Query psy4132
Match_columns 473
No_of_seqs 526 out of 2806
Neff 8.4
Searched_HMMs 46136
Date Fri Aug 16 17:44:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4132.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4132hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2760|consensus 100.0 5E-63 1.1E-67 472.7 25.3 381 1-471 29-430 (432)
2 PF11605 Vps36_ESCRT-II: Vacuo 99.9 4.8E-27 1E-31 185.9 3.5 83 2-87 1-89 (89)
3 PF04157 EAP30: EAP30/Vps36 fa 99.8 2.5E-20 5.4E-25 175.7 10.9 219 149-455 1-223 (223)
4 COG5126 FRQ1 Ca2+-binding prot 99.7 1.5E-17 3.2E-22 145.4 13.1 139 233-397 13-155 (160)
5 KOG0027|consensus 99.7 1.5E-15 3.2E-20 134.7 13.3 136 236-396 4-147 (151)
6 KOG0027|consensus 99.6 9.8E-16 2.1E-20 135.9 10.5 134 163-300 4-149 (151)
7 COG5126 FRQ1 Ca2+-binding prot 99.6 3.3E-15 7.2E-20 130.6 10.5 133 160-300 13-156 (160)
8 KOG3294|consensus 99.6 5E-15 1.1E-19 133.9 8.5 110 10-129 15-136 (261)
9 KOG0034|consensus 99.6 3.8E-14 8.1E-19 128.3 13.8 146 234-397 27-174 (187)
10 KOG0028|consensus 99.6 4.4E-14 9.5E-19 120.7 12.0 138 234-396 27-168 (172)
11 PTZ00183 centrin; Provisional 99.5 2.6E-13 5.5E-18 120.9 14.3 138 235-397 12-153 (158)
12 PTZ00184 calmodulin; Provision 99.5 4E-13 8.8E-18 118.2 13.7 137 235-396 6-146 (149)
13 KOG0028|consensus 99.5 2.3E-13 4.9E-18 116.4 9.4 131 163-300 29-170 (172)
14 KOG0044|consensus 99.5 3.4E-13 7.3E-18 122.2 10.7 144 239-398 25-175 (193)
15 KOG0031|consensus 99.4 2.3E-12 4.9E-17 109.4 11.5 133 235-396 27-163 (171)
16 KOG0037|consensus 99.3 2.1E-11 4.5E-16 110.1 13.0 134 238-403 55-193 (221)
17 KOG4223|consensus 99.3 1.1E-10 2.5E-15 111.2 14.9 171 208-403 121-310 (325)
18 KOG0031|consensus 99.2 6E-11 1.3E-15 100.9 10.4 127 163-300 28-165 (171)
19 KOG0036|consensus 99.2 1.8E-10 4E-15 112.6 12.8 169 235-443 9-182 (463)
20 KOG2643|consensus 99.2 2.4E-11 5.2E-16 119.4 6.4 177 209-397 208-452 (489)
21 KOG0030|consensus 99.2 9.6E-11 2.1E-15 98.0 8.8 130 165-298 9-149 (152)
22 KOG0037|consensus 99.2 1.3E-10 2.9E-15 105.0 10.3 100 209-325 103-206 (221)
23 KOG0038|consensus 99.2 3.8E-10 8.2E-15 94.9 11.0 137 236-396 24-175 (189)
24 PTZ00183 centrin; Provisional 99.2 2.6E-10 5.6E-15 101.5 10.9 130 164-300 14-154 (158)
25 PTZ00184 calmodulin; Provision 99.1 5.7E-10 1.2E-14 98.0 10.6 126 166-298 10-146 (149)
26 KOG0377|consensus 99.1 2.4E-09 5.3E-14 105.2 13.8 206 98-402 409-619 (631)
27 KOG0030|consensus 99.0 4.7E-09 1E-13 88.0 9.8 136 235-396 6-149 (152)
28 KOG0751|consensus 98.9 1.3E-08 2.7E-13 101.5 12.7 211 209-435 83-315 (694)
29 KOG0044|consensus 98.9 1E-08 2.2E-13 93.1 9.5 138 155-299 14-174 (193)
30 KOG4223|consensus 98.8 1E-07 2.2E-12 91.3 13.6 215 209-430 50-301 (325)
31 KOG0036|consensus 98.8 6.6E-08 1.4E-12 95.0 11.3 128 161-301 8-147 (463)
32 KOG0034|consensus 98.7 1.3E-07 2.8E-12 85.9 11.9 128 164-301 30-176 (187)
33 PF13499 EF-hand_7: EF-hand do 98.6 4.2E-08 9.1E-13 73.9 5.3 58 241-298 1-66 (66)
34 cd05022 S-100A13 S-100A13: S-1 98.6 8.1E-08 1.8E-12 76.6 7.0 66 236-301 4-76 (89)
35 PLN02964 phosphatidylserine de 98.5 6.7E-07 1.5E-11 95.4 10.4 114 217-336 121-242 (644)
36 cd05026 S-100Z S-100Z: S-100Z 98.5 3.1E-07 6.7E-12 74.2 6.1 67 235-301 5-82 (93)
37 KOG0038|consensus 98.4 5.3E-07 1.1E-11 76.2 6.6 113 179-301 57-178 (189)
38 cd05027 S-100B S-100B: S-100B 98.4 5.3E-07 1.2E-11 72.0 6.3 66 236-301 4-80 (88)
39 cd05025 S-100A1 S-100A1: S-100 98.4 7.8E-07 1.7E-11 71.8 6.5 66 236-301 5-81 (92)
40 cd00252 SPARC_EC SPARC_EC; ext 98.3 1.2E-06 2.6E-11 73.5 6.8 62 237-298 45-106 (116)
41 cd05023 S-100A11 S-100A11: S-1 98.3 1.2E-06 2.6E-11 70.0 6.3 67 235-301 4-81 (89)
42 PLN02964 phosphatidylserine de 98.3 9.2E-07 2E-11 94.3 7.3 99 163-267 139-242 (644)
43 cd05031 S-100A10_like S-100A10 98.3 1.7E-06 3.8E-11 70.0 6.5 65 237-301 5-80 (94)
44 smart00027 EH Eps15 homology d 98.3 2.3E-06 5E-11 69.6 7.2 67 235-301 5-73 (96)
45 cd00213 S-100 S-100: S-100 dom 98.3 1.8E-06 3.8E-11 69.0 6.3 66 236-301 4-80 (88)
46 cd05022 S-100A13 S-100A13: S-1 98.2 2E-06 4.3E-11 68.7 5.7 65 309-397 8-74 (89)
47 cd05029 S-100A6 S-100A6: S-100 98.2 2.5E-06 5.3E-11 68.1 5.9 67 235-301 5-80 (88)
48 PF13499 EF-hand_7: EF-hand do 98.2 3.1E-06 6.7E-11 63.6 6.1 65 310-395 1-65 (66)
49 cd00052 EH Eps15 homology doma 98.2 2.8E-06 6.1E-11 63.8 5.7 59 243-301 2-62 (67)
50 KOG2562|consensus 98.1 2.8E-05 6E-10 78.0 12.5 168 209-394 234-420 (493)
51 KOG4251|consensus 98.1 1.5E-05 3.2E-10 73.3 9.6 60 168-227 102-167 (362)
52 cd05026 S-100Z S-100Z: S-100Z 98.0 1.3E-05 2.8E-10 64.8 6.4 71 309-399 10-82 (93)
53 cd05027 S-100B S-100B: S-100B 98.0 1.8E-05 4E-10 63.1 6.7 69 309-397 8-78 (88)
54 KOG2643|consensus 98.0 1.8E-05 3.8E-10 78.7 7.7 181 250-435 209-417 (489)
55 KOG4251|consensus 97.9 0.0001 2.2E-09 67.8 10.4 189 237-432 98-307 (362)
56 KOG4666|consensus 97.9 3.7E-05 8E-10 73.6 7.6 152 218-397 207-358 (412)
57 cd05025 S-100A1 S-100A1: S-100 97.8 4.4E-05 9.5E-10 61.5 6.6 70 308-397 8-79 (92)
58 KOG0041|consensus 97.8 4.3E-05 9.4E-10 68.3 6.7 66 236-301 95-164 (244)
59 PF13833 EF-hand_8: EF-hand do 97.8 3.7E-05 8.1E-10 55.2 5.0 50 346-396 2-51 (54)
60 cd05030 calgranulins Calgranul 97.8 6.1E-05 1.3E-09 60.2 5.9 66 236-301 4-80 (88)
61 cd00052 EH Eps15 homology doma 97.7 5.4E-05 1.2E-09 56.7 5.2 61 312-399 2-62 (67)
62 cd05029 S-100A6 S-100A6: S-100 97.7 0.00013 2.9E-09 58.1 6.9 65 310-397 11-78 (88)
63 cd00051 EFh EF-hand, calcium b 97.7 9.7E-05 2.1E-09 53.5 5.5 57 242-298 2-62 (63)
64 smart00027 EH Eps15 homology d 97.7 9.2E-05 2E-09 60.1 5.7 65 308-399 9-73 (96)
65 cd05023 S-100A11 S-100A11: S-1 97.6 0.00011 2.4E-09 58.7 5.7 70 309-397 9-79 (89)
66 PF13833 EF-hand_8: EF-hand do 97.6 7.2E-05 1.6E-09 53.7 3.7 46 254-299 2-52 (54)
67 cd05031 S-100A10_like S-100A10 97.6 0.00019 4.1E-09 58.0 6.5 69 309-397 8-78 (94)
68 cd00252 SPARC_EC SPARC_EC; ext 97.6 0.00015 3.3E-09 60.8 5.8 60 308-396 47-106 (116)
69 cd05024 S-100A10 S-100A10: A s 97.6 0.00026 5.5E-09 56.3 6.7 65 236-301 4-77 (91)
70 PF00036 EF-hand_1: EF hand; 97.6 0.0001 2.2E-09 45.6 3.5 26 274-299 2-27 (29)
71 PF00036 EF-hand_1: EF hand; 97.5 5.7E-05 1.2E-09 46.8 2.1 27 371-397 1-27 (29)
72 PF14658 EF-hand_9: EF-hand do 97.4 0.00018 3.9E-09 53.3 4.2 57 244-300 2-64 (66)
73 cd00213 S-100 S-100: S-100 dom 97.4 0.00037 8E-09 55.5 6.2 69 309-397 8-78 (88)
