus 93 gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG 154 (221)
.|.|-+++.+|++++.. -|-.++.++.+..+ ++++.|..|+-.|-..|
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 58899999999999986 46778998886543 79999999988775443
No 112
>PRK03187 tgl transglutaminase; Provisional
Probab=51.88 E-value=21 Score=32.34 Aligned_cols=43 Identities=30% Similarity=0.579 Sum_probs=30.4
Q ss_pred CCCCCC-CCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCC
Q 027597 77 DPLASN-KGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSN 134 (221)
Q Consensus 77 DPL~s~-k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~ 134 (221)
||-++. .|-|+=.|| +++||.-+. ||.+-++++..||+.|...
T Consensus 180 ~p~tp~WqGeNaiyLg-n~~yyGHGi--------------GI~t~~~iI~~LN~~R~~~ 223 (272)
T PRK03187 180 NPATPEWQGENVIYLG-NGLYYGHGI--------------GIKTAEEIIYALNERRKPG 223 (272)
T ss_pred CCCCCcccceeEEEec-CCceeeccc--------------ccccHHHHHHHHHhccCCC
Confidence 564443 455665577 456766532 9999999999999998654
No 113
>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=51.70 E-value=34 Score=29.84 Aligned_cols=60 Identities=22% Similarity=0.380 Sum_probs=39.8
Q ss_pred HHHHHHHHhhcccccChh-HHHHHHHHHHHcCCCCCCCCCCccccccC-ccchHHHHHHHHHH
Q 027597 45 QLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDPLASNKGFWAELLG-IGDFYYELGVQIVE 105 (221)
Q Consensus 45 ~L~~Fa~kh~~eI~~dp~-fR~~F~~mC~siGVDPL~s~k~~ws~~lG-~gdfy~eLavqIve 105 (221)
.-.+|++++-+..+++=+ .=..|+.++.+..+||-..+..+- +.++ .|+=|.++|.-..|
T Consensus 34 ~~~e~~kk~~~~~KkEyqkiG~af~~LsqaF~~d~~~~s~~L~-~Av~~tg~~y~~IG~~fae 95 (207)
T cd07670 34 TANEFARKQVTGFKKEYQKVGQSFKGLSQAFELDQQAFSAGLN-QAIAFTGEAYEAIGELFAE 95 (207)
T ss_pred HHHHHHHHHhccccHHHHHHHHHHHHHHHHHccCCcccchHHH-HHHHHHHHHHHHHHHHHHh
Confidence 556788888888887765 334499999999999865443332 2222 36777776654443
No 114
>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=51.24 E-value=20 Score=29.80 Aligned_cols=55 Identities=15% Similarity=0.253 Sum_probs=44.5
Q ss_pred HHHHHHHHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCC
Q 027597 15 VARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGV 76 (221)
Q Consensus 15 ~~~~~~~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGV 76 (221)
++.+-..++|.+|-..+.+.-.++++-..+.|+.-..+.+.+.++| ..|+.++||
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 5677889999999988888888888888888888877777776666 477888875
No 115
>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=50.72 E-value=10 Score=28.91 Aligned_cols=17 Identities=29% Similarity=0.595 Sum_probs=15.1
Q ss_pred HHHHHHHHcCCCCCCCC
Q 027597 66 QFHEMCAKVGVDPLASN 82 (221)
Q Consensus 66 ~F~~mC~siGVDPL~s~ 82 (221)
=|++||..|||+|.+..
T Consensus 27 llqEm~~gLg~~p~ag~ 43 (93)
T PF07216_consen 27 LLQEMLEGLGLGPVAGE 43 (93)
T ss_pred HHHHHHHhcCCChhHHH
Confidence 49999999999999865
No 116
>PRK08307 stage III sporulation protein SpoAB; Provisional
Probab=50.48 E-value=21 Score=29.75 Aligned_cols=55 Identities=13% Similarity=0.185 Sum_probs=44.8
Q ss_pred HHHHHHHHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCC
Q 027597 15 VARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGV 76 (221)
Q Consensus 15 ~~~~~~~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGV 76 (221)
++.+...++|.++-..+.+.-.++++-..+.|+.-..+.+.+.++|. .|+.++||
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 66788899999999888888888888888888888777777777764 67777775
No 117
>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=50.32 E-value=34 Score=25.44 Aligned_cols=67 Identities=13% Similarity=0.072 Sum_probs=50.3
Q ss_pred HHHHHHHHcCCC--CCCCCCCccccccCc---------cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCC
Q 027597 66 QFHEMCAKVGVD--PLASNKGFWAELLGI---------GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSN 134 (221)
Q Consensus 66 ~F~~mC~siGVD--PL~s~k~~ws~~lG~---------gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~ 134 (221)
+|...|..||-| .|+. -||+ .++=..+..|+.+....=+...|.-=+...|+..+++
T Consensus 6 ~l~~Ia~~LG~dW~~Lar-------~L~vs~~dI~~I~~e~p~~l~~Q~~~~L~~W~~r~g~~At~~~L~~AL~~----- 73 (84)
T cd08805 6 KMAVIREHLGLSWAELAR-------ELQFSVEDINRIRVENPNSLLEQSTALLNLWVDREGENAKMSPLYPALYS----- 73 (84)
T ss_pred HHHHHHHHhcchHHHHHH-------HcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcCccchHHHHHHHHHH-----
Confidence 488999999988 2222 2555 3455568888888888888888888888899988887
Q ss_pred CCCCCHHHHHHHH
Q 027597 135 REAVSEDDCLRAI 147 (221)
Q Consensus 135 ~~~IS~~DI~rAi 147 (221)
|.-+||+.-+
T Consensus 74 ---i~R~div~~~ 83 (84)
T cd08805 74 ---IDRLTIVNML 83 (84)
T ss_pred ---CChHHHHHhh
Confidence 6778887654
No 118
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=48.74 E-value=29 Score=21.50 Aligned_cols=28 Identities=21% Similarity=0.127 Sum_probs=24.5
Q ss_pred CccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 191 FVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 191 ~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.+|..+|++.+|.+..-+..+|..|.++
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~ 35 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTLKRLEKE 35 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 4789999999999999999999988763
No 119
>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=48.55 E-value=15 Score=27.88 Aligned_cols=18 Identities=28% Similarity=0.576 Sum_probs=15.4
Q ss_pred HHHHHHHHHcCCCCCCCC
Q 027597 65 SQFHEMCAKVGVDPLASN 82 (221)
Q Consensus 65 ~~F~~mC~siGVDPL~s~ 82 (221)
.=|++||.+|||-|.+..
T Consensus 23 ~llqEm~~gLgl~p~ag~ 40 (90)
T TIGR02573 23 DLLQEMWQGLGLGPVAGE 40 (90)
T ss_pred HHHHHHHHHcCCChHHHH
Confidence 349999999999998754
No 120
>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=48.30 E-value=44 Score=31.76 Aligned_cols=49 Identities=16% Similarity=0.278 Sum_probs=41.3
Q ss_pred CCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
.|.+++.++++.++..+.|+.+ +..+|--.|.|-..|...+++++...+
T Consensus 287 ~t~e~~~~~i~~lr~~~p~i~i----~~d~IvGfPgET~edf~~tl~~l~~~~ 335 (448)
T PRK14333 287 YTHEKYRRIIDKIREYMPDASI----SADAIVGFPGETEAQFENTLKLVEEIG 335 (448)
T ss_pred CCHHHHHHHHHHHHHhCCCcEE----EeeEEEECCCCCHHHHHHHHHHHHHcC
Confidence 6999999999999998777665 345677789999999999999998755
No 121
>TIGR01558 sm_term_P27 phage terminase, small subunit, putative, P27 family. Members tend to be adjacent to the phage terminase large subunit gene.
Probab=47.99 E-value=85 Score=24.11 Aligned_cols=26 Identities=19% Similarity=0.447 Sum_probs=20.3
Q ss_pred cccChhH------HHHHHHHHHHcCCCCCCCC
Q 027597 57 IRKNPTF------RSQFHEMCAKVGVDPLASN 82 (221)
Q Consensus 57 I~~dp~f------R~~F~~mC~siGVDPL~s~ 82 (221)
++.||.+ .++++++|..+|.+|-+..
T Consensus 66 ~k~nPa~~i~~~a~~~~~~l~~elGLtP~sR~ 97 (116)
T TIGR01558 66 PKANPALTVVEDAFKQLRSIGSALGLTPSSRS 97 (116)
T ss_pred eecChHHHHHHHHHHHHHHHHHHcCCCHHHHH
Confidence 4578865 4678999999999998643
No 122
>PF04337 DUF480: Protein of unknown function, DUF480; InterPro: IPR007432 This family consists of several proteins of uncharacterised function.; PDB: 3BZ6_A.
Probab=47.95 E-value=1.6e+02 Score=24.42 Aligned_cols=99 Identities=21% Similarity=0.227 Sum_probs=55.2
Q ss_pred ccHHHHHHHHHhhcCCC-CCCCCHHHHHHHHhhccccCCCeEEEEeCCE--EEEEecC--cccchhHHHHHHHHHhcCCc
Q 027597 118 INLQELCNLLRQRRKSN-REAVSEDDCLRAISKLKVLGNGYEVISVGKK--KLVRSVP--TELNKDHNQILELAQAQGFV 192 (221)
Q Consensus 118 i~l~el~~~v~k~Rg~~-~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~--~~v~Svp--~Els~D~~~vlel~~~~G~v 192 (221)
++|.-|...-|..-+-. .-.+|++||..|++.|+..|-=.. ...|++ +|=.-.. -.++.++.+|+-+.=-.|-=
T Consensus 25 LtLNaL~~aCNQKsnR~PVm~l~e~eV~~ald~L~~~~Lv~~-~~~gsRv~ky~Hr~~~~l~l~~~e~All~~LlLRGpQ 103 (148)
T PF04337_consen 25 LTLNALTTACNQKSNREPVMNLSESEVQAALDELRAKGLVRE-SGFGSRVAKYEHRFCNTLQLSPQELALLCLLLLRGPQ 103 (148)
T ss_dssp EEHHHHHHHHT-SSS-SS-----HHHHHHHHHHHHHTTSEEE--E--SS--EEEE-HHHHHT--HHHHHHHHHHHHH-SB
T ss_pred chHHHHHHHhccccccCccccCCHHHHHHHHHHHHHCcCeee-cCCCcchHHHHhhhhhhcCCCHHHHHHHHHHHHcCCC
Confidence 34555555555543221 236899999999999998774333 233432 2322222 36788887777766668999
Q ss_pred cHHHHHHhcC-C----CHHHHHHHHHHHHH
Q 027597 193 TVDEVERRLS-W----TSGRAIDALDILLE 217 (221)
Q Consensus 193 t~~~L~~~l~-W----~~~Ra~~~L~~l~~ 217 (221)
|+.+|+.+-+ | +..-.+++|+.|..
T Consensus 104 T~GELR~Rs~Rl~~F~d~~~Ve~~L~~L~~ 133 (148)
T PF04337_consen 104 TPGELRTRSERLHEFADVAEVEAVLERLAE 133 (148)
T ss_dssp -HHHHHHHHTTTS--SSHHHHHHHHHHHHH
T ss_pred chhHHHhhhccccCCCCHHHHHHHHHHHHh
Confidence 9999987654 2 56667778877764
No 123
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=47.94 E-value=1.8e+02 Score=25.11 Aligned_cols=48 Identities=6% Similarity=0.054 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcc-cccChhHHHHHHHHHHHcC-CCC
Q 027597 31 RTDLMKEQLATFRSQLEDFARKHKND-IRKNPTFRSQFHEMCAKVG-VDP 78 (221)
Q Consensus 31 ~~~~l~~ql~~F~~~L~~Fa~kh~~e-I~~dp~fR~~F~~mC~siG-VDP 78 (221)
+.+........+...+-.+|.++.+. ...+..+..-|-.+..++. .||
T Consensus 35 d~~a~~~l~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~ 84 (258)
T PRK08215 35 DKEAREKLINGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKAIDNFDL 84 (258)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCC
Confidence 44567778888888888888886543 3333445555666666553 344
No 124
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=47.41 E-value=35 Score=21.93 Aligned_cols=29 Identities=17% Similarity=0.119 Sum_probs=25.4
Q ss_pred CCc-cHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 190 GFV-TVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 190 G~v-t~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
..+ |..+|++.+|.+..=+..+|..|.++
T Consensus 18 ~~l~s~~~la~~~~vs~~tv~~~l~~L~~~ 47 (60)
T smart00345 18 DKLPSERELAAQLGVSRTTVREALSRLEAE 47 (60)
T ss_pred CcCcCHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 356 89999999999999999999988763
No 125
>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=46.83 E-value=1e+02 Score=21.87 Aligned_cols=75 Identities=12% Similarity=0.179 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHH--HhhcccccChhHHHHHHHHHHH-cCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhh
Q 027597 34 LMKEQLATFRSQLEDFAR--KHKNDIRKNPTFRSQFHEMCAK-VGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLAT 110 (221)
Q Consensus 34 ~l~~ql~~F~~~L~~Fa~--kh~~eI~~dp~fR~~F~~mC~s-iGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~t 110 (221)
++.++++.++.....|-+ .+.+-|..+ .|.+++.. +|..|-.. ++ ...|-++....
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 467889999999999999 688888664 45566654 44321100 00 01122222222
Q ss_pred cccCCCcccHHHHHHHHHh
Q 027597 111 RPHNGGLINLQELCNLLRQ 129 (221)
Q Consensus 111 r~~nGGli~l~el~~~v~k 129 (221)
-..+.|.|++.+.+..+.+
T Consensus 61 d~~~~g~I~f~eF~~~~~~ 79 (88)
T cd00213 61 DVNKDGKVDFQEFLVLIGK 79 (88)
T ss_pred ccCCCCcCcHHHHHHHHHH
Confidence 3344588999998877765
No 126
>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=46.69 E-value=17 Score=26.91 Aligned_cols=25 Identities=16% Similarity=0.388 Sum_probs=21.6
Q ss_pred ccccChhHHHHHHHHHHHcCCCCCC
Q 027597 56 DIRKNPTFRSQFHEMCAKVGVDPLA 80 (221)
Q Consensus 56 eI~~dp~fR~~F~~mC~siGVDPL~ 80 (221)
.|+=|++.+.++.+.|.++|++|-.
T Consensus 6 ~~Rvd~~lK~~a~~i~~~lGl~~s~ 30 (83)
T TIGR02384 6 SIRIDEELKKEAYAVFEELGLTPST 30 (83)
T ss_pred EEeeCHHHHHHHHHHHHHhCCCHHH
Confidence 3677999999999999999999653
No 127
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=46.56 E-value=90 Score=21.12 Aligned_cols=45 Identities=29% Similarity=0.358 Sum_probs=29.6
Q ss_pred ccchhHHHHHHHHHhcCCccHHHH----HHhcCCCHHHHHHHHHHHHHHhc
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEV----ERRLSWTSGRAIDALDILLEVLQ 220 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L----~~~l~W~~~Ra~~~L~~l~~~~~ 220 (221)
.||.--..|++++. |-.|++++ .+.++.++..++.-+..++.+|.
T Consensus 14 ~Ln~~a~~Iw~~~~--g~~t~~ei~~~l~~~y~~~~~~~~~dv~~fl~~L~ 62 (68)
T PF05402_consen 14 TLNETAAFIWELLD--GPRTVEEIVDALAEEYDVDPEEAEEDVEEFLEQLR 62 (68)
T ss_dssp ---THHHHHHHH----SSS-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH
T ss_pred cccHHHHHHHHHcc--CCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 56777777889884 55776665 56889999999999999998874
No 128
>smart00843 Ftsk_gamma This domain directs oriented DNA translocation and forms a winged helix structure. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding.
Probab=46.41 E-value=43 Score=23.73 Aligned_cols=37 Identities=27% Similarity=0.281 Sum_probs=32.0
Q ss_pred HHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 181 QILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 181 ~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.+.+++-..+.+|++.|+..|..-=.||-..+|.|=.
T Consensus 9 ~a~~~V~~~~~~S~S~lQR~~~IGynrAariid~lE~ 45 (63)
T smart00843 9 EAVELVIETQKASTSLLQRRLRIGYNRAARLIDQLEE 45 (63)
T ss_pred HHHHHHHHhCCCChHHHHHHHhcchhHHHHHHHHHHH
Confidence 4667777789999999999999999999999998854
No 129
>PRK05572 sporulation sigma factor SigF; Validated
Probab=45.89 E-value=2e+02 Score=24.84 Aligned_cols=45 Identities=7% Similarity=0.020 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc-ccccChhHHHHHHHHHHHcC
Q 027597 31 RTDLMKEQLATFRSQLEDFARKHKN-DIRKNPTFRSQFHEMCAKVG 75 (221)
Q Consensus 31 ~~~~l~~ql~~F~~~L~~Fa~kh~~-eI~~dp~fR~~F~~mC~siG 75 (221)
+.+.+...+..+...+-.||.++.+ ..-.+..+..-|-.+...+.
T Consensus 30 d~~a~~~L~~~y~~~v~~~a~~~~~~~~~aeDl~Qe~~l~l~~~~~ 75 (252)
T PRK05572 30 DQEARDTLVEKNLRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKAVD 75 (252)
T ss_pred CHHHHHHHHHHhHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHH
Confidence 4456788888889999999998754 33344456666776666654
No 130
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=45.80 E-value=42 Score=25.19 Aligned_cols=43 Identities=19% Similarity=0.271 Sum_probs=31.4
Q ss_pred cchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 175 ls~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
...++..|+++.-..|.++.++|+..+|.+..=.+.+|..|..
T Consensus 11 yg~~~~~Il~~L~~~~~l~de~la~~~~l~~~~vRkiL~~L~~ 53 (105)
T PF02002_consen 11 YGEEAVRILDALLRKGELTDEDLAKKLGLKPKEVRKILYKLYE 53 (105)
T ss_dssp S-STTHHHHHHHHHH--B-HHHHHHTT-S-HHHHHHHHHHHHH
T ss_pred cCchHHHHHHHHHHcCCcCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 3556778888888789999999999999999888888887764
No 131
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=45.77 E-value=1.4e+02 Score=23.05 Aligned_cols=90 Identities=19% Similarity=0.281 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCccc
Q 027597 96 YYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTEL 175 (221)
Q Consensus 96 y~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~El 175 (221)
-+.|-.+|++.+.. |+ +..++..+++ ||..-|.+-++. ...| .+..- ..+. + .+
T Consensus 4 S~DlR~rVl~~~~~-----g~--s~~eaa~~F~---------VS~~Tv~~W~k~-~~~G-~~~~k-~r~~------~-Ki 57 (119)
T PF01710_consen 4 SLDLRQRVLAYIEK-----GK--SIREAAKRFG---------VSRNTVYRWLKR-KETG-DLEPK-PRGR------K-KI 57 (119)
T ss_pred CHHHHHHHHHHHHc-----cc--hHHHHHHHhC---------cHHHHHHHHHHh-cccc-ccccc-cccc------c-cc
Confidence 35666777776654 33 5666665543 888889988883 3334 22211 1111 1 44
Q ss_pred chhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHH
Q 027597 176 NKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALD 213 (221)
Q Consensus 176 s~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~ 213 (221)
+.| .+.++++..+-+|..+|++.||.+..-...+|.
T Consensus 58 d~~--~L~~~v~~~pd~tl~Ela~~l~Vs~~ti~~~Lk 93 (119)
T PF01710_consen 58 DRD--ELKALVEENPDATLRELAERLGVSPSTIWRALK 93 (119)
T ss_pred cHH--HHHHHHHHCCCcCHHHHHHHcCCCHHHHHHHHH
Confidence 444 488888999999999999999986655554443
No 132
>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=45.47 E-value=46 Score=31.66 Aligned_cols=50 Identities=20% Similarity=0.312 Sum_probs=41.6
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+|+.++++.++..+.|+.+ +..+|--.|.|--.|....++++...+
T Consensus 280 ~~t~e~~~~~v~~lr~~~~~i~i----~~d~IvG~PgET~ed~~~tl~~l~~~~ 329 (446)
T PRK14337 280 KYDMARYLDIVTDLRAARPDIAL----TTDLIVGFPGETEEDFEQTLEAMRTVG 329 (446)
T ss_pred CCCHHHHHHHHHHHHHhCCCCeE----EEeEEEECCCCCHHHHHHHHHHHHhcC
Confidence 47899999999999988777654 345777889999999999999998754
No 133
>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=45.45 E-value=50 Score=31.21 Aligned_cols=50 Identities=16% Similarity=0.280 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+++.++++.++....|+.+.. .+|--.|.|-..|...+++++...+
T Consensus 261 ~~t~~~~~~~v~~lr~~~p~i~i~~----d~IvGfPgETeedf~~Tl~fl~~l~ 310 (420)
T PRK14339 261 GYTKEWFLNRAEKLRALVPEVSIST----DIIVGFPGESDKDFEDTMDVLEKVR 310 (420)
T ss_pred CCCHHHHHHHHHHHHHHCCCCEEEE----EEEEECCCCCHHHHHHHHHHHHhcC
Confidence 4689999999999998877776533 4666789999999999999998644
No 134
>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=45.17 E-value=31 Score=24.10 Aligned_cols=26 Identities=23% Similarity=0.383 Sum_probs=13.9
Q ss_pred ccHHHHHHHHHhhcCCCCCCCCHHHHHHHH
Q 027597 118 INLQELCNLLRQRRKSNREAVSEDDCLRAI 147 (221)
Q Consensus 118 i~l~el~~~v~k~Rg~~~~~IS~~DI~rAi 147 (221)
|++.|....+.+.|.+ ||++||.+=.
T Consensus 30 it~~DF~~Al~~~kpS----Vs~~dl~~ye 55 (62)
T PF09336_consen 30 ITMEDFEEALKKVKPS----VSQEDLKKYE 55 (62)
T ss_dssp BCHHHHHHHHHTCGGS----S-HHHHHHHH
T ss_pred CCHHHHHHHHHHcCCC----CCHHHHHHHH
Confidence 4555566566655544 6666665533
No 135
>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=44.86 E-value=42 Score=31.80 Aligned_cols=50 Identities=18% Similarity=0.300 Sum_probs=40.6
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+|+.++++.++....|+.+ +..+|--.|.|--.|...+++++...+
T Consensus 276 ~~t~~~~~~~v~~lr~~~~gi~i----~~d~IvG~PgET~ed~~~tl~~l~~l~ 325 (437)
T PRK14331 276 GYTKEEYLEKIELLKEYIPDITF----STDIIVGFPTETEEDFEETLDVLKKVE 325 (437)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----ecCEEEECCCCCHHHHHHHHHHHHhcC
Confidence 47999999999999987667765 334566689999999999999998754
No 136
>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=44.26 E-value=13 Score=29.90 Aligned_cols=53 Identities=21% Similarity=0.427 Sum_probs=34.9
Q ss_pred cccChhHH--HHHHHHHHHcCCCCCC---CCCCccccccCcc-chHHHHHHHHHHHhhh
Q 027597 57 IRKNPTFR--SQFHEMCAKVGVDPLA---SNKGFWAELLGIG-DFYYELGVQIVEICLA 109 (221)
Q Consensus 57 I~~dp~fR--~~F~~mC~siGVDPL~---s~k~~ws~~lG~g-dfy~eLavqIvevC~~ 109 (221)
-.+.|+|. .-|...|...|||||. .-.|.|.+-.|++ +-+.+.-.+|-++|.+
T Consensus 29 y~~SpEy~Dl~l~L~~~k~~g~~~lfVi~PvNg~wydytG~~~~~r~~~y~kI~~~~~~ 87 (130)
T PF04914_consen 29 YTKSPEYDDLQLLLDVCKELGIDVLFVIQPVNGKWYDYTGLSKEMRQEYYKKIKYQLKS 87 (130)
T ss_dssp -SS-THHHHHHHHHHHHHHTT-EEEEEE----HHHHHHTT--HHHHHHHHHHHHHHHHT
T ss_pred ccCCccHHHHHHHHHHHHHcCCceEEEecCCcHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 44466653 2477889999999995 4457899888864 7777777888888875
No 137
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=44.13 E-value=48 Score=25.15 Aligned_cols=39 Identities=15% Similarity=0.249 Sum_probs=29.8
Q ss_pred cchhHHHH--HHHHH--hcCCccHHHHHHhcCCCHHHHHHHHH
Q 027597 175 LNKDHNQI--LELAQ--AQGFVTVDEVERRLSWTSGRAIDALD 213 (221)
Q Consensus 175 ls~D~~~v--lel~~--~~G~vt~~~L~~~l~W~~~Ra~~~L~ 213 (221)
||.+|... -|+-+ ..--+|.+++++.||+|..+.+.||+
T Consensus 3 Ln~~Q~~~T~~ELq~nf~~~~ls~~~ia~dL~~s~~~le~vL~ 45 (89)
T PF10078_consen 3 LNPEQRRATRQELQANFELSGLSLEQIAADLGTSPEHLEQVLN 45 (89)
T ss_pred CCHHHHHHHHHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHc
Confidence 56666654 23333 36779999999999999999999985
No 138
>TIGR03060 PS_II_psb29 photosystem II biogenesis protein Psp29. Psp29, originally designated sll1414 in Synechocystis 6803, is found universally in Cyanobacteria and in Arabidopsis. It was isolated and partially sequenced from purified photosystem II (PS II) in Synechocystis. While its function is unknown, mutant studies show an impairment in photosystem II biogenesis and/or stability, rather than in PS II core function.
Probab=44.08 E-value=2.2e+02 Score=24.93 Aligned_cols=61 Identities=23% Similarity=0.377 Sum_probs=37.0
Q ss_pred HHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHH
Q 027597 44 SQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQEL 123 (221)
Q Consensus 44 ~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el 123 (221)
+.+..|-.-|+.+=..+ .=|.++|.++|-||- =|.+-|.++.+.- +|. +.+|+
T Consensus 58 t~fd~fm~GY~Pee~~~----~IF~Alc~a~~~dp~---------------~~r~dA~~l~~~a-------~~~-s~~~i 110 (214)
T TIGR03060 58 TVFDRFMEGYRPEEHLD----ALFDALCNSNGFDPE---------------QLREDAKQLLEQA-------KGK-GLDEI 110 (214)
T ss_pred HHHHHHHcCCCChHHHH----HHHHHHHHhcCCCHH---------------HHHHHHHHHHHHH-------hcC-CHHHH
Confidence 35555655555432222 347799999999974 3556666665533 222 57777
Q ss_pred HHHHHhhc
Q 027597 124 CNLLRQRR 131 (221)
Q Consensus 124 ~~~v~k~R 131 (221)
...+....
T Consensus 111 ~~~l~~~~ 118 (214)
T TIGR03060 111 LSWLTQAN 118 (214)
T ss_pred HHHHhccc
Confidence 77777654
No 139
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=44.07 E-value=72 Score=23.63 Aligned_cols=36 Identities=14% Similarity=0.147 Sum_probs=31.2
Q ss_pred HHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 182 ILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 182 vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
|-++.+..|.++..+|+..++-+..-.+.-|+.+++
T Consensus 7 lRd~l~~~gr~s~~~Ls~~~~~p~~~VeaMLe~l~~ 42 (78)
T PRK15431 7 VRDLLALRGRMEAAQISQTLNTPQPMINAMLQQLES 42 (78)
T ss_pred HHHHHHHcCcccHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 455667789999999999999999999998888875
No 140
>COG1709 Predicted transcriptional regulator [Transcription]
Probab=43.83 E-value=49 Score=29.37 Aligned_cols=142 Identities=26% Similarity=0.356 Sum_probs=84.4
Q ss_pred HHHHHHHHHhhccc--ccCh--h---HHHHH----HHHHHHcCCCCCCCC---CCccccccCccchHHHHHHHHHHHhhh
Q 027597 44 SQLEDFARKHKNDI--RKNP--T---FRSQF----HEMCAKVGVDPLASN---KGFWAELLGIGDFYYELGVQIVEICLA 109 (221)
Q Consensus 44 ~~L~~Fa~kh~~eI--~~dp--~---fR~~F----~~mC~siGVDPL~s~---k~~ws~~lG~gdfy~eLavqIvevC~~ 109 (221)
..-+.-|.+-.+|| .+|| + .|.-| .+.+.-|||-|-.-+ +|- ..... ...-.++|+....
T Consensus 9 ~~~~~va~rIaGdIvlS~~pge~lrKWR~~F~vSQ~elA~~l~vSpSVISDYE~GR--Rk~Pg----~~~vkk~V~ALIe 82 (241)
T COG1709 9 YPRELLAKRIAGDIVLSEDPGETLRKWREIFNVSQTELARELGVSPSVISDYESGR--RKSPG----IAFVKKFVEALIE 82 (241)
T ss_pred HHHHHHHHHhhcceEecCChhHHHHHHHHHhCccHHHHHHHhCCCcceeehhhccC--ccCcc----HHHHHHHHHHHHh
Confidence 34445566666777 4566 2 33334 356777999988643 110 00000 2345678888888
Q ss_pred hcccCCCcccHHHHHHHHHhhcCCC--------CCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHH
Q 027597 110 TRPHNGGLINLQELCNLLRQRRKSN--------REAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQ 181 (221)
Q Consensus 110 tr~~nGGli~l~el~~~v~k~Rg~~--------~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~ 181 (221)
.-.+.||-. ++.+-+.+...-.+. ...|+.+++.+|++-=-+-+.+... ++-|-++|-|+ .+
T Consensus 83 ID~eRGg~v-ik~l~~~l~~~~~~~aildirEf~~pv~l~~~~~aidg~~v~~~~~~~-~v~GyTVvDSi--------kA 152 (241)
T COG1709 83 IDEERGGKV-IKALARVLGSEFPSKAILDIREFDIPVTLEELVEAIDGEIVVHDGADR-DVYGYTVVDSI--------KA 152 (241)
T ss_pred hhHhhcchH-HHHHHHHhccCCchhheEehhhcCCCcCHHHHHHHhcceEecccCCCc-ceeeeEEehhH--------HH
Confidence 888999876 677776666644322 3479999999999854332222211 12244444443 44
Q ss_pred HHHHHHhcCCccHHHHHHhcCCCHHHH
Q 027597 182 ILELAQAQGFVTVDEVERRLSWTSGRA 208 (221)
Q Consensus 182 vlel~~~~G~vt~~~L~~~l~W~~~Ra 208 (221)
||+ +|..+...-|||+..||
T Consensus 153 IL~-------ls~~ef~~LyG~~t~Ra 172 (241)
T COG1709 153 ILE-------LSGLEFYRLYGWTTERA 172 (241)
T ss_pred HHh-------cchhhHHHHhcCCcceE
Confidence 555 35557778899999986
No 141
>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=43.68 E-value=60 Score=31.07 Aligned_cols=50 Identities=10% Similarity=0.302 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+++.++++.++..+.++.+. ..+|--.|.|--.|...+++++...+
T Consensus 282 ~~t~~~~~~~i~~lr~~~p~i~i~----td~IvGfPgET~edf~~tl~~v~~l~ 331 (449)
T PRK14332 282 SYSKEEFLDVVKEIRNIVPDVGIT----TDIIVGFPNETEEEFEDTLAVVREVQ 331 (449)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEEE----EEEEeeCCCCCHHHHHHHHHHHHhCC
Confidence 479999999999999887777653 34666789999999999999998755
No 142
>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=43.48 E-value=60 Score=31.03 Aligned_cols=50 Identities=20% Similarity=0.307 Sum_probs=40.8
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+|+.++++.++....|+.+ +..+|-=.|.|-..|...+++++.+.+
T Consensus 289 ~~t~e~~~~~v~~ir~~~pgi~i----~~d~IvGfPgET~edf~~Tl~~i~~l~ 338 (455)
T PRK14335 289 SYTREHYLSLVGKLKASIPNVAL----STDILIGFPGETEEDFEQTLDLMREVE 338 (455)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----EEEEEEeCCCCCHHHHHHHHHHHHhcC
Confidence 47899999999999988667755 335666689999999999999998754
No 143
>PRK14330 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=43.42 E-value=57 Score=30.83 Aligned_cols=50 Identities=16% Similarity=0.314 Sum_probs=40.5
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..+.+|+.++++.++..+.|+.+ +..+|--.|.|--.|...+++++...+
T Consensus 271 ~~~~~~~~~~i~~lr~~~~~i~i----~~d~IvGfPgET~edf~~tl~fi~~~~ 320 (434)
T PRK14330 271 RYTREEYLELIEKIRSKVPDASI----SSDIIVGFPTETEEDFMETVDLVEKAQ 320 (434)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----EEEEEEECCCCCHHHHHHHHHHHHhcC
Confidence 36899999999999987667655 234666789999999999999998755
No 144
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=43.30 E-value=56 Score=27.49 Aligned_cols=39 Identities=18% Similarity=0.156 Sum_probs=34.6
Q ss_pred HHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 179 HNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 179 ~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
+..||++.-..|.+|.++|+..+|.+..-++..|..|-.