74 cd00051 EFh EF-hand, calcium b 97.3 0.00096 2.1E-08 48.1 6.8 61 311-396 2-62 (63)
75 KOG2760|consensus 97.2 0.00036 7.8E-09 68.8 4.5 73 3-79 1-81 (432)
76 KOG0040|consensus 97.2 0.0022 4.8E-08 72.3 10.9 140 154-298 2231-2396(2399)
77 KOG2562|consensus 97.2 0.0019 4.1E-08 65.2 9.6 214 208-430 147-420 (493)
78 PF14470 bPH_3: Bacterial PH d 97.2 0.00048 1E-08 55.7 4.3 88 11-122 1-95 (96)
79 PRK12309 transaldolase/EF-hand 97.1 0.0011 2.3E-08 67.5 6.5 53 239-300 333-385 (391)
80 PF10591 SPARC_Ca_bdg: Secrete 97.0 0.00095 2.1E-08 55.8 4.8 61 236-296 50-112 (113)
81 KOG0040|consensus 97.0 0.0052 1.1E-07 69.5 11.5 88 233-320 2246-2345(2399)
82 cd05030 calgranulins Calgranul 97.0 0.002 4.3E-08 51.4 6.0 31 367-397 48-78 (88)
83 KOG0377|consensus 96.9 0.0068 1.5E-07 60.7 10.1 146 239-434 463-615 (631)
84 KOG0751|consensus 96.8 0.012 2.7E-07 59.7 11.3 150 236-394 32-203 (694)
85 PF13202 EF-hand_5: EF hand; P 96.8 0.00089 1.9E-08 39.8 1.9 22 243-264 2-23 (25)
86 PF14658 EF-hand_9: EF-hand do 96.7 0.0016 3.5E-08 48.3 3.3 53 171-227 2-63 (66)
87 PF13405 EF-hand_6: EF-hand do 96.7 0.0011 2.3E-08 41.7 2.0 26 241-266 1-26 (31)
88 cd05024 S-100A10 S-100A10: A s 96.6 0.0076 1.6E-07 48.0 6.7 31 367-397 45-75 (91)
89 PF12763 EF-hand_4: Cytoskelet 96.6 0.0042 9.2E-08 51.0 5.1 66 235-301 5-72 (104)
90 PF13202 EF-hand_5: EF hand; P 96.4 0.0043 9.3E-08 36.9 3.1 23 275-297 2-24 (25)
91 PF02893 GRAM: GRAM domain; I 96.4 0.00074 1.6E-08 51.1 -0.4 53 11-67 9-67 (69)
92 smart00568 GRAM domain in gluc 96.4 0.0024 5.1E-08 47.0 2.3 52 11-67 2-59 (61)
93 smart00550 Zalpha Z-DNA-bindin 96.1 0.027 6E-07 42.4 6.9 52 406-457 4-57 (68)
94 PF08000 bPH_1: Bacterial PH d 95.8 0.012 2.6E-07 49.8 4.2 90 8-124 24-122 (124)
95 PF13405 EF-hand_6: EF-hand do 95.8 0.0068 1.5E-07 37.9 2.0 27 371-397 1-27 (31)
96 KOG0041|consensus 95.6 0.028 6.1E-07 50.7 5.9 64 160-227 92-162 (244)
97 PRK12309 transaldolase/EF-hand 95.3 0.039 8.4E-07 56.3 6.4 25 373-397 360-384 (391)
98 KOG4666|consensus 95.1 0.034 7.5E-07 53.7 5.1 90 209-301 268-360 (412)
99 KOG3341|consensus 94.7 0.44 9.5E-06 43.6 10.9 134 334-470 102-240 (249)
100 PF09012 FeoC: FeoC like trans 94.7 0.036 7.9E-07 41.9 3.5 47 410-456 2-48 (69)
101 PF01325 Fe_dep_repress: Iron 94.7 0.079 1.7E-06 38.8 5.2 52 405-456 5-56 (60)
102 KOG0046|consensus 94.6 0.071 1.5E-06 54.8 6.1 67 234-301 13-86 (627)
103 PF10349 WWbp: WW-domain ligan 94.5 0.043 9.2E-07 46.1 3.7 31 98-128 4-34 (116)
104 PF08220 HTH_DeoR: DeoR-like h 94.5 0.088 1.9E-06 38.1 4.9 46 411-456 3-48 (57)
105 PF08567 TFIIH_BTF_p62_N: TFII 94.5 0.017 3.7E-07 44.9 1.1 48 35-88 11-65 (79)
106 smart00683 DM16 Repeats in sea 94.4 0.042 9E-07 39.2 2.9 48 15-65 1-52 (55)
107 PF13412 HTH_24: Winged helix- 94.3 0.19 4.1E-06 34.8 6.1 43 410-452 5-47 (48)
108 PF07289 DUF1448: Protein of u 94.1 0.16 3.5E-06 50.1 7.2 97 8-125 148-248 (339)
109 PF04703 FaeA: FaeA-like prote 94.0 0.088 1.9E-06 38.8 4.0 51 411-461 3-54 (62)
110 PF14788 EF-hand_10: EF hand; 93.6 0.2 4.3E-06 35.2 5.0 26 274-299 23-48 (51)
111 PF12763 EF-hand_4: Cytoskelet 93.6 0.16 3.4E-06 41.8 5.3 34 366-399 39-72 (104)
112 PRK15431 ferrous iron transpor 93.1 0.33 7.1E-06 37.3 5.9 47 410-456 4-50 (78)
113 smart00054 EFh EF-hand, calciu 92.9 0.17 3.6E-06 29.6 3.4 24 275-298 3-26 (29)
114 PF01726 LexA_DNA_bind: LexA D 92.7 0.25 5.3E-06 36.9 4.7 52 407-458 9-62 (65)
115 PF14788 EF-hand_10: EF hand; 92.0 0.19 4.1E-06 35.3 3.1 32 367-398 18-49 (51)
116 PF10591 SPARC_Ca_bdg: Secrete 92.0 0.075 1.6E-06 44.4 1.3 61 307-394 52-112 (113)
117 smart00054 EFh EF-hand, calciu 91.7 0.12 2.7E-06 30.2 1.8 26 372-397 2-27 (29)
118 KOG4065|consensus 91.3 0.29 6.3E-06 40.2 4.0 54 244-297 71-142 (144)
119 smart00420 HTH_DEOR helix_turn 91.3 0.64 1.4E-05 32.2 5.5 46 412-457 4-49 (53)
120 KOG0169|consensus 90.9 2 4.3E-05 46.7 10.8 135 235-397 131-273 (746)
121 PRK09334 30S ribosomal protein 90.9 0.6 1.3E-05 36.7 5.2 48 406-453 25-72 (86)
122 PF09339 HTH_IclR: IclR helix- 90.7 0.5 1.1E-05 33.3 4.4 44 413-456 8-52 (52)
123 PF07289 DUF1448: Protein of u 90.4 0.2 4.3E-06 49.4 2.7 52 11-66 19-75 (339)
124 KOG1029|consensus 90.3 1.5 3.2E-05 47.4 9.1 58 242-299 15-76 (1118)
125 TIGR02787 codY_Gpos GTP-sensin 89.9 0.59 1.3E-05 44.0 5.2 58 399-456 174-232 (251)
126 PF12802 MarR_2: MarR family; 89.9 0.67 1.5E-05 33.7 4.6 48 411-458 8-57 (62)
127 PF06163 DUF977: Bacterial pro 89.4 1.4 3E-05 37.1 6.5 51 407-457 11-61 (127)
128 smart00418 HTH_ARSR helix_turn 88.6 0.99 2.1E-05 32.5 4.8 51 414-465 3-53 (66)
129 COG3355 Predicted transcriptio 88.4 1.3 2.9E-05 37.5 5.8 53 412-464 32-85 (126)
130 KOG3555|consensus 88.4 0.8 1.7E-05 44.9 5.1 64 238-301 248-311 (434)
131 COG4901 Ribosomal protein S25 88.2 1.1 2.3E-05 36.1 4.8 48 406-453 43-90 (107)
132 PF01047 MarR: MarR family; I 87.7 0.76 1.7E-05 33.1 3.6 47 412-458 7-53 (59)
133 PHA02943 hypothetical protein; 87.5 1.3 2.9E-05 38.4 5.4 47 409-456 12-58 (165)
134 PF01978 TrmB: Sugar-specific 87.0 0.7 1.5E-05 34.5 3.1 52 412-464 12-63 (68)
135 PF12840 HTH_20: Helix-turn-he 86.9 1.5 3.3E-05 31.9 4.8 47 409-455 11-57 (61)
136 smart00346 HTH_ICLR helix_turn 86.7 1.7 3.8E-05 34.2 5.5 46 411-456 8-54 (91)
137 PF03297 Ribosomal_S25: S25 ri 86.6 1.2 2.6E-05 36.6 4.4 52 406-457 43-94 (105)
138 KOG4578|consensus 86.5 0.32 7E-06 47.2 1.2 64 238-301 331-399 (421)
139 PRK03902 manganese transport t 86.3 1.8 3.9E-05 37.6 5.8 51 405-455 5-55 (142)
140 KOG0035|consensus 85.7 7.2 0.00016 43.6 11.1 92 232-323 739-839 (890)
141 PRK11169 leucine-responsive tr 85.7 1.6 3.4E-05 39.0 5.3 45 410-454 16-60 (164)
142 KOG0169|consensus 85.2 5.7 0.00012 43.3 9.8 89 208-301 144-233 (746)
143 PF13404 HTH_AsnC-type: AsnC-t 84.7 3.2 6.9E-05 27.9 5.1 37 411-447 6-42 (42)
144 PRK10434 srlR DNA-bindng trans 84.1 1.9 4.1E-05 41.5 5.4 50 407-456 4-53 (256)
145 COG2345 Predicted transcriptio 84.1 2.3 5E-05 39.7 5.6 52 407-458 10-61 (218)
146 smart00344 HTH_ASNC helix_turn 84.0 2.4 5.3E-05 34.6 5.3 44 411-454 6-49 (108)
147 KOG4065|consensus 83.6 2.3 5E-05 35.1 4.7 29 367-395 110-142 (144)
148 KOG0046|consensus 83.4 2 4.3E-05 44.6 5.3 51 347-397 33-84 (627)
149 PRK11179 DNA-binding transcrip 83.4 2.5 5.3E-05 37.3 5.4 43 411-453 12-54 (153)
150 COG1349 GlpR Transcriptional r 83.2 2 4.4E-05 41.3 5.2 48 408-455 5-52 (253)
151 PRK13509 transcriptional repre 82.9 2.9 6.2E-05 40.2 6.1 47 408-454 5-51 (251)
152 PF08279 HTH_11: HTH domain; 82.8 3.2 6.9E-05 29.3 4.8 40 411-450 3-43 (55)
153 KOG1955|consensus 82.5 2.6 5.6E-05 43.4 5.6 70 234-303 225-296 (737)
154 PRK10906 DNA-binding transcrip 82.3 2.6 5.6E-05 40.5 5.5 48 408-455 5-52 (252)
155 PRK00082 hrcA heat-inducible t 82.3 1.9 4E-05 43.5 4.6 56 415-470 18-82 (339)
156 COG1522 Lrp Transcriptional re 81.3 3.3 7.1E-05 36.2 5.4 46 410-455 10-55 (154)
157 PRK11050 manganese transport r 80.9 4.6 9.9E-05 35.6 6.1 51 406-456 35-85 (152)
158 PF09107 SelB-wing_3: Elongati 80.9 4 8.6E-05 28.6 4.5 44 414-457 2-45 (50)
159 PRK06266 transcription initiat 80.6 4 8.7E-05 37.0 5.8 43 411-453 25-67 (178)
160 PRK09802 DNA-binding transcrip 80.6 3.3 7.1E-05 40.2 5.6 50 407-456 16-65 (269)
161 PF09279 EF-hand_like: Phospho 80.5 2.7 5.9E-05 32.6 4.1 51 347-397 14-68 (83)
162 TIGR01884 cas_HTH CRISPR locus 80.1 3.8 8.3E-05 37.9 5.7 47 411-457 146-192 (203)
163 COG4565 CitB Response regulato 79.7 14 0.00031 34.3 8.9 78 366-456 129-207 (224)
164 PF01022 HTH_5: Bacterial regu 79.1 4.3 9.2E-05 27.8 4.3 41 411-452 5-45 (47)
165 cd00092 HTH_CRP helix_turn_hel 79.0 8.5 0.00019 28.0 6.3 37 420-456 23-59 (67)
166 cd00090 HTH_ARSR Arsenical Res 79.0 6.1 0.00013 29.1 5.6 47 411-458 10-56 (78)
167 TIGR00331 hrcA heat shock gene 78.9 2.7 5.9E-05 42.2 4.5 56 415-470 14-78 (337)
168 COG1321 TroR Mn-dependent tran 78.4 4.5 9.7E-05 35.7 5.2 53 404-456 6-58 (154)
169 TIGR02702 SufR_cyano iron-sulf 78.2 4.8 0.0001 37.2 5.7 46 411-456 4-49 (203)
170 PF12068 DUF3548: Domain of un 77.9 1.5 3.3E-05 40.8 2.2 58 51-125 110-167 (213)
171 PRK04424 fatty acid biosynthes 77.8 2.8 6E-05 38.3 3.9 49 407-455 6-54 (185)
172 TIGR02337 HpaR homoprotocatech 77.6 5.8 0.00013 33.0 5.6 46 413-458 33-78 (118)
173 PRK11512 DNA-binding transcrip 77.4 6.2 0.00013 34.2 5.9 46 414-459 46-91 (144)
174 TIGR00738 rrf2_super rrf2 fami 76.1 8.4 0.00018 32.7 6.3 44 421-465 24-67 (132)
175 smart00347 HTH_MARR helix_turn 75.6 7.8 0.00017 30.6 5.6 47 411-457 13-59 (101)
176 KOG1029|consensus 75.6 2.8 6.1E-05 45.5 3.6 63 238-300 193-257 (1118)
177 KOG4347|consensus 75.4 3.7 8E-05 43.8 4.4 55 272-328 555-609 (671)
178 smart00419 HTH_CRP helix_turn_ 75.2 5.7 0.00012 26.8 4.1 36 421-456 7-42 (48)
179 TIGR00498 lexA SOS regulatory 75.0 6.8 0.00015 36.0 5.8 58 406-463 8-68 (199)
180 PF00392 GntR: Bacterial regul 74.6 9.7 0.00021 27.9 5.4 36 421-456 22-58 (64)
181 TIGR00635 ruvB Holliday juncti 74.0 23 0.0005 34.7 9.6 57 409-466 243-305 (305)
182 PRK03573 transcriptional regul 74.0 7.5 0.00016 33.6 5.5 41 419-459 43-83 (144)
183 PF09743 DUF2042: Uncharacteri 74.0 26 0.00057 34.0 9.7 110 320-446 45-154 (272)
184 KOG4471|consensus 73.9 8.3 0.00018 40.9 6.4 56 9-70 34-94 (717)
185 PF09279 EF-hand_like: Phospho 73.8 6.4 0.00014 30.5 4.5 60 241-301 1-70 (83)
186 PRK14165 winged helix-turn-hel 73.7 4.9 0.00011 37.6 4.4 55 409-463 6-62 (217)
187 smart00345 HTH_GNTR helix_turn 73.3 8.4 0.00018 27.2 4.8 37 420-456 17-54 (60)
188 COG3398 Uncharacterized protei 73.3 9.7 0.00021 35.4 6.0 63 407-469 100-162 (240)
189 PLN02952 phosphoinositide phos 73.2 20 0.00043 38.8 9.3 35 286-320 14-49 (599)
190 PF09397 Ftsk_gamma: Ftsk gamm 72.9 9.8 0.00021 28.3 5.0 49 408-456 6-54 (65)
191 PRK13777 transcriptional regul 72.6 9.3 0.0002 34.9 5.9 47 413-459 50-96 (185)
192 PF04283 CheF-arch: Chemotaxis 72.1 12 0.00026 35.2 6.6 84 33-127 23-109 (221)
193 TIGR02944 suf_reg_Xantho FeS a 71.2 12 0.00026 31.7 6.0 46 420-466 23-68 (130)
194 PRK10411 DNA-binding transcrip 71.1 11 0.00023 36.0 6.2 47 408-454 4-50 (240)
195 PF07789 DUF1627: Protein of u 70.7 4.9 0.00011 34.8 3.3 46 419-464 3-48 (155)
196 TIGR01889 Staph_reg_Sar staphy 70.6 13 0.00028 30.6 5.9 41 419-459 40-80 (109)
197 PRK15090 DNA-binding transcrip 69.7 9 0.0002 36.8 5.5 45 412-456 18-62 (257)
198 PF08726 EFhand_Ca_insen: Ca2+ 69.4 4 8.7E-05 30.7 2.3 55 238-296 4-65 (69)
199 PF14513 DAG_kinase_N: Diacylg 69.4 7.6 0.00017 33.6 4.3 68 255-322 6-82 (138)
200 PRK10141 DNA-binding transcrip 69.3 10 0.00023 31.8 5.0 56 411-466 19-74 (117)
201 PF03517 Voldacs: Regulator of 68.8 2.7 5.9E-05 36.2 1.5 26 38-63 1-30 (135)
202 smart00843 Ftsk_gamma This dom 68.8 19 0.00041 26.6 5.6 49 408-456 5-53 (63)
203 PF13601 HTH_34: Winged helix 68.6 5.2 0.00011 31.0 2.9 49 412-460 4-52 (80)
204 KOG3555|consensus 68.0 9.7 0.00021 37.6 5.1 86 239-329 210-302 (434)
205 PF14947 HTH_45: Winged helix- 68.0 13 0.00029 28.4 5.1 47 407-454 5-51 (77)
206 PHA00738 putative HTH transcri 68.0 12 0.00027 30.7 4.9 59 408-466 12-70 (108)
207 PF02002 TFIIE_alpha: TFIIE al 67.9 7.3 0.00016 31.8 3.8 42 412-453 17-58 (105)
208 KOG1707|consensus 67.9 28 0.00061 37.1 8.8 141 235-399 190-344 (625)
209 TIGR01610 phage_O_Nterm phage 67.8 20 0.00043 28.7 6.2 37 420-456 45-81 (95)
210 PRK00215 LexA repressor; Valid 66.4 14 0.00031 34.0 5.9 53 407-459 7-61 (205)
211 TIGR00122 birA_repr_reg BirA b 63.7 24 0.00053 26.1 5.7 41 412-453 4-44 (69)
212 cd07377 WHTH_GntR Winged helix 63.5 27 0.00058 25.0 5.9 34 423-456 26-59 (66)
213 PF03444 HrcA_DNA-bdg: Winged 63.4 40 0.00086 26.1 6.6 47 408-454 8-55 (78)
214 PF13463 HTH_27: Winged helix 62.5 13 0.00028 27.2 4.0 46 413-458 8-54 (68)
215 PF03428 RP-C: Replication pro 62.4 12 0.00027 33.8 4.4 44 422-465 70-114 (177)
216 TIGR03879 near_KaiC_dom probab 61.6 12 0.00025 28.6 3.5 44 410-453 20-63 (73)
217 PF04967 HTH_10: HTH DNA bindi 61.1 13 0.00028 26.4 3.4 34 416-449 17-50 (53)
218 PF14502 HTH_41: Helix-turn-he 60.9 15 0.00032 25.5 3.5 32 423-454 7-38 (48)
219 KOG1089|consensus 60.6 22 0.00047 37.9 6.5 71 16-86 7-85 (573)
220 TIGR02431 pcaR_pcaU beta-ketoa 60.5 18 0.00039 34.4 5.6 43 414-456 15-58 (248)
221 TIGR02698 CopY_TcrY copper tra 59.9 21 0.00045 30.5 5.3 54 412-465 8-65 (130)
222 PRK09834 DNA-binding transcrip 58.9 20 0.00044 34.5 5.7 44 414-457 17-61 (263)
223 KOG3866|consensus 58.8 7.3 0.00016 37.8 2.4 88 245-339 249-356 (442)
224 KOG4347|consensus 58.6 6.2 0.00013 42.2 2.1 53 34-86 37-98 (671)
225 PRK10870 transcriptional repre 58.3 26 0.00056 31.6 5.9 40 420-459 69-108 (176)
226 PF00325 Crp: Bacterial regula 57.6 20 0.00043 22.6 3.4 31 422-452 2-32 (32)