T Consensus 24 ~~~Vl~~L~~~g~~tdeeLA~~Lgi~~~~VRk~L~~L~e 62 (178)
T PRK06266 24 GFEVLKALIKKGEVTDEEIAEQTGIKLNTVRKILYKLYD 62 (178)
T ss_pred HhHHHHHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 566888888889999999999999999999999988764
No 145
>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=43.24 E-value=1.2e+02 Score=25.85 Aligned_cols=85 Identities=13% Similarity=0.181 Sum_probs=53.0
Q ss_pred cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhc-CC-------CCCCCCHHHHHHHHhhcc-----------cc
Q 027597 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRR-KS-------NREAVSEDDCLRAISKLK-----------VL 153 (221)
Q Consensus 93 gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~R-g~-------~~~~IS~~DI~rAi~~L~-----------~L 153 (221)
..+|.+.+-.+..++.....----.-++.-.++-+..+| +. ..+.+|++++++.++.|. .+
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 466777777777774443222222333444444444442 11 135799999999999865 46
Q ss_pred CCCeEEEEeC-CEEEEEecCcccchh
Q 027597 154 GNGYEVISVG-KKKLVRSVPTELNKD 178 (221)
Q Consensus 154 G~g~~vi~i~-~~~~v~Svp~Els~D 178 (221)
..+|.-.+|. |+-++ +||.|...+
T Consensus 164 P~~~~~~~I~dGrv~f-~V~~EFev~ 188 (195)
T PF08638_consen 164 PKQFRNYSIKDGRVTF-TVPGEFEVD 188 (195)
T ss_pred CcccceEEEECCEEEE-EECCeEEEE
Confidence 7889999996 66555 789987543
No 146
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=43.20 E-value=56 Score=26.37 Aligned_cols=46 Identities=24% Similarity=0.409 Sum_probs=36.4
Q ss_pred HHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccC
Q 027597 101 VQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLG 154 (221)
Q Consensus 101 vqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG 154 (221)
..|+++....... ++..|||..+.+.. +.||+.=|.|+++.|.-+|
T Consensus 24 ~~vl~~L~~~~~~----~sAeei~~~l~~~~----p~islaTVYr~L~~l~e~G 69 (145)
T COG0735 24 LAVLELLLEADGH----LSAEELYEELREEG----PGISLATVYRTLKLLEEAG 69 (145)
T ss_pred HHHHHHHHhcCCC----CCHHHHHHHHHHhC----CCCCHhHHHHHHHHHHHCC
Confidence 4566666653332 99999999999853 5699999999999999877
No 147
>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=43.16 E-value=31 Score=30.22 Aligned_cols=104 Identities=16% Similarity=0.236 Sum_probs=52.4
Q ss_pred cccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCC
Q 027597 57 IRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNRE 136 (221)
Q Consensus 57 I~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~ 136 (221)
.++||+.-.+|-++|...|||.-.-=..|. +.=|+..--++++ |...-++- -+.=+.+++..+-+.|=-+
T Consensus 16 lTed~~s~~~~~SLCrgF~id~~~li~~f~------~~k~~k~iskal~-~~~ll~Ei-~~~FP~dil~eLv~LRL~k-- 85 (216)
T PF05796_consen 16 LTEDEESMKMFISLCRGFGIDFEELISEFY------NKKYLKKISKALN-CADLLPEI-SLEFPDDILRELVRLRLCK-- 85 (216)
T ss_pred hcCCHHHHHHHHHHhcccCCCHHHHHHHhh------hhHHHHHHHHHhh-ccccCHHH-heeCCHHHHHHHHHHHHHH--
Confidence 489999999999999999999543111111 1113333333332 22211111 0111233333333332100
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcc
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTE 174 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~E 174 (221)
=.-.+++.-+|..=+.|.-+|. |+.-+|+...+|
T Consensus 86 ---f~k~IK~SykL~~~m~Giaivk-~~~V~v~~aNd~ 119 (216)
T PF05796_consen 86 ---FSKTIKRSYKLPASMKGIAIVK-DRNVYVRRANDE 119 (216)
T ss_pred ---HHHhhhHHhcCCcccCcEEEEc-CCEEEEEcCCHH
Confidence 0123566667777788888773 455566565444
No 148
>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=43.11 E-value=62 Score=30.97 Aligned_cols=49 Identities=8% Similarity=0.144 Sum_probs=40.3
Q ss_pred CCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
.|.+|+.++++.++..+.|+.+ +..+|--.|.|--.|....++++...+
T Consensus 287 ~t~e~~~~~i~~lr~~~pgi~i----~~d~IvG~PgET~ed~~~ti~~l~~l~ 335 (459)
T PRK14338 287 YTVARYRELIARIREAIPDVSL----TTDIIVGHPGETEEQFQRTYDLLEEIR 335 (459)
T ss_pred CCHHHHHHHHHHHHHhCCCCEE----EEEEEEECCCCCHHHHHHHHHHHHHcC
Confidence 5899999999999987777765 234566689999999999999998755
No 149
>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=43.00 E-value=41 Score=24.44 Aligned_cols=67 Identities=19% Similarity=0.241 Sum_probs=44.7
Q ss_pred HHHHHHHHcCCC--CCCCCCCccccccCcc---------chHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCC
Q 027597 66 QFHEMCAKVGVD--PLASNKGFWAELLGIG---------DFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSN 134 (221)
Q Consensus 66 ~F~~mC~siGVD--PL~s~k~~ws~~lG~g---------dfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~ 134 (221)
+|...|..||-| .|+. .||+. ++-..+-.|+.++...=+..+|.--++..|.+.+.+
T Consensus 6 ~l~~ia~~lG~dW~~LAr-------~Lg~~~~dI~~i~~~~~~~~~eq~~~mL~~W~~r~g~~at~~~L~~AL~~----- 73 (84)
T cd08317 6 RLADISNLLGSDWPQLAR-------ELGVSETDIDLIKAENPNSLAQQAQAMLKLWLEREGKKATGNSLEKALKK----- 73 (84)
T ss_pred hHHHHHHHHhhHHHHHHH-------HcCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhcCCcchHHHHHHHHHH-----
Confidence 589999999977 3332 25542 222234467777777777788877777788777776
Q ss_pred CCCCCHHHHHHHH
Q 027597 135 REAVSEDDCLRAI 147 (221)
Q Consensus 135 ~~~IS~~DI~rAi 147 (221)
|-..||...|
T Consensus 74 ---i~r~Di~~~~ 83 (84)
T cd08317 74 ---IGRDDIVEKC 83 (84)
T ss_pred ---cChHHHHHHh
Confidence 5667777655
No 150
>PRK10870 transcriptional repressor MprA; Provisional
Probab=42.76 E-value=64 Score=26.72 Aligned_cols=43 Identities=16% Similarity=0.074 Sum_probs=34.8
Q ss_pred cchhHHHHHHHHHh--cCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILELAQA--QGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 175 ls~D~~~vlel~~~--~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
|+.-|-.+|-.... .+.+|+.+|++.+++++.-+..+++.|.+
T Consensus 53 Lt~~q~~iL~~L~~~~~~~it~~eLa~~l~l~~~tvsr~v~rLe~ 97 (176)
T PRK10870 53 INETLFMALITLESQENHSIQPSELSCALGSSRTNATRIADELEK 97 (176)
T ss_pred CCHHHHHHHHHHhcCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 45556667766654 57899999999999999999999998875
No 151
>KOG1350 consensus F0F1-type ATP synthase, beta subunit [Energy production and conversion]
Probab=42.61 E-value=41 Score=31.85 Aligned_cols=111 Identities=23% Similarity=0.403 Sum_probs=72.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccccc------------ChhHHHHH---------HHHHHHcC----CCCCCCCCCc-cc
Q 027597 34 LMKEQLATFRSQLEDFARKHKNDIRK------------NPTFRSQF---------HEMCAKVG----VDPLASNKGF-WA 87 (221)
Q Consensus 34 ~l~~ql~~F~~~L~~Fa~kh~~eI~~------------dp~fR~~F---------~~mC~siG----VDPL~s~k~~-ws 87 (221)
.|.+.|-..|+.+.. .+|+.|++ ||+=-..| ..=.+.+| ||||-|.+.+ .-
T Consensus 326 TLaTdMG~mQERITt---TkkGSiTSvQAvYVPADDLtDPaPattFaHLDAttVLSR~iaelgIYPAVDPLDStSrimdp 402 (521)
T KOG1350|consen 326 TLATDMGTMQERITT---TKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRGIAELGIYPAVDPLDSTSRIMDP 402 (521)
T ss_pred ccccchhhhhHhhhc---cccCceeEEEEEEeehhccCCCCccceeeccchhhhhhhhhHhcCCccccCCccccccccCc
Confidence 456677777776654 55666653 55322222 22344566 5888765332 11
Q ss_pred cccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHH---HHHHHhhccccCCCeEEEEe
Q 027597 88 ELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDD---CLRAISKLKVLGNGYEVISV 162 (221)
Q Consensus 88 ~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~D---I~rAi~~L~~LG~g~~vi~i 162 (221)
.+ +|.=+|.+|-++-++.+... +|.|++..+ |+ .++|++| +.||-|.=+-|.-+|.|-.+
T Consensus 403 ~i--vG~eHY~vA~~Vqk~LQ~YK-------sLQDIIAIL----Gm--DELSEeDkLTV~RARKiqRFLSQPF~VAEv 465 (521)
T KOG1350|consen 403 NI--VGEEHYNVARGVQKTLQDYK-------SLQDIIAIL----GM--DELSEEDKLTVARARKIQRFLSQPFQVAEV 465 (521)
T ss_pred cc--cchHHHHHHHHHHHHHHHHH-------HHHHHHHHh----Cc--hhhchhhhhhHHHHHHHHHHHcCchhhhhh
Confidence 11 57889999999999988754 456666554 44 7899998 56777777778889988765
No 152
>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]
Probab=42.49 E-value=16 Score=34.87 Aligned_cols=36 Identities=36% Similarity=0.793 Sum_probs=26.1
Q ss_pred hcccccChhHHHHHHHHHHHcCCCCCCCC----------CCccccccCccch
Q 027597 54 KNDIRKNPTFRSQFHEMCAKVGVDPLASN----------KGFWAELLGIGDF 95 (221)
Q Consensus 54 ~~eI~~dp~fR~~F~~mC~siGVDPL~s~----------k~~ws~~lG~gdf 95 (221)
.+|.-+||+-|++|-. |.|||-+. -|||. ..|++-|
T Consensus 446 AKEVLsd~EkRrqFDn-----GeDPLD~Es~q~GGGg~~Hgf~n-~hgF~~F 491 (504)
T KOG0624|consen 446 AKEVLSDPEKRRQFDN-----GEDPLDPESQQGGGGGPFHGFWN-EHGFNPF 491 (504)
T ss_pred HHHhhcCHHHHhhccC-----CCCCCChhhccCCCCCCCCCCcc-ccCCCCC
Confidence 3577899999999965 99999532 24887 5665544
No 153
>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=42.45 E-value=51 Score=24.22 Aligned_cols=66 Identities=15% Similarity=0.101 Sum_probs=47.7
Q ss_pred HHHHHHHcCCC--CCCCCCCccccccCc---------cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCC
Q 027597 67 FHEMCAKVGVD--PLASNKGFWAELLGI---------GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNR 135 (221)
Q Consensus 67 F~~mC~siGVD--PL~s~k~~ws~~lG~---------gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~ 135 (221)
...+|..||-| .|+. -||+ .+++..+..|+.++...=+...|+=-+...|+..+.+
T Consensus 7 l~~ia~~LG~dWk~LAr-------~Lg~se~dI~~i~~~~~~~~~eq~~~mL~~W~~r~g~~At~~~L~~aL~~------ 73 (84)
T cd08804 7 LAVIADHLGFSWTELAR-------ELDFTEEQIHQIRIENPNSLQDQSHALLKYWLERDGKHATDTNLMKCLTK------ 73 (84)
T ss_pred HHHHHHHHhhhHHHHHH-------HcCCCHHHHHHHHHHCcccHHHHHHHHHHHHHHccCCCchHHHHHHHHHH------
Confidence 55667777766 2221 2454 3667788999999999988888877777788888776
Q ss_pred CCCCHHHHHHHH
Q 027597 136 EAVSEDDCLRAI 147 (221)
Q Consensus 136 ~~IS~~DI~rAi 147 (221)
|-..||+..+
T Consensus 74 --i~r~Div~~~ 83 (84)
T cd08804 74 --INRMDIVHLM 83 (84)
T ss_pred --cChHHHHHHh
Confidence 6778888764
No 154
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=41.58 E-value=41 Score=22.66 Aligned_cols=29 Identities=24% Similarity=0.305 Sum_probs=21.1
Q ss_pred HHHHHHhcC--CccHHHHHHhcCCCHHHHHH
Q 027597 182 ILELAQAQG--FVTVDEVERRLSWTSGRAID 210 (221)
Q Consensus 182 vlel~~~~G--~vt~~~L~~~l~W~~~Ra~~ 210 (221)
+|+-....| +||..+|++.+||+....+.
T Consensus 17 ~L~~l~~~G~~~vSS~~La~~~gi~~~qVRK 47 (50)
T PF06971_consen 17 YLEQLKEEGVERVSSQELAEALGITPAQVRK 47 (50)
T ss_dssp HHHHHHHTT-SEE-HHHHHHHHTS-HHHHHH
T ss_pred HHHHHHHcCCeeECHHHHHHHHCCCHHHhcc
Confidence 455555544 79999999999999988765
No 155
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=41.44 E-value=52 Score=29.19 Aligned_cols=41 Identities=20% Similarity=0.259 Sum_probs=35.3
Q ss_pred chhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHH
Q 027597 176 NKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILL 216 (221)
Q Consensus 176 s~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~ 216 (221)
..-+..++++.+..|.+|+.+|++.||-+..=++.=|+.|-
T Consensus 16 ~eR~~~Il~~L~~~~~vtv~eLa~~l~VS~~TIRRDL~~Le 56 (269)
T PRK09802 16 SERREQIIQRLRQQGSVQVNDLSALYGVSTVTIRNDLAFLE 56 (269)
T ss_pred HHHHHHHHHHHHHcCCEeHHHHHHHHCCCHHHHHHHHHHHH
Confidence 34578899999999999999999999999987877777763
No 156
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=41.43 E-value=3.7e+02 Score=26.69 Aligned_cols=94 Identities=17% Similarity=0.129 Sum_probs=66.5
Q ss_pred cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecC
Q 027597 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVP 172 (221)
Q Consensus 93 gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp 172 (221)
++-+- +..+|.+.+.. ..-.+.|+...++ +.+++..+.+..|...| .++.+.+..|+-
T Consensus 471 ~~~~~-~~~~i~~~~~~------~~~~~~~~~~~~~---------~~~~~~~~~l~~l~~~g---~~~~~~~~~~~~--- 528 (581)
T TIGR00475 471 EKEED-IWQKIKGTFGT------KGAWVREFAEEVN---------GDEKVMLKRVRKAGHRG---GETLIVKDRLLK--- 528 (581)
T ss_pred CHHHH-HHHHHHHHHhc------CCCCHHHHHhhhC---------CCHHHHHHHHHHHHhCC---CEEEEeCCeEHH---
Confidence 45555 77778777761 2355666655432 46677777777776655 245554433332
Q ss_pred cccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 173 TELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 173 ~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
..+.++++..|-+|+.+.++.+|-++-.+...||.|
T Consensus 529 -------~~~~~~~~~~~~~~~~~~r~~~g~sRK~~i~lle~~ 564 (581)
T TIGR00475 529 -------KYINELKEEGGTFNVQQARDKLGLGRKLLIQLLEYF 564 (581)
T ss_pred -------HHHHHHHhcCCcCcHHHHHHHHCccHHHHHHHHHHh
Confidence 568888888899999999999999999999999986
No 157
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=41.37 E-value=54 Score=34.05 Aligned_cols=124 Identities=18% Similarity=0.159 Sum_probs=79.5
Q ss_pred HHHHHH--HcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHH
Q 027597 67 FHEMCA--KVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCL 144 (221)
Q Consensus 67 F~~mC~--siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~ 144 (221)
.+.+|. .|++|-+.+..|. +.+.- -+|-.+|.+-.. .||=+++.||-..+| |..+.|.
T Consensus 33 V~KLie~~~ld~dll~T~DGK--EYiT~----~qL~~EI~~El~-----~gGRvnlvdLa~~Ln---------VD~~hiE 92 (803)
T PLN03083 33 VQKLQELGIIDFDLLHTVSGK--EYITQ----DQLRNEIEAEIK-----KLGRVSLVDLADTIG---------VDLYHVE 92 (803)
T ss_pred HHHHHHhcccCcceEEecCCc--eeeCH----HHHHHHHHHHHH-----hCCCeeHHHHhhhcC---------CCHHHHH
Confidence 567776 4677777665432 11111 245555555431 279999999998877 8999999
Q ss_pred HHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 145 RAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 145 rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
|.++.+-.=+.++.+ +.|. ++ | +.=++.=-..|=+..+..|.|++.+|+..|..+.+-.+.+|..-
T Consensus 93 r~~~~iv~~d~~~~l--~~Ge-Li-t-~~Yld~iaeEIne~LqE~G~isI~eLa~~~~Lpsefl~~~l~~r 158 (803)
T PLN03083 93 RQAQQVVSDDPGLML--VQGE-II-S-QSYWDSIAEEINERLQECSQIALAELARQLQVGSELVTSMLEPR 158 (803)
T ss_pred HHHHHHhcCCCceEE--ecCE-ec-c-hHHHHHHHHHHHHHHHHcCcChHHHHHHhcCChHHHHHHHHHHH
Confidence 999998554666655 3332 11 1 11121112223344556899999999999999998888887653
No 158
>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=41.20 E-value=70 Score=30.35 Aligned_cols=49 Identities=16% Similarity=0.289 Sum_probs=39.7
Q ss_pred CCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
.|.+|+.++++.++..|.++.+ +..+|--.|.|--.|...+++++...|
T Consensus 269 ~~~~~~~~~v~~lr~~~~~i~i----~~d~IvG~PgEt~ed~~~tl~~i~~l~ 317 (440)
T PRK14334 269 YRREKYLERIAEIREALPDVVL----STDIIVGFPGETEEDFQETLSLYDEVG 317 (440)
T ss_pred CCHHHHHHHHHHHHHhCCCcEE----EEeEEEECCCCCHHHHHHHHHHHHhcC
Confidence 5899999999999998866533 334666789999999999999988754
No 159
>COG0309 HypE Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=41.01 E-value=18 Score=33.72 Aligned_cols=37 Identities=24% Similarity=0.492 Sum_probs=29.9
Q ss_pred HHHHHHHHHhhcccccChh---HHHHHHHHHHHcCCCCCC
Q 027597 44 SQLEDFARKHKNDIRKNPT---FRSQFHEMCAKVGVDPLA 80 (221)
Q Consensus 44 ~~L~~Fa~kh~~eI~~dp~---fR~~F~~mC~siGVDPL~ 80 (221)
..|.++|.+-...|+=+++ +|..-+.+|.-+|+|||.
T Consensus 232 ~aLnEmA~aSgvgi~I~ee~Ipv~~eVr~vce~lGiDPl~ 271 (339)
T COG0309 232 GALNEMAEASGVGISIEEEKIPVREEVRGVCELLGLDPLE 271 (339)
T ss_pred HHHHHHHHHcCCeEEEeeccccccHHHHHHHHHhCCCHHH
Confidence 3788999998876655443 777888999999999996
No 160
>PF11972 HTH_13: HTH DNA binding domain; InterPro: IPR021068 The proteins in this entry have not been characterised. They contain a C-terminal helix-turn-helix DNA binding domain.
Probab=40.91 E-value=77 Score=21.88 Aligned_cols=35 Identities=20% Similarity=0.275 Sum_probs=29.1
Q ss_pred HHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 181 QILELAQAQGFVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 181 ~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
.+++++-....||+.++++.+|.|..=|+..+++|
T Consensus 3 ~Lidll~~~P~Vsa~mva~~L~vT~~~A~~li~eL 37 (54)
T PF11972_consen 3 RLIDLLLSRPLVSAPMVAKELGVTPQAAQRLIAEL 37 (54)
T ss_pred HHHHHHHhCccccHHHHHHHhCCCHHHHHHHHHHh
Confidence 36677777899999999999999998888766554
No 161
>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=40.69 E-value=62 Score=31.06 Aligned_cols=50 Identities=20% Similarity=0.361 Sum_probs=41.2
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+|+.++++.++..+.++.+-. .+|--.|.|-..|...+++++...+
T Consensus 304 ~~t~~~~~~~i~~ir~~~~~~~i~~----d~IvGfPgET~edf~~tl~~i~~l~ 353 (467)
T PRK14329 304 KYTREWYLDRIDAIRRIIPDCGIST----DMIAGFPTETEEDHQDTLSLMEEVG 353 (467)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEEEE----eEEEeCCCCCHHHHHHHHHHHHhhC
Confidence 4788999999999998877765532 5777789999999999999998754
No 162
>PF00888 Cullin: Cullin family; InterPro: IPR001373 Cullins are a family of hydrophobic proteins that act as scaffolds for ubiquitin ligases (E3). Cullins are found throughout eukaryotes. Humans express seven cullins (Cul1, 2, 3, 4A, 4B, 5 and 7), each forming part of a multi-subunit ubiquitin complex. Cullin-RING ubiquitin ligases (CRLs), such as Cul1 (SCF) [], play an essential role in targeting proteins for ubiquitin-mediated destruction; as such, they are diverse in terms of composition and function, regulating many different processes from glucose sensing and DNA replication to limb patterning and circadian rhythms. The catalytic core of CRLs consists of a RING protein and a cullin family member. For Cul1, the C-terminal cullin-homology domain binds the RING protein. The RING protein appears to function as a docking site for ubiquitin-conjugating enzymes (E2s). Other proteins contain a cullin-homology domain, such as the APC2 subunit of the anaphase-promoting complex/cyclosome and the p53 cytoplasmic anchor PARC; both APC2 and PARC have ubiquitin ligase activity. The N-terminal region of cullins is more variable, and is used to interact with specific adaptor proteins [, , ]. This entry represents the N-terminal region of cullin proteins, which consists of several domains, including cullin repeat domain, a 4-helical bundle domain, an alpha+beta domain, and a winged helix-like domain.; GO: 0031625 ubiquitin protein ligase binding, 0006511 ubiquitin-dependent protein catabolic process, 0031461 cullin-RING ubiquitin ligase complex; PDB: 2WZK_A 3DQV_D 3DPL_C 3RTR_G 3TDU_D 1LDJ_A 3TDZ_D 1LDK_A 1U6G_A 4A0K_A ....
Probab=40.36 E-value=12 Score=35.94 Aligned_cols=131 Identities=18% Similarity=0.268 Sum_probs=71.6
Q ss_pred ccccChhHHHHHHHHHHHcCC--------CCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHH
Q 027597 56 DIRKNPTFRSQFHEMCAKVGV--------DPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLL 127 (221)
Q Consensus 56 eI~~dp~fR~~F~~mC~siGV--------DPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v 127 (221)
||+...++-.+|++.....+. +|..-++++|-..-... ...+.+ +|..+.+.+
T Consensus 421 D~~~S~~~~~~f~~~~~~~~~~~~~~~~~~~~vls~~~Wp~~~~~~------~~~lP~-------------~l~~~~~~f 481 (588)
T PF00888_consen 421 DIKNSKELNEEFKQKQSQNNIQLIPPFDFNVKVLSKGYWPKYPSEN------NIKLPP-------------ELQQALDSF 481 (588)
T ss_dssp HHHHHHHHHHHHHHHHHTTT-SS--CCEEEEEEEETTTS-S-S-SS-----------H-------------HHHHHHHHH
T ss_pred HHhhcHHHHHHHHHHhhhccccccCCCceEEEEecCCCCCCCCCCc------cccCCH-------------HHHHHHHHH
Confidence 444445566677777766443 34455678886322111 111111 344444444
Q ss_pred HhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHH
Q 027597 128 RQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGR 207 (221)
Q Consensus 128 ~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~R 207 (221)
.+........ |-+.-+..||.+---..+++..+.-.+ |.-|..||-+-.+...+|+++|.+..|.+..-
T Consensus 482 ~~~Y~~~~~~-------R~L~w~~~l~~~~i~~~~~~~~~~l~~----s~~q~~iLl~Fn~~~~~t~~ei~~~~~~~~~~ 550 (588)
T PF00888_consen 482 EKFYKEKHKG-------RKLTWLPSLSSVEIEFNFNNGKYELTV----STLQAAILLLFNDNDSLTVEEISEKTGISEEE 550 (588)
T ss_dssp HHHHHTTSTT-------EEEEEEGGGEEEEEEEESSSSEEEEEE----EHHHHHHHHGGGSSSEEEHHHHHHHC---HHH
T ss_pred HHHHHhcCCC-------cEEEEecccCcEEEEEEecCCceeEEe----eHHHHHHHHHHccCCCccHHHHHHHHCcCHHH
Confidence 4443322111 333344456655444444444443344 77798888887888899999999999999999
Q ss_pred HHHHHHHHH
Q 027597 208 AIDALDILL 216 (221)
Q Consensus 208 a~~~L~~l~ 216 (221)
.+.+|.-|+
T Consensus 551 l~~~L~~l~ 559 (588)
T PF00888_consen 551 LKRALKSLV 559 (588)
T ss_dssp HHHHHHCCC
T ss_pred HHHHHHHHH
Confidence 998887554
No 163
>PRK14325 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=40.35 E-value=63 Score=30.58 Aligned_cols=50 Identities=16% Similarity=0.290 Sum_probs=41.1
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+|+.++++.++..+.|+.+ +..+|--.|.|-..|...+++++...+
T Consensus 280 ~~~~~~~~~~i~~lr~~~~gi~v----~~~~IvG~PgET~ed~~~tl~~i~~~~ 329 (444)
T PRK14325 280 GHTALEYKSIIRKLRAARPDIAI----SSDFIVGFPGETDEDFEATMKLIEDVG 329 (444)
T ss_pred CCCHHHHHHHHHHHHHHCCCCEE----EeeEEEECCCCCHHHHHHHHHHHHhcC
Confidence 36899999999999988877765 335666689999999999999998754
No 164
>PTZ00183 centrin; Provisional
Probab=40.21 E-value=1.7e+02 Score=22.41 Aligned_cols=11 Identities=27% Similarity=0.447 Sum_probs=5.8
Q ss_pred cCCccHHHHHH
Q 027597 189 QGFVTVDEVER 199 (221)
Q Consensus 189 ~G~vt~~~L~~ 199 (221)
.|.|+..++..
T Consensus 140 ~g~i~~~ef~~ 150 (158)
T PTZ00183 140 DGEISEEEFYR 150 (158)
T ss_pred CCcCcHHHHHH
Confidence 35566555543
No 165
>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=40.12 E-value=58 Score=31.08 Aligned_cols=50 Identities=18% Similarity=0.262 Sum_probs=40.5
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+|+.++++.++..-.|+.+ +..+|--.|.|--.|...+++++...+
T Consensus 279 ~~t~~~~~~~v~~lr~~~pgi~i----~td~IvGfPgET~edf~~tl~~~~~~~ 328 (445)
T PRK14340 279 GHTIEEYLEKIALIRSAIPGVTL----STDLIAGFCGETEEDHRATLSLMEEVR 328 (445)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----eccEEEECCCCCHHHHHHHHHHHHhcC
Confidence 47999999999999887556655 334666789999999999999998754
No 166
>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=39.78 E-value=18 Score=26.37 Aligned_cols=23 Identities=9% Similarity=0.291 Sum_probs=17.7
Q ss_pred cccChhHHHHHHHHHHHcCCCCC
Q 027597 57 IRKNPTFRSQFHEMCAKVGVDPL 79 (221)
Q Consensus 57 I~~dp~fR~~F~~mC~siGVDPL 79 (221)
+|=||..+.++.++|..+|++|-
T Consensus 6 ~Rid~~lK~~a~~il~~~Glt~s 28 (83)
T PF04221_consen 6 VRIDEELKEEAEAILEELGLTLS 28 (83)
T ss_dssp EEE-HHHHHHHHHHHHHTT--HH
T ss_pred EEcCHHHHHHHHHHHHHcCCCHH
Confidence 56799999999999999999953
No 167
>PF09202 Rio2_N: Rio2, N-terminal; InterPro: IPR015285 This N-terminal domain is found in RIO2 kinases, and is structurally homologous to the winged helix (wHTH) domain. It adopts a structure consisting of four alpha helices followed by two beta strands and a fifth alpha helix. The domain confers DNA binding properties to the protein, as per other winged helix domains []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1TQP_A 1ZAR_A 1TQI_A 1ZAO_A 1TQM_A.
Probab=39.66 E-value=83 Score=23.21 Aligned_cols=44 Identities=18% Similarity=0.322 Sum_probs=34.9
Q ss_pred ccchhHHHHHHHHHh----cCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQA----QGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 174 Els~D~~~vlel~~~----~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.|+.|+-.||..++. .-+|..+.+.+..|.+..-+...|..|++
T Consensus 3 ~L~~~d~rvL~aiE~gmk~hE~VP~~~I~~~s~l~~~~~~~~L~~L~~ 50 (82)
T PF09202_consen 3 YLSKEDFRVLRAIEMGMKNHEWVPLELIEKISGLSEGEVEKRLKRLVK 50 (82)
T ss_dssp T--HHHHHHHHHHHTTTTT-SSEEHHHHHHHHT--HHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHcccCCccCCHHHHHHHhCcCHHHHHHHHHHHHh
Confidence 578889999999985 36899999999999999999999998875
No 168
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=39.56 E-value=2.5e+02 Score=25.34 Aligned_cols=137 Identities=19% Similarity=0.224 Sum_probs=77.7
Q ss_pred cChhHHH---HHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcc---cHHHHHHHHHhh-c
Q 027597 59 KNPTFRS---QFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLI---NLQELCNLLRQR-R 131 (221)
Q Consensus 59 ~dp~fR~---~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli---~l~el~~~v~k~-R 131 (221)
-||.|+. +|-+.|...|||=+- +-|.=.|.+..+.+.|.++-=..==++ +-.+.+.++.+. +
T Consensus 103 ~Npi~~~Gie~F~~~~~~~GvdGli-----------vpDLP~ee~~~~~~~~~~~gi~~I~lvaPtt~~~rl~~i~~~a~ 171 (265)
T COG0159 103 YNPIFNYGIEKFLRRAKEAGVDGLL-----------VPDLPPEESDELLKAAEKHGIDPIFLVAPTTPDERLKKIAEAAS 171 (265)
T ss_pred ccHHHHhhHHHHHHHHHHcCCCEEE-----------eCCCChHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCC
Confidence 4676653 588899999999332 248888888888888884311111111 223445555443 2
Q ss_pred CCC----------CCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhH-HHHHHHHHh--cCCccHHHHH
Q 027597 132 KSN----------REAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDH-NQILELAQA--QGFVTVDEVE 198 (221)
Q Consensus 132 g~~----------~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~-~~vlel~~~--~G~vt~~~L~ 198 (221)
|.. ...-..+++.+.++.++.+..---++-+| | |. .+| ..+.+.|.- -|+.-+..+.
T Consensus 172 GFiY~vs~~GvTG~~~~~~~~~~~~v~~vr~~~~~Pv~vGFG----I-s~-----~e~~~~v~~~ADGVIVGSAiV~~i~ 241 (265)
T COG0159 172 GFIYYVSRMGVTGARNPVSADVKELVKRVRKYTDVPVLVGFG----I-SS-----PEQAAQVAEAADGVIVGSAIVKIIE 241 (265)
T ss_pred CcEEEEecccccCCCcccchhHHHHHHHHHHhcCCCeEEecC----c-CC-----HHHHHHHHHhCCeEEEcHHHHHHHH
Confidence 321 11222333777777777544333333333 1 32 233 235565332 5888899998
Q ss_pred HhcCCCHHHHHHHHHHHHHHh
Q 027597 199 RRLSWTSGRAIDALDILLEVL 219 (221)
Q Consensus 199 ~~l~W~~~Ra~~~L~~l~~~~ 219 (221)
++.. +.+...+..++++|
T Consensus 242 ~~~~---~~~~~~~~~l~~~l 259 (265)
T COG0159 242 EGLD---EEALEELRALVKEL 259 (265)
T ss_pred hccc---hhhHHHHHHHHHHH
Confidence 8877 55566666777765
No 169
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=39.47 E-value=80 Score=24.97 Aligned_cols=43 Identities=14% Similarity=0.289 Sum_probs=33.2
Q ss_pred cchhHHHHHHHHHhcCCccHHHHHHh----cCCCHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILELAQAQGFVTVDEVERR----LSWTSGRAIDALDILLE 217 (221)
Q Consensus 175 ls~D~~~vlel~~~~G~vt~~~L~~~----l~W~~~Ra~~~L~~l~~ 217 (221)
|+.-+..|+++.=..|-+|+.++.+. .+|+..-..+.|+.|.+
T Consensus 2 Lt~~E~~VM~vlW~~~~~t~~eI~~~l~~~~~~~~tTv~T~L~rL~~ 48 (130)
T TIGR02698 2 ISDAEWEVMRVVWTLGETTSRDIIRILAEKKDWSDSTIKTLLGRLVD 48 (130)
T ss_pred CCHHHHHHHHHHHcCCCCCHHHHHHHHhhccCCcHHHHHHHHHHHHH
Confidence 45556678888766788899995555 48999999999988865
No 170
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=39.45 E-value=1.1e+02 Score=32.52 Aligned_cols=91 Identities=19% Similarity=0.221 Sum_probs=0.0
Q ss_pred CcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc-----ccCCC------eEEEEeCCEEEEEecCcccchhHHHHHH
Q 027597 116 GLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK-----VLGNG------YEVISVGKKKLVRSVPTELNKDHNQILE 184 (221)
Q Consensus 116 Gli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~-----~LG~g------~~vi~i~~~~~v~Svp~Els~D~~~vle 184 (221)
+||-|+|.+ .|.|-+ +.|+++|+..||+.++ ..=.+ +.++..| ++..--.--..+.+
T Consensus 775 sLIRLsEA~---AK~rLs--~~Vt~~Dv~~Ai~L~~~sl~~~~~DpetG~iD~d~~~~G-------~s~~~r~~~~~~~~ 842 (915)
T PTZ00111 775 SIIRISVSL---ARMRLS--TVVTPADALQAVQIVKSSTFQSLVDPTTGKIDFDQLHQG-------ITTNKMQQLNQMYE 842 (915)
T ss_pred HHHHHHHHH---hhhcCc--CcccHHHHHHHHHHHHHHHhhhcccccCCcccceeeccC-------CcHHHHHHHHHHHH
Q ss_pred HHHhc----------CCccHHHHHHhc------------CCCHHHHHHHHHHHHHH
Q 027597 185 LAQAQ----------GFVTVDEVERRL------------SWTSGRAIDALDILLEV 218 (221)
Q Consensus 185 l~~~~----------G~vt~~~L~~~l------------~W~~~Ra~~~L~~l~~~ 218 (221)
..... +.++.++|.+.+ |.+...++.+|+.|.++
T Consensus 843 ~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~l~~L~~~ 898 (915)
T PTZ00111 843 QVLSVLTRSSNQDSNKSLDLNEVLSLCHKTFKDNRDHKDGEIYKLISEVLNKMVQE 898 (915)
T ss_pred HHHHHHHhhhccccCCceeHHHHHHHHHhhccccchhccCCCHHHHHHHHHHHHhC
No 171
>smart00350 MCM minichromosome maintenance proteins.
Probab=39.21 E-value=62 Score=31.42 Aligned_cols=52 Identities=25% Similarity=0.303 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhhhcccCCC-------------cccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc
Q 027597 98 ELGVQIVEICLATRPHNGG-------------LINLQELCNLLRQRRKSNREAVSEDDCLRAISKLK 151 (221)
Q Consensus 98 eLavqIvevC~~tr~~nGG-------------li~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~ 151 (221)
+....|++++..+|..... +++|-.+-+...|.++. ..|+++|+..|++.+.
T Consensus 441 ~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r--~~V~~~Dv~~ai~l~~ 505 (509)
T smart00350 441 EAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLS--DVVEEADVEEAIRLLR 505 (509)
T ss_pred HHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCC--CccCHHHHHHHHHHHH
Confidence 4445566666676753221 13333333444444444 7899999999999864
No 172
>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=39.14 E-value=85 Score=20.33 Aligned_cols=37 Identities=30% Similarity=0.291 Sum_probs=28.6
Q ss_pred cccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCC
Q 027597 117 LINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGK 164 (221)
Q Consensus 117 li~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~ 164 (221)
-++..|+-..++ ||+.-|.+-++.|+..| +.|....|
T Consensus 15 ~it~~eLa~~l~---------vS~rTi~~~i~~L~~~~--~~I~~~~~ 51 (55)
T PF08279_consen 15 PITAKELAEELG---------VSRRTIRRDIKELREWG--IPIESKRG 51 (55)
T ss_dssp SBEHHHHHHHCT---------S-HHHHHHHHHHHHHTT---EEEEETT
T ss_pred CcCHHHHHHHhC---------CCHHHHHHHHHHHHHCC--CeEEeeCC
Confidence 399999988865 89999999999999988 66655444
No 173
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=38.93 E-value=1e+02 Score=26.72 Aligned_cols=48 Identities=15% Similarity=0.243 Sum_probs=41.1
Q ss_pred cCcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHhc
Q 027597 171 VPTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVLQ 220 (221)
Q Consensus 171 vp~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~~ 220 (221)
.|..||.-+..||.++.. | .|..++++.++++..-+++-+..+.+-|+
T Consensus 130 ~~~~LSpRErEVLrLLAq-G-kTnKEIAe~L~IS~rTVkth~srImkKLg 177 (198)
T PRK15201 130 TTRHFSVTERHLLKLIAS-G-YHLSETAALLSLSEEQTKSLRRSIMRKLH 177 (198)
T ss_pred CCCCCCHHHHHHHHHHHC-C-CCHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 567899999999999887 4 56899999999999999998888887664
No 174
>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=38.91 E-value=1.5e+02 Score=23.95 Aligned_cols=71 Identities=18% Similarity=0.291 Sum_probs=40.8
Q ss_pred cchhHhhccHHHHHHH----HHhcHhHHHHHHHHHHHHHHHHH-------HHHHHHHHHhhcccccChhHHHHHHHHHHH
Q 027597 5 PGIGGLQSAAVARDQY----RLLGENVAKLRTDLMKEQLATFR-------SQLEDFARKHKNDIRKNPTFRSQFHEMCAK 73 (221)
Q Consensus 5 ~Gi~ai~~~~~~~~~~----~~~g~~l~~~~~~~l~~ql~~F~-------~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~s 73 (221)
.|+||+.+..++-.+| -..|..+...--.....+++..+ +.+..-|...-+.+ .-.|-..+...+..
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 5999998876553332 23344444444444444444444 44444444444333 23577779999999
Q ss_pred cCCC
Q 027597 74 VGVD 77 (221)
Q Consensus 74 iGVD 77 (221)
|||-
T Consensus 103 LgvP 106 (132)
T PF05597_consen 103 LGVP 106 (132)
T ss_pred cCCC
Confidence 9985
No 175
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=38.82 E-value=86 Score=24.51 Aligned_cols=44 Identities=20% Similarity=0.322 Sum_probs=38.2
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.|+.-..++|++.+..|..|..+|++.+|-|..-+..=++.|.+
T Consensus 5 ~lD~~D~~IL~~L~~d~r~~~~eia~~lglS~~~v~~Ri~~L~~ 48 (154)
T COG1522 5 KLDDIDRRILRLLQEDARISNAELAERVGLSPSTVLRRIKRLEE 48 (154)
T ss_pred cccHHHHHHHHHHHHhCCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 46667788999999999999999999999999888888877765
No 176
>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=38.56 E-value=77 Score=25.56 Aligned_cols=30 Identities=7% Similarity=0.338 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 027597 29 KLRTDLMKEQLATFRSQLEDFARKHKNDIR 58 (221)
Q Consensus 29 ~~~~~~l~~ql~~F~~~L~~Fa~kh~~eI~ 58 (221)
+.+...+..+++.|...|..|+..|+++..