227 TIGR00373 conserved hypothetic 56.6 28 0.0006 30.8 5.7 35 419-453 25-59 (158)
228 PF02082 Rrf2: Transcriptional 56.1 28 0.00061 26.9 5.0 39 422-460 25-63 (83)
229 smart00088 PINT motif in prote 56.0 35 0.00076 26.4 5.7 50 411-460 13-63 (88)
230 smart00753 PAM PCI/PINT associ 56.0 35 0.00076 26.4 5.7 50 411-460 13-63 (88)
231 PRK10163 DNA-binding transcrip 55.9 24 0.00052 34.2 5.6 45 413-457 30-75 (271)
232 PRK09954 putative kinase; Prov 54.5 27 0.00058 35.3 5.9 43 411-453 6-48 (362)
233 PF10007 DUF2250: Uncharacteri 54.4 36 0.00077 27.2 5.3 48 411-458 10-57 (92)
234 PRK11569 transcriptional repre 54.3 25 0.00054 34.1 5.5 44 414-457 34-78 (274)
235 TIGR02010 IscR iron-sulfur clu 54.1 35 0.00075 29.2 5.8 44 421-465 24-67 (135)
236 KOG2243|consensus 53.7 15 0.00033 42.5 4.1 57 244-300 4061-4120(5019)
237 PF10557 Cullin_Nedd8: Cullin 53.6 28 0.0006 26.0 4.4 47 411-457 11-65 (68)
238 COG1414 IclR Transcriptional r 53.1 28 0.00062 33.2 5.5 46 412-457 8-54 (246)
239 PRK12423 LexA repressor; Provi 52.9 40 0.00086 31.1 6.3 52 406-457 8-61 (202)
240 KOG4004|consensus 52.7 8.6 0.00019 35.0 1.7 58 244-301 191-251 (259)
241 PF13730 HTH_36: Helix-turn-he 51.5 46 0.00099 23.2 5.1 45 408-452 9-55 (55)
242 KOG1955|consensus 51.4 26 0.00056 36.4 5.0 32 366-397 261-292 (737)
243 PF08784 RPA_C: Replication pr 51.2 36 0.00078 27.4 5.1 46 408-453 47-96 (102)
244 cd04761 HTH_MerR-SF Helix-Turn 51.1 30 0.00065 23.3 4.0 38 423-464 1-38 (49)
245 cd01105 HTH_GlnR-like Helix-Tu 51.0 26 0.00057 27.5 4.1 39 423-465 2-41 (88)
246 PLN03083 E3 UFM1-protein ligas 50.7 94 0.002 34.8 9.5 123 321-464 51-173 (803)
247 COG1846 MarR Transcriptional r 50.7 42 0.0009 27.3 5.6 47 414-460 28-74 (126)
248 PRK09333 30S ribosomal protein 50.5 94 0.002 27.2 7.7 89 367-456 7-115 (150)
249 PRK00080 ruvB Holliday junctio 50.4 98 0.0021 30.7 9.2 37 420-456 274-311 (328)
250 cd07313 terB_like_2 tellurium 50.3 23 0.0005 28.5 3.9 65 367-433 34-99 (104)
251 cd07153 Fur_like Ferric uptake 48.8 44 0.00094 27.4 5.4 53 412-464 5-63 (116)
252 PRK04214 rbn ribonuclease BN/u 48.5 42 0.0009 34.8 6.3 46 418-466 306-351 (412)
253 KOG1707|consensus 47.3 24 0.00052 37.6 4.2 86 236-321 311-398 (625)
254 KOG3866|consensus 46.6 36 0.00079 33.2 5.0 24 374-397 300-323 (442)
255 PRK10857 DNA-binding transcrip 46.6 47 0.001 29.6 5.5 41 420-460 23-63 (164)
256 PF12174 RST: RCD1-SRO-TAF4 (R 46.4 17 0.00036 27.5 2.2 48 347-399 7-54 (70)
257 COG3398 Uncharacterized protei 46.1 51 0.0011 30.8 5.6 57 411-467 177-233 (240)
258 PF08221 HTH_9: RNA polymerase 45.9 58 0.0013 23.8 5.0 46 408-453 13-58 (62)
259 COG2865 Predicted transcriptio 45.8 1.1E+02 0.0024 32.1 8.8 56 411-466 405-460 (467)
260 PF09756 DDRGK: DDRGK domain; 45.7 35 0.00076 31.2 4.6 49 409-457 100-150 (188)
261 PF08976 DUF1880: Domain of un 45.5 16 0.00035 30.3 2.1 32 366-397 3-34 (118)
262 PRK10681 DNA-binding transcrip 45.2 44 0.00095 32.0 5.5 44 407-450 6-49 (252)
263 PF05584 Sulfolobus_pRN: Sulfo 45.1 85 0.0018 23.8 5.7 49 411-460 8-56 (72)
264 PHA03103 double-strand RNA-bin 45.1 85 0.0018 28.5 6.8 50 408-457 13-62 (183)
265 PF05042 Caleosin: Caleosin re 45.0 87 0.0019 28.1 6.8 33 241-273 8-41 (174)
266 PF02295 z-alpha: Adenosine de 44.9 27 0.00059 26.0 3.1 49 409-457 5-55 (66)
267 KOG0035|consensus 44.5 57 0.0012 36.8 6.7 104 155-264 735-848 (890)
268 PF00376 MerR: MerR family reg 44.3 31 0.00067 22.5 3.0 37 424-464 1-38 (38)
269 PRK03911 heat-inducible transc 43.4 46 0.00099 31.8 5.0 63 408-470 7-79 (260)
270 cd04783 HTH_MerR1 Helix-Turn-H 43.2 37 0.00079 28.7 4.1 40 423-466 1-41 (126)
271 TIGR02844 spore_III_D sporulat 42.9 63 0.0014 25.1 4.9 35 408-443 6-40 (80)
272 PF03965 Penicillinase_R: Peni 42.4 29 0.00062 28.7 3.3 55 411-465 6-64 (115)
273 PF06969 HemN_C: HemN C-termin 42.3 39 0.00085 24.6 3.7 48 409-456 7-55 (66)
274 PF01090 Ribosomal_S19e: Ribos 42.1 1.2E+02 0.0027 26.2 7.1 89 367-456 6-114 (139)
275 KOG3411|consensus 41.7 1.5E+02 0.0032 25.3 7.2 90 366-456 8-117 (143)
276 COG3888 Predicted transcriptio 40.9 57 0.0012 31.3 5.2 46 411-456 7-54 (321)
277 PRK04172 pheS phenylalanyl-tRN 40.7 36 0.00078 36.1 4.5 46 411-456 9-54 (489)
278 cd04766 HTH_HspR Helix-Turn-He 40.6 47 0.001 26.2 4.2 39 423-465 2-40 (91)
279 PF08512 Rtt106: Histone chape 39.7 15 0.00032 29.5 1.1 36 34-69 9-45 (95)
280 KOG1090|consensus 39.7 29 0.00064 39.2 3.5 41 8-50 785-837 (1732)
281 PRK15466 carboxysome structura 38.2 1.5E+02 0.0032 26.4 7.0 42 415-456 117-158 (166)
282 PF11994 DUF3489: Protein of u 37.6 94 0.002 23.6 5.0 55 410-464 12-69 (72)
283 KOG0042|consensus 37.5 40 0.00088 35.8 4.0 67 235-301 588-658 (680)
284 KOG3238|consensus 37.0 21 0.00045 32.5 1.7 37 12-50 11-48 (216)
285 COG4189 Predicted transcriptio 36.3 64 0.0014 30.4 4.7 45 409-453 24-68 (308)
286 KOG2059|consensus 35.9 63 0.0014 35.3 5.2 49 32-83 583-636 (800)
287 PRK06474 hypothetical protein; 35.9 83 0.0018 28.4 5.5 47 410-456 13-61 (178)
288 KOG4578|consensus 35.8 25 0.00053 34.7 2.1 62 275-339 336-397 (421)
289 PRK11014 transcriptional repre 35.5 56 0.0012 28.1 4.1 40 421-460 24-63 (141)
290 PRK11886 bifunctional biotin-- 35.2 83 0.0018 31.2 5.9 47 410-456 6-52 (319)
291 cd04774 HTH_YfmP Helix-Turn-He 35.0 64 0.0014 25.9 4.1 38 424-465 2-39 (96)
292 COG3413 Predicted DNA binding 34.8 38 0.00083 31.5 3.2 35 415-449 171-205 (215)
293 smart00529 HTH_DTXR Helix-turn 34.6 57 0.0012 25.6 3.8 33 425-457 2-34 (96)
294 PF10897 DUF2713: Protein of u 34.5 3.5E+02 0.0077 24.8 8.9 24 275-301 167-190 (246)
295 PF01399 PCI: PCI domain; Int 34.4 74 0.0016 25.1 4.5 41 413-453 51-91 (105)
296 COG1339 Transcriptional regula 34.1 44 0.00096 30.6 3.2 40 421-460 18-57 (214)
297 PHA02701 ORF020 dsRNA-binding 33.9 92 0.002 28.2 5.2 45 410-454 6-51 (183)
298 cd04770 HTH_HMRTR Helix-Turn-H 33.5 67 0.0014 26.8 4.2 40 423-466 1-41 (123)
299 PF13545 HTH_Crp_2: Crp-like h 33.3 73 0.0016 23.7 4.1 36 421-456 27-62 (76)
300 TIGR02051 MerR Hg(II)-responsi 33.0 61 0.0013 27.3 3.9 39 424-466 1-40 (124)
301 PLN02952 phosphoinositide phos 32.7 1.8E+02 0.0039 31.7 8.1 85 347-432 15-108 (599)
302 COG1420 HrcA Transcriptional r 32.7 51 0.0011 33.3 3.8 65 408-472 10-84 (346)
303 PTZ00095 40S ribosomal protein 32.6 2.8E+02 0.0061 24.8 7.9 89 367-456 31-139 (169)
304 KOG4286|consensus 32.3 3.5E+02 0.0076 30.1 9.9 109 274-398 472-580 (966)
305 PF05042 Caleosin: Caleosin re 32.1 1.2E+02 0.0027 27.2 5.7 18 209-226 16-33 (174)
306 PF09645 F-112: F-112 protein; 31.4 74 0.0016 25.4 3.6 48 406-453 5-56 (110)
307 PF14493 HTH_40: Helix-turn-he 31.1 1.4E+02 0.0029 23.5 5.4 38 412-451 5-42 (91)
308 PF08006 DUF1700: Protein of u 30.9 58 0.0013 29.4 3.6 58 388-445 2-63 (181)
309 cd04787 HTH_HMRTR_unk Helix-Tu 30.6 76 0.0016 27.1 4.1 40 423-466 1-41 (133)
310 PF01638 HxlR: HxlR-like helix 30.6 82 0.0018 24.7 4.0 37 421-457 17-54 (90)
311 cd04775 HTH_Cfa-like Helix-Tur 30.4 83 0.0018 25.4 4.1 39 423-465 2-40 (102)
312 PF07900 DUF1670: Protein of u 30.0 1.2E+02 0.0027 28.3 5.5 39 415-453 98-137 (220)
313 PF04545 Sigma70_r4: Sigma-70, 30.0 90 0.0019 21.3 3.7 29 420-448 18-46 (50)
314 KOG2074|consensus 30.0 78 0.0017 33.2 4.6 47 33-85 17-67 (548)
315 COG4190 Predicted transcriptio 30.0 1E+02 0.0023 26.3 4.6 79 382-467 45-126 (144)
316 PF05517 p25-alpha: p25-alpha 29.9 1.1E+02 0.0023 27.0 5.0 35 366-400 37-71 (154)
317 smart00422 HTH_MERR helix_turn 29.4 97 0.0021 22.6 4.1 38 423-464 1-39 (70)
318 COG4103 Uncharacterized protei 28.9 1.8E+02 0.0039 25.2 5.9 97 313-436 34-137 (148)
319 cd04789 HTH_Cfa Helix-Turn-Hel 28.8 93 0.002 25.1 4.2 40 423-466 2-41 (102)
320 PF14394 DUF4423: Domain of un 28.5 1.7E+02 0.0036 26.3 6.1 46 412-457 28-76 (171)
321 cd04779 HTH_MerR-like_sg4 Heli 28.1 90 0.0019 26.8 4.1 39 424-466 2-40 (134)
322 TIGR03826 YvyF flagellar opero 28.0 1.4E+02 0.0029 25.9 5.1 39 406-444 28-68 (137)
323 cd01201 Neurobeachin Neurobeac 27.8 60 0.0013 26.8 2.7 48 35-86 17-83 (108)
324 cd04781 HTH_MerR-like_sg6 Heli 27.8 93 0.002 25.9 4.1 40 423-466 1-40 (120)
325 cd04764 HTH_MlrA-like_sg1 Heli 27.6 1E+02 0.0023 22.4 3.9 39 423-465 1-39 (67)
326 PRK05472 redox-sensing transcr 27.5 1E+02 0.0022 28.5 4.8 43 409-451 17-61 (213)
327 PRK11534 DNA-binding transcrip 27.5 1.5E+02 0.0032 27.5 5.9 36 420-455 28-63 (224)
328 PF05331 DUF742: Protein of un 27.5 1E+02 0.0022 25.8 4.1 44 411-456 46-89 (114)
329 PHA02591 hypothetical protein; 27.4 1.5E+02 0.0033 22.8 4.6 25 421-445 58-82 (83)
330 PRK03837 transcriptional regul 27.3 1.6E+02 0.0036 27.4 6.2 36 421-456 35-71 (241)
331 PF13384 HTH_23: Homeodomain-l 27.2 97 0.0021 20.9 3.5 37 412-450 9-45 (50)
332 cd04773 HTH_TioE_rpt2 Second H 27.2 98 0.0021 25.3 4.1 39 423-465 1-40 (108)
333 PF09069 EF-hand_3: EF-hand; 27.1 2E+02 0.0044 22.9 5.6 58 240-300 3-75 (90)
334 COG3432 Predicted transcriptio 27.0 46 0.00099 26.8 1.9 48 408-456 18-65 (95)
335 cd04786 HTH_MerR-like_sg7 Heli 26.9 1E+02 0.0022 26.3 4.2 40 423-466 1-41 (131)
336 PF05099 TerB: Tellurite resis 26.9 42 0.00091 28.5 1.9 48 253-300 36-89 (140)
337 KOG0998|consensus 26.9 63 0.0014 36.8 3.7 64 236-300 125-190 (847)
338 PF08280 HTH_Mga: M protein tr 26.6 1.2E+02 0.0025 21.8 3.9 36 412-447 9-44 (59)
339 PF13411 MerR_1: MerR HTH fami 26.5 84 0.0018 22.9 3.3 39 424-466 2-40 (69)
340 PRK10046 dpiA two-component re 26.4 1.1E+02 0.0024 28.3 4.8 45 412-456 166-211 (225)
341 cd04772 HTH_TioE_rpt1 First He 26.4 1.1E+02 0.0024 24.6 4.1 39 424-466 2-41 (99)
342 KOG0998|consensus 25.9 50 0.0011 37.6 2.7 68 235-302 278-347 (847)
343 PF03979 Sigma70_r1_1: Sigma-7 25.5 1.8E+02 0.0039 22.4 5.1 49 408-456 7-58 (82)
344 PRK09464 pdhR transcriptional 25.5 1.7E+02 0.0038 27.6 6.1 49 408-456 14-68 (254)
345 PF03374 ANT: Phage antirepres 25.3 1.4E+02 0.003 24.3 4.6 40 413-455 15-54 (111)
346 cd01279 HTH_HspR-like Helix-Tu 25.2 1.2E+02 0.0025 24.4 4.0 39 423-465 2-40 (98)
347 KOG1265|consensus 24.7 3.3E+02 0.0071 31.0 8.3 84 211-301 159-250 (1189)
348 cd04769 HTH_MerR2 Helix-Turn-H 24.6 1.2E+02 0.0025 25.2 4.1 39 423-465 1-39 (116)
349 COG2255 RuvB Holliday junction 24.5 5.9E+02 0.013 25.2 9.2 125 332-456 184-312 (332)
350 PF08281 Sigma70_r4_2: Sigma-7 24.3 1.1E+02 0.0024 21.1 3.4 28 420-447 24-51 (54)
351 PRK13824 replication initiatio 24.3 94 0.002 32.1 4.1 40 424-463 84-124 (404)
352 PF02796 HTH_7: Helix-turn-hel 24.2 1.9E+02 0.0041 19.3 4.4 32 410-443 11-42 (45)
353 PRK11414 colanic acid/biofilm 24.0 1.8E+02 0.0038 26.9 5.7 36 420-455 32-67 (221)
354 cd01109 HTH_YyaN Helix-Turn-He 23.9 1.3E+02 0.0028 24.7 4.2 38 424-465 2-40 (113)
355 PF12029 DUF3516: Domain of un 23.8 2.2E+02 0.0048 29.6 6.5 108 217-345 198-309 (461)
356 PF08222 HTH_CodY: CodY helix- 23.6 87 0.0019 22.6 2.6 40 421-460 3-43 (61)
357 PRK15002 redox-sensitivie tran 23.6 1.1E+02 0.0025 26.9 4.0 44 419-466 8-51 (154)
358 PF05517 p25-alpha: p25-alpha 23.5 1.6E+02 0.0034 25.9 4.9 57 245-301 7-70 (154)
359 cd04784 HTH_CadR-PbrR Helix-Tu 23.4 1.2E+02 0.0027 25.4 4.1 40 423-466 1-41 (127)
360 PRK10421 DNA-binding transcrip 23.2 2.1E+02 0.0045 27.1 6.2 36 421-456 24-60 (253)
361 COG5562 Phage envelope protein 23.1 45 0.00099 28.5 1.3 28 274-301 74-101 (137)
362 cd01108 HTH_CueR Helix-Turn-He 23.1 1.3E+02 0.0027 25.4 4.1 40 423-466 1-41 (127)
363 PRK09990 DNA-binding transcrip 23.0 2.1E+02 0.0046 27.0 6.1 37 420-456 28-65 (251)
364 KOG2165|consensus 23.0 1.5E+02 0.0032 32.6 5.2 46 411-456 605-650 (765)
365 cd01282 HTH_MerR-like_sg3 Heli 22.9 1.4E+02 0.0029 24.6 4.2 40 423-466 1-40 (112)
366 PRK04984 fatty acid metabolism 22.7 2.1E+02 0.0046 26.7 6.1 36 421-456 29-65 (239)
367 PRK11920 rirA iron-responsive 22.7 2.4E+02 0.0051 24.7 5.9 40 421-460 23-62 (153)
368 cd01107 HTH_BmrR Helix-Turn-He 22.6 1.4E+02 0.003 24.3 4.2 38 424-465 2-41 (108)
369 COG1733 Predicted transcriptio 22.6 1.9E+02 0.0041 24.3 5.0 38 421-458 35-73 (120)
370 PF02022 Integrase_Zn: Integra 22.6 91 0.002 20.7 2.4 25 423-447 10-34 (40)
371 TIGR02404 trehalos_R_Bsub treh 22.5 1.1E+02 0.0024 28.6 4.0 33 424-456 26-58 (233)
372 TIGR03338 phnR_burk phosphonat 22.4 2E+02 0.0043 26.3 5.7 37 420-456 32-68 (212)
373 cd00592 HTH_MerR-like Helix-Tu 22.3 1.4E+02 0.0031 23.6 4.1 39 423-465 1-39 (100)
374 cd04782 HTH_BltR Helix-Turn-He 22.3 1.5E+02 0.0032 23.6 4.2 38 424-465 2-40 (97)
375 COG1959 Predicted transcriptio 21.8 2.2E+02 0.0049 24.8 5.5 33 422-454 25-57 (150)
376 PRK09514 zntR zinc-responsive 21.8 1.3E+02 0.0029 25.9 4.0 40 423-466 2-42 (140)
377 TIGR03337 phnR transcriptional 21.6 1E+02 0.0023 28.6 3.7 34 424-457 27-60 (231)
378 TIGR02716 C20_methyl_CrtF C-20 21.5 1.5E+02 0.0032 29.0 4.9 42 414-456 16-57 (306)