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 345567888899999999999999987655
No 177
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=38.35 E-value=1.2e+02 Score=20.28 Aligned_cols=39 Identities=28% Similarity=0.303 Sum_probs=31.5
Q ss_pred HHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 179 HNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 179 ~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
-..||......+-.|+.+|++.+|.+..-+..-|..|.+
T Consensus 12 R~~Il~~L~~~~~~t~~ela~~l~~~~~t~s~hL~~L~~ 50 (61)
T PF12840_consen 12 RLRILRLLASNGPMTVSELAEELGISQSTVSYHLKKLEE 50 (61)
T ss_dssp HHHHHHHHHHCSTBEHHHHHHHHTS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 345777776679999999999999999998888877754
No 178
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=38.04 E-value=83 Score=22.32 Aligned_cols=39 Identities=8% Similarity=0.204 Sum_probs=30.5
Q ss_pred HHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 180 NQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 180 ~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
..+..+++....++.+.|++.++.+.+=++..|-+|+.+
T Consensus 13 ~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~ 51 (88)
T smart00088 13 TNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRD 51 (88)
T ss_pred HHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHC
Confidence 345667777788999999999999988777777777754
No 179
>smart00753 PAM PCI/PINT associated module.
Probab=38.04 E-value=83 Score=22.32 Aligned_cols=39 Identities=8% Similarity=0.204 Sum_probs=30.5
Q ss_pred HHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 180 NQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 180 ~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
..+..+++....++.+.|++.++.+.+=++..|-+|+.+
T Consensus 13 ~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~ 51 (88)
T smart00753 13 TNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRD 51 (88)
T ss_pred HHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHC
Confidence 345667777788999999999999988777777777754
No 180
>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=37.98 E-value=67 Score=30.10 Aligned_cols=34 Identities=29% Similarity=0.593 Sum_probs=26.6
Q ss_pred CCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCc
Q 027597 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT 173 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~ 173 (221)
-+++|+..|++.|..+|+|+.++.=| +++-++|-
T Consensus 330 ~~~~~~~~a~~~~~~~~gg~~~~~~~--~~~~~~~l 363 (422)
T cd01295 330 TNDEDMALAVNRLKEIGGGIVVVKNG--KVLAELPL 363 (422)
T ss_pred CCHHHHHHHHHHHHHhCCcEEEEECC--EEEEEecc
Confidence 36999999999999999999886533 45555553
No 181
>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=37.94 E-value=1.3e+02 Score=26.59 Aligned_cols=62 Identities=21% Similarity=0.262 Sum_probs=46.6
Q ss_pred ccHHHHHHHHHhhcCC-CCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHh
Q 027597 118 INLQELCNLLRQRRKS-NREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQA 188 (221)
Q Consensus 118 i~l~el~~~v~k~Rg~-~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~ 188 (221)
|+.+++|+++...... .....|++|+..+.+.|..=| ..|+.+ +++..||.-......+++.
T Consensus 41 i~~~~~y~~~~~~~~~p~TS~ps~~~~~~~~~~l~~~~--~~vi~i-------~iSs~lSgty~~a~~aa~~ 103 (275)
T TIGR00762 41 ITPEEFYEKLKESKELPKTSQPSPGEFLELYEKLLEEG--DEVLSI-------HLSSGLSGTYQSARQAAEM 103 (275)
T ss_pred CCHHHHHHHHHhcCCCCCcCCCCHHHHHHHHHHHHhCC--CeEEEE-------EcCCchhHHHHHHHHHHhh
Confidence 8899999999775433 347899999999999887644 567655 4677888777777666654
No 182
>PRK05472 redox-sensing transcriptional repressor Rex; Provisional
Probab=37.82 E-value=62 Score=27.38 Aligned_cols=37 Identities=19% Similarity=0.213 Sum_probs=30.8
Q ss_pred HHHHHHHHHhcC--CccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 179 HNQILELAQAQG--FVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 179 ~~~vlel~~~~G--~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
+..+|+.+...| +||+.+|++.+|.+..-.+.=|..+
T Consensus 18 ~~~il~~l~~~~~~~vs~~~L~~~~~v~~~tirrDl~~l 56 (213)
T PRK05472 18 YYRYLKELKEEGVERVSSKELAEALGVDSAQIRKDLSYF 56 (213)
T ss_pred HHHHHHHHHHcCCcEEeHHHHHHHhCcCHHHHHHHHHHH
Confidence 567899999999 9999999999999997766655544
No 183
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=37.77 E-value=50 Score=21.60 Aligned_cols=26 Identities=19% Similarity=0.137 Sum_probs=23.3
Q ss_pred ccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 192 VTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 192 vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.|+.+|++.++.+..-+..+|..|.+
T Consensus 26 ~~~~~la~~~~is~~~v~~~l~~L~~ 51 (66)
T cd07377 26 PSERELAEELGVSRTTVREALRELEA 51 (66)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 56999999999999999999988865
No 184
>TIGR00721 tfx DNA-binding protein, Tfx family. Tfx from Methanobacterium thermoautotrophicum is associated with the operon for molybdenum formyl-methanofuran dehydrogenase and binds a DNA sequence near its promoter.
Probab=37.63 E-value=80 Score=25.66 Aligned_cols=44 Identities=18% Similarity=0.178 Sum_probs=35.4
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHh
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVL 219 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~ 219 (221)
-|+..|..|+.+- . ...|.+++++.+|++.......+..+.+.|
T Consensus 6 ~Lte~qr~VL~Lr-~-~GlTq~EIAe~LgiS~stV~~~e~ra~kkL 49 (137)
T TIGR00721 6 FLTERQIKVLELR-E-KGLSQKEIAKELKTTRANVSAIEKRAMENI 49 (137)
T ss_pred CCCHHHHHHHHHH-H-cCCCHHHHHHHHCcCHHHHHHHHHhHHHHH
Confidence 3788898999984 3 556999999999999998887777666554
No 185
>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=37.63 E-value=74 Score=29.97 Aligned_cols=50 Identities=16% Similarity=0.242 Sum_probs=39.7
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+|+.++++.++..+.|+.+. -.+|--.|.|-..|...+++++.+.+
T Consensus 266 ~~~~~~~~~~i~~l~~~~~~i~i~----~~~I~G~PgET~e~~~~t~~fl~~~~ 315 (430)
T TIGR01125 266 PGSGEQQLDFIERLREKCPDAVLR----TTFIVGFPGETEEDFQELLDFVEEGQ 315 (430)
T ss_pred CCCHHHHHHHHHHHHHhCCCCeEe----EEEEEECCCCCHHHHHHHHHHHHhcC
Confidence 367899999999999887666552 24565679999999999999998754
No 186
>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=37.30 E-value=60 Score=26.70 Aligned_cols=33 Identities=30% Similarity=0.489 Sum_probs=23.3
Q ss_pred HHHHHHHHH---HHHHHHHhhc--ccccChhHHHHHHHH
Q 027597 37 EQLATFRSQ---LEDFARKHKN--DIRKNPTFRSQFHEM 70 (221)
Q Consensus 37 ~ql~~F~~~---L~~Fa~kh~~--eI~~dp~fR~~F~~m 70 (221)
.=|.+|+.+ |+.|...=.. -+++||.|| .|.++
T Consensus 103 ~~~~~~kk~~a~lE~fL~Ria~HP~l~~d~~f~-~FLe~ 140 (141)
T cd07291 103 EYLAVFKKTVQVHEVFLQRLSSHPSLSKDRNFH-IFLEY 140 (141)
T ss_pred hhhhHHHHHHHHHHHHHHHHhhCCeeccCcchh-hhccC
Confidence 347788775 8888776443 688999997 57653
No 187
>PHA02591 hypothetical protein; Provisional
Probab=37.27 E-value=1.1e+02 Score=22.82 Aligned_cols=47 Identities=21% Similarity=0.364 Sum_probs=29.7
Q ss_pred EEEeCC-EEEEEecCcccchhHHHHHHHHHh--cCCccHHHHHHhcCCCHHHHHHHHH
Q 027597 159 VISVGK-KKLVRSVPTELNKDHNQILELAQA--QGFVTVDEVERRLSWTSGRAIDALD 213 (221)
Q Consensus 159 vi~i~~-~~~v~Svp~Els~D~~~vlel~~~--~G~vt~~~L~~~l~W~~~Ra~~~L~ 213 (221)
++.+|| ++||-|- |. +..+|.. .-..|++.+++.||.+..-.+.-|+
T Consensus 32 ~vqv~~~ryfi~~~------dd--~~~vA~eL~eqGlSqeqIA~~LGVsqetVrKYL~ 81 (83)
T PHA02591 32 VVQVGQTRYFVESE------DD--LISVTHELARKGFTVEKIASLLGVSVRKVRRYLE 81 (83)
T ss_pred hheeCCEEEEEecc------ch--HHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHh
Confidence 455664 4555443 33 3344443 2346999999999999887776654
No 188
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=37.03 E-value=2.9e+02 Score=24.24 Aligned_cols=30 Identities=17% Similarity=0.127 Sum_probs=24.8
Q ss_pred CCccHHHHHHhcCCCHHHHHHHHHHHHHHh
Q 027597 190 GFVTVDEVERRLSWTSGRAIDALDILLEVL 219 (221)
Q Consensus 190 G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~ 219 (221)
.-.|..++++.+|++..+++..+...++.|
T Consensus 230 ~~~t~~EIA~~lgis~~~V~~~~~ral~kL 259 (264)
T PRK07122 230 ESMTQTQIAERVGISQMHVSRLLAKTLARL 259 (264)
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 357999999999999999999776666554
No 189
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=36.89 E-value=97 Score=18.72 Aligned_cols=45 Identities=16% Similarity=0.194 Sum_probs=33.4
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHh
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVL 219 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~ 219 (221)
.|+.++..++.+.-. .-.|..++++.+|++.......+......|
T Consensus 10 ~l~~~~~~~~~~~~~-~~~~~~~ia~~~~~s~~~i~~~~~~~~~~l 54 (55)
T cd06171 10 KLPEREREVILLRFG-EGLSYEEIAEILGISRSTVRQRLHRALKKL 54 (55)
T ss_pred hCCHHHHHHHHHHHh-cCCCHHHHHHHHCcCHHHHHHHHHHHHHHc
Confidence 355566666665543 446999999999999999998888776554
No 190
>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=36.85 E-value=1.6e+02 Score=21.05 Aligned_cols=69 Identities=19% Similarity=0.225 Sum_probs=46.5
Q ss_pred HHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEe---CCEEEEEecCc
Q 027597 97 YELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISV---GKKKLVRSVPT 173 (221)
Q Consensus 97 ~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i---~~~~~v~Svp~ 173 (221)
.+.|+++.-.+.. ..+++-++..|+-++++ +++.-+.+-++.|+.-| + |... +|-+++.--|.
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 4567777777733 33344599999998866 89999999999999855 4 4444 25666666688
Q ss_pred ccchhH
Q 027597 174 ELNKDH 179 (221)
Q Consensus 174 Els~D~ 179 (221)
+++--.
T Consensus 73 ~Itl~d 78 (83)
T PF02082_consen 73 EITLLD 78 (83)
T ss_dssp GSBHHH
T ss_pred HCCHHH
Confidence 887433
No 191
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=36.19 E-value=1.1e+02 Score=22.16 Aligned_cols=43 Identities=26% Similarity=0.271 Sum_probs=36.3
Q ss_pred cchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 175 ls~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
++.-|..+|......+..+..+|++.+++++.-+..+|+.|.+
T Consensus 20 lt~~q~~~L~~l~~~~~~~~~~la~~l~i~~~~vt~~l~~Le~ 62 (126)
T COG1846 20 LTPPQYQVLLALYEAGGITVKELAERLGLDRSTVTRLLKRLED 62 (126)
T ss_pred CCHHHHHHHHHHHHhCCCcHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 6777888888887767666699999999999999999998875
No 192
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=35.41 E-value=1.2e+02 Score=19.30 Aligned_cols=39 Identities=23% Similarity=0.452 Sum_probs=23.8
Q ss_pred Ccccchh-HHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHH
Q 027597 172 PTELNKD-HNQILELAQAQGFVTVDEVERRLSWTSGRAIDAL 212 (221)
Q Consensus 172 p~Els~D-~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L 212 (221)
|.-++.+ ...++++.+. | .|+.++++.+|.++.=....|
T Consensus 3 p~~~~~~~~~~i~~l~~~-G-~si~~IA~~~gvsr~TvyR~l 42 (45)
T PF02796_consen 3 PPKLSKEQIEEIKELYAE-G-MSIAEIAKQFGVSRSTVYRYL 42 (45)
T ss_dssp SSSSSHCCHHHHHHHHHT-T---HHHHHHHTTS-HHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHC-C-CCHHHHHHHHCcCHHHHHHHH
Confidence 4445553 3446676665 6 999999999999876554443
No 193
>PF06721 DUF1204: Protein of unknown function (DUF1204); InterPro: IPR009596 This family represents the C terminus of a number of Arabidopsis thaliana hypothetical proteins of unknown function. Family members contain a conserved DFD motif.
Probab=35.17 E-value=1.5e+02 Score=25.70 Aligned_cols=37 Identities=14% Similarity=0.494 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHhh-cccccChhHHHHHHHHHHH
Q 027597 35 MKEQLATFRSQLEDFARKHK-NDIRKNPTFRSQFHEMCAK 73 (221)
Q Consensus 35 l~~ql~~F~~~L~~Fa~kh~-~eI~~dp~fR~~F~~mC~s 73 (221)
+.+--+.||..|-. .+.|= +.|..+|-|- +|.+.|-+
T Consensus 82 L~kv~~l~QARidR-vK~HiDdkia~ePkFl-e~nQV~Gn 119 (228)
T PF06721_consen 82 LEKVASLYQARIDR-VKAHIDDKIADEPKFL-EFNQVKGN 119 (228)
T ss_pred HHHHHHHHHHHHHH-HHHHhhhhhhcchHHH-HHHHhhch
Confidence 44444445554443 33333 2456677664 45555544
No 194
>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=35.06 E-value=1e+02 Score=29.07 Aligned_cols=49 Identities=18% Similarity=0.301 Sum_probs=40.1
Q ss_pred CCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
.+.+|+.++++.++....|+.+ +..+|--.|.|-..|....++++...+
T Consensus 256 ~~~~~~~~~i~~lr~~~pgi~i----~~d~IvGfPGET~edf~~tl~fi~~~~ 304 (418)
T PRK14336 256 YTNQQYRELVERLKTAMPDISL----QTDLIVGFPSETEEQFNQSYKLMADIG 304 (418)
T ss_pred CCHHHHHHHHHHHHhhCCCCEE----EEEEEEECCCCCHHHHHHHHHHHHhcC
Confidence 5899999999999988677765 345666789999999999999988644
No 195
>PRK13436 F0F1 ATP synthase subunit delta; Provisional
Probab=34.88 E-value=2.6e+02 Score=23.10 Aligned_cols=39 Identities=23% Similarity=0.239 Sum_probs=26.7
Q ss_pred cCCCcccHHHHHHHHHh----hcCCC------CCCCCHHHHHHHHhhcc
Q 027597 113 HNGGLINLQELCNLLRQ----RRKSN------REAVSEDDCLRAISKLK 151 (221)
Q Consensus 113 ~nGGli~l~el~~~v~k----~Rg~~------~~~IS~~DI~rAi~~L~ 151 (221)
.||-+--+.+++..+.+ .+|.. +..+|++.+.+-.+.|+
T Consensus 84 ~~~R~~~l~~I~~~f~~~~~~~~~~~~~~V~sA~~Ls~~~~~~i~~~l~ 132 (179)
T PRK13436 84 KNNLFIYIKQILKKFVKLSNEKLNITYGEIYTTEPLSEVQISRFESKLS 132 (179)
T ss_pred HCChHHHHHHHHHHHHHHHHHHcCeEEEEEEecCCCCHHHHHHHHHHHH
Confidence 36777777777655443 44432 46889999988888886
No 196
>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=34.88 E-value=1.3e+02 Score=23.49 Aligned_cols=71 Identities=14% Similarity=0.288 Sum_probs=39.1
Q ss_pred cchhHhhccHHHHHHH----HHhcHhHHHHHHHHHHHHHHHHHHHHHH-------HHHHhhcccccChhHHHHHHHHHHH
Q 027597 5 PGIGGLQSAAVARDQY----RLLGENVAKLRTDLMKEQLATFRSQLED-------FARKHKNDIRKNPTFRSQFHEMCAK 73 (221)
Q Consensus 5 ~Gi~ai~~~~~~~~~~----~~~g~~l~~~~~~~l~~ql~~F~~~L~~-------Fa~kh~~eI~~dp~fR~~F~~mC~s 73 (221)
.|||++-+..+.-.++ -..|....++--.-+...++..++.+.. -+..+.+++ ++.|..++++++..
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 4888887765544332 2344444433333444444444433322 222333333 45788899999999
Q ss_pred cCCC
Q 027597 74 VGVD 77 (221)
Q Consensus 74 iGVD 77 (221)
+|+-
T Consensus 90 lg~~ 93 (118)
T TIGR01837 90 LNIP 93 (118)
T ss_pred cCCC
Confidence 9974
No 197
>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]
Probab=34.79 E-value=1.6e+02 Score=26.94 Aligned_cols=45 Identities=20% Similarity=0.408 Sum_probs=39.9
Q ss_pred ccchhHHHHHHHHHhcC-C------ccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQAQG-F------VTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 174 Els~D~~~vlel~~~~G-~------vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.++.|...||+..+.+| + -|++++.+.+|.|+.-++.||-.|++.
T Consensus 222 ~l~~daq~Il~yL~~~gG~mpf~DKSsPEdIk~~FgiSKg~FKrAiGgL~K~ 273 (287)
T COG2996 222 MLDEDAQMILTYLESNGGFMPFNDKSSPEDIKATFGISKGQFKRAIGGLMKA 273 (287)
T ss_pred hhhhhHHHHHHHHHHcCCccccCCCCCHHHHHHHhCcCHHHHHHHHHHHHhC
Confidence 48999999999998744 3 689999999999999999999999874
No 198
>PF14106 DUF4279: Domain of unknown function (DUF4279)
Probab=34.62 E-value=61 Score=24.41 Aligned_cols=29 Identities=10% Similarity=0.164 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 027597 28 AKLRTDLMKEQLATFRSQLEDFARKHKND 56 (221)
Q Consensus 28 ~~~~~~~l~~ql~~F~~~L~~Fa~kh~~e 56 (221)
-+.|+++|-++|+-.++.|.+++++|.-+
T Consensus 53 l~~~l~~ll~~L~~~~~~i~~l~~~~~~~ 81 (118)
T PF14106_consen 53 LEDHLEELLDRLEPKREIIKELKEKYNLE 81 (118)
T ss_pred HHHHHHHHHHHHcccHHHHHHHHHhcCcc
Confidence 35788899999999999999999999876
No 199
>PF10136 SpecificRecomb: Site-specific recombinase; InterPro: IPR011385 This group represents a site-specific recombinase Gcr. Please see the following relevant reference: [].
Probab=34.56 E-value=65 Score=32.67 Aligned_cols=65 Identities=25% Similarity=0.462 Sum_probs=46.4
Q ss_pred cccChhHHHHHHHHHHH--cCCCC--CCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHH
Q 027597 57 IRKNPTFRSQFHEMCAK--VGVDP--LASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLR 128 (221)
Q Consensus 57 I~~dp~fR~~F~~mC~s--iGVDP--L~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~ 128 (221)
++.||+.|.+|+.+... -++|+ |.+.-|+.++ ..|+.||..++-+=-+..-+... ++.||...+-
T Consensus 42 L~~~p~~~~~l~~~l~~~l~~~~~~~L~~d~Gi~~~----~gF~~El~~Rl~~r~lP~~~d~~---~l~~lf~~lF 110 (643)
T PF10136_consen 42 LERNPELRAALRRYLRRLLRERRQYPLLTDSGILSR----SGFFSELSRRLYERLLPAPPDPN---DLSDLFNLLF 110 (643)
T ss_pred HHhCHHHHHHHHHHHHHHHhcCCcchHHHhcCCCCC----ccHHHHHHHHHHhhcCCCCCChh---HHHHHHHHHC
Confidence 34699999999988877 46674 4455555543 78999999999998877666554 4566665554
No 200
>COG4901 Ribosomal protein S25 [Translation, ribosomal structure and biogenesis]
Probab=34.54 E-value=59 Score=25.46 Aligned_cols=31 Identities=23% Similarity=0.051 Sum_probs=27.7
Q ss_pred hcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 188 AQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 188 ~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
..-+||+..|.+.+|..-.-|+.||.+|-.|
T Consensus 56 ~~r~VTpy~la~r~gI~~SvAr~vLR~Leee 86 (107)
T COG4901 56 RERVVTPYVLASRYGINGSVARIVLRHLEEE 86 (107)
T ss_pred cceeecHHHHHHHhccchHHHHHHHHHHHhC
Confidence 3679999999999999999999999998654
No 201
>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=34.37 E-value=67 Score=27.65 Aligned_cols=66 Identities=15% Similarity=0.255 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccChh-HHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHH
Q 027597 34 LMKEQLATFRSQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYEL 99 (221)
Q Consensus 34 ~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~-fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eL 99 (221)
.|..=+..+.+...+++++|.+-.+++=. +=..|+.|+.++.+||-..+.+.-..+-..|+-|-.+
T Consensus 15 ~md~svk~l~~~~~~~~kk~~~~~kkeyqk~G~af~~L~~af~~d~~~~~t~Ls~Al~~~g~~~e~I 81 (199)
T cd07626 15 SMDDSVKNLINIAQEQAKKHQGPYKKEYQKIGQAFTSLGTAFELDETPTSVPLTQAIKHTGQAYEEI 81 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHccCCCccchHHHHHHHHHHHHHHHH
Confidence 45555556677888999999988877754 6556999999999998654433322222234444443
No 202
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=34.32 E-value=1.5e+02 Score=25.85 Aligned_cols=17 Identities=18% Similarity=0.315 Sum_probs=13.5
Q ss_pred CCCCHHHHHHHHhhccc
Q 027597 136 EAVSEDDCLRAISKLKV 152 (221)
Q Consensus 136 ~~IS~~DI~rAi~~L~~ 152 (221)
..++++++.++++.|..
T Consensus 111 ~~~~~~~l~~~~~~i~~ 127 (278)
T PRK11557 111 DVNSEEKLHECVTMLRS 127 (278)
T ss_pred HhcCHHHHHHHHHHHhc
Confidence 35889999999988863
No 203
>cd01301 rDP_like renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics. Although the biological function of the enzyme is still unknown, it has been suggested to play a role in the renal glutathione metabolism.
Probab=34.27 E-value=61 Score=29.56 Aligned_cols=92 Identities=17% Similarity=0.288 Sum_probs=55.9
Q ss_pred chHHHHHHHHHHHhhhh---------cccCCCcccHH-HHHHHHHhhcCCC--CCCCCHHHHHHHHhhccccCCCeEEEE
Q 027597 94 DFYYELGVQIVEICLAT---------RPHNGGLINLQ-ELCNLLRQRRKSN--REAVSEDDCLRAISKLKVLGNGYEVIS 161 (221)
Q Consensus 94 dfy~eLavqIvevC~~t---------r~~nGGli~l~-el~~~v~k~Rg~~--~~~IS~~DI~rAi~~L~~LG~g~~vi~ 161 (221)
+.||+|+|+.+-.+-.. -..++||-++- +++..+|+ .|+. -.=+|++=...+++.-+ .++ +.+
T Consensus 120 ~~~~~lGvR~i~Lt~n~~N~~a~g~~~~~~~GLt~~G~~vv~~mn~-lGmiiDvSH~s~~~~~dv~~~s~---~Pv-iaS 194 (309)
T cd01301 120 RLLYRLGVRYLGLTWNGDNKFADGCGEKRGGGLTPFGKELVREMNR-LGIIIDLSHLSERTFWDVLDISN---APV-IAS 194 (309)
T ss_pred HHHHHcCCeEEEeeecCCCccccCCCCCCCCCCCHHHHHHHHHHHH-cCCEEEcCCCCHHHHHHHHHhcC---CCE-EEe
Confidence 66778887777666322 23567887765 78888876 4542 12356665555555542 232 222
Q ss_pred eCCEEEEEecCcccchhHHHHHHHHHhcCCc
Q 027597 162 VGKKKLVRSVPTELNKDHNQILELAQAQGFV 192 (221)
Q Consensus 162 i~~~~~v~Svp~Els~D~~~vlel~~~~G~v 192 (221)
=.+-.-+..+|..|+.|| +.++++..|.|
T Consensus 195 Hsn~ral~~h~RNltD~~--i~~ia~~GGvi 223 (309)
T cd01301 195 HSNARALCDHPRNLTDAQ--LKAIAETGGVI 223 (309)
T ss_pred ccChHHhcCCCCCCCHHH--HHHHHHcCCEE
Confidence 234444556788999998 66777776644
No 204
>PRK14703 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional
Probab=34.08 E-value=2.9e+02 Score=28.77 Aligned_cols=127 Identities=15% Similarity=0.197 Sum_probs=75.1
Q ss_pred cChhHHHHHHHHHHHcCCCCCCCCCCccccccC---ccchHHHHHHHHHHHhhhh-cccCCCcccHHHHHHHHHhhcCCC
Q 027597 59 KNPTFRSQFHEMCAKVGVDPLASNKGFWAELLG---IGDFYYELGVQIVEICLAT-RPHNGGLINLQELCNLLRQRRKSN 134 (221)
Q Consensus 59 ~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG---~gdfy~eLavqIvevC~~t-r~~nGGli~l~el~~~v~k~Rg~~ 134 (221)
-||+-..++..+....|+.+-... .++. +.+||.+++.. |..+ ..-| .=+.||...+++. ...
T Consensus 592 ~~~~~~~r~~Rlv~eyGLs~~dA~-----~L~~d~~la~yFE~~v~~----~~~pk~aAN---Wl~~El~~~Lne~-~i~ 658 (771)
T PRK14703 592 LNPEQRARFDRYLSELGLNEEDAR-----TLARDPALAAFFEAALAA----GKSPVQLAN---WVVNDLAGLLRDR-ELA 658 (771)
T ss_pred CCHhHHHHHHHHHHHcCCCHHHHH-----HHHcChHHHHHHHHHHHc----CCCHHHHHH---HHHHHHHHHHhcC-CCc
Confidence 467888888888888888754321 0111 24677765432 2111 1111 1267788788775 333
Q ss_pred CCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHH-HHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHH
Q 027597 135 REAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHN-QILELAQAQGFVTVDEVERRLSWTSGRAIDALD 213 (221)
Q Consensus 135 ~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~-~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~ 213 (221)
...||++++..-++.+.. .++|.... .||+.+-. +.-+++++.+..||...--..+|+
T Consensus 659 ~~~l~pe~LaeLv~lV~~--------------------g~IS~~~AK~VL~~m~~-~~~~p~~IIee~GL~qisDe~~Le 717 (771)
T PRK14703 659 ALPFTPAALARLVALVDA--------------------GRISTRIAKDVLAELAA-SGGDPEAIVEAKGLEQVSDAGALE 717 (771)
T ss_pred cCCCCHHHHHHHHHHHHc--------------------CCccHHHHHHHHHHHHh-cCCCHHHHHHhcCCcccCCHHHHH
Confidence 357999999888887653 22333332 24554433 235788999999987665556666
Q ss_pred HHHHHh
Q 027597 214 ILLEVL 219 (221)
Q Consensus 214 ~l~~~~ 219 (221)
.+++|+
T Consensus 718 ~iV~eV 723 (771)
T PRK14703 718 PIVEEV 723 (771)
T ss_pred HHHHHH
Confidence 666654
No 205
>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=34.07 E-value=1.5e+02 Score=20.55 Aligned_cols=46 Identities=13% Similarity=0.265 Sum_probs=25.6
Q ss_pred HHHHHHhcHhHHH--HHHHHHHHHHHHH---HHHHHHHHHHhhcccccChh
Q 027597 17 RDQYRLLGENVAK--LRTDLMKEQLATF---RSQLEDFARKHKNDIRKNPT 62 (221)
Q Consensus 17 ~~~~~~~g~~l~~--~~~~~l~~ql~~F---~~~L~~Fa~kh~~eI~~dp~ 62 (221)
+.+.+++-.++.+ ++.++|+.+++.. .+.++.+|++.-+=++.|+.
T Consensus 23 ~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~AR~~lgm~~~~E~ 73 (80)
T PF04977_consen 23 NQEIAELQKEIEELKKENEELKEEIERLKNDPDYIEKVAREKLGMVKPGEI 73 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcCCcCCCCE
Confidence 4444444444332 3344677777766 44777777766555555554
No 206
>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=33.97 E-value=44 Score=24.59 Aligned_cols=61 Identities=23% Similarity=0.318 Sum_probs=39.5
Q ss_pred hhHHHHHHHHHHHcCCC--CCCCCCCccccccCcc---------chHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHh
Q 027597 61 PTFRSQFHEMCAKVGVD--PLASNKGFWAELLGIG---------DFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQ 129 (221)
Q Consensus 61 p~fR~~F~~mC~siGVD--PL~s~k~~ws~~lG~g---------dfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k 129 (221)
|-=+.+|...|..||-| +|+.. ||+. | |..+..|+.++...=+..+|+--++.-|...+.+
T Consensus 4 ~~t~~~l~~ia~~iG~~Wk~Lar~-------LGls~~dI~~i~~~-~~~~~eq~~~mL~~W~~r~g~~AT~~~L~~aL~~ 75 (86)
T cd08318 4 PVTGEQITVFANKLGEDWKTLAPH-------LEMKDKEIRAIESD-SEDIKMQAKQLLVAWQDREGSQATPETLITALNA 75 (86)
T ss_pred CCCHHHHHHHHHHHhhhHHHHHHH-------cCCCHHHHHHHHhc-CCCHHHHHHHHHHHHHHhcCccccHHHHHHHHHH
Confidence 44456788888888877 44432 4542 3 2346677777777777777776677667666665
No 207
>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=33.79 E-value=34 Score=28.50 Aligned_cols=22 Identities=18% Similarity=0.288 Sum_probs=16.6
Q ss_pred cChhHHHHHHHHHHHcCCCCCC
Q 027597 59 KNPTFRSQFHEMCAKVGVDPLA 80 (221)
Q Consensus 59 ~dp~fR~~F~~mC~siGVDPL~ 80 (221)
-||+=-..|--.|+.+|.||+.
T Consensus 20 ~~~~s~~~a~~~~a~~GL~P~~ 41 (199)
T PF03837_consen 20 CTPESIAGALMQAAQLGLNPFK 41 (199)
T ss_pred CCHHHHHHHHHHHHHhCcCCCc
Confidence 3443224688899999999997
No 208
>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=33.73 E-value=59 Score=23.13 Aligned_cols=38 Identities=16% Similarity=0.212 Sum_probs=32.4
Q ss_pred HHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 181 QILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 181 ~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.|..+....|-.|+++|.+..+.+..-...||-.|.+|
T Consensus 12 ~Vw~~L~~~~~~s~~el~k~~~l~~~~~~~AiGWLarE 49 (65)
T PF10771_consen 12 KVWQLLNENGEWSVSELKKATGLSDKEVYLAIGWLARE 49 (65)
T ss_dssp HHHHHHCCSSSEEHHHHHHHCT-SCHHHHHHHHHHHCT
T ss_pred HHHHHHhhCCCcCHHHHHHHhCcCHHHHHHHHHHHhcc
Confidence 36677777899999999999999999999999998876
No 209
>KOG1106 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.51 E-value=49 Score=28.21 Aligned_cols=41 Identities=22% Similarity=0.332 Sum_probs=30.8
Q ss_pred ccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcC
Q 027597 89 LLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRK 132 (221)
Q Consensus 89 ~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg 132 (221)
+.+++-+||++|.|+ |.--+++|=|++-..-++.|+...-+
T Consensus 95 L~s~~phFY~fg~kl---~~l~s~~~l~~~~se~l~~R~~~~l~ 135 (177)
T KOG1106|consen 95 LRSLCPHFYEFGMKL---LPLDSGENLGIILSETLRSRVREILD 135 (177)
T ss_pred ccccccHHHHHHHHH---hhcccCcchhHHHHHHHHHHHHHHHH
Confidence 566789999999986 56667788666666788888876543
No 210
>PRK14981 DNA-directed RNA polymerase subunit F; Provisional
Probab=33.50 E-value=62 Score=25.18 Aligned_cols=47 Identities=19% Similarity=0.234 Sum_probs=35.3
Q ss_pred cchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 93 GDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 93 gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
+.+.-.-+++|+++|-.+ .+|+...+.+.+.. +|++|+..-++.++.
T Consensus 63 ~~l~e~~a~~I~nL~P~~---------~dElrai~~~~~~~----~~~e~l~~ILd~l~k 109 (112)
T PRK14981 63 EKMKEKTAVKIADILPET---------RDELRAIFAKERYT----LSPEELDEILDIVKK 109 (112)
T ss_pred cCCCHHHHHHHHhcCCCC---------HHHHHHHHHHhccC----CCHHHHHHHHHHHHH
Confidence 345566799999999886 56777777776543 899998887776653
No 211
>PF12298 Bot1p: Eukaryotic mitochondrial regulator protein ; InterPro: IPR021036 This entry represents Ribosomal protein S35, which localises to the mitochondria in live cells and co-fractionates with purified mitochondrial ribosomes. This group of proteins have a novel function in the control of cell respiration by acting on the mitochondrial protein synthesis machinery and a role in mitochondrial integrity. Observations also indicate that in Schizosaccharomyces pombe (Fission yeast), alterations of mitochondrial function are linked to changes in cell cycle and cell morphology control mechanisms [].
Probab=33.44 E-value=96 Score=26.15 Aligned_cols=41 Identities=22% Similarity=0.259 Sum_probs=32.5
Q ss_pred HHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHhcC
Q 027597 180 NQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVLQW 221 (221)
Q Consensus 180 ~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~~~ 221 (221)
..|++.....|. |+.+|+..+|.+..|+.++|.-.--|-+|
T Consensus 23 ~~Iy~~~~~~~~-sv~~vS~~ygi~~~RV~AIvrLkeiE~~~ 63 (172)
T PF12298_consen 23 EQIYEDVMQDGK-SVREVSQKYGIKIQRVEAIVRLKEIEKRW 63 (172)
T ss_pred HHHHHHHHhCCC-CHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 447777777666 99999999999999999999765544444
No 212
>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=33.33 E-value=91 Score=29.25 Aligned_cols=49 Identities=14% Similarity=0.319 Sum_probs=40.6
Q ss_pred CCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
.|.+|+.++++.++..|.++.+ +-.+|--.|.|--.|....++++...+
T Consensus 271 ~~~~~~~~~i~~lr~~~~~i~i----~~~~IvG~PgET~ed~~~tl~~i~~~~ 319 (429)
T TIGR00089 271 YTREEYLDIVEKIRAKIPDAAI----TTDIIVGFPGETEEDFEETLDLVEEVK 319 (429)
T ss_pred CCHHHHHHHHHHHHHHCCCCEE----EeeEEEECCCCCHHHHHHHHHHHHhcC
Confidence 6899999999999988877755 234666789999999999999998754
No 213
>PF13730 HTH_36: Helix-turn-helix domain
Probab=33.25 E-value=77 Score=20.53 Aligned_cols=44 Identities=14% Similarity=0.157 Sum_probs=31.4
Q ss_pred ccchhHHHHHHHHH----hc--CCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQ----AQ--GFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 174 Els~D~~~vlel~~----~~--G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.|+.....|+-... .. -|.|.+.|++.+|-++.-++.+|+.|.+
T Consensus 2 ~Ls~~~~~v~~~l~~~~~~~~~~~pS~~~la~~~g~s~~Tv~~~i~~L~~ 51 (55)
T PF13730_consen 2 NLSPTAKLVYLYLASYANKNGGCFPSQETLAKDLGVSRRTVQRAIKELEE 51 (55)
T ss_pred CCCHHHHHHHHHHHHhcCCCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 35555555543322 22 2568999999999999999999988864
No 214
>PF04801 Sin_N: Sin-like protein conserved region; InterPro: IPR006886 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. RNA polymerase III (Pol III) is a complex consisting of 17 subunits, which synthesizes small RNAs, such as 5S rRNA and tRNAs. Pol III is essential for efficient transcription from both the type 2 VAI and type 3 U6 RNA polymerase III promoters and plays a key role in sensing and limiting infection by intracellular bacteria and DNA viruses. Subunit c5 is a specific peripheric component of RNA polymerase III complex. ; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus
Probab=33.24 E-value=1.8e+02 Score=27.36 Aligned_cols=100 Identities=25% Similarity=0.330 Sum_probs=64.6
Q ss_pred HHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEe------cC
Q 027597 99 LGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRS------VP 172 (221)
Q Consensus 99 LavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~S------vp 172 (221)
|.-||-.+... |=+|++++|+..+... .. |.++|++++.....|=-|. =+++| +|
T Consensus 271 l~eqi~~ll~~-----~~v~~Fs~L~~ll~~~-----~~-~~~~lL~~L~~~AvLV~G~--------WV~kS~ll~~~~~ 331 (421)
T PF04801_consen 271 LEEQIKALLKK-----ARVISFSELRKLLPSN-----SD-TDEELLRALQQVAVLVQGN--------WVVKSELLYPDVP 331 (421)
T ss_pred HHHHHHHHHHh-----CCcccHHHHHHHhccc-----cc-hHHHHHHHHHhheEEEeee--------EEEehhhccCCCc
Confidence 33355544433 4499999999887542 11 6999999999987754443 33444 22
Q ss_pred ccc-chhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 173 TEL-NKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 173 ~El-s~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.|. -.--.-||-+-....+|+-++|....+-+...++.+|..+-.