379 PF13518 HTH_28: Helix-turn-he 20.8 2.7E+02 0.0059 18.6 5.1 29 423-451 13-41 (52)
380 PRK13752 putative transcriptio 20.8 1.4E+02 0.003 26.0 3.9 41 422-466 7-48 (144)
381 PF09824 ArsR: ArsR transcript 20.8 2.2E+02 0.0049 25.1 5.1 69 374-445 76-144 (160)
382 PRK10079 phosphonate metabolis 20.6 1.2E+02 0.0027 28.5 4.0 33 424-456 37-69 (241)
383 TIGR02325 C_P_lyase_phnF phosp 20.6 1.2E+02 0.0027 28.2 4.0 33 424-456 34-66 (238)
384 COG1802 GntR Transcriptional r 20.5 1.7E+02 0.0037 27.3 4.8 36 420-455 37-72 (230)
385 TIGR02047 CadR-PbrR Cd(II)/Pb( 20.4 1.6E+02 0.0035 24.8 4.2 40 423-466 1-41 (127)
386 KOG4403|consensus 20.4 1.2E+02 0.0026 31.1 3.8 78 284-361 40-130 (575)
387 PF00404 Dockerin_1: Dockerin 20.3 89 0.0019 17.6 1.7 14 210-223 1-14 (21)
388 PF09106 SelB-wing_2: Elongati 20.3 1.3E+02 0.0029 21.4 3.2 37 421-457 16-55 (59)
389 KOG1265|consensus 20.2 3.9E+02 0.0085 30.4 7.8 94 349-447 205-314 (1189)
No 1
>KOG2760|consensus
Probab=100.00 E-value=5e-63 Score=472.66 Aligned_cols=381 Identities=40% Similarity=0.638 Sum_probs=329.9
Q ss_pred CCcccccCCCCCCCCceEEeecceeeecCCCC-CcccCcEEEeeeeeeeee-------cCccccccchhhhhHHHhhhhc
Q psy4132 1 MDRFEYCSFELSPDESPVLKHSNVRLYDGENK-SQFQRGELILTSHRLFWQ-------KDITLCLALSYIQNAVEEAKSM 72 (473)
Q Consensus 1 ~~~~~~~~~~l~~~E~~~~~~~~v~ly~g~~~-~~~~~G~l~LTshRii~~-------~~~~~~l~l~~v~~~~~~~~~~ 72 (473)
|+||-|..+.++++|..++...+|.+|||+.+ +.+.+|++.|||||+||. ...+.++||+.|.+++.+..+=
T Consensus 29 ~~~fg~~~~~~~~ne~l~lt~~~I~~~D~~~k~~~~~dg~~vltt~Rliw~~p~~~~~~~~~~~~pls~vI~v~~~~~~~ 108 (432)
T KOG2760|consen 29 MLRFGWSKILRSQNETLLLTSQRIIIYDGDKKTTKFDDGTLVLTTHRLIWRSPTSSADVEVTWVCPLSMVINVGEPAKSE 108 (432)
T ss_pred chhcccchhhhccCceEEEeecceEEecCCCccccccchhhhhhhceeeecCcccccccceeeeeceeEEEEecCccchh
Confidence 88999999999999999999999999999998 999999999999999999 4567899999999999988871
Q ss_pred ccccCcccEEEEeecCCCCCCCCCCCCCCCCeEEEeccCCCchHHHHHHHHHHhhhhhhhccccccccc----c------
Q psy4132 73 FNLTAGRKIILYLSKAVPGKNLGPSATSAYDYVKLSFREGIQNEFLDALKSTVDAKIWTVQNKSAQQTK----L------ 142 (473)
Q Consensus 73 ~~~~~s~ki~~~l~~~~~~~~~~p~~~~~~~~iklsFr~gg~~~F~~~l~~~l~~~~w~~~~~~~~~~~----~------ 142 (473)
....+++||+++++++++++.|||-.++...+|+||||++|..+||.++++...++.|++...|.+.+. .
T Consensus 109 ~~~g~~~~i~~~~~~~~~~~~~gp~~a~~~~~iqLsFR~~g~~~F~~~l~ee~~~r~we~~~~s~s~~~~r~s~~~~e~~ 188 (432)
T KOG2760|consen 109 LTFGKINRIVVILHKPNPRFSPGPCPASTFAFIQLSFRGSGSVDFLEALLEEKNKRIWERNSVSESGVDMRKSSPSHEYE 188 (432)
T ss_pred hcccccceEEEEeCCCCCcCCCCCcccceeeEEEEEecCCCcHHHHHHHHHHHHHHHHHhccccccccccccCccccccc
Confidence 113999999999999889999999999999999999999999999999999999999998765322110 0
Q ss_pred -c--cccccchHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeH
Q psy4132 143 -R--EIKTRTGIVGIERNIVEKQKETSSNINNAFKDLNQLMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINF 219 (473)
Q Consensus 143 -~--~~~~~~gi~gi~r~~~~~~~~~~~~l~eaF~~lD~~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f 219 (473)
+ ...+++||+||+|+++++.+.+++.|.+||+|++++|.+|++|++|++++.+++...+..++. |..+.|
T Consensus 189 ~~~~~t~r~vGI~giEr~~e~q~~~td~~i~~AFqDLskLMs~Akemv~Lsk~~~~Km~~~~g~i~d-------Detv~~ 261 (432)
T KOG2760|consen 189 VPFIGTLRMVGISGIERSLEEQLKKTDKTINNAFQDLSKLMSLAKEMVSLSKSIAEKMKSKTGEIQD-------DETVRF 261 (432)
T ss_pred ccccceeeeechhHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcCc-------hhhhhh
Confidence 1 235689999999999999999999999999999999999999999999999998877666654 234666
Q ss_pred HHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcchhccCCHHHHHHHHHhcCCCCCcccHHHHHHHHh
Q psy4132 220 QEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQNPLVQRVIDIFDEDRNGEVDFKEFIQGVS 299 (473)
Q Consensus 220 ~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~ 299 (473)
.+++.-++- . ++ ++++.|--
T Consensus 262 ks~llsLGI--------------------~---------------------dp----------------vt~~n~~~--- 281 (432)
T KOG2760|consen 262 KSYLLSLGI--------------------L---------------------DP----------------VTKDNFGL--- 281 (432)
T ss_pred HHhhhhhcc--------------------C---------------------Cc----------------chhccccc---
Confidence 666655540 0 11 11111100
Q ss_pred hcccCCCcHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHh
Q psy4132 300 QFSVKGDRESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLAL 379 (473)
Q Consensus 300 ~~~~~~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~ 379 (473)
....|..++.++|.+++...+...+|+|++.|+||.+||++|++++||+|+.++|+.+
T Consensus 282 ----------------------s~~~Y~~~Lakqlse~l~~~lee~ggmisLtdvY~~~NRaRG~eLiSPedl~~ACe~l 339 (432)
T KOG2760|consen 282 ----------------------SLSLYHQELAKQLSEFLRLPLEENGGMISLTDVYCRYNRARGTELISPEDLVNACELL 339 (432)
T ss_pred ----------------------hHHHHHHHHHHHHHHHHhcchhhcCCEEEHHHHHHHHHHhccCCCCCHHHHHHHHHHH
Confidence 0013555566899999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCeeHHhhhccceeeeecccCcHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcc
Q psy4132 380 DKLPDSPIYLKTYSSGVKVLQLKSCEDASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIE 459 (473)
Q Consensus 380 D~~~dg~Is~~EF~~~~~vl~~~~~~~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~ 459 (473)
+.-+ -+|.+..|-+|++|+|.++++++..+-.+...+.+...+++.++|..++||+++|+|+|..||..|.||||+++|
T Consensus 340 e~l~-~pl~L~kf~SGvlvvqlKs~~~~e~l~~~l~~V~~~etl~a~e~A~~l~is~~lakErLl~AE~~G~lcRD~s~e 418 (432)
T KOG2760|consen 340 EHLG-VPLRLRKFNSGVLVVQLKSHSDEEKLVDALEDVSKSETLTASELAKKLGISLGLAKERLLNAEDEGLLCRDDSVE 418 (432)
T ss_pred HhcC-CceEEEEcCCceEEEEeeccchHHHHHHHHHhccCcchhhHHHHHHHhCchHHHHHHHHHHHHhcCCeeeccCcc
Confidence 9874 499999999999999999999999888888888888899999999999999999999999999999999999999
Q ss_pred cccccccccCcc
Q psy4132 460 GLRFYENKFLLE 471 (473)
Q Consensus 460 g~~~~~n~~~~~ 471 (473)
|+|||||.|++.
T Consensus 419 GL~fY~N~f~e~ 430 (432)
T KOG2760|consen 419 GLRFYPNLFMES 430 (432)
T ss_pred ceeecccccccC
Confidence 999999999975
No 2
>PF11605 Vps36_ESCRT-II: Vacuolar protein sorting protein 36 Vps36; InterPro: IPR021648 Vps36 is a subunit of ESCRT-II, a protein involved in driving protein sorting from endosomes to lysosomes. The GLUE domain of Vps36 allows for a tight interaction to occur between the protein and Vps28, a subunit of ESCRT-I. This interaction is critical for ubiquitinated cargo progression from early to late endosomes []. ; PDB: 2HTH_B 2DX5_A 2CAY_B.
Probab=99.93 E-value=4.8e-27 Score=185.90 Aligned_cols=83 Identities=37% Similarity=0.568 Sum_probs=64.5
Q ss_pred CcccccCCCCCCCCceEEeecceeeecCCCCC-cccCcEEEeeeeeeeee-----cCccccccchhhhhHHHhhhhcccc
Q psy4132 2 DRFEYCSFELSPDESPVLKHSNVRLYDGENKS-QFQRGELILTSHRLFWQ-----KDITLCLALSYIQNAVEEAKSMFNL 75 (473)
Q Consensus 2 ~~~~~~~~~l~~~E~~~~~~~~v~ly~g~~~~-~~~~G~l~LTshRii~~-----~~~~~~l~l~~v~~~~~~~~~~~~~ 75 (473)
+++.|++|.|.+||+++++++||+||||+.|+ +||+|+||||||||||+ ..++++|||++|.++++.+ |||
T Consensus 1 e~t~s~~p~L~~~E~~~~~q~~V~LYdG~~K~~~~q~G~l~LTsHRliw~d~~~~~~~s~~l~L~~i~~~e~~~-gf~-- 77 (89)
T PF11605_consen 1 ELTSSGRPVLEPNETIVYQQDGVGLYDGDQKTPNFQNGRLYLTSHRLIWVDDSDPSKHSIALPLSLISHIEYSA-GFL-- 77 (89)
T ss_dssp -B-TCS-C---TT--EEEEEEEEEEEETTECSTT-SCEEEEEESSEEEEEESSGHCHH-EEEEGGGEEEEEEE--STT--
T ss_pred CcccccCcccCCCceEEEEecCeeeEcCCccCccccCCEEEEEeeEEEEEcCCCCceeEEEEEchHeEEEEEEc-ccc--
Confidence 47889999999999999999999999999996 99999999999999999 3448999999999996665 674
Q ss_pred cCcccEEEEeec
Q psy4132 76 TAGRKIILYLSK 87 (473)
Q Consensus 76 ~~s~ki~~~l~~ 87 (473)
+|||||+++|+|
T Consensus 78 ~sSpKI~l~l~~ 89 (89)
T PF11605_consen 78 KSSPKIILHLKP 89 (89)
T ss_dssp SSS-EEEEEES-
T ss_pred CCCCeEEEEecC
Confidence 899999999974
No 3
>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=99.83 E-value=2.5e-20 Score=175.67 Aligned_cols=219 Identities=32% Similarity=0.508 Sum_probs=152.2
Q ss_pred chHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHHcc
Q psy4132 149 TGIVGIERNIVEKQKETSSNINNAFKDLNQLMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVGN 228 (473)
Q Consensus 149 ~gi~gi~r~~~~~~~~~~~~l~eaF~~lD~~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~ 228 (473)
+||+||++..+++.+.++.....+|++++++|..+..|+++..++..+... .+.. |+ +-.-.|.+.+..++
T Consensus 1 ~GI~~l~~~~~~~~~~~~~~~~~a~~dl~~L~~qa~~~~~~l~~fa~k~~~---~i~~---~~--~~r~~f~~~~~~lG- 71 (223)
T PF04157_consen 1 VGIAGLQRRQEQKRQYNELGMQLAFQDLEALMSQAKDFVELLENFARKHKS---EIKS---DP--EFRSQFQSMCASLG- 71 (223)
T ss_dssp --------------------TCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC---CCCC---SH--HHHHHHHHHHHHHT-
T ss_pred CchHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc---cccC---Cc--hHHHHHHHHHHHcC-
Confidence 599999999999999999999999999999999999999999999887221 1111 00 00001222222222
Q ss_pred ccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcchhccCCHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcH
Q psy4132 229 TDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRE 308 (473)
Q Consensus 229 ~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~ 308 (473)
.+|.+ ...
T Consensus 72 -----------------------------------------vdp~~-----------s~~-------------------- 79 (223)
T PF04157_consen 72 -----------------------------------------VDPLA-----------SSK-------------------- 79 (223)
T ss_dssp -------------------------------------------CHC-----------CTT--------------------
T ss_pred -----------------------------------------CCccc-----------chh--------------------
Confidence 01100 000
Q ss_pred HHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhh-CCCCCCHHHHHHHHHHhccCCCCCe
Q psy4132 309 SKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRAR-GLELLSPEDLLNSCLALDKLPDSPI 387 (473)
Q Consensus 309 e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~-g~~~ls~~ei~~~~~~~D~~~dg~I 387 (473)
.|.. ...+.+.|..++..++.+++......++|+|++.|+|+.+||++ |.+++||+|+.++|+.++..+.| +
T Consensus 80 -----~~s~-~l~~~~~f~~ELa~qi~e~c~~~~~~~GGii~L~dl~~~~nr~R~g~~lISp~Di~~A~~~l~~lg~g-~ 152 (223)
T PF04157_consen 80 -----FWSE-SLKGSGDFYYELAVQIAEVCLATRSKNGGIISLSDLYCRYNRARGGSELISPEDILRACKLLEVLGLG-F 152 (223)
T ss_dssp -----CCCC-CCSCHHHHHHHHHHHHHHHHHHHCCTTTSEEEHHHHHHHHHHCTTTSST--HHHHHHHHHHHCCCTSS-E
T ss_pred -----hhhh-ccccchhHHHHHHHHHHHHHHHHHhcCCCEEEHHHHHHHHHHhcccCCCcCHHHHHHHHHHHHHcCCC-e
Confidence 0000 00144567888889999999999999999999999999999999 89999999999999999999777 9
Q ss_pred eHHhhhccceeeeecccCcH-HHHHHHHHHH--hhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 388 YLKTYSSGVKVLQLKSCEDA-SFVEKTYEIV--SQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 388 s~~EF~~~~~vl~~~~~~~~-~~~~~~~~~~--~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
.+..|-+++.+++..++++. ....++++++ ...+++|+.++++.++||+.+|++.|+.++..|.||||
T Consensus 153 ~l~~~~sg~~vv~s~~~~e~~~~~~~il~~~~~~~~g~vt~~~l~~~~~ws~~~a~~~L~~~~~~G~l~~D 223 (223)
T PF04157_consen 153 RLRKFGSGVKVVQSVPYSELSKDQSRILELAEEENGGGVTASELAEKLGWSVERAKEALEELEREGLLWRD 223 (223)
T ss_dssp EEEEETTTEEEEECST-CHH-HHHHHHHHHH--TTTSEEEHHHHHHHHTB-HHHHHHHHHHHHHTTSEEEE
T ss_pred EEEEeCCCcEEEEeCCchhhhHHHHHHHHHHHhhcCCCCCHHHHHHHhCCCHHHHHHHHHHHHhCCCEeeC
Confidence 99999999999999886665 8889999999 88899999999999999999999999999999999998
No 4
>COG5126 FRQ1 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]
Probab=99.75 E-value=1.5e-17 Score=145.37 Aligned_cols=139 Identities=27% Similarity=0.368 Sum_probs=119.0
Q ss_pred ccchHHHHHHHHHHHhhCCCCCCCccHHHHhcch-hccC---CHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcH
Q psy4132 233 KKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLP-ELQQ---NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRE 308 (473)
Q Consensus 233 ~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~-~~~~---~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~ 308 (473)
.....++++|+++|..+|+|++|.|+..+|..++ .++. ...+.+|+..+|. +.+.|+|.+|+.+|.........+
T Consensus 13 ~~t~~qi~~lkeaF~l~D~d~~G~I~~~el~~ilr~lg~~~s~~ei~~l~~~~d~-~~~~idf~~Fl~~ms~~~~~~~~~ 91 (160)
T COG5126 13 QLTEEQIQELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEIDA-GNETVDFPEFLTVMSVKLKRGDKE 91 (160)
T ss_pred cCCHHHHHHHHHHHHHhCcCCCCCCcHHHHHHHHHHcCCCCcHHHHHHHHHhccC-CCCccCHHHHHHHHHHHhccCCcH
Confidence 4567889999999999999999999999999964 4443 3458899999999 999999999999999999999999
Q ss_pred HHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCee
Q psy4132 309 SKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIY 388 (473)
Q Consensus 309 e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is 388 (473)
+++++||+.||+|++|.++. .++..+|+.. | +.++++++..+++.+|.|+||.|+
T Consensus 92 Eel~~aF~~fD~d~dG~Is~---~eL~~vl~~l---------------------g-e~~~deev~~ll~~~d~d~dG~i~ 146 (160)
T COG5126 92 EELREAFKLFDKDHDGYISI---GELRRVLKSL---------------------G-ERLSDEEVEKLLKEYDEDGDGEID 146 (160)
T ss_pred HHHHHHHHHhCCCCCceecH---HHHHHHHHhh---------------------c-ccCCHHHHHHHHHhcCCCCCceEe
Confidence 99999999999999965555 5555555521 2 358999999999999999999999
Q ss_pred HHhhhccce
Q psy4132 389 LKTYSSGVK 397 (473)
Q Consensus 389 ~~EF~~~~~ 397 (473)
+++|...+.
T Consensus 147 ~~eF~~~~~ 155 (160)
T COG5126 147 YEEFKKLIK 155 (160)
T ss_pred HHHHHHHHh
Confidence 999987654
No 5
>KOG0027|consensus
Probab=99.65 E-value=1.5e-15 Score=134.75 Aligned_cols=136 Identities=26% Similarity=0.396 Sum_probs=110.9
Q ss_pred hHHHHHHHHHHHhhCCCCCCCccHHHHhcc-hhccCCH---HHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCc----
Q psy4132 236 VVDIRRLGKRFRKLDLDNSGALSIDEFMSL-PELQQNP---LVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDR---- 307 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~~G~Is~~el~~l-~~~~~~~---~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~---- 307 (473)
.....+++.+|+.||++++|+|+..||..+ ..++..+ .+..++..+|.+++|.|++++|+.++.........