T Consensus 332 ~e~~~~aRD~iL~~F~~~~~v~r~~l~~~~~l~~~~~~eiL~~~a~ 377 (421)
T PF04801_consen 332 AEQLCRARDYILLLFTKSRYVKRKELMSATKLPPEDVKEILKEIAV 377 (421)
T ss_pred chhhhhhHHHHHHHhcCCCceeHHHhhhhcCCCHHHHHHHHHHHhh
Confidence 221 111111443334457899999999999999999999887643
No 215
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=33.17 E-value=95 Score=22.13 Aligned_cols=36 Identities=19% Similarity=0.171 Sum_probs=27.0
Q ss_pred HHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 181 QILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 181 ~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.||+.++ .|..+.+.|....+-+..++...|+.|..
T Consensus 10 ~IL~~l~-~~~~~~t~i~~~~~L~~~~~~~yL~~L~~ 45 (77)
T PF14947_consen 10 DILKILS-KGGAKKTEIMYKANLNYSTLKKYLKELEE 45 (77)
T ss_dssp HHHHHH--TT-B-HHHHHTTST--HHHHHHHHHHHHH
T ss_pred HHHHHHH-cCCCCHHHHHHHhCcCHHHHHHHHHHHHH
Confidence 4677776 68899999999999999999999999875
No 216
>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=33.10 E-value=1.4e+02 Score=26.43 Aligned_cols=85 Identities=19% Similarity=0.263 Sum_probs=43.5
Q ss_pred HHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCC---CCCCCCH
Q 027597 64 RSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKS---NREAVSE 140 (221)
Q Consensus 64 R~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~---~~~~IS~ 140 (221)
-.++.++|.+.||+.++|.=+..+ =||.-++.+..+ +.--|-+.=-.+++.+.+.... ...--|.
T Consensus 58 ~~~L~~~~~~~gi~f~stpfd~~s-----~d~l~~~~~~~~-------KIaS~dl~n~~lL~~~A~tgkPvIlSTG~stl 125 (241)
T PF03102_consen 58 HKELFEYCKELGIDFFSTPFDEES-----VDFLEELGVPAY-------KIASGDLTNLPLLEYIAKTGKPVILSTGMSTL 125 (241)
T ss_dssp HHHHHHHHHHTT-EEEEEE-SHHH-----HHHHHHHT-SEE-------EE-GGGTT-HHHHHHHHTT-S-EEEE-TT--H
T ss_pred HHHHHHHHHHcCCEEEECCCCHHH-----HHHHHHcCCCEE-------EeccccccCHHHHHHHHHhCCcEEEECCCCCH
Confidence 346999999999998876522211 255555543322 2223444455566666663210 0123578
Q ss_pred HHHHHHHhhc-cccCCCeEEE
Q 027597 141 DDCLRAISKL-KVLGNGYEVI 160 (221)
Q Consensus 141 ~DI~rAi~~L-~~LG~g~~vi 160 (221)
+||.+|++.+ +.-+..+.++
T Consensus 126 ~EI~~Av~~~~~~~~~~l~ll 146 (241)
T PF03102_consen 126 EEIERAVEVLREAGNEDLVLL 146 (241)
T ss_dssp HHHHHHHHHHHHHCT--EEEE
T ss_pred HHHHHHHHHHHhcCCCCEEEE
Confidence 8888998888 4444444443
No 217
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=33.05 E-value=1e+02 Score=22.71 Aligned_cols=39 Identities=15% Similarity=0.180 Sum_probs=25.6
Q ss_pred chhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHH
Q 027597 176 NKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDIL 215 (221)
Q Consensus 176 s~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l 215 (221)
+.+...++.++ ...|+|=+.|.+.||.++.=.-..++.|
T Consensus 5 ~~~~~~ll~~~-~~~~~SGe~La~~LgiSRtaVwK~Iq~L 43 (79)
T COG1654 5 SQMLLLLLLLL-TGNFVSGEKLAEELGISRTAVWKHIQQL 43 (79)
T ss_pred HHHHHHHHHHc-CCCcccHHHHHHHHCccHHHHHHHHHHH
Confidence 33343333333 3479999999999999976555555544
No 218
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=33.03 E-value=48 Score=33.67 Aligned_cols=46 Identities=17% Similarity=0.471 Sum_probs=40.4
Q ss_pred HHH-HHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCC
Q 027597 34 LMK-EQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPL 79 (221)
Q Consensus 34 ~l~-~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL 79 (221)
+++ .-|+.|+..|.+.=.++..-.++.-.|+...+..|..||+||-
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 455 6788889988888888888888899999999999999999987
No 219
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=32.97 E-value=1.4e+02 Score=24.23 Aligned_cols=55 Identities=16% Similarity=0.377 Sum_probs=32.9
Q ss_pred HHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHh---hcccccChhHHHHHHHHHHHcCCCC
Q 027597 21 RLLGENVAKLRTDLMKEQLATFRSQLEDFARKH---KNDIRKNPTFRSQFHEMCAKVGVDP 78 (221)
Q Consensus 21 ~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh---~~eI~~dp~fR~~F~~mC~siGVDP 78 (221)
.....+++ +++|...++.|..-+++--.++ ..+...-.+...++++|...-|+||
T Consensus 15 ra~~re~~---~e~Lee~~ekl~~vv~er~~~~~~~~~~~~er~~~l~~i~~~~~~~Git~ 72 (134)
T PRK10328 15 RAMAREFS---IDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKINTWLELMKADGINP 72 (134)
T ss_pred HHHHHhCC---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCH
Confidence 33344444 5566666666655444443332 2333334456778999999999985
No 220
>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=32.82 E-value=1.2e+02 Score=20.83 Aligned_cols=38 Identities=24% Similarity=0.377 Sum_probs=28.9
Q ss_pred HHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 180 NQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 180 ~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.+|.+..-..|..|..+|.+..+.+....+++|--|++
T Consensus 16 ~~V~~~Ll~~G~ltl~~i~~~t~l~~~~Vk~~L~~LiQ 53 (62)
T PF08221_consen 16 AKVGEVLLSRGRLTLREIVRRTGLSPKQVKKALVVLIQ 53 (62)
T ss_dssp HHHHHHHHHC-SEEHHHHHHHHT--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCcCHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 34555555689999999999999999999999988875
No 221
>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=32.66 E-value=90 Score=22.33 Aligned_cols=28 Identities=21% Similarity=0.197 Sum_probs=24.2
Q ss_pred CCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 190 GFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 190 G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
+.+|..+|++.++-++.....+++.|.+
T Consensus 24 ~~~s~~eiA~~~~i~~~~l~kil~~L~~ 51 (83)
T PF02082_consen 24 KPVSSKEIAERLGISPSYLRKILQKLKK 51 (83)
T ss_dssp C-BEHHHHHHHHTS-HHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHHHhh
Confidence 3599999999999999999999999876
No 222
>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=32.63 E-value=1e+02 Score=28.80 Aligned_cols=50 Identities=20% Similarity=0.413 Sum_probs=39.8
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+++.++++.++....|+.+ +..+|--.|.|--.|....++++...+
T Consensus 269 ~~~~~~~~~~v~~l~~~~~gi~i----~~~~IvG~PgET~ed~~~tl~~i~~~~ 318 (414)
T TIGR01579 269 KYTRDDFLKLVNKLRSVRPDYAF----GTDIIVGFPGESEEDFQETLRMVKEIE 318 (414)
T ss_pred CCCHHHHHHHHHHHHHhCCCCee----eeeEEEECCCCCHHHHHHHHHHHHhCC
Confidence 36889999999999975556654 335666789999999999999998754
No 223
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=32.63 E-value=1e+02 Score=28.93 Aligned_cols=65 Identities=9% Similarity=0.150 Sum_probs=42.6
Q ss_pred chhHhhccHHHHHHHHHhcHhHHHHHHHHH-HHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHc
Q 027597 6 GIGGLQSAAVARDQYRLLGENVAKLRTDLM-KEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKV 74 (221)
Q Consensus 6 Gi~ai~~~~~~~~~~~~~g~~l~~~~~~~l-~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~si 74 (221)
-|.++-+.+.+.+.|.+.++..-..-.+.. .+-|..|..+| .+|.++|..||-.|++|+..-..+
T Consensus 264 evk~vl~~K~t~~~y~~r~I~am~avaea~~NRsL~df~~aL----~qY~~el~~D~~iRsHl~~LYD~L 329 (421)
T COG5159 264 EVKAVLRNKNTLKHYDDRMIRAMLAVAEAFGNRSLKDFSDAL----AQYSDELHQDSFIRSHLQYLYDVL 329 (421)
T ss_pred HHHHHHccchhHhhhhhhhHHHHHHHHHHhCCCcHhhHHHHH----HHhhHHhccCHHHHHHHHHHHHHH
Confidence 567777777777788877766432222211 22344555554 467889999999999999876553
No 224
>PRK15369 two component system sensor kinase SsrB; Provisional
Probab=32.43 E-value=1.5e+02 Score=22.88 Aligned_cols=47 Identities=23% Similarity=0.309 Sum_probs=38.9
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHhc
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVLQ 220 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~~ 220 (221)
+..|+..+..||.+... |+ |..++++.++++..-++.-+..+.+.|+
T Consensus 147 ~~~lt~~e~~vl~l~~~-g~-~~~~Ia~~l~~s~~tv~~~~~~~~~kl~ 193 (211)
T PRK15369 147 PPLLTPRERQILKLITE-GY-TNRDIAEQLSISIKTVETHRLNMMRKLD 193 (211)
T ss_pred ccCCCHHHHHHHHHHHC-CC-CHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 44588888889988654 54 7899999999999999999999888764
No 225
>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=32.33 E-value=4.1e+02 Score=27.68 Aligned_cols=95 Identities=7% Similarity=0.096 Sum_probs=54.5
Q ss_pred HHHHHHHHhhcc------cccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcc
Q 027597 45 QLEDFARKHKND------IRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLI 118 (221)
Q Consensus 45 ~L~~Fa~kh~~e------I~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli 118 (221)
.+.+||..|... -..||.-+.++.+|....+-+|--..++||- .+= -=|++.|++++ +.||.-|
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 444555555432 3569999999999999999999888878875 332 23333444332 3466555
Q ss_pred cH---HHHHHHHHhhcCCCCCCCCHHHHHHHHhhc
Q 027597 119 NL---QELCNLLRQRRKSNREAVSEDDCLRAISKL 150 (221)
Q Consensus 119 ~l---~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L 150 (221)
++ +..+.-.-++ ......||+++...-++.|
T Consensus 277 s~GR~Dq~L~Pyy~~-Dl~~G~it~e~A~ELl~~~ 310 (786)
T TIGR01774 277 SMGRIDQYLYPFYKK-DIGEGRIDRELAFEILASL 310 (786)
T ss_pred CCCchHHHHHHHHHh-HHhcCCCCHHHHHHHHHHH
Confidence 53 3333222221 1112347888766655544
No 226
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=32.24 E-value=3.2e+02 Score=23.80 Aligned_cols=64 Identities=20% Similarity=0.254 Sum_probs=44.9
Q ss_pred CCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHH-HHHh--cCCccHHHHHHhcCCCHHHHHHHH
Q 027597 136 EAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILE-LAQA--QGFVTVDEVERRLSWTSGRAIDAL 212 (221)
Q Consensus 136 ~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vle-l~~~--~G~vt~~~L~~~l~W~~~Ra~~~L 212 (221)
..||.+++..++..+ +-.+ ..++.-+...|. ++.. .+.++++++++.+|++..-+..++
T Consensus 215 ~~it~~~v~~~l~~l---~~~~---------------~~l~~~~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~ 276 (305)
T TIGR00635 215 KIINRDIALKALEML---MIDE---------------LGLDEIDRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVY 276 (305)
T ss_pred CCcCHHHHHHHHHHh---CCCC---------------CCCCHHHHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhh
Confidence 458999999888773 2111 123333444555 4442 456999999999999999999999
Q ss_pred H-HHHH
Q 027597 213 D-ILLE 217 (221)
Q Consensus 213 ~-~l~~ 217 (221)
+ .|+.
T Consensus 277 e~~Li~ 282 (305)
T TIGR00635 277 EPYLLQ 282 (305)
T ss_pred hHHHHH
Confidence 9 5876
No 227
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=32.21 E-value=1.2e+02 Score=25.70 Aligned_cols=46 Identities=22% Similarity=0.190 Sum_probs=36.4
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
|-.|+.-|-.||..+...+.+|.++|++.++-++.-+-.+|+.|-+
T Consensus 40 ~~gLt~~q~~iL~~L~~~~~itq~eLa~~l~l~~sTvtr~l~rLE~ 85 (185)
T PRK13777 40 PYDLNINEHHILWIAYHLKGASISEIAKFGVMHVSTAFNFSKKLEE 85 (185)
T ss_pred HCCCCHHHHHHHHHHHhCCCcCHHHHHHHHCCCHhhHHHHHHHHHH
Confidence 3345666778998888888899999999999888777777777654
No 228
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=32.11 E-value=99 Score=22.08 Aligned_cols=36 Identities=14% Similarity=0.209 Sum_probs=29.4
Q ss_pred HHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 183 LELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 183 lel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
..++..-..++.+.+++.++++...++..|-+|+.+
T Consensus 52 ~~l~~~y~~i~~~~ia~~l~~~~~~vE~~l~~~I~~ 87 (105)
T PF01399_consen 52 RQLSKPYSSISISEIAKALQLSEEEVESILIDLISN 87 (105)
T ss_dssp HHHHHC-SEEEHHHHHHHHTCCHHHHHHHHHHHHHT
T ss_pred HHHHHHhcccchHHHHHHhccchHHHHHHHHHHHHC
Confidence 344455577999999999999999999999998864
No 229
>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=32.04 E-value=1e+02 Score=30.17 Aligned_cols=50 Identities=16% Similarity=0.304 Sum_probs=40.2
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.++++++++.++..+.++.+ +..+|--.|.|-..|....++++...+
T Consensus 343 ~~t~e~~~~~v~~lr~~~p~i~i----~tdiIvGfPgET~edf~~Tl~~v~~l~ 392 (509)
T PRK14327 343 KYTRESYLELVRKIKEAIPNVAL----TTDIIVGFPNETDEQFEETLSLYREVG 392 (509)
T ss_pred CCCHHHHHHHHHHHHHhCCCcEE----eeeEEEeCCCCCHHHHHHHHHHHHHcC
Confidence 36899999999999988777765 233555579999999999999998754
No 230
>PF08726 EFhand_Ca_insen: Ca2+ insensitive EF hand; InterPro: IPR014837 EF hands are helix-loop-helix binding motifs involved in the regulation of many cellular processes. EF hands usually bind to Ca2+ ions, which cause a major conformational change that allows the protein to interact with its designated targets. This protein corresponds to an EF hand which has partially or entirely lost its calcium-binding properties. The calcium insensitive EF hand is still able to mediate protein-protein recognition []. ; PDB: 1H8B_A 1SJJ_B.
Probab=31.93 E-value=27 Score=25.12 Aligned_cols=18 Identities=33% Similarity=0.602 Sum_probs=14.3
Q ss_pred HHHhcCCccHHHHHHhcC
Q 027597 185 LAQAQGFVTVDEVERRLS 202 (221)
Q Consensus 185 l~~~~G~vt~~~L~~~l~ 202 (221)
+|..++|||.++|+..|-
T Consensus 15 lA~~KpyVT~~dLr~~l~ 32 (69)
T PF08726_consen 15 LAGGKPYVTEEDLRRSLT 32 (69)
T ss_dssp HCTSSSCEEHHHHHHHS-
T ss_pred HHcCCCcccHHHHHHHcC
Confidence 366789999999998764
No 231
>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=31.73 E-value=1.1e+02 Score=19.98 Aligned_cols=30 Identities=20% Similarity=0.243 Sum_probs=16.7
Q ss_pred HHHHHhhcccccChhHHHHHHHHHH-HcCCCC
Q 027597 48 DFARKHKNDIRKNPTFRSQFHEMCA-KVGVDP 78 (221)
Q Consensus 48 ~Fa~kh~~eI~~dp~fR~~F~~mC~-siGVDP 78 (221)
+.+...=..|. ||..|..+.+.++ .+|||+
T Consensus 26 ~~~~~~i~~i~-~~i~r~~y~~~la~~~~i~~ 56 (59)
T PF10410_consen 26 REAAPLIAQIP-DPIERELYIRELAERLGISE 56 (59)
T ss_dssp HHHHHHHTT---SHHHHHHHHHHHHHHCT-SS
T ss_pred HHHHHHHHHCC-CHHHHHHHHHHHHHHhCcCc
Confidence 33444444555 8888877765544 589886
No 232
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=31.70 E-value=1.2e+02 Score=24.49 Aligned_cols=55 Identities=16% Similarity=0.307 Sum_probs=33.7
Q ss_pred HHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc---cccChhHHHHHHHHHHHcCCCC
Q 027597 21 RLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKND---IRKNPTFRSQFHEMCAKVGVDP 78 (221)
Q Consensus 21 ~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh~~e---I~~dp~fR~~F~~mC~siGVDP 78 (221)
.....+++ +++|...++.|..-+++--.+.... +..-.+-..++++|....|+||
T Consensus 15 ra~~re~~---~e~Lee~~ekl~~vv~er~ee~~~~~~~~~er~~kl~~~r~~m~~~Gis~ 72 (135)
T PRK10947 15 RAQARECT---LETLEEMLEKLEVVVNERREEESAAAAEVEERTRKLQQYREMLIADGIDP 72 (135)
T ss_pred HHHHHHCC---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCH
Confidence 33344444 6666666777766555544443333 3333344678999999999995
No 233
>COG1001 AdeC Adenine deaminase [Nucleotide transport and metabolism]
Probab=31.63 E-value=94 Score=31.19 Aligned_cols=34 Identities=29% Similarity=0.617 Sum_probs=26.4
Q ss_pred CCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCc
Q 027597 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT 173 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~ 173 (221)
.+++|+..|++.|+..|+|+.++.=|. ++-.+|-
T Consensus 481 ~n~~Dm~~Avn~l~e~gGGivvv~~Ge--v~~~lpL 514 (584)
T COG1001 481 VNDEDMALAVNRLKEIGGGIVVVENGE--VLEELPL 514 (584)
T ss_pred CCHHHHHHHHHHHHhcCCcEEEEECCE--EEEEecc
Confidence 579999999999999999998876543 3334443
No 234
>PRK14326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=31.58 E-value=1e+02 Score=29.93 Aligned_cols=50 Identities=12% Similarity=0.260 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+++.++++.++..+.|+.+. ..+|--.|.|-..|...+++++...+
T Consensus 288 ~~t~~~~~~~v~~lr~~~~~i~i~----~~~IvGfPgET~edf~~Tl~~i~~~~ 337 (502)
T PRK14326 288 SYRSERFLGILEKVRAAMPDAAIT----TDIIVGFPGETEEDFQATLDVVREAR 337 (502)
T ss_pred CCCHHHHHHHHHHHHHhCCCCeEE----EEEEEECCCCCHHHHHHHHHHHHHcC
Confidence 378999999999999877776653 35676789999999999999998644
No 235
>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=31.43 E-value=1.1e+02 Score=29.03 Aligned_cols=50 Identities=16% Similarity=0.270 Sum_probs=39.9
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+|+.++++.++....++.+ +..+|--.|.|-..|....++++...+
T Consensus 278 ~~~~~~~~~~i~~lr~~~~~i~i----~~d~IvG~PgET~ed~~~tl~~i~~l~ 327 (439)
T PRK14328 278 HYTREYYLELVEKIKSNIPDVAI----TTDIIVGFPGETEEDFEETLDLVKEVR 327 (439)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----EEEEEEECCCCCHHHHHHHHHHHHhcC
Confidence 47899999999999887666654 335666689999999999999988644
No 236
>PHA02047 phage lambda Rz1-like protein
Probab=31.30 E-value=1.6e+02 Score=22.86 Aligned_cols=30 Identities=13% Similarity=0.317 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHhhcccc
Q 027597 29 KLRTDLMKEQLATFRS---QLEDFARKHKNDIR 58 (221)
Q Consensus 29 ~~~~~~l~~ql~~F~~---~L~~Fa~kh~~eI~ 58 (221)
+.|++++..++...+. +|+..+.+...||+
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 3556666666666665 56666666666554
No 237
>COG0405 Ggt Gamma-glutamyltransferase [Amino acid transport and metabolism]
Probab=31.24 E-value=1.3e+02 Score=30.02 Aligned_cols=35 Identities=31% Similarity=0.526 Sum_probs=25.8
Q ss_pred CccchH-HHHHHHHHHHhhhhcccCCCcccHHHHHHHHHh
Q 027597 91 GIGDFY-YELGVQIVEICLATRPHNGGLINLQELCNLLRQ 129 (221)
Q Consensus 91 G~gdfy-~eLavqIvevC~~tr~~nGGli~l~el~~~v~k 129 (221)
|-..|| -++|.+|++.-.+ +||+|+++|+-..=.+
T Consensus 206 G~~~FY~G~iA~~iv~~~~~----~gG~lt~eDla~Y~~~ 241 (539)
T COG0405 206 GPDAFYKGEIADAIVKAVQK----AGGLLTLEDLAGYRVE 241 (539)
T ss_pred CcccccCcHHHHHHHHHHHH----cCCcccHHHHhhCCce
Confidence 344566 4788888887765 4999999999866433
No 238
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, 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 []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=31.19 E-value=1.1e+02 Score=21.15 Aligned_cols=33 Identities=24% Similarity=0.212 Sum_probs=24.0
Q ss_pred HHHHHHhcC-CccHHHHHHhcCCCHHHHHHHHHH
Q 027597 182 ILELAQAQG-FVTVDEVERRLSWTSGRAIDALDI 214 (221)
Q Consensus 182 vlel~~~~G-~vt~~~L~~~l~W~~~Ra~~~L~~ 214 (221)
.-++.+..| .-|.++|++.+|++..+.+.++..
T Consensus 10 ~~~L~~~lgr~Pt~eEiA~~lgis~~~v~~~l~~ 43 (78)
T PF04539_consen 10 RRELEQELGREPTDEEIAEELGISVEEVRELLQA 43 (78)
T ss_dssp HHHHHHHHSS--BHHHHHHHHTS-HHHHHHHHHH
T ss_pred HHHHHHHhCCCCCHHHHHHHHcccHHHHHHHHHh
Confidence 344555555 599999999999999999998864
No 239
>PF13499 EF-hand_7: EF-hand domain pair; PDB: 1TCF_A 2TN4_A 1TN4_A 1A2X_A 2CT9_B 2OTG_B 2OS8_B 1SNL_A 3O4Y_A 3J04_E ....
Probab=30.83 E-value=1.6e+02 Score=19.38 Aligned_cols=57 Identities=19% Similarity=0.322 Sum_probs=33.8
Q ss_pred HHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCC-CcccHHHHHHH
Q 027597 48 DFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNG-GLINLQELCNL 126 (221)
Q Consensus 48 ~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nG-Gli~l~el~~~ 126 (221)
.|=.++.+-|..+ .|+.++..+|..+. .+.....++-+...-+.|| |.|++.|.+..
T Consensus 8 ~~D~d~~G~i~~~-----el~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~D~d~dG~i~~~Ef~~~ 65 (66)
T PF13499_consen 8 KFDKDGDGYISKE-----ELRRALKHLGRDMS-----------------DEESDEMIDQIFREFDTDGDGRISFDEFLNF 65 (66)
T ss_dssp HHSTTSSSEEEHH-----HHHHHHHHTTSHST-----------------HHHHHHHHHHHHHHHTTTSSSSEEHHHHHHH
T ss_pred HHcCCccCCCCHH-----HHHHHHHHhccccc-----------------HHHHHHHHHHHHHHhCCCCcCCCcHHHHhcc
Confidence 3334445555544 56677777775532 3444445555566666665 88888887754
No 240
>PLN02859 glutamine-tRNA ligase
Probab=30.66 E-value=71 Score=33.20 Aligned_cols=84 Identities=14% Similarity=0.223 Sum_probs=55.1
Q ss_pred HHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHh
Q 027597 50 ARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQ 129 (221)
Q Consensus 50 a~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k 129 (221)
..+...++.+||.+-+.+...-...|+++-.. + ..|..-|.||.++-. ....-.+-|...|..
T Consensus 18 ~e~kAketlKN~klt~~L~~iI~ea~~~~~~d-k-------~~g~LLy~LAtk~~~---------~~~~~r~~lv~~I~~ 80 (788)
T PLN02859 18 DERTARNAIANNKVTSNLTAVIHEAGVTNGCD-K-------TVGNLLYTVATKYPA---------NALVHRPTLLSYIVS 80 (788)
T ss_pred ChHHHHHHHhCHHHHHHHHHHHHhcCCccCCC-h-------HHHHHHHHHHHhcCC---------ccchhHHHHHHHHHh
Confidence 34667799999999999999999999874321 1 137888999877521 223334456666655
Q ss_pred hcCCCCCCCCHHHHHHHHhhccccCC
Q 027597 130 RRKSNREAVSEDDCLRAISKLKVLGN 155 (221)
Q Consensus 130 ~Rg~~~~~IS~~DI~rAi~~L~~LG~ 155 (221)
.. .-|+..+-.|++.++.-|.
T Consensus 81 gk-----IkT~~Ql~AA~kYl~~~~~ 101 (788)
T PLN02859 81 SK-----IKTPAQLEAAFSFFSSTGP 101 (788)
T ss_pred CC-----CCCHHHHHHHHHHHHhCCC
Confidence 32 2366677777777765554
No 241
>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=30.60 E-value=76 Score=20.56 Aligned_cols=22 Identities=27% Similarity=0.567 Sum_probs=15.3
Q ss_pred HHHHHHHHHhhcccccChhHHHHHHH
Q 027597 44 SQLEDFARKHKNDIRKNPTFRSQFHE 69 (221)
Q Consensus 44 ~~L~~Fa~kh~~eI~~dp~fR~~F~~ 69 (221)
+.|..|..+= .+||.||.++++
T Consensus 4 ~~l~~Fl~~~----~~d~~l~~~l~~ 25 (49)
T PF07862_consen 4 ESLKAFLEKV----KSDPELREQLKA 25 (49)
T ss_pred HHHHHHHHHH----hcCHHHHHHHHh
Confidence 3455665543 479999988887
No 242
>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=30.55 E-value=43 Score=32.15 Aligned_cols=80 Identities=10% Similarity=0.157 Sum_probs=54.4
Q ss_pred HHHHHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHH
Q 027597 18 DQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYY 97 (221)
Q Consensus 18 ~~~~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~ 97 (221)
+...+....+...-++.|...++.|.++++. ..-|-..-++..+.+.-..++|...|...++.+|+--.+-.|+.+|.-
T Consensus 32 ~~~r~~~~~ik~~~~~~ld~~l~~~~~~~~~-~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~eeigl~~~L~ 110 (432)
T TIGR00273 32 EEWRELVKEIKLKVLENLDFYLDQLKENVTQ-RGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEEIGLNEVLE 110 (432)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH-CCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHHhCCHHHHH
Confidence 4455666777777788888999999888854 222222333435677788999999999988766665555566666654
Q ss_pred H
Q 027597 98 E 98 (221)
Q Consensus 98 e 98 (221)
+
T Consensus 111 ~ 111 (432)
T TIGR00273 111 K 111 (432)
T ss_pred h
Confidence 4
No 243
>PRK09430 djlA Dna-J like membrane chaperone protein; Provisional
Probab=30.35 E-value=3.3e+02 Score=24.20 Aligned_cols=102 Identities=21% Similarity=0.282 Sum_probs=60.9
Q ss_pred HHHHHHHHhhcccccChhHHHHHHHHHHHcCC-C-CCCCCC----CccccccCccchHHHHHHHHHHH--hhhhcccCCC
Q 027597 45 QLEDFARKHKNDIRKNPTFRSQFHEMCAKVGV-D-PLASNK----GFWAELLGIGDFYYELGVQIVEI--CLATRPHNGG 116 (221)
Q Consensus 45 ~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGV-D-PL~s~k----~~ws~~lG~gdfy~eLavqIvev--C~~tr~~nGG 116 (221)
.|.+|++..+......|.....|..+|-.+-. | .+.... .-+++.||++..-++-...-++. +.. +..||+
T Consensus 110 ~l~~~~~~~~~~~~~r~~l~~~lL~~l~~vA~ADG~l~~~E~~~L~~Ia~~Lgis~~df~~~~~~~~~~~~f~-~~~~~~ 188 (267)
T PRK09430 110 PLREKLRQFRSVCGGRFDLLRMFLEIQIQAAFADGSLHPNERQVLYVIAEELGFSRFQFDQLLRMMQAGFRFQ-QQQGGG 188 (267)
T ss_pred CHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhhc-cccccc
Confidence 37788888777777788877667655544322 3 222211 13556788876555555544443 221 111111
Q ss_pred -------cccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 117 -------LINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 117 -------li~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
-+++.+.|..+.=. ...|+++|.+|-++|-.
T Consensus 189 ~~~~~~~~~~~~~ay~vLgv~-----~~as~~eIk~aYr~L~~ 226 (267)
T PRK09430 189 GYQQAQRGPTLEDAYKVLGVS-----ESDDDQEIKRAYRKLMS 226 (267)
T ss_pred ccccccCCCcHHhHHHHcCCC-----CCCCHHHHHHHHHHHHH
Confidence 36778888776633 45799999999999843
No 244
>PRK10027 cryptic adenine deaminase; Provisional
Probab=30.25 E-value=1e+02 Score=30.81 Aligned_cols=33 Identities=21% Similarity=0.360 Sum_probs=26.0
Q ss_pred CCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecC
Q 027597 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVP 172 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp 172 (221)
-+++|+..|++.|..+|+||.++.=| +++-++|
T Consensus 483 ~~~~dm~~A~~~l~~~~GG~vvv~~g--~v~a~lp 515 (588)
T PRK10027 483 RSAEEMALAVNQVIQDGGGLCVVRNG--QVQSHLP 515 (588)
T ss_pred CCHHHHHHHHHHHHHhCCcEEEEECC--EEEEEec
Confidence 47999999999999999999887533 4554554
No 245
>KOG2916 consensus Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=29.86 E-value=2.1e+02 Score=26.23 Aligned_cols=76 Identities=30% Similarity=0.523 Sum_probs=45.9
Q ss_pred CCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCC--CeEEEEeC-CEEEEE-e----cCccc------chhHH
Q 027597 115 GGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGN--GYEVISVG-KKKLVR-S----VPTEL------NKDHN 180 (221)
Q Consensus 115 GGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~--g~~vi~i~-~~~~v~-S----vp~El------s~D~~ 180 (221)
-|||=|+||-+| | +|+|++|-..|. ...|+.++ ++-||- | .|.+. .+...
T Consensus 43 EGmiLlsELSrR----R------------IRSI~klirVGr~E~vvVlrVDkekGYIDLSkrrVs~ed~~kC~Er~~ksK 106 (304)
T KOG2916|consen 43 EGMILLSELSRR----R------------IRSIQKLIRVGRNEPVVVLRVDKEKGYIDLSKRRVSPEDKEKCEERFAKSK 106 (304)
T ss_pred ccchhhhHHHHH----H------------HHHHHHHHhcCCcceEEEEEEcCCCCceechhccCCHHHHHHHHHHHHHhH
Confidence 388877776543 3 578888877774 45666666 666764 1 12211 11111
Q ss_pred HH---H-HHHHhcCCccHHHHHHhcCCCHHH
Q 027597 181 QI---L-ELAQAQGFVTVDEVERRLSWTSGR 207 (221)
Q Consensus 181 ~v---l-el~~~~G~vt~~~L~~~l~W~~~R 207 (221)
.| + -.|+..||- .++|-.+.||..+|
T Consensus 107 ~v~sIlrhvAe~~g~~-LeeLY~~igW~~~r 136 (304)
T KOG2916|consen 107 LVYSILRHVAEKLGYE-LEELYQRIGWPLER 136 (304)
T ss_pred HHHHHHHHHHHHhCCc-HHHHHHHhCCchhh
Confidence 12 2 223445654 99999999999887
No 246
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=29.81 E-value=1.3e+02 Score=24.58 Aligned_cols=42 Identities=19% Similarity=0.165 Sum_probs=34.8
Q ss_pred chhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 176 NKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 176 s~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
-.++..|+++.-..|-+|.++|+..+|.+..-.+..|..|..
T Consensus 13 g~~~v~Vl~aL~~~~~~tdEeLa~~Lgi~~~~VRk~L~~L~e 54 (158)
T TIGR00373 13 EEEVGLVLFSLGIKGEFTDEEISLELGIKLNEVRKALYALYD 54 (158)
T ss_pred ChhHHHHHHHHhccCCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 345666788766678999999999999999999999987753
No 247
>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=29.70 E-value=1.2e+02 Score=23.18 Aligned_cols=29 Identities=24% Similarity=0.267 Sum_probs=26.3
Q ss_pred cCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 189 QGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 189 ~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.+.+|.++|++.++.+......+|+.|.+
T Consensus 23 ~~~~s~~eia~~~~i~~~~v~~il~~L~~ 51 (132)
T TIGR00738 23 EGPVSVKEIAERQGISRSYLEKILRTLRR 51 (132)
T ss_pred CCcCcHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 45899999999999999999999998875
No 248
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain. This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.
Probab=29.67 E-value=1.4e+02 Score=20.43 Aligned_cols=36 Identities=14% Similarity=0.186 Sum_probs=28.6
Q ss_pred HHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 181 QILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 181 ~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.++++.. .++.|.++|++.+|-+..-+...+..|-+
T Consensus 4 ~il~~L~-~~~~~~~eLa~~l~vS~~tv~~~l~~L~~ 39 (69)
T TIGR00122 4 RLLALLA-DNPFSGEKLGEALGMSRTAVNKHIQTLRE 39 (69)
T ss_pred HHHHHHH-cCCcCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3555544 46789999999999999999888887743
No 249
>KOG2165 consensus Anaphase-promoting complex (APC), subunit 2 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=29.55 E-value=1.9e+02 Score=29.86 Aligned_cols=74 Identities=20% Similarity=0.223 Sum_probs=56.0
Q ss_pred HHHHHHHHhhc----------------cccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcCCccHHHHHHhcCC
Q 027597 140 EDDCLRAISKL----------------KVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQGFVTVDEVERRLSW 203 (221)
Q Consensus 140 ~~DI~rAi~~L----------------~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G~vt~~~L~~~l~W 203 (221)
|.||.++.++- +.+|.==-=|.+++|++..+| +.-|..++-+-++....|.++|++.+|.
T Consensus 553 P~pl~~el~~Y~~~Y~~~K~~RkL~w~~~lG~Veieie~~DRtl~~tV----sp~qA~iI~~Fqek~twt~eelse~l~i 628 (765)
T KOG2165|consen 553 PGPLEAELDKYAEIYEQLKRGRKLQWLKNLGKVEIEIEFEDRTLVLTV----SPEQAAIINLFQEKNTWTLEELSESLGI 628 (765)
T ss_pred ChhHHHHHHHHHHHHHHhccCCeeeeecccCeEEEEEEEcCeEEEEee----CHHHHHHHHHhcCcccccHHHHHHHhCC
Confidence 67777776542 235522222445699999999 5668888888888888999999999999
Q ss_pred CHHHHHHHHHHHHH
Q 027597 204 TSGRAIDALDILLE 217 (221)
Q Consensus 204 ~~~Ra~~~L~~l~~ 217 (221)
++.+-+.-|+-.++
T Consensus 629 p~~~lrrrL~fWi~ 642 (765)
T KOG2165|consen 629 PVPALRRRLSFWIQ 642 (765)
T ss_pred CHHHHHHHHHHHHH
Confidence 99999988887664
No 250
>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=29.20 E-value=1.2e+02 Score=23.34 Aligned_cols=29 Identities=10% Similarity=0.027 Sum_probs=26.3
Q ss_pred cCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 189 QGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 189 ~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.+.+|+.+|++.+|-+..-+..+|+.|.+
T Consensus 23 ~~~~s~~eia~~l~is~~~v~~~l~~L~~ 51 (130)
T TIGR02944 23 SQPYSAAEIAEQTGLNAPTVSKILKQLSL 51 (130)
T ss_pred CCCccHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 46899999999999999999999998875
No 251
>TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain. This model represents the well-conserved C-terminal region of the major, essential sigma factor of most bacteria. Members of this clade show considerable variability in domain architecture and molecular weight, as well as in nomenclature: RpoD in E. coli and other Proteobacteria, SigA in Bacillus subtilis and many other Gram-positive bacteria, HrdB in Streptomyces, MysA in Mycobacterium smegmatis, etc.
Probab=29.14 E-value=1.4e+02 Score=25.58 Aligned_cols=46 Identities=20% Similarity=0.223 Sum_probs=33.3
Q ss_pred cchhHHHHHHHHHh---cCCccHHHHHHhcCCCHHHHHHHHHHHHHHhc
Q 027597 175 LNKDHNQILELAQA---QGFVTVDEVERRLSWTSGRAIDALDILLEVLQ 220 (221)
Q Consensus 175 ls~D~~~vlel~~~---~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~~ 220 (221)
|+..+..|+.+.-. ..-.|..++++.+|.+..|+++.....++.|.
T Consensus 177 L~~~er~vl~l~ygl~~~~~~t~~EIA~~lgis~~~V~q~~~~al~kLr 225 (238)
T TIGR02393 177 LTERERKVLRMRYGLLDGRPHTLEEVGKEFNVTRERIRQIESKALRKLR 225 (238)
T ss_pred CCHHHHHHHHHHhCCCCCCCccHHHHHHHHCCCHHHHHHHHHHHHHHHh
Confidence 44445555555441 13379999999999999999998888777653
No 252
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=29.06 E-value=3.1e+02 Score=22.91 Aligned_cols=75 Identities=7% Similarity=0.118 Sum_probs=53.8
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHH
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILL 216 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~ 216 (221)
..+++++..||+.... |..| +. . ...+-|..||.-+..||.+... | .|..++++.++.+..-+++-+..+.
T Consensus 107 ~~~~~~L~~aI~~v~~-g~~~--~~--~--~~~~~~~~LT~RE~eVL~lla~-G-~snkeIA~~L~iS~~TVk~h~~~I~ 177 (207)
T PRK15411 107 SIKPESLDDLLGDILK-KETT--IT--S--FLNLPTLSLSRTESSMLRMWMA-G-QGTIQISDQMNIKAKTVSSHKGNIK 177 (207)
T ss_pred cCCHHHHHHHHHHHHc-CCcc--cC--c--cccCCcccCCHHHHHHHHHHHc-C-CCHHHHHHHcCCCHHHHHHHHHHHH
Confidence 4689999999988643 2111 11 0 0112334599999999998876 4 4668999999999999998888888
Q ss_pred HHhc
Q 027597 217 EVLQ 220 (221)
Q Consensus 217 ~~~~ 220 (221)
+-|+
T Consensus 178 ~KL~ 181 (207)
T PRK15411 178 RKIK 181 (207)
T ss_pred HHhC
Confidence 7664
No 253
>COG5296 Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription]
Probab=28.98 E-value=26 Score=33.67 Aligned_cols=104 Identities=14% Similarity=0.193 Sum_probs=71.8
Q ss_pred ccCCCcccHHHHHHHHHhhcCCC----CCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHH
Q 027597 112 PHNGGLINLQELCNLLRQRRKSN----REAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQ 187 (221)
Q Consensus 112 ~~nGGli~l~el~~~v~k~Rg~~----~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~ 187 (221)
..|||+=-|.+|-++ ||.|.+. ++.+--+| ....-|...||.+++-....|-+|+-.++|.....|..--.
T Consensus 406 N~ns~~~~L~~v~~r-NRr~N~t~IR~AE~~~~Ee----a~~~~~~S~P~S~L~~~s~~~~~~I~~~~N~~~~~v~~~EK 480 (521)
T COG5296 406 NVNSGRPLLAKVNER-NRRRNHTEIRLAEQRMNEE----AATATPMSAPTSVLTQPSPSLSTSIMPKLNPSESVVVASEK 480 (521)
T ss_pred ccccchHHHHHhhhh-hhhccchhhhhHHHHhhhh----hccCCccCCcchhhcCCCcchHhhhccccCcchhHHHHhhh
Confidence 567888777777765 4444432 11111122 45566889999999988888888888899988776653211
Q ss_pred h-cCCccHHHHHHhcCCCHHHHHHHHHHHHHHhc
Q 027597 188 A-QGFVTVDEVERRLSWTSGRAIDALDILLEVLQ 220 (221)
Q Consensus 188 ~-~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~~ 220 (221)
. ..-.+...|-..+-.+..|+-.-|++||.++.
T Consensus 481 ~~~~~~s~~~~~~Ei~VtQ~~~v~Gid~ii~~vD 514 (521)
T COG5296 481 ASSPDLSPKLLPSEIAVTQTPAVHGIDDIIATVD 514 (521)
T ss_pred cCCCccchhhchhhhhhhhcccccCHhhhhheee
Confidence 1 34577777777788888889999999998864
No 254
>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=28.92 E-value=1.6e+02 Score=28.05 Aligned_cols=45 Identities=20% Similarity=0.344 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCC
Q 027597 33 DLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVD 77 (221)
Q Consensus 33 ~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVD 77 (221)
..+...|..+...++..-.--..||...+++|..|++=|..+|..
T Consensus 259 ~kig~~lR~cay~v~AL~gcl~seiq~p~~~r~~~~~~~~~~~~e 303 (406)
T PF11744_consen 259 LKIGALLRHCAYCVEALHGCLNSEIQAPPELRQKFQEECTRVSSE 303 (406)
T ss_pred HHHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHH
Confidence 344455555555555544444678999999999999999998854
No 255
>COG1460 Uncharacterized protein conserved in archaea [Function unknown]
Probab=28.92 E-value=1.2e+02 Score=24.11 Aligned_cols=61 Identities=18% Similarity=0.219 Sum_probs=46.1
Q ss_pred cChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCC
Q 027597 59 KNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAV 138 (221)
Q Consensus 59 ~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~I 138 (221)
=||+--+++..=..+|+.. =-.+|++|+++|-.| ..||...+.+.|.. +
T Consensus 48 ldpe~a~e~veEL~~i~~~------------------~e~~avkIadI~P~t---------~~ElRsIla~e~~~----~ 96 (114)
T COG1460 48 LDPEKARELVEELLSIVKM------------------SEKIAVKIADIMPRT---------PDELRSILAKERVM----L 96 (114)
T ss_pred CCHHHHHHHHHHHHhhccc------------------cHHHHHHHHHhCCCC---------HHHHHHHHHHccCC----C
Confidence 5787666788777777762 247899999999885 57899999988765 6
Q ss_pred CHHHHHHHHhhc
Q 027597 139 SEDDCLRAISKL 150 (221)
Q Consensus 139 S~~DI~rAi~~L 150 (221)
|+||+-.=+..+
T Consensus 97 s~E~l~~Ildiv 108 (114)
T COG1460 97 SDEELDKILDIV 108 (114)
T ss_pred CHHHHHHHHHHH
Confidence 888876655544
No 256
>PRK11235 bifunctional antitoxin/transcriptional repressor RelB; Provisional
Probab=28.49 E-value=46 Score=24.66 Aligned_cols=24 Identities=21% Similarity=0.430 Sum_probs=20.8
Q ss_pred cccChhHHHHHHHHHHHcCCCCCC
Q 027597 57 IRKNPTFRSQFHEMCAKVGVDPLA 80 (221)
Q Consensus 57 I~~dp~fR~~F~~mC~siGVDPL~ 80 (221)
++=|++...++.+.|..+|++|-.
T Consensus 6 vRiD~~lK~~A~~vl~~lGls~S~ 29 (80)
T PRK11235 6 VRVDDELKARAYAVLEKLGVTPSE 29 (80)
T ss_pred EEeCHHHHHHHHHHHHHhCCCHHH
Confidence 567899999999999999999653
No 257
>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=28.45 E-value=1.4e+02 Score=28.19 Aligned_cols=50 Identities=16% Similarity=0.245 Sum_probs=39.8
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..+.+|+.++++.++....|+.+ +..+|--.|.|--.|....+++++..+
T Consensus 264 ~~~~~~~~~~i~~i~~~~~~i~i----~~~~IvG~PgET~ed~~~t~~~~~~~~ 313 (420)
T TIGR01578 264 EYTVSDFEDIVDKFRERFPDLTL----STDIIVGFPTETDDDFEETMELLRKYR 313 (420)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEE----EeeEEEeCCCCCHHHHHHHHHHHHHhC
Confidence 47899999999999887667654 234566689999899999999998754
No 258
>KOG3233 consensus RNA polymerase III, subunit C34 [Transcription]
Probab=28.41 E-value=3.7e+02 Score=24.74 Aligned_cols=103 Identities=16% Similarity=0.165 Sum_probs=64.8
Q ss_pred HHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeC-CEEEEEecC-----
Q 027597 99 LGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVG-KKKLVRSVP----- 172 (221)
Q Consensus 99 LavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~-~~~~v~Svp----- 172 (221)
.-.++.++| ..+ +--++..||.+.+. .+|..|...|++.|=.-| .+.+++-+ +-.|=.-.|
T Consensus 12 ~~~~~~~~~-~~~---p~git~q~L~~~~p--------~~~~~~~~salN~lLs~~-~l~llr~~~~l~yr~~d~~~a~~ 78 (297)
T KOG3233|consen 12 IENILIQIV-KQI---PEGITQQELQSEMP--------QISATDRASALNILLSRG-LLDLLRQNTGLVYRAKDPKSASK 78 (297)
T ss_pred HHHHHHHHH-Hhc---cccccHHHHHHHcC--------CCcHHHHHHHHHHHHhcC-cchhhccCCcceEeccCchhhcc
Confidence 334455555 222 22356677765543 489999999999986655 55666555 322222223
Q ss_pred -cccchhHHHHHHHHHhcC--CccHHHHHHhcCCCHHHHHHHHHH
Q 027597 173 -TELNKDHNQILELAQAQG--FVTVDEVERRLSWTSGRAIDALDI 214 (221)
Q Consensus 173 -~Els~D~~~vlel~~~~G--~vt~~~L~~~l~W~~~Ra~~~L~~ 214 (221)
..++.+...|+.+++..| .++..+|+..-+....-....|..
T Consensus 79 ~~~~e~eEk~vy~lIe~sg~~GIW~k~ik~ksnLp~~~v~K~LkS 123 (297)
T KOG3233|consen 79 GKGMENEEKLVYSLIEESGNEGIWSKEIKRKSNLPQTVVNKILKS 123 (297)
T ss_pred cccCChHHHHHHHHHHHcCCCceeeehhhhccCCCHHHHHHHHHH
Confidence 346667777899999844 688889988888776655555543
No 259
>KOG4127 consensus Renal dipeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=28.41 E-value=1.3e+02 Score=28.75 Aligned_cols=82 Identities=17% Similarity=0.206 Sum_probs=48.9
Q ss_pred CCCCHHHHHHHHhhccccCCCeEEEEeCC-EEEEEecCcccchhHHHHHHH-HHh-cCCccHHHHHHhcCCCHHHHHHHH
Q 027597 136 EAVSEDDCLRAISKLKVLGNGYEVISVGK-KKLVRSVPTELNKDHNQILEL-AQA-QGFVTVDEVERRLSWTSGRAIDAL 212 (221)
Q Consensus 136 ~~IS~~DI~rAi~~L~~LG~g~~vi~i~~-~~~v~Svp~Els~D~~~vlel-~~~-~G~vt~~~L~~~l~W~~~Ra~~~L 212 (221)
..-+-+|+...|+-.+..- |++-|-+|| --=|--+|+.|- |-++-=.+ |+- ....+.+++..-+|=+..|.-...
T Consensus 314 ~~A~v~~v~~Hi~hIr~Va-G~~hIGlGg~yDGi~~~PkGLE-DVSkYP~LiaeLl~r~~~~~E~~~l~g~N~LRV~~~v 391 (419)
T KOG4127|consen 314 DRATVSDVADHINHIRAVA-GIDHIGLGGDYDGIPRVPKGLE-DVSKYPDLIAELLERGWWEEELIGLAGGNLLRVFRQV 391 (419)
T ss_pred CcccHHHHHHHHHHHHHhh-ccceeeccCCcCCcCCCCcchh-hhhhhHHHHHHHHhcCCcHHHHHHHhcchHHHHHHHH
Confidence 4567889999998887422 244444441 111113687663 33332222 222 356777777778899999988888
Q ss_pred HHHHHHh
Q 027597 213 DILLEVL 219 (221)
Q Consensus 213 ~~l~~~~ 219 (221)
|.+-.++
T Consensus 392 E~~~~~~ 398 (419)
T KOG4127|consen 392 EKVRDEL 398 (419)
T ss_pred HHHhhhh
Confidence 7765544
No 260
>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=28.32 E-value=1.4e+02 Score=30.73 Aligned_cols=47 Identities=21% Similarity=0.251 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCC
Q 027597 32 TDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDP 78 (221)
Q Consensus 32 ~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDP 78 (221)
-+-++.||..+.+.+++||++-+.++..||....+..+.....|+.+
T Consensus 435 R~~va~Ql~~~s~~l~~~a~e~~~~~~~~~~~e~~i~~~L~~~gi~v 481 (764)
T TIGR02865 435 RRLVAEQLKGVAESVEDIAKEINLEIVFHQLLEEKIIRALNKNGIPY 481 (764)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHCCCee
Confidence 45688999999999999999999999999999999999999999953
No 261
>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=28.09 E-value=1.3e+02 Score=26.90 Aligned_cols=19 Identities=37% Similarity=0.878 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHcCCCCCCC
Q 027597 63 FRSQFHEMCAKVGVDPLAS 81 (221)
Q Consensus 63 fR~~F~~mC~siGVDPL~s 81 (221)
+-.+++.+|..+|++|+..
T Consensus 313 ~~~~y~~~~~~~~~~~~~~ 331 (365)
T TIGR02928 313 VYEVYKEVCEDIGVDPLTQ 331 (365)
T ss_pred HHHHHHHHHHhcCCCCCcH
Confidence 4457889999999999864
No 262
>TIGR01574 miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-37 thiotransferase enzyme MiaB. Hits to this model span all major groups of bacteria and eukaryotes, but not archaea, which are known to lack this particular tRNA modification. The enzyme from Thermotoga maritima has been cloned, expressed, spectroscopically characterized and shown to complement the E. coli MiaB enzyme.
Probab=28.09 E-value=1.2e+02 Score=28.62 Aligned_cols=50 Identities=16% Similarity=0.296 Sum_probs=40.1
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
..|.+|+.++++.++..+.|+.+ +..+|--.|.|--.|....++++...+
T Consensus 278 ~~t~~~~~~~v~~ir~~~~~i~i----~~d~IvG~PgEt~ed~~~tl~~i~~~~ 327 (438)
T TIGR01574 278 GYTREWYLNLVRKLRAACPNVSI----STDIIVGFPGETEEDFEETLDLLREVE 327 (438)
T ss_pred CCCHHHHHHHHHHHHHhCCCCeE----eeCEEEeCCCCCHHHHHHHHHHHHhcC
Confidence 47899999999999887667665 334566689998889999999998754
No 263
>KOG2607 consensus CDK5 activator-binding protein [Signal transduction mechanisms]
Probab=27.98 E-value=1.1e+02 Score=29.74 Aligned_cols=84 Identities=24% Similarity=0.426 Sum_probs=53.7
Q ss_pred HHHHHhcHhHHHHHHH----HHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCcccccc---
Q 027597 18 DQYRLLGENVAKLRTD----LMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELL--- 90 (221)
Q Consensus 18 ~~~~~~g~~l~~~~~~----~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~l--- 90 (221)
+-|.....++--++.+ -|.+|++..+....+..+||.+==+.-..-|.+|-.-|..+|+- .-+.-.++|
T Consensus 106 ~~YlaEaAQIlvrnvnYEIP~LkKQiaK~qQq~tE~~RKe~d~~k~aa~~r~qfe~~c~qlglk----G~nvr~ElLela 181 (505)
T KOG2607|consen 106 HIYLAEAAQILVRNVNYEIPYLKKQIAKVQQQMTELDRKEADIKKSAALSRTQFEDACRQLGLK----GNNVRRELLELA 181 (505)
T ss_pred ceeHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHhCCc----cchHHHHHHHHH
Confidence 3344444444433333 79999999999999988887654344456899999999999986 111112222
Q ss_pred -Cc-cchHHHHHHHHHH
Q 027597 91 -GI-GDFYYELGVQIVE 105 (221)
Q Consensus 91 -G~-gdfy~eLavqIve 105 (221)
++ +.||--+.|-|..
T Consensus 182 sdLPs~fyei~~v~i~~ 198 (505)
T KOG2607|consen 182 SDLPSTFYEILEVIISD 198 (505)
T ss_pred hcCcHHHHHHHHHHHhh
Confidence 12 3677766666654
No 264
>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=27.86 E-value=1.2e+02 Score=29.97 Aligned_cols=34 Identities=24% Similarity=0.386 Sum_probs=26.5
Q ss_pred CCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCc
Q 027597 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT 173 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~ 173 (221)
-+++|+..|++.|..+|+|+.++.=| +++-.+|-
T Consensus 451 ~~~~dm~~A~~~l~~~~GG~~~v~~g--~v~~~l~L 484 (552)
T TIGR01178 451 SNDEDLALAVNKLIQIGGGLCAAKNG--EVTIILPL 484 (552)
T ss_pred CCHHHHHHHHHHHHHhCCcEEEEECC--EEEEEecc
Confidence 47999999999999999999887433 45555553
No 265
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=27.82 E-value=1.7e+02 Score=18.62 Aligned_cols=37 Identities=30% Similarity=0.354 Sum_probs=29.4
Q ss_pred HHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 180 NQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 180 ~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
..|+.+... |..++.+|++.+|-++.-+..=|..|..
T Consensus 5 ~~Il~~L~~-~~~~~~el~~~l~~s~~~vs~hL~~L~~ 41 (47)
T PF01022_consen 5 LRILKLLSE-GPLTVSELAEELGLSQSTVSHHLKKLRE 41 (47)
T ss_dssp HHHHHHHTT-SSEEHHHHHHHHTS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHh-CCCchhhHHHhccccchHHHHHHHHHHH
Confidence 346666666 9999999999999999988888877754
No 266
>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=27.82 E-value=1.9e+02 Score=19.38 Aligned_cols=50 Identities=24% Similarity=0.296 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHhhhhcccCCCcc-cHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccC
Q 027597 96 YYELGVQIVEICLATRPHNGGLI-NLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLG 154 (221)
Q Consensus 96 y~eLavqIvevC~~tr~~nGGli-~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG 154 (221)
|.+++..|.+--..-.=..|=.+ +..++..++. ||..=+.+|++.|...|
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 55666677776666666777778 8888888766 89999999999999876
No 267
>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=27.76 E-value=84 Score=23.99 Aligned_cols=38 Identities=16% Similarity=0.330 Sum_probs=28.9
Q ss_pred HHHHHHHHhh-----cccccChhHHHHHHHHHHHcC--CCCCCCC
Q 027597 45 QLEDFARKHK-----NDIRKNPTFRSQFHEMCAKVG--VDPLASN 82 (221)
Q Consensus 45 ~L~~Fa~kh~-----~eI~~dp~fR~~F~~mC~siG--VDPL~s~ 82 (221)
....|..+|+ -+|.++|.-+.++.+++..+| ++++.+.
T Consensus 14 ka~~~L~~~~i~~~~idi~~~~~~~~el~~l~~~~~~~~~~lin~ 58 (117)
T TIGR01617 14 KARRWLEANGIEYQFIDIGEDGPTREELLDILSLLEDGIDPLLNT 58 (117)
T ss_pred HHHHHHHHcCCceEEEecCCChhhHHHHHHHHHHcCCCHHHheeC
Confidence 3445566665 478899999999999999998 6767654
No 268
>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional
Probab=27.73 E-value=1.2e+02 Score=28.77 Aligned_cols=49 Identities=18% Similarity=0.318 Sum_probs=40.4
Q ss_pred CCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC
Q 027597 138 VSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG 190 (221)
Q Consensus 138 IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G 190 (221)
.|.+++.++++.++..+.|+.+.. .+|-=.|.|--.|...+++++++.+
T Consensus 278 ~~~~~~~~~i~~lr~~~~~i~i~t----~~IvGfPgET~edf~~tl~fi~e~~ 326 (440)
T PRK14862 278 ASVEKTLERIKKWREICPDLTIRS----TFIVGFPGETEEDFQMLLDFLKEAQ 326 (440)
T ss_pred CCHHHHHHHHHHHHHHCCCceecc----cEEEECCCCCHHHHHHHHHHHHHcC
Confidence 588999999999998877776632 5666679999999999999998754
No 269
>PF12307 DUF3631: Protein of unknown function (DUF3631); InterPro: IPR022081 This domain is found in uncharacterised proteins and in tripartite motif containing (TRIM) protein 41. This protein functions as an E3 ligase that catalyzes the ubiquitin-mediated degradation of protein kinase C [].
Probab=27.66 E-value=3.6e+02 Score=23.02 Aligned_cols=100 Identities=15% Similarity=0.318 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCC-C--CCC-CCCccccccCc-----cchHHHHHHHHHHH
Q 027597 36 KEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVD-P--LAS-NKGFWAELLGI-----GDFYYELGVQIVEI 106 (221)
Q Consensus 36 ~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVD-P--L~s-~k~~ws~~lG~-----gdfy~eLavqIvev 106 (221)
..++...++.|..++..+..+|..-. .+ | +.- ....|-=++-+ |+|.----.-.+.+
T Consensus 20 ~~~~~~Lr~rLa~W~~~~~~~v~~a~--------------P~mP~gv~DRaaD~WEPLlaVAd~AGg~WP~~Ar~A~~~l 85 (184)
T PF12307_consen 20 EPELHALRDRLAAWAADVADQVERAR--------------PDMPDGVEDRAADTWEPLLAVADLAGGHWPERARAAAIKL 85 (184)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcC--------------CCCCcccccchhhhhHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence 34566777888888888887765432 22 2 211 12345444332 55554433344445
Q ss_pred hh---hhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 107 CL---ATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 107 C~---~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
|. +.-..+-|+==|.||...+.. .+. +.|+..||+.++..+..
T Consensus 86 ~~~~~~~~~~s~g~~LL~DIr~vf~~-~~~--~~i~T~dLl~~L~~~~e 131 (184)
T PF12307_consen 86 VAEADEEEEPSLGVRLLADIREVFEA-GGE--DRIPTADLLDALNADEE 131 (184)
T ss_pred HhhhcccccCCccchhHHHHHHHHcc-CCC--CcccHHHHHHHHHhCCC
Confidence 55 234577788889999988876 332 77999999999999864
No 270
>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]
Probab=27.46 E-value=97 Score=26.99 Aligned_cols=29 Identities=34% Similarity=0.564 Sum_probs=20.6
Q ss_pred cCCCCCCCCCCccccccCccchHHHHHHHHHHHhhh
Q 027597 74 VGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLA 109 (221)
Q Consensus 74 iGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~ 109 (221)
|||+|-+. ++|++|+--||.--+++....
T Consensus 106 L~V~~~~Y-------ilGl~D~vGELrR~~le~l~~ 134 (204)
T COG2178 106 LGVPPIAY-------ILGLADAVGELRRHVLELLRK 134 (204)
T ss_pred cCCCHHHH-------HHHHHHHHHHHHHHHHHHHHh
Confidence 77777653 678888888887777665543
No 271
>cd04871 ACT_PSP_2 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_2 CD includes the second of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains
Probab=27.44 E-value=46 Score=24.24 Aligned_cols=17 Identities=24% Similarity=0.536 Sum_probs=15.4
Q ss_pred hhHHHHHHHHHHHcCCC
Q 027597 61 PTFRSQFHEMCAKVGVD 77 (221)
Q Consensus 61 p~fR~~F~~mC~siGVD 77 (221)
+.+|..|.+.+..+|||
T Consensus 63 ~~lr~~L~~la~elgvD 79 (84)
T cd04871 63 EALRAALLELASELNVD 79 (84)
T ss_pred HHHHHHHHHHhcccCce
Confidence 36999999999999998
No 272
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=27.31 E-value=1.9e+02 Score=21.44 Aligned_cols=43 Identities=19% Similarity=0.188 Sum_probs=33.1
Q ss_pred cchhHHHHHH-HHH-------hcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 175 LNKDHNQILE-LAQ-------AQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 175 ls~D~~~vle-l~~-------~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
++.-+..+|- ++. ....+|.++|++.+|-++.-+..+|+.|.+
T Consensus 23 l~~r~~~vLl~L~~~~~G~~~~~~~is~~eLa~~~g~sr~tVsr~L~~Le~ 73 (95)
T TIGR01610 23 LSGREFRVLLAIIRLTYGWNKKQDRVTATVIAELTGLSRTHVSDAIKSLAR 73 (95)
T ss_pred CCHHHHHHHHHHHHHHhCccccCCccCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 4444555554 553 345799999999999999999999999875
No 273
>PF02491 SHS2_FTSA: SHS2 domain inserted in FTSA; InterPro: IPR003494 FtsA is essential for bacterial cell division, and co-localizes to the septal ring with FtsZ. It has been suggested that the interaction of FtsA-FtsZ has arisen through coevolution in different bacterial strains [].; GO: 0007049 cell cycle; PDB: 1E4F_T 4A2B_A 4A2A_A 1E4G_T.
Probab=27.31 E-value=20 Score=25.68 Aligned_cols=27 Identities=26% Similarity=0.410 Sum_probs=19.0
Q ss_pred CCCCHHHHHHHHhhcc--ccCCCeEEEEe
Q 027597 136 EAVSEDDCLRAISKLK--VLGNGYEVISV 162 (221)
Q Consensus 136 ~~IS~~DI~rAi~~L~--~LG~g~~vi~i 162 (221)
..||++||.++++..+ .+..+.+++.+
T Consensus 19 ~~I~~~Dv~~~~~~a~~~~~~~~~~iih~ 47 (80)
T PF02491_consen 19 REITESDVDRLLEQARRKALPPDREIIHV 47 (80)
T ss_dssp EE--HHHHHHHHHHHHHHHCHTTEEEEEE
T ss_pred CEECHHHHHHHHHHhhcccCCCCCEEEEE
Confidence 5799999999999875 46667766654
No 274
>cd03036 ArsC_like Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX) function as protein disulfide oxidoreductases, altering the redox state of target proteins via the reversible oxidation of the active site dithiol. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via GRX, through a single catalytic cysteine.
Probab=27.25 E-value=65 Score=24.52 Aligned_cols=39 Identities=15% Similarity=0.330 Sum_probs=27.7
Q ss_pred HHHHHHHHHhh-----cccccChhHHHHHHHHHHHcCC--CCCCCC
Q 027597 44 SQLEDFARKHK-----NDIRKNPTFRSQFHEMCAKVGV--DPLASN 82 (221)
Q Consensus 44 ~~L~~Fa~kh~-----~eI~~dp~fR~~F~~mC~siGV--DPL~s~ 82 (221)
..-.+|..+|. -+|.+||.-+.++.+++...|+ +++.+.
T Consensus 13 ~ka~~~L~~~~i~~~~idi~~~~~~~~el~~~~~~~~~~~~~l~~~ 58 (111)
T cd03036 13 RKAKKWLDEHGVDYTAIDIVEEPPSKEELKKWLEKSGLPLKKFFNT 58 (111)
T ss_pred HHHHHHHHHcCCceEEecccCCcccHHHHHHHHHHcCCCHHHHHhc
Confidence 34445566655 4678899999999999999885 455443
No 275
>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=27.03 E-value=2.2e+02 Score=19.78 Aligned_cols=40 Identities=18% Similarity=0.408 Sum_probs=24.3
Q ss_pred HHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCc
Q 027597 126 LLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPT 173 (221)
Q Consensus 126 ~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~ 173 (221)
.+++.=|. .+|.+++.+.++.| ||.+...++..+..++|.
T Consensus 10 ~i~~~lG~---~i~~~~i~~~L~~l-----g~~~~~~~~~~~~v~vP~ 49 (70)
T PF03484_consen 10 KINKLLGI---DISPEEIIKILKRL-----GFKVEKIDGDTLEVTVPS 49 (70)
T ss_dssp HHHHHHTS------HHHHHHHHHHT-----T-EEEE-CTTEEEEEEET
T ss_pred HHHHHhCC---CCCHHHHHHHHHHC-----CCEEEECCCCEEEEEcCC
Confidence 44444443 58999998876665 577777677777778886
No 276
>PF12381 Peptidase_C3G: Tungro spherical virus-type peptidase; InterPro: IPR024387 This entry represents a rice tungro spherical waikavirus-type peptidase that belongs to MEROPS peptidase family C3G. It is a picornain 3C-type protease, and is responsible for the self-cleavage of the positive single-stranded polyproteins of a number of plant viral genomes. The location of the protease activity of the polyprotein is at the C-terminal end, adjacent and N-terminal to the putative RNA polymerase [, ].
Probab=27.02 E-value=35 Score=30.15 Aligned_cols=18 Identities=39% Similarity=0.700 Sum_probs=16.3
Q ss_pred CCCCCHHHHHHHHhhccc
Q 027597 135 REAVSEDDCLRAISKLKV 152 (221)
Q Consensus 135 ~~~IS~~DI~rAi~~L~~ 152 (221)
++-||++||.+|+++|++
T Consensus 213 Ae~itQEDL~~A~~~l~~ 230 (231)
T PF12381_consen 213 AESITQEDLMRAINKLEK 230 (231)
T ss_pred hhhhhHHHHHHHHHhhcC
Confidence 478999999999999975
No 277
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=26.90 E-value=1.4e+02 Score=19.65 Aligned_cols=42 Identities=14% Similarity=0.294 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCC
Q 027597 32 TDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDP 78 (221)
Q Consensus 32 ~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDP 78 (221)
..+|++.+..=+..|....... ..+|.+- .+..+|..+||+|
T Consensus 13 ~~~La~~~gis~~tl~~~~~~~----~~~~~~~-~l~~ia~~l~~~~ 54 (63)
T PF13443_consen 13 QKDLARKTGISRSTLSRILNGK----PSNPSLD-TLEKIAKALNCSP 54 (63)
T ss_dssp HHHHHHHHT--HHHHHHHHTTT---------HH-HHHHHHHHHT--H
T ss_pred HHHHHHHHCcCHHHHHHHHhcc----cccccHH-HHHHHHHHcCCCH
Confidence 4577888888888888877744 2466663 7899999999986
No 278
>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=26.88 E-value=78 Score=26.12 Aligned_cols=56 Identities=14% Similarity=0.315 Sum_probs=40.5
Q ss_pred HHHHHHHHHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCC
Q 027597 14 AVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGV 76 (221)
Q Consensus 14 ~~~~~~~~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGV 76 (221)
.++.+-..++|..+-..+.++-.++++-+.+.|+.=..+-+.+.+++ ..|+.++||
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 46778889999999877777777888888887777666655555444 456666664
No 279
>PF06407 BDV_P40: Borna disease virus P40 protein; InterPro: IPR009441 This entry represents P40 nucleoproteins from several Borna disease virus (BDV) strains. BDV is an RNA virus that is a member of the Mononegavirales family, which includes such members as Measles virus and Ebola virus sp.. BDV causes an infection of the central nervous system in a wide range of vertebrates, which can progress to an often fatal immune-mediated disease. Viral nucleoproteins are central to transcription, replication, and packaging of the RNA genome. P40 nucleoprotein from BDV is multi-helical in structure and can be divided into two subdomains, each of which has an alpha-bundle topology []. The nucleoprotein assembles into a planar homotetramer, with the RNA genome either wrapping around the outside of the tetramer or possibly fitting within the charged central channel of the tetramer [].; PDB: 1N93_X 1PP1_X.
Probab=26.84 E-value=1.2e+02 Score=27.98 Aligned_cols=43 Identities=16% Similarity=0.139 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccChh-HHHHHHHHHHHcCC
Q 027597 34 LMKEQLATFRSQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGV 76 (221)
Q Consensus 34 ~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~-fR~~F~~mC~siGV 76 (221)
++++-+..+++-|.--+.--.+.|..+.. +.++|+.|.+++|-
T Consensus 132 e~SSi~~HCC~lLIGv~~gSS~kI~a~s~qI~RRfkAMmAsinr 175 (370)
T PF06407_consen 132 EKSSILRHCCDLLIGVAAGSSDKICAGSLQIQRRFKAMMASINR 175 (370)
T ss_dssp HHHHHHHHHHHHHHHHHHT-SHHHHS--HHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHhhhhcCcccccccHHHHHHHHHHHHHhcCC
Confidence 57888999999999999999999988874 55689999999994
No 280
>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=26.74 E-value=1.9e+02 Score=25.26 Aligned_cols=19 Identities=21% Similarity=0.518 Sum_probs=15.5
Q ss_pred ccChhHHHHHHHHHHHcCCCC
Q 027597 58 RKNPTFRSQFHEMCAKVGVDP 78 (221)
Q Consensus 58 ~~dp~fR~~F~~mC~siGVDP 78 (221)
.++|.| -..+++..+||||
T Consensus 197 ~e~~~~--TM~eL~~~l~ID~ 215 (221)
T PF10376_consen 197 EEGEKF--TMGELIKRLGIDY 215 (221)
T ss_pred ccccCc--cHHHHHHHhCCCc
Confidence 357777 4889999999996
No 281
>cd00314 plant_peroxidase_like Heme-dependent peroxidases similar to plant peroxidases. Along with animal peroxidases, these enzymes belong to a group of peroxidases containing a heme prosthetic group (ferriprotoporphyrin IX), which catalyzes a multistep oxidative reaction involving hydrogen peroxide as the electron acceptor. The plant peroxidase-like superfamily is found in all three kingdoms of life and carries out a variety of biosynthetic and degradative functions. Several sub-families can be identified. Class I includes intracellular peroxidases present in fungi, plants, archaea and bacteria, called catalase-peroxidases, that can exhibit both catalase and broad-spectrum peroxidase activities depending on the steady-state concentration of hydrogen peroxide. Catalase-peroxidases are typically comprised of two homologous domains that probably arose via a single gene duplication event. Class II includes ligninase and other extracellular fungal peroxidases, while class III is comprised
Probab=26.74 E-value=3.1e+02 Score=23.77 Aligned_cols=92 Identities=16% Similarity=0.211 Sum_probs=53.5
Q ss_pred hhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhc--ccc--CCCeEEEEeCCEEEEEe---cCcccch---
Q 027597 108 LATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKL--KVL--GNGYEVISVGKKKLVRS---VPTELNK--- 177 (221)
Q Consensus 108 ~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L--~~L--G~g~~vi~i~~~~~v~S---vp~Els~--- 177 (221)
...++.|+|+...-+++.-+....+. ...||-.||+.-.... +.. |++.--+..|.+--..+ +|.-...
T Consensus 51 e~~~~~N~~l~~~~~~l~~ik~~~~~-~~~vS~ADlialAa~~Av~~~~~ggp~~~~~~GR~D~~~~~~~~p~P~~~~p~ 129 (255)
T cd00314 51 ELDRPENGGLDKALRALEPIKSAYDG-GNPVSRADLIALAGAVAVESTFGGGPLIPFRFGRLDATEPDLGVPDPEGLLPN 129 (255)
T ss_pred cccCcccccHHHHHHHHHHHHHHcCC-CCcccHHHHHHHHHHHHHHHhccCCCeeeeCCCCCCCchhhccCCCCCCCCCC
Confidence 55799999987777777777666543 3469999997544433 334 55554445553333322 3332211
Q ss_pred ---hHHHHHHHHHhcCCccHHHHHHhc
Q 027597 178 ---DHNQILELAQAQGFVTVDEVERRL 201 (221)
Q Consensus 178 ---D~~~vlel~~~~G~vt~~~L~~~l 201 (221)
+-..+++.-..+|. |.+++...+
T Consensus 130 ~~~~~~~~~~~F~~~Gl-~~~e~VAL~ 155 (255)
T cd00314 130 ETSSATELRDKFKRMGL-SPSELVALS 155 (255)
T ss_pred ccchHHHHHHHHHHcCC-CHHHHHhhc
Confidence 12224454445775 888888776
No 282
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=26.70 E-value=1.9e+02 Score=22.21 Aligned_cols=35 Identities=23% Similarity=0.411 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHhhcccccChhH
Q 027597 29 KLRTDLMKEQLATFRS---QLEDFARKHKNDIRKNPTF 63 (221)
Q Consensus 29 ~~~~~~l~~ql~~F~~---~L~~Fa~kh~~eI~~dp~f 63 (221)
+++.++|..+++.+++ .+++-||+.=+=++.|+++
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 4556688888888865 8999999999999999986
No 283
>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=26.70 E-value=1.6e+02 Score=21.89 Aligned_cols=46 Identities=24% Similarity=0.403 Sum_probs=35.4
Q ss_pred HHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCC
Q 027597 102 QIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGN 155 (221)
Q Consensus 102 qIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~ 155 (221)
.|+++... +++-++..||+..+.+.- ..|+..-|.|.++.|...|-
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 34555443 257789999999998742 45999999999999998773
No 284
>COG4396 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]
Probab=26.61 E-value=2e+02 Score=23.92 Aligned_cols=31 Identities=6% Similarity=0.408 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccccCh
Q 027597 31 RTDLMKEQLATFRSQLEDFARKHKNDIRKNP 61 (221)
Q Consensus 31 ~~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp 61 (221)
|+..|.+........++.+...|++|++++-
T Consensus 55 q~~~lk~EI~~L~k~vq~yCeanrDELTe~G 85 (170)
T COG4396 55 QAAPLKAEIMSLTKRVQAYCEANRDELTENG 85 (170)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhCHHHHhcCC
Confidence 4556777777777788888888888877763
No 285
>PRK05927 hypothetical protein; Provisional
Probab=26.50 E-value=1.4e+02 Score=27.68 Aligned_cols=161 Identities=12% Similarity=0.175 Sum_probs=92.8
Q ss_pred HHHHHHHHhhccccc---ChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHH
Q 027597 45 QLEDFARKHKNDIRK---NPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQ 121 (221)
Q Consensus 45 ~L~~Fa~kh~~eI~~---dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~ 121 (221)
++|.+....++.|.- .|+=|-+..+.+..+|+-.=+.- ++|.|+=+-+.+.= +..+....++.||+.++-
T Consensus 165 ~~Et~~~~~~~~~~p~k~~~~~rl~~i~~A~~lGi~~~sg~------l~G~gEt~e~ri~~-l~~Lr~lqd~~~gf~~fI 237 (350)
T PRK05927 165 GAEILSERVRKIISPKKMGPDGWIQFHKLAHRLGFRSTATM------MFGHVESPEDILLH-LQTLRDAQDENPGFYSFI 237 (350)
T ss_pred CchhCCHHHhhccCCCCCCHHHHHHHHHHHHHcCCCcCcee------EEeeCCCHHHHHHH-HHHHHHhhHhhCCeeeee
Confidence 466666666666643 56888889999999998644433 77887655554332 333344446677765332
Q ss_pred HHHHHHHhhcCC--CC-CCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHH-HHh-cCCccHHH
Q 027597 122 ELCNLLRQRRKS--NR-EAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILEL-AQA-QGFVTVDE 196 (221)
Q Consensus 122 el~~~v~k~Rg~--~~-~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel-~~~-~G~vt~~~ 196 (221)
-+ .-....... .. ...|++|.+|.+...+-+=..+..+. .+|+.. ..++. | ..|.. |.+ .|-+|.+.
T Consensus 238 p~-~~~~~~tpl~~~~~~~~s~~e~Lr~iAv~Rl~lp~~~~i~---~~w~~~-G~~~~--q-~~L~~GanDlggt~~~e~ 309 (350)
T PRK05927 238 PW-SYKPGNTALGRRVPHQASPELYYRILAVARIFLDNFDHIA---ASWFGE-GKEEG--A-KGLHYGADDFGGTILDES 309 (350)
T ss_pred ec-CcCCCCCccccCCCCCCCHHHHHHHHHHHHHhCCCCCccc---CCcccc-CHHHH--H-HHHhCCCccccCCCccce
Confidence 10 000011111 11 25999999999988875333444322 133321 11110 1 11222 234 57899999
Q ss_pred HHHhcCCCHHHHHHHHHHHHHHhc
Q 027597 197 VERRLSWTSGRAIDALDILLEVLQ 220 (221)
Q Consensus 197 L~~~l~W~~~Ra~~~L~~l~~~~~ 220 (221)
+....||+.......|..++++..
T Consensus 310 v~~~ag~~~~~~~~~l~~~i~~~G 333 (350)
T PRK05927 310 VHKCTGWDLQSSEEEICAMILSEG 333 (350)
T ss_pred eeccCCCCCcCCHHHHHHHHHHcC
Confidence 999999998666777888877654
No 286
>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=26.47 E-value=1.6e+02 Score=17.86 Aligned_cols=33 Identities=27% Similarity=0.347 Sum_probs=17.9
Q ss_pred CcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 116 GLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 116 Gli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
|.|+.+|+...+.... ...+.+.+.+..+.+.+
T Consensus 15 g~l~~~e~~~~l~~~~----~~~~~~~~~~~~~~~~~ 47 (63)
T cd00051 15 GTISADELKAALKSLG----EGLSEEEIDEMIREVDK 47 (63)
T ss_pred CcCcHHHHHHHHHHhC----CCCCHHHHHHHHHHhCC
Confidence 6666666666555432 23455555555555443
No 287
>PRK05469 peptidase T; Provisional
Probab=26.46 E-value=1e+02 Score=28.46 Aligned_cols=74 Identities=18% Similarity=0.225 Sum_probs=44.1
Q ss_pred cccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCC
Q 027597 57 IRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNRE 136 (221)
Q Consensus 57 I~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~ 136 (221)
+..|+.+-+.|++-|..+|+.|.......+++ ..||...++..+-+.. |+. .. -...+
T Consensus 326 ~~~~~~lv~~~~~a~~~~g~~~~~~~~~ggtD----~~~~~~~giP~v~~gp------G~~-----------~~-H~~~E 383 (408)
T PRK05469 326 IEPHPHIVDLAKQAMEDLGIEPIIKPIRGGTD----GSQLSFMGLPCPNIFT------GGH-----------NF-HGKFE 383 (408)
T ss_pred hcCCHHHHHHHHHHHHHcCCCcEEecCCCccc----HHHHhhCCCceEEECc------Ccc-----------cC-cCcce
Confidence 56778888899999999999876433222222 2344444444432221 221 01 11236
Q ss_pred CCCHHHHHHHHhhccc
Q 027597 137 AVSEDDCLRAISKLKV 152 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~ 152 (221)
.|+.+|+.++++.+..
T Consensus 384 ~v~i~~l~~~~~~~~~ 399 (408)
T PRK05469 384 FVSLESMEKAVEVIVE 399 (408)
T ss_pred eeEHHHHHHHHHHHHH
Confidence 7999999999998753
No 288
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=26.40 E-value=51 Score=22.91 Aligned_cols=22 Identities=9% Similarity=0.298 Sum_probs=16.9
Q ss_pred ccChhHHHHHHHHHHHcCCCCC
Q 027597 58 RKNPTFRSQFHEMCAKVGVDPL 79 (221)
Q Consensus 58 ~~dp~fR~~F~~mC~siGVDPL 79 (221)
..|++|...++.++.++||.|-
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 4678999999999999999974
No 289
>KOG1956 consensus DNA topoisomerase III alpha [Replication, recombination and repair]
Probab=26.31 E-value=53 Score=33.42 Aligned_cols=41 Identities=20% Similarity=0.403 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 98 ELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 98 eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
-+|.+|++||.+....- . |.|+|= ..||+.||..|++.|.-
T Consensus 122 ~Ig~eI~~v~~~~~~~~----~-------V~RA~F---s~it~~~I~sA~~nlre 162 (758)
T KOG1956|consen 122 NIGWEIIDVCRAVKRLL----Q-------VRRARF---SEITRSAIKSAARNLRE 162 (758)
T ss_pred hhhHHHHHHHHhhCccc----e-------eehhhh---hcccHHHHHHHHhCccc
Confidence 47899999999854432 1 445543 46999999999998764
No 290
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=26.28 E-value=7.1e+02 Score=25.42 Aligned_cols=92 Identities=21% Similarity=0.165 Sum_probs=69.1
Q ss_pred HHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHH---HHHHHHhhhhcc---------cCCCcccHHHHHHHHHhh
Q 027597 63 FRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELG---VQIVEICLATRP---------HNGGLINLQELCNLLRQR 130 (221)
Q Consensus 63 fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLa---vqIvevC~~tr~---------~nGGli~l~el~~~v~k~ 130 (221)
=+++.-.||.+--.|-+|. |=-|||+ .+++.+....-+ .+|+.-+|.+|-.+..=.
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 3456778888888887763 4467888 788887766544 567788888777654322
Q ss_pred cCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEE
Q 027597 131 RKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVR 169 (221)
Q Consensus 131 Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~ 169 (221)
-+ ...+|.|=-.+|..|..+|-|+++.-+...+.|.
T Consensus 106 ~~---~~~~P~eeA~~~A~LA~~GvG~ev~~fEdeT~I~ 141 (652)
T COG2433 106 VN---GKLNPYEEAYACARLASKGVGTEVSVFEDETKIT 141 (652)
T ss_pred CC---CCCChHHHHHHHHHHHhcCCCceeEeeeeeeEEE
Confidence 11 3589999999999999999999999998766664
No 291
>COG3333 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.11 E-value=1.1e+02 Score=30.14 Aligned_cols=83 Identities=25% Similarity=0.398 Sum_probs=55.2
Q ss_pred HHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCC--------CCCCCCHH
Q 027597 70 MCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKS--------NREAVSED 141 (221)
Q Consensus 70 mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~--------~~~~IS~~ 141 (221)
+.+.+|+||.+....| .||+-+.|-.+..-++-| |+..+.|++..+.+.... .+...|-+
T Consensus 178 ~La~VGiD~~sG~~Rf---Tf~~~~L~dGi~fv~~~i---------glFai~Eil~~~e~~~~~~~~~v~~~~~~~~s~~ 245 (504)
T COG3333 178 LLATVGIDPISGVPRF---TFGIPELLDGISFVVAAI---------GLFAISEILLNLEKRLEHGGEKVEKVGRVWLSKK 245 (504)
T ss_pred HHHHcCcCccCCCcce---ecCCHHHhcCcchHHHHH---------HHHHHHHHHHHHHhhhhhhhhHHHhhcccccCHH
Confidence 3468999999877555 566656665554444433 678888888877772211 13578999
Q ss_pred HHHHHHhhcc---ccCCCeEEEEeCC
Q 027597 142 DCLRAISKLK---VLGNGYEVISVGK 164 (221)
Q Consensus 142 DI~rAi~~L~---~LG~g~~vi~i~~ 164 (221)
|+.|+.+..- .+|.-+-+++-+|
T Consensus 246 ~~~~~~~~~lRgt~iG~~~GvlPg~G 271 (504)
T COG3333 246 EFKRAWPTWLRGTLIGFLLGVLPGGG 271 (504)
T ss_pred HHHHhhHHHHHHhhhhhheecccCcc
Confidence 9999988763 4666666766443
No 292
>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=26.02 E-value=2.2e+02 Score=20.65 Aligned_cols=25 Identities=24% Similarity=0.561 Sum_probs=20.6
Q ss_pred cccChhH------HHHHHHHHHHcCCCCCCC
Q 027597 57 IRKNPTF------RSQFHEMCAKVGVDPLAS 81 (221)
Q Consensus 57 I~~dp~f------R~~F~~mC~siGVDPL~s 81 (221)
.+.||.+ ..++++++..+|..|-+-
T Consensus 57 ~~~nP~~~~~~~~~~~~~~l~~~lGLtP~sR 87 (100)
T PF05119_consen 57 PKKNPAVSILNKAMKQMRSLASELGLTPASR 87 (100)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHcCCCHHHH
Confidence 7889954 467899999999999863
No 293
>TIGR03569 NeuB_NnaB N-acetylneuraminate synthase. This family is a subset of the Pfam model pfam03102 and is believed to include only authentic NeuB N-acetylneuraminate (sialic acid) synthase enzymes. The majority of the genes identified by this model are observed adjacent to both the NeuA and NeuC genes which together effect the biosynthesis of CMP-N-acetylneuraminate from UDP-N-acetylglucosamine.
Probab=25.93 E-value=2e+02 Score=26.63 Aligned_cols=79 Identities=20% Similarity=0.299 Sum_probs=43.6
Q ss_pred HHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCC----CCCCCH
Q 027597 65 SQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSN----REAVSE 140 (221)
Q Consensus 65 ~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~----~~~IS~ 140 (221)
..+.++|.+.|++.+++.=+..+ =||-.+++|.++.| --|-|.=-+|++.+.+.. +. ..-=|.
T Consensus 79 ~~L~~~~~~~Gi~~~stpfd~~s-----vd~l~~~~v~~~KI-------aS~~~~n~pLL~~~A~~g-kPvilStGmatl 145 (329)
T TIGR03569 79 RELKEYCESKGIEFLSTPFDLES-----ADFLEDLGVPRFKI-------PSGEITNAPLLKKIARFG-KPVILSTGMATL 145 (329)
T ss_pred HHHHHHHHHhCCcEEEEeCCHHH-----HHHHHhcCCCEEEE-------CcccccCHHHHHHHHhcC-CcEEEECCCCCH
Confidence 37899999999998876422111 14444443333322 122333345555555532 11 112378
Q ss_pred HHHHHHHhhccccCCC
Q 027597 141 DDCLRAISKLKVLGNG 156 (221)
Q Consensus 141 ~DI~rAi~~L~~LG~g 156 (221)
+||..|++.+..-|++
T Consensus 146 ~Ei~~Av~~i~~~G~~ 161 (329)
T TIGR03569 146 EEIEAAVGVLRDAGTP 161 (329)
T ss_pred HHHHHHHHHHHHcCCC
Confidence 8888888888766654
No 294
>PF13267 DUF4058: Protein of unknown function (DUF4058)
Probab=25.85 E-value=55 Score=29.44 Aligned_cols=30 Identities=27% Similarity=0.481 Sum_probs=26.2
Q ss_pred CCCCCCCCCCccccccCccchHHHHHHHHHHHhhhh
Q 027597 75 GVDPLASNKGFWAELLGIGDFYYELGVQIVEICLAT 110 (221)
Q Consensus 75 GVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~t 110 (221)
|.||.--...||+ ||+..|.+.|.+.....
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 8999998889998 89999999998887653
No 295
>PF05584 Sulfolobus_pRN: Sulfolobus plasmid regulatory protein; InterPro: IPR008848 This family consists of several plasmid regulatory proteins from the extreme thermophilic and acidophilic archaea Sulfolobus.
Probab=25.82 E-value=2e+02 Score=21.01 Aligned_cols=36 Identities=19% Similarity=0.221 Sum_probs=28.7
Q ss_pred HHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 182 ILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 182 vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
+|..++. +..|.++|.+..||++.-.--.|..|.++
T Consensus 10 IL~~ls~-~c~TLeeL~ekTgi~k~~LlV~LsrL~k~ 45 (72)
T PF05584_consen 10 ILIILSK-RCCTLEELEEKTGISKNTLLVYLSRLAKR 45 (72)
T ss_pred HHHHHHh-ccCCHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 5555555 39999999999999999888888777653
No 296
>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]
Probab=25.76 E-value=4.8e+02 Score=26.81 Aligned_cols=145 Identities=16% Similarity=0.201 Sum_probs=74.3
Q ss_pred ChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCC---------cccHHHHHHHHHhh
Q 027597 60 NPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGG---------LINLQELCNLLRQR 130 (221)
Q Consensus 60 dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGG---------li~l~el~~~v~k~ 130 (221)
||.|-++.=.||.+- |-|.-+..-. +. +.+||.++-..-.. .. +.+=- +|-|+|.+. |.
T Consensus 507 ~~~~lrkYI~YAR~~-v~P~lt~ea~--e~--l~~~Yv~~Rk~~~~---~~-~~~~~piT~RqLEsiiRLaeA~A---k~ 574 (682)
T COG1241 507 DFELLRKYISYARKN-VTPVLTEEAR--EE--LEDYYVEMRKKSAL---VE-EKRTIPITARQLESIIRLAEAHA---KM 574 (682)
T ss_pred cHHHHHHHHHHHhcc-CCcccCHHHH--HH--HHHHHHHhhhcccc---cc-ccCcccccHHHHHHHHHHHHHHH---hh
Confidence 688888888999886 6676554110 00 35788777543222 00 11111 344444333 33
Q ss_pred cCCCCCCCCHHHHHHHHhhcc-ccCC-CeEEEEeC-CEEEEEe-cCcccchhHHHHHHH----HHhcCCccHHHHHHhc-
Q 027597 131 RKSNREAVSEDDCLRAISKLK-VLGN-GYEVISVG-KKKLVRS-VPTELNKDHNQILEL----AQAQGFVTVDEVERRL- 201 (221)
Q Consensus 131 Rg~~~~~IS~~DI~rAi~~L~-~LG~-g~~vi~i~-~~~~v~S-vp~Els~D~~~vlel----~~~~G~vt~~~L~~~l- 201 (221)
|= ++.|+++|+..|++.+. .|.. ++.--+.. ...++.+ .|..--.+-..++.. .+.... .++++....
T Consensus 575 rL--S~~V~~eD~~eAi~lv~~~l~~v~~dp~~g~~d~~~~~~~~~~~~~~~~~~~~~~i~e~~~~~~~-~~~~~~~~~~ 651 (682)
T COG1241 575 RL--SDVVEEEDVDEAIRLVDFSLKTVAVDPEKGKIDIDIIEPGKSKSKRDKIEKVLDIIKELVERSED-PVEEIIEEAE 651 (682)
T ss_pred hc--cCCCCHHHHHHHHHHHHHHHHHhhcCccCCceehhhhccCCcchhhhhHHHHHHHHHHHhhcccc-hHHHHHHHHc
Confidence 33 37899999999999987 2211 11100000 0111111 222222223334443 333222 333443333
Q ss_pred CCCHHHHHHHHHHHHHHh
Q 027597 202 SWTSGRAIDALDILLEVL 219 (221)
Q Consensus 202 ~W~~~Ra~~~L~~l~~~~ 219 (221)
|.+..+++.+|+.|...-
T Consensus 652 g~~~~~~e~~l~~l~~~g 669 (682)
T COG1241 652 GISEKEVEEALEKLKKKG 669 (682)
T ss_pred CCCHHHHHHHHHHHHhcC
Confidence 699999999999997653
No 297
>PRK11050 manganese transport regulator MntR; Provisional
Probab=25.63 E-value=1.5e+02 Score=23.84 Aligned_cols=33 Identities=18% Similarity=0.161 Sum_probs=19.3
Q ss_pred HHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 185 LAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 185 l~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
+....|.+|..+|++.+++++.-+..+|..|.+
T Consensus 45 ~l~~~~~~t~~eLA~~l~is~stVsr~l~~Le~ 77 (152)
T PRK11050 45 LIAEVGEARQVDIAARLGVSQPTVAKMLKRLAR 77 (152)
T ss_pred HHHhcCCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 333445666666666666666666666555543
No 298
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=25.59 E-value=1.9e+02 Score=26.20 Aligned_cols=68 Identities=21% Similarity=0.237 Sum_probs=41.3
Q ss_pred CCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHh-----cCCccHHHHHH-------hcCC
Q 027597 136 EAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQA-----QGFVTVDEVER-------RLSW 203 (221)
Q Consensus 136 ~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~-----~G~vt~~~L~~-------~l~W 203 (221)
..|+++||.+|++.+.+ +.+ ...+ ..|+.-|..+|..+.. .+.++..++.+ .+|.
T Consensus 268 ~~I~~~~v~~a~~~~~~--~~~-------~~~~----~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~ 334 (394)
T PRK00411 268 RKVTEEDVRKAYEKSEI--VHL-------SEVL----RTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGY 334 (394)
T ss_pred CCcCHHHHHHHHHHHHH--HHH-------HHHH----hcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCC
Confidence 67999999999998732 000 1112 2556666666655432 15677777764 4677
Q ss_pred CH---HHHHHHHHHHH
Q 027597 204 TS---GRAIDALDILL 216 (221)
Q Consensus 204 ~~---~Ra~~~L~~l~ 216 (221)
++ .+....|+.|.
T Consensus 335 ~~~~~~~~~~~l~~L~ 350 (394)
T PRK00411 335 EPRTHTRFYEYINKLD 350 (394)
T ss_pred CcCcHHHHHHHHHHHH
Confidence 55 55555555554
No 299
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=25.57 E-value=2.1e+02 Score=22.42 Aligned_cols=45 Identities=13% Similarity=0.151 Sum_probs=31.2
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHh
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVL 219 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~ 219 (221)
.|+..+..|+.+.-. ...|..++++.+|.+...+++.+....+.|
T Consensus 128 ~L~~~~r~vl~l~~~-~~~s~~eIA~~lgis~~tV~~~l~ra~~~L 172 (182)
T PRK09652 128 SLPEELRTAITLREI-EGLSYEEIAEIMGCPIGTVRSRIFRAREAL 172 (182)
T ss_pred hCCHHHHHHHHHHHH-cCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 456666667766654 345999999999999877776665554443
No 300
>PRK09613 thiH thiamine biosynthesis protein ThiH; Reviewed
Probab=25.56 E-value=2.4e+02 Score=27.47 Aligned_cols=95 Identities=19% Similarity=0.311 Sum_probs=59.7
Q ss_pred HHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCC-Cc--ccHHHH
Q 027597 47 EDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNG-GL--INLQEL 123 (221)
Q Consensus 47 ~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nG-Gl--i~l~el 123 (221)
+.|.+=|...-+.|+..|-.-...+...|+|-+.+. -++|+++|.+|..--+... ......-| |. |++.
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-----VLFGLYDYKFEVLGLLMHA-EHLEERFGVGPHTISVP-- 275 (469)
T ss_pred HHHHhcCCCCCCCCHHHHHHHHHHHHHcCCCeeCeE-----EEEcCCCCHHHHHHHHHHH-HHHHHhhCCCCcccccc--
Confidence 556666766668999999999999999999977765 3789999988754432222 11111111 21 3333
Q ss_pred HHHHHhhcCCC---C-CCCCHHHHHHHHhhcc
Q 027597 124 CNLLRQRRKSN---R-EAVSEDDCLRAISKLK 151 (221)
Q Consensus 124 ~~~v~k~Rg~~---~-~~IS~~DI~rAi~~L~ 151 (221)
++.-.-|.. . ..||++|+++.|-.++
T Consensus 276 --rl~P~~Gtpl~~~~~~vsd~e~lriiA~~R 305 (469)
T PRK09613 276 --RLRPADGSDLENFPYLVSDEDFKKIVAILR 305 (469)
T ss_pred --ceecCCCCCcccCCCCCCHHHHHHHHHHHH
Confidence 222222321 1 2589999999988876
No 301
>KOG0027 consensus Calmodulin and related proteins (EF-Hand superfamily) [Signal transduction mechanisms]
Probab=25.53 E-value=3.4e+02 Score=21.37 Aligned_cols=73 Identities=21% Similarity=0.385 Sum_probs=47.3
Q ss_pred HHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHH
Q 027597 66 QFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLR 145 (221)
Q Consensus 66 ~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~r 145 (221)
.|..||...+..+.... +=...+.++=..-=..+-|.|+..||...+.+.. +..|++++..
T Consensus 65 eF~~l~~~~~~~~~~~~---------------~~~~el~eaF~~fD~d~~G~Is~~el~~~l~~lg----~~~~~~e~~~ 125 (151)
T KOG0027|consen 65 EFLDLMEKLGEEKTDEE---------------ASSEELKEAFRVFDKDGDGFISASELKKVLTSLG----EKLTDEECKE 125 (151)
T ss_pred HHHHHHHhhhccccccc---------------ccHHHHHHHHHHHccCCCCcCcHHHHHHHHHHhC----CcCCHHHHHH
Confidence 67788887776544321 1111222222222223449999999999988865 4478999999
Q ss_pred HHhhccccCCCe
Q 027597 146 AISKLKVLGNGY 157 (221)
Q Consensus 146 Ai~~L~~LG~g~ 157 (221)
-++...+=|.|.
T Consensus 126 mi~~~d~d~dg~ 137 (151)
T KOG0027|consen 126 MIREVDVDGDGK 137 (151)
T ss_pred HHHhcCCCCCCe
Confidence 999888867665
No 302
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=25.47 E-value=3.3e+02 Score=27.14 Aligned_cols=106 Identities=20% Similarity=0.280 Sum_probs=55.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccC---ccchHHHHHHHHHHHhhh-
Q 027597 34 LMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLG---IGDFYYELGVQIVEICLA- 109 (221)
Q Consensus 34 ~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG---~gdfy~eLavqIvevC~~- 109 (221)
+...+|..-...+.+|+.+|..++..- .-+++....||.|-+-. -+.+.|| ..||-+.|...+..-=..
T Consensus 349 ~~~~~Lt~~E~~IA~yIl~n~~~v~~~-----si~eLA~~~~vS~aTV~--Rf~kkLGf~Gf~efK~~L~~~~~~~~~~~ 421 (638)
T PRK14101 349 QMRDALTPAERRVADLALNHPRSIIND-----PIVDIARKADVSQPTVI--RFCRSLGCQGLSDFKLKLATGLTGTIPMS 421 (638)
T ss_pred HHHhhcCHHHHHHHHHHHhCHHHHHhc-----cHHHHHHHhCCCHHHHH--HHHHHhCCCCHHHHHHHHHHHhhhccccc
Confidence 333344444668888988888776533 23466666666654311 0112343 468999998765431100
Q ss_pred hcc-cCCCcccHHHHHH--------HHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 110 TRP-HNGGLINLQELCN--------LLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 110 tr~-~nGGli~l~el~~--------~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
.+. .++. +..++.. .+.... ..++++++.++++.|..
T Consensus 422 ~~~~~~~~--~~~~~~~~~~~~~~~~i~~t~----~~id~~~l~~aa~~L~~ 467 (638)
T PRK14101 422 HSQVHLGD--TATDFGAKVLDNTVSAILQLR----EHLNFEHVEQAIDILNN 467 (638)
T ss_pred cccCCCCC--CHHHHHHHHHHHHHHHHHHHH----HhcCHHHHHHHHHHHhc
Confidence 001 0111 1222221 122221 45899999999998863
No 303
>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=25.46 E-value=2.8e+02 Score=26.47 Aligned_cols=78 Identities=26% Similarity=0.419 Sum_probs=47.5
Q ss_pred HHHHHHHHcCCCCCCCCC-CccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhc---CCCCCCCCHH
Q 027597 66 QFHEMCAKVGVDPLASNK-GFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRR---KSNREAVSED 141 (221)
Q Consensus 66 ~F~~mC~siGVDPL~s~k-~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~R---g~~~~~IS~~ 141 (221)
.|+.....+..-|++... .-|- +.|.+=+|+..|||.+-++ ||=.+..-...+.-+= .. ...+++.
T Consensus 82 efr~li~~~~~~~~s~~~~dk~v------~eylD~sVKlLDvCNA~~~---gi~~lr~~~~ll~~al~~L~~-~~~~~~~ 151 (389)
T PF05633_consen 82 EFRALITNLRDLPLSKPPDDKWV------DEYLDRSVKLLDVCNAIRD---GISQLRQWQLLLQIALHALDS-SRPLGEG 151 (389)
T ss_pred HHHHHHhcccccccCCchHHHHH------HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhcC-CCCCcHH
Confidence 466666666543776432 3343 7899999999999999554 3322222211111110 11 1468999
Q ss_pred HHHHHHhhcccc
Q 027597 142 DCLRAISKLKVL 153 (221)
Q Consensus 142 DI~rAi~~L~~L 153 (221)
-+.||-+.|.-|
T Consensus 152 ~~rRAr~aL~dl 163 (389)
T PF05633_consen 152 QLRRARKALSDL 163 (389)
T ss_pred HHHHHHHHHHHH
Confidence 999999998754
No 304
>PF09824 ArsR: ArsR transcriptional regulator; InterPro: IPR014517 Members of this family of archaeal proteins are conserved transcriptional regulators belonging to the ArsR family.
Probab=25.37 E-value=1.6e+02 Score=24.79 Aligned_cols=38 Identities=13% Similarity=0.220 Sum_probs=32.2
Q ss_pred chhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHH
Q 027597 176 NKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDI 214 (221)
Q Consensus 176 s~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~ 214 (221)
|..|.+|++.... |+.|.++|.+.+|=+..+|-..|+.
T Consensus 16 s~~~kkV~~~Ls~-~W~T~~El~e~~G~d~~~~L~~LkK 53 (160)
T PF09824_consen 16 SEVYKKVYDELSK-GWMTEEELEEKYGKDVRESLLILKK 53 (160)
T ss_pred CHHHHHHHHHHHh-ccCCHHHHHHHHCcCHHHHHHHHHH
Confidence 5668889988877 9999999999999999887777654
No 305
>PRK03975 tfx putative transcriptional regulator; Provisional
Probab=25.29 E-value=2.1e+02 Score=23.34 Aligned_cols=45 Identities=16% Similarity=0.071 Sum_probs=34.7
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
+..|+.-+..|+.+- . ...|..++++.+|++.....+......+.
T Consensus 4 ~~~Lt~rqreVL~lr-~-~GlTq~EIAe~LGiS~~tVs~ie~ra~kk 48 (141)
T PRK03975 4 ESFLTERQIEVLRLR-E-RGLTQQEIADILGTSRANVSSIEKRAREN 48 (141)
T ss_pred ccCCCHHHHHHHHHH-H-cCCCHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 346888899999883 3 45899999999999998777766655443
No 306
>PF04465 DUF499: Protein of unknown function (DUF499); InterPro: IPR007555 This is a family of uncharacterised hypothetical prokaryotic proteins.
Probab=25.27 E-value=5.7e+02 Score=27.63 Aligned_cols=51 Identities=22% Similarity=0.216 Sum_probs=37.2
Q ss_pred CCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhc-cccCCCeEEEEeCCEEEEEe
Q 027597 115 GGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKL-KVLGNGYEVISVGKKKLVRS 170 (221)
Q Consensus 115 GGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L-~~LG~g~~vi~i~~~~~v~S 170 (221)
++=++++||+..+...... +-|+..++..||+.- +.|.-| |..||+.|-+-
T Consensus 664 ~~~isv~dL~~~F~t~p~L--P~v~d~~L~eAIkegV~~l~ig---I~~ggkiyfK~ 715 (1035)
T PF04465_consen 664 DDPISVSDLWEIFLTNPYL--PMVRDEVLKEAIKEGVKNLEIG---IRRGGKIYFKR 715 (1035)
T ss_pred CCceEHHHHHHHHhcCCCC--ccccHHHHHHHHHHHHhhCceE---EEECCEEEEEe
Confidence 3456999999999985554 689999999999875 444444 55577666653
No 307
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=25.21 E-value=3.5e+02 Score=23.66 Aligned_cols=106 Identities=13% Similarity=0.138 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccC---ccchHHHHHHHHHHH-h--hh
Q 027597 36 KEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLG---IGDFYYELGVQIVEI-C--LA 109 (221)
Q Consensus 36 ~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG---~gdfy~eLavqIvev-C--~~ 109 (221)
-.+|..-...+.+|+-+|.+++.... -+++....||.|-+-. .| ...|| ..||-++|...+-.- . ..
T Consensus 23 ~~~Lt~~e~~Ia~yil~~~~~v~~~s-----i~~lA~~~~vS~aTi~-Rf-~kkLGf~gf~efk~~l~~~~~~~~~~~~~ 95 (292)
T PRK11337 23 QEGLTPLESRVVEWLLKPGDLSEATA-----LKDIAEALAVSEAMIV-KV-AKKLGFSGFRNLRSALEDYFSQSEQVLHS 95 (292)
T ss_pred HhhcCHHHHHHHHHHHhCHHHHHhcC-----HHHHHHHhCCChHHHH-HH-HHHcCCCCHHHHHHHHHHHhccccccccC
Confidence 33344446688888888887665552 3466777777665421 01 22344 368888887654210 0 00
Q ss_pred hcccCCCcccHHHHHHHHHhhcC----CCCCCCCHHHHHHHHhhcc
Q 027597 110 TRPHNGGLINLQELCNLLRQRRK----SNREAVSEDDCLRAISKLK 151 (221)
Q Consensus 110 tr~~nGGli~l~el~~~v~k~Rg----~~~~~IS~~DI~rAi~~L~ 151 (221)
....+. +..++...+....- .....++++++.++++.|.
T Consensus 96 ~~~~~~---~~~~~~~~~~~~~~~~i~~t~~~l~~~~l~~~~~~i~ 138 (292)
T PRK11337 96 ELSFDD---APQDVVNKVFNTSLQAIEETQSILDVDEFHRAARFFY 138 (292)
T ss_pred CCCCCC---CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 001111 23333322221100 0014588899999998885
No 308
>PF14502 HTH_41: Helix-turn-helix domain
Probab=25.14 E-value=1e+02 Score=20.74 Aligned_cols=26 Identities=27% Similarity=0.383 Sum_probs=23.0
Q ss_pred ccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 192 VTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 192 vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
-|++++++.++.++-=.|+||..|-.
T Consensus 7 ~tI~e~~~~~~vs~GtiQ~Alk~Le~ 32 (48)
T PF14502_consen 7 PTISEYSEKFGVSRGTIQNALKFLEE 32 (48)
T ss_pred CCHHHHHHHhCcchhHHHHHHHHHHH
Confidence 48999999999999999999987754
No 309
>PRK15482 transcriptional regulator MurR; Provisional
Probab=24.51 E-value=3.9e+02 Score=23.34 Aligned_cols=111 Identities=11% Similarity=0.160 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccC---ccchHHHHHHHHHHHhhh-
Q 027597 34 LMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLG---IGDFYYELGVQIVEICLA- 109 (221)
Q Consensus 34 ~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG---~gdfy~eLavqIvevC~~- 109 (221)
....+|..-...+.+|+-+|..++..-. -.+++...||.|-+-. .|+ ..|| ..||-++|+..+..-=..
T Consensus 9 ~~~~~Lt~~e~~Ia~yIl~n~~~v~~~s-----i~elA~~~~vS~aTv~-Rf~-kkLGf~Gf~efk~~l~~~~~~~~~~~ 81 (285)
T PRK15482 9 NAESEFTENEQKIADFLRANVSELKSVS-----SRKMAKQLGISQSSIV-KFA-QKLGAQGFTELRMALIGEYSASREKT 81 (285)
T ss_pred HHHhhcCHHHHHHHHHHHhCHHHHHhcC-----HHHHHHHhCCCHHHHH-HHH-HHhCCCCHHHHHHHHHHHHhhhcccc
Confidence 3334444556678888888887665432 2355666666544311 122 2343 468888887665431000
Q ss_pred ---hcccCCCc---ccHHHHHHHHHhhc----CCCCCCCCHHHHHHHHhhcc
Q 027597 110 ---TRPHNGGL---INLQELCNLLRQRR----KSNREAVSEDDCLRAISKLK 151 (221)
Q Consensus 110 ---tr~~nGGl---i~l~el~~~v~k~R----g~~~~~IS~~DI~rAi~~L~ 151 (221)
....+..+ -++..+...+.+.. ......+.++++.+|++.|.
T Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~t~~~id~~~l~~~~~~i~ 133 (285)
T PRK15482 82 NATALHLHSSITSDDSLEVIARKLNREKELALEQTCALFDYARLQKIIEVIS 133 (285)
T ss_pred ccccccccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 00111111 11223332222110 00013588899999998886
No 310
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=24.37 E-value=4.9e+02 Score=26.06 Aligned_cols=56 Identities=20% Similarity=0.357 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHhhh--hcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 96 YYELGVQIVEICLA--TRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 96 y~eLavqIvevC~~--tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
||..|-. |-+|+. -|++.||=-+|.+++..+-+..+-....+|++|+.-+++....
T Consensus 356 YY~kG~l-v~L~lDl~iR~r~~~~~SLDdvmram~~~~~~~~~~~t~e~v~av~~~~tg 413 (558)
T COG3975 356 YYQKGAL-VALLLDLLIRERGGGQKSLDDVMRALWKEFGRAERGYTPEDVQAVLENVTG 413 (558)
T ss_pred hhhchhH-HHHHHHHHHHhcCCCcccHHHHHHHHHHHhCcCccCCCHHHHHHHHHhhcc
Confidence 5555544 345544 4678889999999999999998876678999999999987653
No 311
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=24.31 E-value=2.3e+02 Score=21.58 Aligned_cols=45 Identities=16% Similarity=0.136 Sum_probs=34.5
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHHHh
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLEVL 219 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~ 219 (221)
+|+.++..++.+.-. ...|..++++.+|.+..-++..+....+.|
T Consensus 113 ~L~~~~r~il~l~~~-~~~~~~eIA~~lgis~~tv~~~~~ra~~~L 157 (161)
T TIGR02985 113 KLPEQCRKIFILSRF-EGKSYKEIAEELGISVKTVEYHISKALKEL 157 (161)
T ss_pred HCCHHHHHHHHHHHH-cCCCHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 566777777776444 455999999999999998888887766554
No 312
>PF02319 E2F_TDP: E2F/DP family winged-helix DNA-binding domain; InterPro: IPR003316 The mammalian transcription factor E2F plays an important role in regulating the expression of genes that are required for passage through the cell cycle. Multiple E2F family members have been identified that bind to DNA as heterodimers, interacting with proteins known as DP - the dimerisation partners [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005667 transcription factor complex; PDB: 1CF7_B.
Probab=24.23 E-value=1.2e+02 Score=21.41 Aligned_cols=28 Identities=18% Similarity=0.256 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhhhhcccCCCcccHHHHHHHH
Q 027597 97 YELGVQIVEICLATRPHNGGLINLQELCNLL 127 (221)
Q Consensus 97 ~eLavqIvevC~~tr~~nGGli~l~el~~~v 127 (221)
-.|+.+.+++|....+ +.+++.++...+
T Consensus 7 ~~lt~~fi~~~~~~~~---~~i~l~~ia~~l 34 (71)
T PF02319_consen 7 KLLTQRFIQLFESSPD---KSISLNEIADKL 34 (71)
T ss_dssp HHHHHHHHHHHHHCCC---TEEEHHHHHHHC
T ss_pred HHHHHHHHHHHHHCCC---CcccHHHHHHHH
Confidence 3688899999998443 899999999888
No 313
>PHA02095 hypothetical protein
Probab=24.14 E-value=70 Score=23.55 Aligned_cols=22 Identities=32% Similarity=0.507 Sum_probs=19.2
Q ss_pred EEEecCcccchhHHHHHHHHHh
Q 027597 167 LVRSVPTELNKDHNQILELAQA 188 (221)
Q Consensus 167 ~v~Svp~Els~D~~~vlel~~~ 188 (221)
.|.-||.+++.|.+.|++.|+.
T Consensus 59 ~ii~vp~~~~~dyn~ii~wa~~ 80 (84)
T PHA02095 59 HIVEVPDEMAGDYNEIISWAEK 80 (84)
T ss_pred eeeeCchhhcccHHHHHHHHHh
Confidence 4557999999999999999875
No 314
>TIGR02997 Sig70-cyanoRpoD RNA polymerase sigma factor, cyanobacterial RpoD-like family. This family includes a number of closely related sigma-70 (TIGR02937) factors in the cyanobacteria. All appear most closely related to the essential sigma-70 factor RpoD, and some score above trusted to the RpoD C-terminal domain model (TIGR02393).
Probab=24.11 E-value=2e+02 Score=25.69 Aligned_cols=29 Identities=28% Similarity=0.287 Sum_probs=26.1
Q ss_pred CccHHHHHHhcCCCHHHHHHHHHHHHHHh
Q 027597 191 FVTVDEVERRLSWTSGRAIDALDILLEVL 219 (221)
Q Consensus 191 ~vt~~~L~~~l~W~~~Ra~~~L~~l~~~~ 219 (221)
-.|.+++.+.+|.|..|+++.+...++-|
T Consensus 269 ~~Tl~EIa~~lgiS~erVrq~~~rAl~kL 297 (298)
T TIGR02997 269 PLTLAEIGRRLNLSRERVRQIEAKALRKL 297 (298)
T ss_pred CcCHHHHHHHHCcCHHHHHHHHHHHHHHc
Confidence 47999999999999999999998887765
No 315
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=23.95 E-value=2.2e+02 Score=23.28 Aligned_cols=28 Identities=32% Similarity=0.374 Sum_probs=21.9
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCC
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGK 164 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~ 164 (221)
.+|.-||++|+...+..|.-.-++.+.+
T Consensus 60 ~~s~~Dil~al~~a~~~~~~Iavv~~~~ 87 (176)
T PF06506_consen 60 PISGFDILRALAKAKKYGPKIAVVGYPN 87 (176)
T ss_dssp ---HHHHHHHHHHCCCCTSEEEEEEESS
T ss_pred CCCHhHHHHHHHHHHhcCCcEEEEeccc
Confidence 7899999999999998888888887763
No 316
>PF10456 BAR_3_WASP_bdg: WASP-binding domain of Sorting nexin protein; InterPro: IPR019497 The C-terminal region of the Sorting nexin group of proteins appears to carry a BAR-like (Bin/amphiphysin/Rvs) domain. This domain is very diverse and the similarities with other BAR domains are few. In the Sorting nexins it is associated with IPR001683 from INTERPRO, and in combination with PX appears to be necessary to bind WASP along with p85 to form a multimeric signalling complex []. ; PDB: 2RAK_A 2RAI_A 3DYU_C 2RAJ_A 3DYT_A.
Probab=23.90 E-value=97 Score=27.42 Aligned_cols=69 Identities=22% Similarity=0.364 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccChh-HHHHHHHHHHHcCCCCCCCCCCccccccC-ccchHHHHHHH
Q 027597 33 DLMKEQLATFRSQLEDFARKHKNDIRKNPT-FRSQFHEMCAKVGVDPLASNKGFWAELLG-IGDFYYELGVQ 102 (221)
Q Consensus 33 ~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~-fR~~F~~mC~siGVDPL~s~k~~ws~~lG-~gdfy~eLavq 102 (221)
..|.+.+..+.+...+|+++|.+..+++=. +=..|+.++.++.+|+-..+...-. .++ .|+=|.++|.-
T Consensus 51 k~Md~sv~~l~~~~~~~~kk~~~~~kkE~qkiG~af~~Ls~afe~d~~~~~~~L~~-Al~~tg~~y~~Ig~l 121 (237)
T PF10456_consen 51 KSMDDSVKQLSSVANEFAKKHQGPFKKEYQKIGQAFQSLSQAFELDQQQASMPLTN-ALKHTGDTYEEIGDL 121 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHTTS--SSHCHHHH-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhHHHHHHhcCCchhhhHHHH-HHHHHHHHHHHHHHH
Confidence 356677777888999999999988887754 5567999999999997554322211 122 36666666554
No 317
>cd05025 S-100A1 S-100A1: S-100A1 domain found in proteins similar to S100A1. S100A1 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-100A1 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. As is the case with many other members of S100 protein family, S100A1 is implicated in intracellular and extracellular regulatory activities, including interaction with myosin-associated twitchin kinase, actin-capping protein CapZ, sinapsin I, and tubulin. Structural data suggests that S100A1 proteins exist within cells as antiparallel homodimers, while heterodimers with S100A4 and S100B also has been reported. Upon binding calcium S100A1 changes conformation to expose a hydrophobic cleft which is the interaction site of S100A1 with its more that 20 known target proteins.
Probab=23.85 E-value=2.8e+02 Score=19.90 Aligned_cols=37 Identities=16% Similarity=0.175 Sum_probs=19.7
Q ss_pred C-cccHHHHHHHHHhhcCC-CCCCCCHHHHHHHHhhccc
Q 027597 116 G-LINLQELCNLLRQRRKS-NREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 116 G-li~l~el~~~v~k~Rg~-~~~~IS~~DI~rAi~~L~~ 152 (221)
| .|+..|+...+.+.-|. ....+|++++.+-++.+.+
T Consensus 25 G~~Is~~El~~~l~~~lg~~~~~~~s~~~v~~i~~~~D~ 63 (92)
T cd05025 25 KYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELDE 63 (92)
T ss_pred CCeECHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHCC
Confidence 6 37777777666542121 1123566666666665543
No 318
>cd02646 R3H_G-patch R3H domain of a group of fungal and plant proteins with unknown function, who also contain a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the R3H domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=23.81 E-value=1.3e+02 Score=20.42 Aligned_cols=38 Identities=13% Similarity=0.322 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHhhcccccCh---hHHHHHHHHHHHcCCC
Q 027597 40 ATFRSQLEDFARKHKNDIRKNP---TFRSQFHEMCAKVGVD 77 (221)
Q Consensus 40 ~~F~~~L~~Fa~kh~~eI~~dp---~fR~~F~~mC~siGVD 77 (221)
+.+++.|++|+...+..+.-.| .-|+...++|...|+-
T Consensus 2 ~~i~~~i~~F~~~~~~~~~fppm~~~~R~~vH~lA~~~~L~ 42 (58)
T cd02646 2 EDIKDEIEAFLLDSRDSLSFPPMDKHGRKTIHKLANCYNLK 42 (58)
T ss_pred hHHHHHHHHHHhCCCceEecCCCCHHHHHHHHHHHHHcCCc
Confidence 4567788888888777665544 6788899999999865
No 319
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=23.77 E-value=3.2e+02 Score=22.12 Aligned_cols=97 Identities=19% Similarity=0.185 Sum_probs=0.0
Q ss_pred cccChhHHHHH-HHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCC-----cccHHHHHHHHHhh
Q 027597 57 IRKNPTFRSQF-HEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGG-----LINLQELCNLLRQR 130 (221)
Q Consensus 57 I~~dp~fR~~F-~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGG-----li~l~el~~~v~k~ 130 (221)
+.+||+|...| +.++..+. ...-+-..+...+-...++--+.+.|..+....++ -++..|+-+.+.
T Consensus 108 ~~~~p~~~~~~~~~~~~~l~------~~~~~~~~~~~~~~~~Rl~~~L~~l~~~~~~~~~~~~~~~~~t~~~lA~~lG-- 179 (211)
T PRK11753 108 IQVNPDILMALSAQMARRLQ------NTSRKVGDLAFLDVTGRIAQTLLDLAKQPDAMTHPDGMQIKITRQEIGRIVG-- 179 (211)
T ss_pred HHHCHHHHHHHHHHHHHHHH------HHHHHHHHHHhcChhhHHHHHHHHHHHhcCCcCCCCceecCCCHHHHHHHhC--
Q ss_pred cCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecC
Q 027597 131 RKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVP 172 (221)
Q Consensus 131 Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp 172 (221)
+|++=+-|+++.|+.-| +|.++++.++---|
T Consensus 180 -------~tr~tvsR~l~~l~~~g----ii~~~~~~i~i~~~ 210 (211)
T PRK11753 180 -------CSREMVGRVLKMLEDQG----LISAHGKTIVVYGT 210 (211)
T ss_pred -------CCHHHHHHHHHHHHHCC----CEEecCCEEEEecC
No 320
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=23.70 E-value=1.5e+02 Score=26.06 Aligned_cols=36 Identities=19% Similarity=0.309 Sum_probs=30.7
Q ss_pred HHHHHHh-cCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 182 ILELAQA-QGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 182 vlel~~~-~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
||++... .+-+|.++|++.+|.++..+...|..|+.
T Consensus 30 IL~~~~~~~~~~tl~eIa~~lglpkStv~RlL~tL~~ 66 (271)
T PRK10163 30 ILQYLEKSGGSSSVSDISLNLDLPLSTTFRLLKVLQA 66 (271)
T ss_pred HHHHHHhCCCCcCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 6777665 45699999999999999999999998875
No 321
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=23.67 E-value=1e+02 Score=27.39 Aligned_cols=105 Identities=20% Similarity=0.299 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccC---ccchHHHHHHHHHHHhhhh--
Q 027597 36 KEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLG---IGDFYYELGVQIVEICLAT-- 110 (221)
Q Consensus 36 ~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG---~gdfy~eLavqIvevC~~t-- 110 (221)
-.+|..-...+.+|+-+|.+++.. ..-++++...||-|-+-. -+...|| +.||...|+..+.+- ...
T Consensus 13 ~~~Lt~~er~iA~yil~~~~~~~~-----~si~elA~~a~VS~aTv~--Rf~~kLGf~Gf~efk~~l~~~l~~~-~~~~~ 84 (281)
T COG1737 13 YDSLTKSERKIADYILANPDEVAL-----LSIAELAERAGVSPATVV--RFARKLGFEGFSEFKLALAQELAEG-RAQLL 84 (281)
T ss_pred HhcCCHHHHHHHHHHHhCHHHHHH-----HHHHHHHHHhCCCHHHHH--HHHHHcCCCCHHHHHHHHHHHHhhc-cchhh
Confidence 333444445677777777754432 245678888888766421 1223344 479999998888764 110
Q ss_pred ---cccCCCcccHHHHH----HHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 111 ---RPHNGGLINLQELC----NLLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 111 ---r~~nGGli~l~el~----~~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
....+.--..+.+. .-+.+.. ..++++++.+|++.|..
T Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~l~~t~----~~l~~~~l~~av~~L~~ 129 (281)
T COG1737 85 REIAEDDGPESILEKLLAANIAALERTL----NLLDEEALERAVELLAK 129 (281)
T ss_pred cccCCCCCHHHHHHHHHHHHHHHHHHHH----HhcCHHHHHHHHHHHHc
Confidence 01111110112222 2222222 45899999999999974
No 322
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=23.66 E-value=2.1e+02 Score=18.42 Aligned_cols=47 Identities=26% Similarity=0.307 Sum_probs=30.4
Q ss_pred HHHHHHHHhhhhcccCCCcc-cHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccC
Q 027597 99 LGVQIVEICLATRPHNGGLI-NLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLG 154 (221)
Q Consensus 99 LavqIvevC~~tr~~nGGli-~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG 154 (221)
+...|...-....-..|+-+ +..++...+. ||..=|-++++.|...|
T Consensus 6 ~~~~i~~~i~~~~~~~~~~~~~~~~la~~~~---------is~~~v~~~l~~L~~~G 53 (66)
T cd07377 6 IADQLREAILSGELKPGDRLPSERELAEELG---------VSRTTVREALRELEAEG 53 (66)
T ss_pred HHHHHHHHHHcCCCCCCCCCCCHHHHHHHHC---------CCHHHHHHHHHHHHHCC
Confidence 33344444333333344444 4888887763 89999999999999866
No 323
>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=23.64 E-value=2.5e+02 Score=21.57 Aligned_cols=74 Identities=7% Similarity=0.134 Sum_probs=45.6
Q ss_pred HHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEe--CCEEEEEecCcccc
Q 027597 99 LGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISV--GKKKLVRSVPTELN 176 (221)
Q Consensus 99 LavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i--~~~~~v~Svp~Els 176 (221)
-|..|+..+.. .+++-++..|+-.++. ||+.-+.+.++.|+.-| +-.-.- +|.+.+-..|.+++
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 3467899999988765 89999999999998755 311111 23344434455666
Q ss_pred hhHHHHHHHHHh
Q 027597 177 KDHNQILELAQA 188 (221)
Q Consensus 177 ~D~~~vlel~~~ 188 (221)
..+ |++..+.
T Consensus 76 ~~~--v~~~l~~ 85 (130)
T TIGR02944 76 VAD--IVKAVEG 85 (130)
T ss_pred HHH--HHHHHcC
Confidence 444 6665554
No 324
>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=23.56 E-value=64 Score=30.87 Aligned_cols=36 Identities=25% Similarity=0.571 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhh-----cccccChhHHHHHHHHHH
Q 027597 34 LMKEQLATFRSQLEDFARKHK-----NDIRKNPTFRSQFHEMCA 72 (221)
Q Consensus 34 ~l~~ql~~F~~~L~~Fa~kh~-----~eI~~dp~fR~~F~~mC~ 72 (221)
+|..+|-.+. .+|+.+|. .||+.||+.+..+++|-.
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 3445555444 46899994 599999999999988853
No 325
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=23.55 E-value=1.1e+02 Score=17.86 Aligned_cols=17 Identities=24% Similarity=0.688 Sum_probs=9.5
Q ss_pred ccCC-CcccHHHHHHHHH
Q 027597 112 PHNG-GLINLQELCNLLR 128 (221)
Q Consensus 112 ~~nG-Gli~l~el~~~v~ 128 (221)
+.|| |.|+..|+...+.
T Consensus 10 D~d~dG~I~~~Ef~~~~~ 27 (29)
T PF00036_consen 10 DKDGDGKIDFEEFKEMMK 27 (29)
T ss_dssp STTSSSEEEHHHHHHHHH
T ss_pred CCCCCCcCCHHHHHHHHH
Confidence 3444 6666666665544
No 326
>KOG0031 consensus Myosin regulatory light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=23.52 E-value=3.7e+02 Score=22.72 Aligned_cols=90 Identities=16% Similarity=0.291 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCC
Q 027597 36 KEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNG 115 (221)
Q Consensus 36 ~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nG 115 (221)
++|.+.|+++.. +.-+.++.|-.-..+| .|.+|||=+|- . ++.-++ ..+-+
T Consensus 28 q~QIqEfKEAF~-~mDqnrDG~IdkeDL~----d~~aSlGk~~~--d-----------~elDaM-----------~~Ea~ 78 (171)
T KOG0031|consen 28 QSQIQEFKEAFN-LMDQNRDGFIDKEDLR----DMLASLGKIAS--D-----------EELDAM-----------MKEAP 78 (171)
T ss_pred HHHHHHHHHHHH-HHhccCCCcccHHHHH----HHHHHcCCCCC--H-----------HHHHHH-----------HHhCC
Confidence 478889999874 5777777777666665 88899997732 2 111111 12335
Q ss_pred CcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCe
Q 027597 116 GLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGY 157 (221)
Q Consensus 116 Gli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~ 157 (221)
|=|.++-.+..+-..-.. .=.+++|+.|.+.+-+=|+|.
T Consensus 79 gPINft~FLTmfGekL~g---tdpe~~I~~AF~~FD~~~~G~ 117 (171)
T KOG0031|consen 79 GPINFTVFLTMFGEKLNG---TDPEEVILNAFKTFDDEGSGK 117 (171)
T ss_pred CCeeHHHHHHHHHHHhcC---CCHHHHHHHHHHhcCccCCCc
Confidence 556666555444332111 113666777777776666553
No 327
>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=23.46 E-value=2.6e+02 Score=26.29 Aligned_cols=70 Identities=19% Similarity=0.261 Sum_probs=45.4
Q ss_pred CCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC---CccHH-HHHHhcCCCHHHHHHHH
Q 027597 137 AVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG---FVTVD-EVERRLSWTSGRAIDAL 212 (221)
Q Consensus 137 ~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G---~vt~~-~L~~~l~W~~~Ra~~~L 212 (221)
.+|++||+.|+++...-|.+=-+.-.|-+. .-++.|++.+++-+...| ..+++ -++..+.|++.--.+.+
T Consensus 257 ~~t~~Dv~hav~Kaa~aG~~k~lfi~gpra------~~~~~~~t~~~~~a~~~~v~l~f~~~~f~~~~~~~s~~~~~~~f 330 (351)
T PF09566_consen 257 NFTQEDVEHAVDKAAEAGINKVLFIFGPRA------TPVDLDRTQVIERAKECGVYLFFCVSEFTKIIFALSPFKTESIF 330 (351)
T ss_pred cCCHHHHHHHHHHHHhcccceeEEEecCcc------CcccchHHHHHHhhhcCeEEEEEEHHHHHHHHHhcCCcchHHHH
Confidence 699999999999999877443333223111 135558888988888765 23344 45567889776555444
No 328
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=23.33 E-value=2.8e+02 Score=20.05 Aligned_cols=31 Identities=6% Similarity=0.050 Sum_probs=18.5
Q ss_pred CcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 116 GLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 116 Gli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
|.|+..|+...+.+ .+ ++++++.+.++...+
T Consensus 25 G~Is~~el~~~l~~-~~-----~~~~ev~~i~~~~d~ 55 (96)
T smart00027 25 GTVTGAQAKPILLK-SG-----LPQTLLAKIWNLADI 55 (96)
T ss_pred CeEeHHHHHHHHHH-cC-----CCHHHHHHHHHHhcC
Confidence 67777777766654 22 566666655554433
No 329
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=23.25 E-value=2.3e+02 Score=18.57 Aligned_cols=46 Identities=26% Similarity=0.413 Sum_probs=30.2
Q ss_pred HHHHHHHHhhccccCCCeEEEEeC---CEEEEEecCcccchhHHHHHHHHHhcCC
Q 027597 140 EDDCLRAISKLKVLGNGYEVISVG---KKKLVRSVPTELNKDHNQILELAQAQGF 191 (221)
Q Consensus 140 ~~DI~rAi~~L~~LG~g~~vi~i~---~~~~v~Svp~Els~D~~~vlel~~~~G~ 191 (221)
...|.+|+..+. |..-+.++ ++-.|...|..++.++ +.+..+..||
T Consensus 13 ~~~v~~~l~~~~----GV~~v~vd~~~~~v~v~~~~~~~~~~~--i~~~i~~~Gy 61 (62)
T PF00403_consen 13 AKKVEKALSKLP----GVKSVKVDLETKTVTVTYDPDKTSIEK--IIEAIEKAGY 61 (62)
T ss_dssp HHHHHHHHHTST----TEEEEEEETTTTEEEEEESTTTSCHHH--HHHHHHHTTS
T ss_pred HHHHHHHHhcCC----CCcEEEEECCCCEEEEEEecCCCCHHH--HHHHHHHhCc
Confidence 355667776663 55555554 6666767666655544 8888888887
No 330
>PF01088 Peptidase_C12: Ubiquitin carboxyl-terminal hydrolase, family 1; InterPro: IPR001578 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C12 (ubiquitin C-terminal hydrolase family, clan CA). Families within the CA clan are loosely termed papain-like as protein fold of the peptidase unit resembles that of papain, the type example for clan CA. The type example is the human ubiquitin C-terminal hydrolase UCH-L1. Ubiquitin is highly conserved, commonly found conjugated to proteins in eukaryotic cells, where it may act as a marker for rapid degradation, or it may have a chaperone function in protein assembly []. The ubiquitin is released by cleavage from the bound protein by a protease []. A number of deubiquitinising proteases are known: all are activated by thiol compounds [, ], and inhibited by thiol-blocking agents and ubiquitin aldehyde [, ], and as such have the properties of cysteine proteases []. The deubiquitinsing proteases can be split into 2 size ranges (20-30 kDa and 100-200 kDa, IPR001394 from INTERPRO) []: this family are the 20-30 kDa ppeptides which includes the yeast yuh1. Yeast yuh1 protease is known to be active only against small ubiquitin conjugates, being inactive against conjugated beta-galactosidase []. A mammalian homologue, UCH (ubiquitin conjugate hydrolase), is one of the most abundant proteins in the brain []. Only one conserved cysteine can be identified, along with two conserved histidines. The spacing between the cysteine and the second histidine is thought to be more representative of the cysteine/histidine spacing of a cysteine protease catalytic dyad [].; GO: 0004221 ubiquitin thiolesterase activity, 0006511 ubiquitin-dependent protein catabolic process, 0005622 intracellular; PDB: 1CMX_A 4DM9_A 2ETL_A 3IRT_A 3KW5_A 3IFW_A 2LEN_A 3KVF_A 2WDT_C 2WE6_B ....
Probab=23.16 E-value=40 Score=29.09 Aligned_cols=18 Identities=39% Similarity=0.768 Sum_probs=16.1
Q ss_pred ccccChhHHHHHHHHHHHcCC
Q 027597 56 DIRKNPTFRSQFHEMCAKVGV 76 (221)
Q Consensus 56 eI~~dp~fR~~F~~mC~siGV 76 (221)
.|-+||++ |+.++..+||
T Consensus 4 pLESnP~v---fn~l~~~lGv 21 (214)
T PF01088_consen 4 PLESNPEV---FNELLRKLGV 21 (214)
T ss_dssp -EESSHHH---HHHHHHHTTB
T ss_pred cccCCHHH---HHHHHHHcCC
Confidence 36789999 9999999999
No 331
>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=23.06 E-value=2.1e+02 Score=18.53 Aligned_cols=33 Identities=15% Similarity=0.070 Sum_probs=20.3
Q ss_pred CCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcccc
Q 027597 115 GGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVL 153 (221)
Q Consensus 115 GGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~L 153 (221)
.|.|+..|+...+.+. | ++++++.+-++.+.+-
T Consensus 13 ~G~i~~~el~~~l~~~-g-----~~~~~~~~i~~~~d~~ 45 (67)
T cd00052 13 DGLISGDEARPFLGKS-G-----LPRSVLAQIWDLADTD 45 (67)
T ss_pred CCcCcHHHHHHHHHHc-C-----CCHHHHHHHHHHhcCC
Confidence 4777888877666542 2 3666666666555443
No 332
>PF11753 DUF3310: Protein of unknwon function (DUF3310); InterPro: IPR021739 This entry is represented by Bacteriophage T7, Gp1.7. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=23.01 E-value=86 Score=21.68 Aligned_cols=54 Identities=19% Similarity=0.161 Sum_probs=35.3
Q ss_pred cchHHHHHHHHHHHhhhhcccCCCc-ccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhcc
Q 027597 93 GDFYYELGVQIVEICLATRPHNGGL-INLQELCNLLRQRRKSNREAVSEDDCLRAISKLK 151 (221)
Q Consensus 93 gdfy~eLavqIvevC~~tr~~nGGl-i~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~ 151 (221)
.+.|..-+++++|++ ......+.+ .-+.-++..+.|...+. . .+|+.+|...|+
T Consensus 5 P~HY~~~~ie~id~~-~~~~~~~~~~f~~gnaiKY~~R~~~K~-~---~eDl~KA~~Yl~ 59 (60)
T PF11753_consen 5 PSHYKSGGIECIDFI-EQFTEEQFLGFCLGNAIKYLWRAGKKN-G---IEDLKKAKWYLD 59 (60)
T ss_pred CcccCCCCccHHHHH-HHhcchhhhhHHHHHHHHHHHHHcccC-c---HHHHHHHHHHHc
Confidence 356667788899998 333333322 22666777777776653 2 899999987654
No 333
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=22.96 E-value=1.9e+02 Score=29.43 Aligned_cols=43 Identities=5% Similarity=0.061 Sum_probs=34.4
Q ss_pred ccHHHHHHHHHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027597 12 SAAVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHK 54 (221)
Q Consensus 12 ~~~~~~~~~~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh~ 54 (221)
...+.+..-+....+.-++|+.++.++|+....+|++|-++|+
T Consensus 256 ~~l~~k~~~a~~a~~fL~~qL~~l~~~L~~aE~~l~~fr~~~~ 298 (726)
T PRK09841 256 QNIARQAAQDSQSLEFLQRQLPEVRSELDQAEEKLNVYRQQRD 298 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 3445556666677788888999999999999999999999885
No 334
>PF13012 MitMem_reg: Maintenance of mitochondrial structure and function; PDB: 2O96_B 2O95_A.
Probab=22.84 E-value=19 Score=27.34 Aligned_cols=69 Identities=16% Similarity=0.285 Sum_probs=8.0
Q ss_pred CCcchhHhhccHHHHHHHHHhcHhHHHH--HHHHHHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcC
Q 027597 3 RRPGIGGLQSAAVARDQYRLLGENVAKL--RTDLMKEQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVG 75 (221)
Q Consensus 3 R~~Gi~ai~~~~~~~~~~~~~g~~l~~~--~~~~l~~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siG 75 (221)
+|+||.++-| ......|......+... -+..|.+.+..-...|+.+ -.+++.-|++.-++.+++|.++-
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 4578888877 22233333332222211 1224444555555555555 24678889998889999998874
No 335
>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=22.79 E-value=74 Score=28.95 Aligned_cols=39 Identities=18% Similarity=0.474 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCC
Q 027597 42 FRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLA 80 (221)
Q Consensus 42 F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~ 80 (221)
|+++.+.+=+|-..-++.|..++.+.++-...-||||.-
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 444555555666677889999999999999999999994
No 336
>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=22.69 E-value=2.4e+02 Score=21.47 Aligned_cols=76 Identities=16% Similarity=0.224 Sum_probs=48.5
Q ss_pred HHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEe-C--CEEEEEecCcc
Q 027597 98 ELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISV-G--KKKLVRSVPTE 174 (221)
Q Consensus 98 eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i-~--~~~~v~Svp~E 174 (221)
+.|.+++..+.. ..+++.++..++-..++ |++.-+.+.++.|..-| | |... | |.+.+.--|.+
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 34556889999987765 78888888888888755 4 3333 2 34444444556
Q ss_pred cchhHHHHHHHHHhc
Q 027597 175 LNKDHNQILELAQAQ 189 (221)
Q Consensus 175 ls~D~~~vlel~~~~ 189 (221)
++.-. |++..+..
T Consensus 74 itl~~--I~~~~e~~ 86 (132)
T TIGR00738 74 ITVGD--VVRAVEGP 86 (132)
T ss_pred CCHHH--HHHHHcCc
Confidence 66444 66666543
No 337
>PF09724 DUF2036: Uncharacterized conserved protein (DUF2036); InterPro: IPR019128 Sister chromatid cohesion protein DCC1 is a component of the RFC-like complex CTF18-RFC. This complex is required for the efficient establishment of chromosome cohesion during S-phase and may load or unload POL30/PCNA. During a clamp loading circle, the RFC:clamp complex binds to DNA and the recognition of the double-stranded/single-stranded junction stimulates ATP hydrolysis by RFC. The complex presumably provides bipartite ATP sites in which one subunit supplies a catalytic site for hydrolysis of ATP bound to the neighbouring subunit. Dissociation of RFC from the clamp leaves the clamp encircling DNA [, ].
Probab=22.58 E-value=5.7e+02 Score=23.00 Aligned_cols=81 Identities=22% Similarity=0.215 Sum_probs=53.5
Q ss_pred ccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHHHHhcC----Ccc
Q 027597 118 INLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILELAQAQG----FVT 193 (221)
Q Consensus 118 i~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel~~~~G----~vt 193 (221)
+++++|...+. .|+..+.++...+. .+.++|..++-| |.=+..=-..++..+...| .++
T Consensus 126 ~t~~~L~~~vq---------~S~~El~~~l~~l~-------~~ei~G~~r~Ls-~~~~~~~L~~il~~~~~~~~~~~~~~ 188 (325)
T PF09724_consen 126 YTLDELLDNVQ---------ASEAELRQALKELG-------ACEIDGYWRLLS-PSYLFEILDLILTSAVEESWDLDQFP 188 (325)
T ss_pred ccHHHHHHhCC---------ccHHHHHHHHHHCC-------EEEECCEEEECC-HHHHHHHHHHHHHHHHHcCCCcccCC
Confidence 67888887755 79999999998843 456778766644 2212211222455555444 688
Q ss_pred HHHHHHhcC---CCHHHHHHHHHHH
Q 027597 194 VDEVERRLS---WTSGRAIDALDIL 215 (221)
Q Consensus 194 ~~~L~~~l~---W~~~Ra~~~L~~l 215 (221)
++++.+.+. |+..-.+++|...
T Consensus 189 ~~~~~~~l~~~~~p~~v~~~vl~~~ 213 (325)
T PF09724_consen 189 VEEVVEALEEDEYPREVVEHVLRKF 213 (325)
T ss_pred HHHHHHHhcccCCCHHHHHHHHHHh
Confidence 888887665 8888888887643
No 338
>PHA03078 transcriptional elongation factor; Provisional
Probab=22.57 E-value=62 Score=28.43 Aligned_cols=23 Identities=13% Similarity=0.291 Sum_probs=20.8
Q ss_pred cccChhHHHHHHHHHHHcCCCCC
Q 027597 57 IRKNPTFRSQFHEMCAKVGVDPL 79 (221)
Q Consensus 57 I~~dp~fR~~F~~mC~siGVDPL 79 (221)
.+.||+.-.+|-+.|...|||.-
T Consensus 13 lTede~s~~~f~SLCrgF~i~~~ 35 (219)
T PHA03078 13 LTEDEESLRMFISLCRGFNIDLE 35 (219)
T ss_pred hcCCHHHHHHHHHHhcccCCCHH
Confidence 47899999999999999999954
No 339
>PHA00542 putative Cro-like protein
Probab=22.39 E-value=2.1e+02 Score=20.67 Aligned_cols=40 Identities=5% Similarity=0.113 Sum_probs=27.4
Q ss_pred CcccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHH
Q 027597 172 PTELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDAL 212 (221)
Q Consensus 172 p~Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L 212 (221)
|...+.++..+..+....| +|..+|++.+|++.......+
T Consensus 13 p~~~~~~~~~l~~~l~~~g-lTq~elA~~lgIs~~tIsr~e 52 (82)
T PHA00542 13 PAAYTQRPDELVCALIRAG-WSQEQIADATDVSQPTICRIY 52 (82)
T ss_pred CcccCcCHHHHHHHHHHCC-CCHHHHHHHHCcCHHHHHHHH
Confidence 4445556656666666655 699999999998876654443
No 340
>PF07870 DUF1657: Protein of unknown function (DUF1657); InterPro: IPR012452 This domain appears to be restricted to the Bacillales.
Probab=22.06 E-value=2.5e+02 Score=18.68 Aligned_cols=33 Identities=15% Similarity=0.348 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHc
Q 027597 37 EQLATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKV 74 (221)
Q Consensus 37 ~ql~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~si 74 (221)
.-|...+..|+.||-. ++||+-+..|.++...+
T Consensus 7 AslK~~qA~Le~fal~-----T~d~~AK~~y~~~a~~l 39 (50)
T PF07870_consen 7 ASLKKAQADLETFALQ-----TQDQEAKQMYEQAAQQL 39 (50)
T ss_pred HHHHHHHhhHHHHHhh-----cCCHHHHHHHHHHHHHH
Confidence 4566778899999985 45999998888877654
No 341
>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=21.98 E-value=1.5e+02 Score=24.26 Aligned_cols=40 Identities=23% Similarity=0.282 Sum_probs=29.3
Q ss_pred HHHHHhhccccCCCeEEEEeCCEEEEEecCcccchhHHHHHHH
Q 027597 143 CLRAISKLKVLGNGYEVISVGKKKLVRSVPTELNKDHNQILEL 185 (221)
Q Consensus 143 I~rAi~~L~~LG~g~~vi~i~~~~~v~Svp~Els~D~~~vlel 185 (221)
+..||....|+ -...-+.+||..|- ||.+++.++..-|.+
T Consensus 60 l~~Ai~nv~P~-~evk~~r~gG~~yq--vP~~v~~~rr~~lAi 99 (154)
T TIGR01029 60 FEQALENVKPL-VEVKSRRVGGATYQ--VPVEVRPSRRYALAI 99 (154)
T ss_pred HHHHHHhCCCC-eeeEEeecCCEEEE--EeeEcCHHHHHHHHH
Confidence 56789999886 35666677888875 688888888765433
No 342
>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=21.92 E-value=2.2e+02 Score=26.48 Aligned_cols=39 Identities=13% Similarity=0.089 Sum_probs=31.8
Q ss_pred HHHHHHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027597 17 RDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKN 55 (221)
Q Consensus 17 ~~~~~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh~~ 55 (221)
+..-+..+...-+.++.++.++|+.....|++|-++|+-
T Consensus 165 ~~~~~~~~~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~i 203 (444)
T TIGR03017 165 KVEPAQKAALWFVQQIAALREDLARAQSKLSAYQQEKGI 203 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 444445567777888999999999999999999999875
No 343
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=21.85 E-value=3.9e+02 Score=26.75 Aligned_cols=79 Identities=25% Similarity=0.248 Sum_probs=46.1
Q ss_pred CCCHHHHHH---HHhhccccCCCeEEEEeC-CEEEEEecCcccchh--HHHHHHHHHh---cCCccHHH-----------
Q 027597 137 AVSEDDCLR---AISKLKVLGNGYEVISVG-KKKLVRSVPTELNKD--HNQILELAQA---QGFVTVDE----------- 196 (221)
Q Consensus 137 ~IS~~DI~r---Ai~~L~~LG~g~~vi~i~-~~~~v~Svp~Els~D--~~~vlel~~~---~G~vt~~~----------- 196 (221)
.+|+.+... -.+.|+.|| |++-.+| +..+|+++|.-+... ...+.++++. .+..+...
T Consensus 488 ~Ls~~e~~~l~~~~~~L~~lG--f~~e~fg~~si~I~~vP~~l~~~~~~~~l~ell~~l~~~~~~~~~~~~~~las~ACr 565 (617)
T PRK00095 488 ELSEDEADRLEEHKELLARLG--LELEPFGPNSFAVREVPALLGQQELEELIRDLLDELAEEGDSDTLKERELLATMACH 565 (617)
T ss_pred eeCHHHHHHHHHHHHHHHhCC--cEEEEcCCCEEEEEecChhhcccCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHH
Confidence 566666543 344556655 8887887 667889999733322 3335555543 22222222
Q ss_pred --HHHhcCCCHHHHHHHHHHHHH
Q 027597 197 --VERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 197 --L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
++.+-.|+..-++..|++|-+
T Consensus 566 ~AIk~g~~Ls~~E~~~Ll~~L~~ 588 (617)
T PRK00095 566 GAIRAGRRLTLEEMNALLRQLEA 588 (617)
T ss_pred HhhhccCCCCHHHHHHHHHHHHh
Confidence 223335888888888888643
No 344
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=21.81 E-value=1.7e+02 Score=21.56 Aligned_cols=42 Identities=21% Similarity=0.355 Sum_probs=30.1
Q ss_pred CcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCCeEEEEeCCEEEE
Q 027597 116 GLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNGYEVISVGKKKLV 168 (221)
Q Consensus 116 Gli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g~~vi~i~~~~~v 168 (221)
.-++-.+|-+.+. +|...|-+.|+.|+- .||+|..+.++-|.
T Consensus 18 ~~~SGe~La~~Lg---------iSRtaVwK~Iq~Lr~--~G~~I~s~~~kGY~ 59 (79)
T COG1654 18 NFVSGEKLAEELG---------ISRTAVWKHIQQLRE--EGVDIESVRGKGYL 59 (79)
T ss_pred CcccHHHHHHHHC---------ccHHHHHHHHHHHHH--hCCceEecCCCcee
Confidence 3455555555443 899999999999995 56888888764444
No 345
>smart00139 MyTH4 Domain in Myosin and Kinesin Tails. Domain present twice in myosin-VIIa, and also present in 3 other myosins.
Probab=21.76 E-value=1.7e+02 Score=23.57 Aligned_cols=68 Identities=22% Similarity=0.139 Sum_probs=49.7
Q ss_pred HHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHH
Q 027597 66 QFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLR 145 (221)
Q Consensus 66 ~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~r 145 (221)
-|+.++.-+|.-|... .+...+|+-.|++.|...... -+|+||.+-|.-... =+++-..|
T Consensus 25 iF~~Il~ymgd~~~~~-----------~~~~~~l~~~i~~~~~~~~~L------rDEiy~QLiKQtt~N---p~~~s~~r 84 (144)
T smart00139 25 IFKAILKFMGDLPLPK-----------PDSHLDLVQFILQKGLAHPEL------RDEIYCQLIKQLTDN---PSRQSEER 84 (144)
T ss_pred HHHHHHHHhcCCCCCC-----------cchHHHHHHHHHHHHhccHHH------HHHHHHHHHHHHhCC---CCchHHHH
Confidence 4788888889767532 367889999999999985544 379999998875432 34566788
Q ss_pred HHhhcccc
Q 027597 146 AISKLKVL 153 (221)
Q Consensus 146 Ai~~L~~L 153 (221)
+-..|..+
T Consensus 85 gW~Ll~l~ 92 (144)
T smart00139 85 GWELLYLC 92 (144)
T ss_pred HHHHHHHH
Confidence 87777653
No 346
>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=21.75 E-value=2.6e+02 Score=20.22 Aligned_cols=37 Identities=11% Similarity=0.131 Sum_probs=22.3
Q ss_pred CcccHHHHHHHHHhhcCC-CCCCCCHHHHHHHHhhccc
Q 027597 116 GLINLQELCNLLRQRRKS-NREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 116 Gli~l~el~~~v~k~Rg~-~~~~IS~~DI~rAi~~L~~ 152 (221)
|.|+..|+...+...-|. ....+|+++|..-++.+.+
T Consensus 25 G~Is~~El~~~l~~~~g~~lg~~~s~~ei~~~~~~~D~ 62 (94)
T cd05031 25 NTLSRKELKKLMEKELSEFLKNQKDPMAVDKIMKDLDQ 62 (94)
T ss_pred CeECHHHHHHHHHHHhHHHhhccccHHHHHHHHHHhCC
Confidence 788888888776542111 1134677777777666544
No 347
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR. This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.
Probab=21.75 E-value=2e+02 Score=22.46 Aligned_cols=36 Identities=22% Similarity=0.265 Sum_probs=29.4
Q ss_pred HHHHHHh--cCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 182 ILELAQA--QGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 182 vlel~~~--~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
++.+|.. .+.+|.++|++.++.+..-.+.+|..|.+
T Consensus 14 l~~La~~~~~~~~s~~~ia~~~~ip~~~l~kil~~L~~ 51 (135)
T TIGR02010 14 MLDLALNAETGPVTLADISERQGISLSYLEQLFAKLRK 51 (135)
T ss_pred HHHHHhCCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 4555543 35799999999999999999999988865
No 348
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=21.65 E-value=1.8e+02 Score=23.86 Aligned_cols=40 Identities=25% Similarity=0.395 Sum_probs=26.9
Q ss_pred hhHHH-HHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHH
Q 027597 177 KDHNQ-ILELAQAQGFVTVDEVERRLSWTSGRAIDALDILL 216 (221)
Q Consensus 177 ~D~~~-vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~ 216 (221)
.|... |+.+.+..|++.+.+|++.|+.++.=+...|+.|-
T Consensus 9 edYL~~Iy~l~~~~~~~~~~diA~~L~Vsp~sVt~ml~rL~ 49 (154)
T COG1321 9 EDYLETIYELLEEKGFARTKDIAERLKVSPPSVTEMLKRLE 49 (154)
T ss_pred HHHHHHHHHHHhccCcccHHHHHHHhCCCcHHHHHHHHHHH
Confidence 34443 34455567888888888888888777777676664
No 349
>KOG2410 consensus Gamma-glutamyltransferase [Amino acid transport and metabolism]
Probab=21.59 E-value=51 Score=32.96 Aligned_cols=32 Identities=28% Similarity=0.472 Sum_probs=23.0
Q ss_pred CccchHHHHHHHHHHHhhhhcccCCCcccHHHHHH
Q 027597 91 GIGDFYYELGVQIVEICLATRPHNGGLINLQELCN 125 (221)
Q Consensus 91 G~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~ 125 (221)
|...||.. .+.+-..+....+||+|+++||-+
T Consensus 235 g~~~FY~G---~~a~~lvkdiq~~GGiiT~qDl~~ 266 (579)
T KOG2410|consen 235 GPEAFYNG---ELAQKLVKDIQKAGGIITEQDLEN 266 (579)
T ss_pred CcccccCh---HHHHHHHHHHHHhCCceEHHHHhh
Confidence 45677765 444444455667999999999987
No 350
>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=21.56 E-value=1.4e+02 Score=20.39 Aligned_cols=11 Identities=18% Similarity=0.513 Sum_probs=8.3
Q ss_pred CCCHHHHHHHH
Q 027597 137 AVSEDDCLRAI 147 (221)
Q Consensus 137 ~IS~~DI~rAi 147 (221)
.|+++||..|+
T Consensus 55 ti~~~Dv~~Av 65 (65)
T PF00808_consen 55 TITYEDVAKAV 65 (65)
T ss_dssp EE-HHHHHHHH
T ss_pred ccCHHHHHHHC
Confidence 48999999885
No 351
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=21.55 E-value=2.7e+02 Score=21.65 Aligned_cols=44 Identities=11% Similarity=0.003 Sum_probs=30.0
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHH-------HHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSG-------RAIDALDILLEV 218 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~-------Ra~~~L~~l~~~ 218 (221)
.|+.++..++.+.-. ...|..++++.+|++.. ||+..|...+++
T Consensus 106 ~Lp~~~r~v~~l~~~-~g~s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~l~~ 156 (160)
T PRK09642 106 ELPENYRDVVLAHYL-EEKSYQEIALQEKIEVKTVEMKLYRARKWIKKHWKE 156 (160)
T ss_pred hCCHHHHHHHHHHHH-hCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHhh
Confidence 456667777776554 45789999999999874 555555555544
No 352
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=21.52 E-value=2.3e+02 Score=20.65 Aligned_cols=42 Identities=24% Similarity=0.301 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHH
Q 027597 96 YYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRA 146 (221)
Q Consensus 96 y~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rA 146 (221)
|.++-..|+++. ...||-++.+|++..|...- .+|++|...-
T Consensus 2 ~~~~~~piL~~L----~~~g~~~~~~ei~~~v~~~~-----~ls~e~~~~~ 43 (92)
T PF14338_consen 2 YDELMPPILEAL----KDLGGSASRKEIYERVAERF-----GLSDEERNER 43 (92)
T ss_pred HHHHHHHHHHHH----HHcCCCcCHHHHHHHHHHHh-----CCCHHHHHHH
Confidence 455666666665 45699999999999998864 3688765543
No 353
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.47 E-value=1.1e+02 Score=23.39 Aligned_cols=38 Identities=26% Similarity=0.353 Sum_probs=27.5
Q ss_pred cchhHHHH--HHHHHh--cCCccHHHHHHhcCCCHHHHHHHH
Q 027597 175 LNKDHNQI--LELAQA--QGFVTVDEVERRLSWTSGRAIDAL 212 (221)
Q Consensus 175 ls~D~~~v--lel~~~--~G~vt~~~L~~~l~W~~~Ra~~~L 212 (221)
||..|... -|+.+. .--+|.++++..|+|+..-.+.+|
T Consensus 3 Ln~eq~~~Tk~elqan~el~~LS~~~iA~~Ln~t~~~lekil 44 (97)
T COG4367 3 LNPEQKQRTKQELQANFELCPLSDEEIATALNWTEVKLEKIL 44 (97)
T ss_pred CCHHHHHHHHHHHHHhhhhccccHHHHHHHhCCCHHHHHHHH
Confidence 44444433 244442 567999999999999999988887
No 354
>COG4800 Predicted transcriptional regulator with an HTH domain [Transcription]
Probab=21.43 E-value=94 Score=25.83 Aligned_cols=74 Identities=19% Similarity=0.234 Sum_probs=50.7
Q ss_pred ccccChhHHHHHHHHHHHcCCCCCC--CCCCcccc----ccCccchHHHHHHHHHHHhhhh-cccCCCcccHHHHHHHHH
Q 027597 56 DIRKNPTFRSQFHEMCAKVGVDPLA--SNKGFWAE----LLGIGDFYYELGVQIVEICLAT-RPHNGGLINLQELCNLLR 128 (221)
Q Consensus 56 eI~~dp~fR~~F~~mC~siGVDPL~--s~k~~ws~----~lG~gdfy~eLavqIvevC~~t-r~~nGGli~l~el~~~v~ 128 (221)
-|.+++.|...|+.....+|.-|.- ...++.-. .+-..||-|.--.||+.-..+- .++|||.|++--....++
T Consensus 10 ~ies~E~F~~~l~~~l~Elglt~~eFak~anIP~StLYKil~G~dpr~~tl~~I~ktir~~ek~en~~fiA~IAAR~vL~ 89 (170)
T COG4800 10 CIESGEDFGSCLQKLLDELGLTPSEFAKRANIPLSTLYKILKGSDPRYDTLTRIFKTIRSYEKKENIGFIALIAARYVLE 89 (170)
T ss_pred HHhchhHHHHHHHHHHHHcCCCHHHHHHHcCCCHHHHHHHHhCCCccHHHHHHHHHHHHHHHhccCCCeeeeeehHHHHH
Confidence 4567999999999999999998762 22232211 2323789888888888766543 467999987765554444
Q ss_pred h
Q 027597 129 Q 129 (221)
Q Consensus 129 k 129 (221)
+
T Consensus 90 ~ 90 (170)
T COG4800 90 E 90 (170)
T ss_pred H
Confidence 3
No 355
>PRK14999 histidine utilization repressor; Provisional
Probab=21.37 E-value=1.1e+02 Score=26.24 Aligned_cols=26 Identities=15% Similarity=0.109 Sum_probs=24.6
Q ss_pred cHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 193 TVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 193 t~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
|..+|++.+|-++.=++.||+.|+.|
T Consensus 38 sE~eLa~~~gVSR~TVR~Al~~L~~e 63 (241)
T PRK14999 38 SEAELVAQYGFSRMTINRALRELTDE 63 (241)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 89999999999999999999999875
No 356
>TIGR02325 C_P_lyase_phnF phosphonates metabolism transcriptional regulator PhnF. All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond.
Probab=21.36 E-value=1.1e+02 Score=25.81 Aligned_cols=26 Identities=15% Similarity=0.152 Sum_probs=23.6
Q ss_pred cHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 193 TVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 193 t~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
|..+|++.+|-++.=++.||+.|..|
T Consensus 34 sE~eLa~~~~VSR~TvR~Al~~L~~e 59 (238)
T TIGR02325 34 AEMQLAERFGVNRHTVRRAIAALVER 59 (238)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 67889999999999999999999875
No 357
>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=21.34 E-value=2.3e+02 Score=17.95 Aligned_cols=12 Identities=33% Similarity=0.418 Sum_probs=6.2
Q ss_pred CcccHHHHHHHH
Q 027597 116 GLINLQELCNLL 127 (221)
Q Consensus 116 Gli~l~el~~~v 127 (221)
|.|+.+|+...+
T Consensus 3 G~i~~~~~~~~l 14 (54)
T PF13833_consen 3 GKITREEFRRAL 14 (54)
T ss_dssp SEEEHHHHHHHH
T ss_pred CEECHHHHHHHH
Confidence 455555555554
No 358
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=21.18 E-value=1.5e+02 Score=28.25 Aligned_cols=42 Identities=26% Similarity=0.497 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHH-HHHHH---HHHhhcccccChhHHHHHHHHHHH
Q 027597 32 TDLMKEQLATFRS-QLEDF---ARKHKNDIRKNPTFRSQFHEMCAK 73 (221)
Q Consensus 32 ~~~l~~ql~~F~~-~L~~F---a~kh~~eI~~dp~fR~~F~~mC~s 73 (221)
++.|..--+.|+. +|..| ..+|+.++..||.+|.+|+..-..
T Consensus 285 i~AmkavAeA~~nRSLkdF~~AL~~yk~eL~~D~ivr~Hl~~Lyd~ 330 (411)
T KOG1463|consen 285 IDAMKAVAEAFGNRSLKDFEKALADYKKELAEDPIVRSHLQSLYDN 330 (411)
T ss_pred hHHHHHHHHHhcCCcHHHHHHHHHHhHHHHhcChHHHHHHHHHHHH
Confidence 4455555555543 33333 467899999999999999876544
No 359
>PRK05773 3,4-dihydroxy-2-butanone 4-phosphate synthase; Validated
Probab=21.15 E-value=1.8e+02 Score=25.55 Aligned_cols=50 Identities=6% Similarity=0.040 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhhh-hcc------cCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHh
Q 027597 96 YYELGVQIVEICLA-TRP------HNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAIS 148 (221)
Q Consensus 96 y~eLavqIvevC~~-tr~------~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~ 148 (221)
+.|++|-+++++-- +-. ..||++.+.++. .+.+..+. ..||-+||+.+|.
T Consensus 162 HTEasvdLa~lAGl~P~~vicEil~~~~~~~~~~~~-~fA~~~~l--~~isi~dli~~~~ 218 (219)
T PRK05773 162 HTELSIALAQAAGLEPSAVIAEMLDEKLSLSKEKAK-KIAKNLGF--PLVEGKEIFKEVV 218 (219)
T ss_pred hhHHHHHHHHHcCCCccEEEEEEeCCCCCcCHHHHH-HHHHHcCC--cEEEHHHHHHHhh
Confidence 68899988887732 111 237899999995 77777777 5799999999985
No 360
>PF08227 DASH_Hsk3: DASH complex subunit Hsk3 like; InterPro: IPR013183 This is a family of fungal proteins of unknown function.
Probab=21.13 E-value=1.4e+02 Score=19.86 Aligned_cols=18 Identities=28% Similarity=0.375 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027597 32 TDLMKEQLATFRSQLEDF 49 (221)
Q Consensus 32 ~~~l~~ql~~F~~~L~~F 49 (221)
..+|..||+....+|.+|
T Consensus 4 ~s~L~~qL~qL~aNL~~t 21 (45)
T PF08227_consen 4 YSHLASQLAQLQANLADT 21 (45)
T ss_pred HHHHHHHHHHHHHhHHHH
Confidence 344444554444444444
No 361
>PF03909 BSD: BSD domain ; InterPro: IPR005607 The BSD domain is an about 60-residue long domain named after the BTF2-like transcription factors, Synapse-associated proteins and DOS2-like proteins in which it is found. Additionally, it is also found in several hypothetical proteins. The BSD domain occurs in one or two copies in a variety of species ranging from primal protozoan to human. It can be found associated with other domains such as the BTB domain (see PDOC50097 from PROSITEDOC) or the U-box in multidomain proteins. The function of the BSD domain is yet unknown []. Secondary structure prediction indicates the presence of three predicted alpha helices, which probably form a three-helical bundle in small domains. The third predicted helix contains neighbouring phenylalanine and tryptophan residues - less common amino acids that are invariant in all the BSD domains identified and that are the most striking sequence features of the domain []. Some proteins known to contain one or two BSD domains are listed below: Mammalian TFIIH basal transcription factor complex p62 subunit (GTF2H1). Yeast RNA polymerase II transcription factor B 73 kDa subunit (TFB1), the homologue of BTF2. Yeast DOS2 protein. It is involved in single-copy DNA replication and ubiquitination. Drosophila synapse-associated protein SAP47. Mammalian SYAP1. Various Arabidopsis thaliana (Mouse-ear cress) hypothetical proteins.; PDB: 1X3A_A 1PFJ_A 2RNR_B 2DII_A.
Probab=21.05 E-value=35 Score=23.42 Aligned_cols=33 Identities=27% Similarity=0.815 Sum_probs=22.9
Q ss_pred cccChhHHHHHHHHHHHcCCCCC-CCCCCccccccCccchHHHHHH
Q 027597 57 IRKNPTFRSQFHEMCAKVGVDPL-ASNKGFWAELLGIGDFYYELGV 101 (221)
Q Consensus 57 I~~dp~fR~~F~~mC~siGVDPL-~s~k~~ws~~lG~gdfy~eLav 101 (221)
+..||.++..+.++| |- .+...||+ .|||.+..
T Consensus 21 L~~~p~l~~~~~~lV------P~~~~e~~FW~------rYf~~~~~ 54 (62)
T PF03909_consen 21 LEEDPNLRKLYNELV------PSKMSEEEFWK------RYFYRLHK 54 (62)
T ss_dssp HHH-HHHHHHHHHCC------TTTS-HHHHHH------HHHCHHHH
T ss_pred HHhCHHHHHHHHHhC------CCCCCHHHHHH------HHHHHHHH
Confidence 356999999999998 55 45667998 56666544
No 362
>PRK11430 putative CoA-transferase; Provisional
Probab=21.02 E-value=2.4e+02 Score=26.42 Aligned_cols=72 Identities=11% Similarity=0.108 Sum_probs=45.9
Q ss_pred HHHHHHHHHcCCCCCCCCCCccccccCccchHHHHHHHHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHH
Q 027597 65 SQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYELGVQIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCL 144 (221)
Q Consensus 65 ~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eLavqIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~ 144 (221)
.+|+.+|.-||.+.+.....|-...-. -.-+-+|...|.++|... +..|+..++.+..--.+...|.+|++
T Consensus 257 ~~w~~l~~~lg~~~l~~d~rf~~~~~r-~~~~~~l~~~l~~~~~~~--------t~~e~~~~l~~~~vp~~pV~~~~e~~ 327 (381)
T PRK11430 257 KLFSALCQALELTELVNDPRFSSNILR-VQNQAILKQYIERTLKTQ--------AAEVWLARIHEVGVPVAPLLSVAEAI 327 (381)
T ss_pred HHHHHHHHHhCCcccccCcccCChHHH-HHhHHHHHHHHHHHHhcC--------CHHHHHHHHHHcCcceEECCCHHHHH
Confidence 369999999998777654443221111 123457766677766553 68899988887654444566777776
Q ss_pred H
Q 027597 145 R 145 (221)
Q Consensus 145 r 145 (221)
.
T Consensus 328 ~ 328 (381)
T PRK11430 328 N 328 (381)
T ss_pred H
Confidence 4
No 363
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=20.94 E-value=1.5e+02 Score=20.17 Aligned_cols=28 Identities=18% Similarity=0.127 Sum_probs=24.9
Q ss_pred CccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 191 FVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 191 ~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.+|.++|++-+|-+...+..+|..|-++
T Consensus 28 ~lt~~~iA~~~g~sr~tv~r~l~~l~~~ 55 (76)
T PF13545_consen 28 PLTQEEIADMLGVSRETVSRILKRLKDE 55 (76)
T ss_dssp ESSHHHHHHHHTSCHHHHHHHHHHHHHT
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 4789999999999999999999988764
No 364
>PRK09240 thiH thiamine biosynthesis protein ThiH; Reviewed
Probab=20.85 E-value=2.9e+02 Score=25.66 Aligned_cols=100 Identities=13% Similarity=0.213 Sum_probs=56.9
Q ss_pred HHHHHHHHhhccc-----ccChhHHHHHHHHHHHcCCCCCCCCCCccccccCccchHHHH---HHHHHHHhhhhcccCCC
Q 027597 45 QLEDFARKHKNDI-----RKNPTFRSQFHEMCAKVGVDPLASNKGFWAELLGIGDFYYEL---GVQIVEICLATRPHNGG 116 (221)
Q Consensus 45 ~L~~Fa~kh~~eI-----~~dp~fR~~F~~mC~siGVDPL~s~k~~ws~~lG~gdfy~eL---avqIvevC~~tr~~nGG 116 (221)
+++++..++-..| +.++..|-+--+.+...|++.+.+. -++|+|++..+. +.-+-+......+ ++
T Consensus 180 ~lET~~~~~~~~i~~~g~~h~~~~rl~~i~~a~~aG~~~v~~g-----~i~Glge~~~d~~~~a~~l~~L~~~~~~--~~ 252 (371)
T PRK09240 180 YQETYNPATYAKHHLRGPKRDFEYRLETPERAGRAGIRKIGLG-----ALLGLSDWRTDALMTALHLRYLQRKYWQ--AE 252 (371)
T ss_pred EEecCCHHHHHHhCcCCCCCCHHHHHHHHHHHHHcCCCeeceE-----EEecCCccHHHHHHHHHHHHHHHHhCCC--Cc
Confidence 4666655555555 3478888888899999999755443 267888876443 3333333322100 01
Q ss_pred c-ccHHHHHHHHHhhcCC-CCCCCCHHHHHHHHhhccccC
Q 027597 117 L-INLQELCNLLRQRRKS-NREAVSEDDCLRAISKLKVLG 154 (221)
Q Consensus 117 l-i~l~el~~~v~k~Rg~-~~~~IS~~DI~rAi~~L~~LG 154 (221)
. |++..+.-. .. +. ....+|++|+++.|..++-+=
T Consensus 253 ~sv~~~~l~P~--~g-~~~~~~~~~~~e~l~~ia~~Rl~l 289 (371)
T PRK09240 253 YSISFPRLRPC--TG-GIEPASIVSDKQLVQLICAFRLFL 289 (371)
T ss_pred eeeecCccccC--CC-CCCCCCCCCHHHHHHHHHHHHHHC
Confidence 1 222222211 00 11 135699999999999887433
No 365
>PRK10079 phosphonate metabolism transcriptional regulator PhnF; Provisional
Probab=20.82 E-value=1.1e+02 Score=26.09 Aligned_cols=26 Identities=19% Similarity=0.198 Sum_probs=23.5
Q ss_pred cHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 193 TVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 193 t~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
|..+|++.+|-++.=++.||+.|++|
T Consensus 37 sE~eLa~~~~VSR~TVR~Al~~L~~e 62 (241)
T PRK10079 37 AEQQLAARYEVNRHTLRRAIDQLVEK 62 (241)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 67789999999999999999999876
No 366
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=20.68 E-value=6.1e+02 Score=22.57 Aligned_cols=99 Identities=21% Similarity=0.280 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHcCCCCCCCCC---CccccccCccchHHHHHHHHHHHhhhhcccCC
Q 027597 39 LATFRSQLEDFARKHKNDIRKNPTFRSQFHEMCAKVGVDPLASNK---GFWAELLGIGDFYYELGVQIVEICLATRPHNG 115 (221)
Q Consensus 39 l~~F~~~L~~Fa~kh~~eI~~dp~fR~~F~~mC~siGVDPL~s~k---~~ws~~lG~gdfy~eLavqIvevC~~tr~~nG 115 (221)
++.+.+.|..|.+ -+.+||+|+.-+. ||..+.. .+...+++ +. ..+..+..+.+... |+
T Consensus 117 ld~v~~eL~~~~~----~l~~~~~l~~~L~--------~p~i~~e~K~~ll~~l~~-~~-~~~~~~nfl~~lv~----~~ 178 (271)
T PRK13430 117 LDDVEDELFRLGR----ILASNPELRLALS--------DRAAPAEAKRELLARLLY-GK-VTPVTERLAEQAVG----RP 178 (271)
T ss_pred HHHHHHHHHHHHH----HHHcCHHHHHHHh--------CCCCCHHHHHHHHHHHHh-cc-CCHHHHHHHHHHHh----CC
Confidence 4444444444433 2336888873222 7776542 23333333 11 22333333333333 33
Q ss_pred CcccHHHHHH----HHHhhcCCC------CCCCCHHHHHHHHhhcc-ccCC
Q 027597 116 GLINLQELCN----LLRQRRKSN------REAVSEDDCLRAISKLK-VLGN 155 (221)
Q Consensus 116 Gli~l~el~~----~v~k~Rg~~------~~~IS~~DI~rAi~~L~-~LG~ 155 (221)
.+-.+.+++. .+++.++.. +..+|++...+=.+.|+ .+|.
T Consensus 179 R~~~l~~i~~~f~~l~~~~~~~~~a~VtSA~pLs~~q~~~L~~~L~k~~g~ 229 (271)
T PRK13430 179 RGRSIEEGLDELSNLAAARRGRSVATVTTAVPLSDEQKQRLAAALSRIYGR 229 (271)
T ss_pred ChhhHHHHHHHHHHHHHHHcCeeEEEEEecCCCCHHHHHHHHHHHHHHHCC
Confidence 3333444443 344445432 46889999888888885 4453
No 367
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=20.67 E-value=3.4e+02 Score=20.53 Aligned_cols=44 Identities=25% Similarity=0.219 Sum_probs=37.4
Q ss_pred ccchhHHHHHHHHHhcCCccHHHHHHhcCCCHHHHHHHHHHHHH
Q 027597 174 ELNKDHNQILELAQAQGFVTVDEVERRLSWTSGRAIDALDILLE 217 (221)
Q Consensus 174 Els~D~~~vlel~~~~G~vt~~~L~~~l~W~~~Ra~~~L~~l~~ 217 (221)
.++.....||......|-=.+..++.+++.+.+.+..+|+.|.+
T Consensus 4 ~~~~l~~~IL~hl~~~~~Dy~k~ia~~l~~~~~~v~~~l~~Le~ 47 (92)
T PF10007_consen 4 ILDPLDLKILQHLKKAGPDYAKSIARRLKIPLEEVREALEKLEE 47 (92)
T ss_pred ccChhHHHHHHHHHHHCCCcHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 34566777898888888888999999999999999999998864
No 368
>COG4840 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.51 E-value=2.6e+02 Score=20.30 Aligned_cols=42 Identities=21% Similarity=0.350 Sum_probs=29.9
Q ss_pred HHHHHHHHhhhhcccCCCccc-----------HHHHHHHHHhhcCCCCCCCCHHHHHH
Q 027597 99 LGVQIVEICLATRPHNGGLIN-----------LQELCNLLRQRRKSNREAVSEDDCLR 145 (221)
Q Consensus 99 LavqIvevC~~tr~~nGGli~-----------l~el~~~v~k~Rg~~~~~IS~~DI~r 145 (221)
|--.|.||-.+..-.|+|++. |+|+|+.|.|. +..||....-
T Consensus 9 l~fmi~eI~~KLnmvN~gvl~~e~~d~~~~edLtdiy~mvkkk-----enfSpsEmqa 61 (71)
T COG4840 9 LDFMIEEIREKLNMVNVGVLDPEKYDNANYEDLTDIYDMVKKK-----ENFSPSEMQA 61 (71)
T ss_pred HHHHHHHHHHHHhhhhhhccCHHhcccccHHHHHHHHHHHHHh-----ccCCHHHHHH
Confidence 344577788888888999884 67788888875 3467776543
No 369
>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=20.48 E-value=52 Score=25.03 Aligned_cols=31 Identities=26% Similarity=0.400 Sum_probs=23.8
Q ss_pred cCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc
Q 027597 113 HNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV 152 (221)
Q Consensus 113 ~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~ 152 (221)
..||+|+.+|.+++ ..+|++.+..=....+.
T Consensus 45 V~~Glis~~EA~~r---------Y~Ls~eEf~~W~~av~r 75 (90)
T PF06627_consen 45 VRGGLISVEEACRR---------YGLSEEEFESWQRAVDR 75 (90)
T ss_dssp HHCTTS-HHHHHHC---------TTSSHHHHHHHHHHCCT
T ss_pred HHcCCCCHHHHHHH---------hCCCHHHHHHHHHHHHH
Confidence 67999999999976 44899999876666554
No 370
>PF04458 DUF505: Protein of unknown function (DUF505); InterPro: IPR007548 This is a family of uncharacterised prokaryotic proteins.
Probab=20.43 E-value=5e+02 Score=26.23 Aligned_cols=115 Identities=23% Similarity=0.379 Sum_probs=75.8
Q ss_pred ccchHHHHHHHHH----------HHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccc------cCC
Q 027597 92 IGDFYYELGVQIV----------EICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKV------LGN 155 (221)
Q Consensus 92 ~gdfy~eLavqIv----------evC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~------LG~ 155 (221)
.|-||-+||..|. +|...+ -+.|++.-.++...|.-.-+ --+..|.+|+++|+. |.+
T Consensus 413 sG~~ya~LA~~i~R~P~lTr~E~~vl~ki--P~~~~i~~~~~~e~~~d~~~-----~ee~~i~~AL~kLEArGfI~~Lp~ 485 (591)
T PF04458_consen 413 SGRFYAELARHIKRLPHLTRYEMEVLHKI--PDKGYIHREELVEFIKDHVG-----KEEEEIIEALEKLEARGFIEILPN 485 (591)
T ss_pred chHHHHHHHhhhhhcccccHHHHHHHHhC--CccccccHHHHHHHhhcccc-----cchHHHHHHHHHHHhcchHHHcCC
Confidence 3799999999994 344433 45677777777766554333 367788889999974 777
Q ss_pred CeEEEEeCCEEE---EEecCc--------ccchhHHHHHHHHHhcCCc------------cHHHHHHhcCCCHHHHHHHH
Q 027597 156 GYEVISVGKKKL---VRSVPT--------ELNKDHNQILELAQAQGFV------------TVDEVERRLSWTSGRAIDAL 212 (221)
Q Consensus 156 g~~vi~i~~~~~---v~Svp~--------Els~D~~~vlel~~~~G~v------------t~~~L~~~l~W~~~Ra~~~L 212 (221)
|.-+.+=-|..+ +..+|. -.|.=--.||++..+.|.. +..++.+..|-+++-++.+|
T Consensus 486 g~iilTeaG~~ik~Alsg~p~~e~~g~~~PVtP~~~rVL~Ai~~~g~lyvKe~KvRi~pk~~ke~~K~sgL~~e~f~kaL 565 (591)
T PF04458_consen 486 GMIILTEAGELIKRALSGVPEQEILGFGFPVTPTIYRVLKAIREVGTLYVKEKKVRILPKNIKEAIKLSGLTPEEFKKAL 565 (591)
T ss_pred CcEEEehhhHHHHHHHhcCCcccccccCCCCCHHHHHHHHHHHHhhhhhhhhhhhhcCccchHHHHHhcCCCHHHHHHHH
Confidence 776666544332 223444 2344444577777766643 44557778899999998888
Q ss_pred H
Q 027597 213 D 213 (221)
Q Consensus 213 ~ 213 (221)
.
T Consensus 566 ~ 566 (591)
T PF04458_consen 566 E 566 (591)
T ss_pred H
Confidence 4
No 371
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=20.42 E-value=2e+02 Score=26.79 Aligned_cols=51 Identities=22% Similarity=0.257 Sum_probs=33.4
Q ss_pred HHHHHHHHHhhhhccc-CCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhc
Q 027597 98 ELGVQIVEICLATRPH-NGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKL 150 (221)
Q Consensus 98 eLavqIvevC~~tr~~-nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L 150 (221)
++-.-|+++|.+++.. .=|-|.+-..-+...-.+|. ..|++|||..++...
T Consensus 271 ~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR--~~V~pdDv~~~a~~v 322 (350)
T CHL00081 271 DLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGR--TEVTPKDIFKVITLC 322 (350)
T ss_pred HHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCC--CCCCHHHHHHHHHHH
Confidence 4556688899998853 22444444444444444444 789999999998763
No 372
>PRK11519 tyrosine kinase; Provisional
Probab=20.15 E-value=2.3e+02 Score=28.78 Aligned_cols=44 Identities=7% Similarity=0.079 Sum_probs=33.6
Q ss_pred ccHHHHHHHHHhcHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 027597 12 SAAVARDQYRLLGENVAKLRTDLMKEQLATFRSQLEDFARKHKN 55 (221)
Q Consensus 12 ~~~~~~~~~~~~g~~l~~~~~~~l~~ql~~F~~~L~~Fa~kh~~ 55 (221)
...+.+..-+......-++|+.++.++|+....+|++|-++|+-
T Consensus 256 ~~~~~k~~~a~~a~~fL~~ql~~l~~~L~~aE~~l~~fr~~~~~ 299 (719)
T PRK11519 256 QNIERKSEEASKSLAFLAQQLPEVRSRLDVAENKLNAFRQDKDS 299 (719)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 33344555556677778888999999999999999999888764
No 373
>PRK11402 DNA-binding transcriptional regulator FrlR; Provisional
Probab=20.11 E-value=1.2e+02 Score=25.88 Aligned_cols=28 Identities=14% Similarity=0.035 Sum_probs=24.6
Q ss_pred CccHHHHHHhcCCCHHHHHHHHHHHHHH
Q 027597 191 FVTVDEVERRLSWTSGRAIDALDILLEV 218 (221)
Q Consensus 191 ~vt~~~L~~~l~W~~~Ra~~~L~~l~~~ 218 (221)
.=|..+|++.||-++.=++.||+.|+.|
T Consensus 33 LPsE~eLa~~~~VSR~TvR~Al~~L~~e 60 (241)
T PRK11402 33 IPTENELCTQYNVSRITIRKAISDLVAD 60 (241)
T ss_pred CcCHHHHHHHHCCCHHHHHHHHHHHHHC
Confidence 3577889999999999999999999875
No 374
>KOG0028 consensus Ca2+-binding protein (centrin/caltractin), EF-Hand superfamily protein [Cytoskeleton; Cell cycle control, cell division, chromosome partitioning]
Probab=20.03 E-value=2.5e+02 Score=23.84 Aligned_cols=52 Identities=10% Similarity=0.217 Sum_probs=39.0
Q ss_pred HHHHHhhhhcccCCCcccHHHHHHHHHhhcCCCCCCCCHHHHHHHHhhccccCCC
Q 027597 102 QIVEICLATRPHNGGLINLQELCNLLRQRRKSNREAVSEDDCLRAISKLKVLGNG 156 (221)
Q Consensus 102 qIvevC~~tr~~nGGli~l~el~~~v~k~Rg~~~~~IS~~DI~rAi~~L~~LG~g 156 (221)
+|-.+........-|.|+..+.+....-.-+. ..|.+||.+|++.....+.|
T Consensus 70 ei~kll~d~dk~~~g~i~fe~f~~~mt~k~~e---~dt~eEi~~afrl~D~D~~G 121 (172)
T KOG0028|consen 70 EILKLLADVDKEGSGKITFEDFRRVMTVKLGE---RDTKEEIKKAFRLFDDDKTG 121 (172)
T ss_pred HHHHHHHhhhhccCceechHHHHHHHHHHHhc---cCcHHHHHHHHHcccccCCC
Confidence 44555555555556999999999877766554 34999999999988877766
Done!