T Consensus 4 ~~~~~el~~~F~~fD~d~~G~i~~~el~~~lr~lg~~~t~~el~~~~~~~D~dg~g~I~~~eF~~l~~~~~~~~~~~~~~ 83 (151)
T KOG0027|consen 4 EEQILELKEAFQLFDKDGDGKISVEELGAVLRSLGQNPTEEELRDLIKEIDLDGDGTIDFEEFLDLMEKLGEEKTDEEAS 83 (151)
T ss_pred HHHHHHHHHHHHHHCCCCCCcccHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCCCCeEcHHHHHHHHHhhhccccccccc
Confidence 456788999999999999999999999995 4555554 47899999999999999999999999877655444
Q ss_pred HHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCe
Q psy4132 308 ESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPI 387 (473)
Q Consensus 308 ~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~I 387 (473)
.+.++.+|+.||+|++|.++. .+|..+|... . +..+.+++..+++.+|.|+||.|
T Consensus 84 ~~el~eaF~~fD~d~~G~Is~---~el~~~l~~l--------------------g--~~~~~~e~~~mi~~~d~d~dg~i 138 (151)
T KOG0027|consen 84 SEELKEAFRVFDKDGDGFISA---SELKKVLTSL--------------------G--EKLTDEECKEMIREVDVDGDGKV 138 (151)
T ss_pred HHHHHHHHHHHccCCCCcCcH---HHHHHHHHHh--------------------C--CcCCHHHHHHHHHhcCCCCCCeE
Confidence 459999999999999955555 3444444322 1 25778999999999999999999
Q ss_pred eHHhhhccc
Q psy4132 388 YLKTYSSGV 396 (473)
Q Consensus 388 s~~EF~~~~ 396 (473)
+|++|...+
T Consensus 139 ~f~ef~~~m 147 (151)
T KOG0027|consen 139 NFEEFVKMM 147 (151)
T ss_pred eHHHHHHHH
Confidence 999998654
No 6
>KOG0027|consensus
Probab=99.64 E-value=9.8e-16 Score=135.91 Aligned_cols=134 Identities=24% Similarity=0.404 Sum_probs=112.5
Q ss_pred HHHHHHHHHHHHhhhh-------hhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHHccccccccc
Q psy4132 163 KETSSNINNAFKDLNQ-------LMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVGNTDIHKKM 235 (473)
Q Consensus 163 ~~~~~~l~eaF~~lD~-------~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~~~~ 235 (473)
..+..++++||+.||+ ..+++..|+.+|.+++.. ++..++.. +|.+++|.|+|++|+.++.........
T Consensus 4 ~~~~~el~~~F~~fD~d~~G~i~~~el~~~lr~lg~~~t~~--el~~~~~~--~D~dg~g~I~~~eF~~l~~~~~~~~~~ 79 (151)
T KOG0027|consen 4 EEQILELKEAFQLFDKDGDGKISVEELGAVLRSLGQNPTEE--ELRDLIKE--IDLDGDGTIDFEEFLDLMEKLGEEKTD 79 (151)
T ss_pred HHHHHHHHHHHHHHCCCCCCcccHHHHHHHHHHcCCCCCHH--HHHHHHHH--hCCCCCCeEcHHHHHHHHHhhhccccc
Confidence 3455689999999999 789999999999999988 88887765 899999999999999999854332222
Q ss_pred h-HHHHHHHHHHHhhCCCCCCCccHHHHhcch-hccC---CHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 236 V-VDIRRLGKRFRKLDLDNSGALSIDEFMSLP-ELQQ---NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 236 ~-~~~~~l~~~F~~~D~d~~G~Is~~el~~l~-~~~~---~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
. ...+.++++|+.||.|++|+|+..||+.++ .++. ...++.+++.+|.|+||.|+|++|+.+|..
T Consensus 80 ~~~~~~el~eaF~~fD~d~~G~Is~~el~~~l~~lg~~~~~~e~~~mi~~~d~d~dg~i~f~ef~~~m~~ 149 (151)
T KOG0027|consen 80 EEASSEELKEAFRVFDKDGDGFISASELKKVLTSLGEKLTDEECKEMIREVDVDGDGKVNFEEFVKMMSG 149 (151)
T ss_pred ccccHHHHHHHHHHHccCCCCcCcHHHHHHHHHHhCCcCCHHHHHHHHHhcCCCCCCeEeHHHHHHHHhc
Confidence 2 256799999999999999999999999953 3433 345899999999999999999999998864
No 7
>COG5126 FRQ1 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]
Probab=99.61 E-value=3.3e-15 Score=130.62 Aligned_cols=133 Identities=22% Similarity=0.369 Sum_probs=112.3
Q ss_pred HHhHHHHHHHHHHHHhhhh-------hhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHHcccccc
Q psy4132 160 EKQKETSSNINNAFKDLNQ-------LMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVGNTDIH 232 (473)
Q Consensus 160 ~~~~~~~~~l~eaF~~lD~-------~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~ 232 (473)
+-.+++.+++++||..+|. ..++...|+++|.+++.. ++..++.. +|. +.+.|+|.+|+.+|+...
T Consensus 13 ~~t~~qi~~lkeaF~l~D~d~~G~I~~~el~~ilr~lg~~~s~~--ei~~l~~~--~d~-~~~~idf~~Fl~~ms~~~-- 85 (160)
T COG5126 13 QLTEEQIQELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEA--EINKLFEE--IDA-GNETVDFPEFLTVMSVKL-- 85 (160)
T ss_pred cCCHHHHHHHHHHHHHhCcCCCCCCcHHHHHHHHHHcCCCCcHH--HHHHHHHh--ccC-CCCccCHHHHHHHHHHHh--
Confidence 4445667789999999999 789999999999999998 77777764 676 889999999999999432
Q ss_pred ccchHHHHHHHHHHHhhCCCCCCCccHHHHhcchh-cc---CCHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 233 KKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPE-LQ---QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 233 ~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~-~~---~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
......++++++|+.||.|++|+|+..+|..+.. ++ .+..++.+++.+|+|++|.|+|++|+..+..
T Consensus 86 -~~~~~~Eel~~aF~~fD~d~dG~Is~~eL~~vl~~lge~~~deev~~ll~~~d~d~dG~i~~~eF~~~~~~ 156 (160)
T COG5126 86 -KRGDKEEELREAFKLFDKDHDGYISIGELRRVLKSLGERLSDEEVEKLLKEYDEDGDGEIDYEEFKKLIKD 156 (160)
T ss_pred -ccCCcHHHHHHHHHHhCCCCCceecHHHHHHHHHhhcccCCHHHHHHHHHhcCCCCCceEeHHHHHHHHhc
Confidence 2455688999999999999999999999999643 33 3456899999999999999999999998754
No 8
>KOG3294|consensus
Probab=99.58 E-value=5e-15 Score=133.85 Aligned_cols=110 Identities=21% Similarity=0.174 Sum_probs=98.6
Q ss_pred CCCCCCceEEeecceeeecCCC------CCcccCcEEEeeeeeeeee------cCccccccchhhhhHHHhhhhcccccC
Q psy4132 10 ELSPDESPVLKHSNVRLYDGEN------KSQFQRGELILTSHRLFWQ------KDITLCLALSYIQNAVEEAKSMFNLTA 77 (473)
Q Consensus 10 ~l~~~E~~~~~~~~v~ly~g~~------~~~~~~G~l~LTshRii~~------~~~~~~l~l~~v~~~~~~~~~~~~~~~ 77 (473)
.|..||.++.+-+||.|..++. ...++.|+||||+|||||+ ...|+.+|+.+|..++..++.| .
T Consensus 15 l~~n~E~i~~~~dgVeltf~~~~~~~~~~~g~kkGtlyLTs~RiIFis~~~~D~fksF~MPf~~mkd~klnQPvF----~ 90 (261)
T KOG3294|consen 15 LLYNGESILLVYDGVELTFDKMPNVSEAFKGTKKGTLYLTSHRIIFISSKPKDAFKSFMMPFNLMKDVKLNQPVF----G 90 (261)
T ss_pred EecCCcEEEEeeCCeEEEeeccCCCccccccceeeeEEeecceEEEecCCCCcchhhhcchhhhhhhceecCccc----c
Confidence 3778999999999999999883 2568999999999999999 3468999999999999999866 9
Q ss_pred cccEEEEeecCCCCCCCCCCCCCCCCeEEEeccCCCchHHHHHHHHHHhhhh
Q psy4132 78 GRKIILYLSKAVPGKNLGPSATSAYDYVKLSFREGIQNEFLDALKSTVDAKI 129 (473)
Q Consensus 78 s~ki~~~l~~~~~~~~~~p~~~~~~~~iklsFr~gg~~~F~~~l~~~l~~~~ 129 (473)
.+.|+.++.+.+.+ ++.+.+.+||+|++||..+|.+++.++.++-.
T Consensus 91 aNyikGtV~pvpgG------g~~g~as~Kl~F~~GG~ieFgq~~l~~~s~a~ 136 (261)
T KOG3294|consen 91 ANYIKGTVQPVPGG------GWEGEASFKLTFNEGGCIEFGQLLLQAASRAS 136 (261)
T ss_pred cceeeeeEeecCCC------CccceeEEEEEecCCCchhHHHHHHHHHHHHH
Confidence 99999999988887 78899999999999999999999999887644
No 9
>KOG0034|consensus
Probab=99.57 E-value=3.8e-14 Score=128.33 Aligned_cols=146 Identities=36% Similarity=0.554 Sum_probs=116.6
Q ss_pred cchHHHHHHHHHHHhhCCC-CCCCccHHHHhcchhccCCHHHHHHHHHhcCCCCCc-ccHHHHHHHHhhcccCCCcHHHH
Q psy4132 234 KMVVDIRRLGKRFRKLDLD-NSGALSIDEFMSLPELQQNPLVQRVIDIFDEDRNGE-VDFKEFIQGVSQFSVKGDRESKL 311 (473)
Q Consensus 234 ~~~~~~~~l~~~F~~~D~d-~~G~Is~~el~~l~~~~~~~~~~~l~~~~D~d~dG~-I~~~EF~~~l~~~~~~~~~~e~l 311 (473)
....++..|...|..+|.+ ++|+++.+||..+.....++..++++..++.+++|. |+|++|+..++.+......++++
T Consensus 27 fs~~EI~~L~~rF~kl~~~~~~g~lt~eef~~i~~~~~Np~~~rI~~~f~~~~~~~~v~F~~Fv~~ls~f~~~~~~~~Kl 106 (187)
T KOG0034|consen 27 FSANEIERLYERFKKLDRNNGDGYLTKEEFLSIPELALNPLADRIIDRFDTDGNGDPVDFEEFVRLLSVFSPKASKREKL 106 (187)
T ss_pred cCHHHHHHHHHHHHHhccccccCccCHHHHHHHHHHhcCcHHHHHHHHHhccCCCCccCHHHHHHHHhhhcCCccHHHHH
Confidence 3467889999999999999 999999999999998888999999999999999998 99999999999998888889999
Q ss_pred HHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHh
Q psy4132 312 KFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKT 391 (473)
Q Consensus 312 ~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~E 391 (473)
+.||+.||.+++|.+..+ ++..++.........+ ..+. -.+-+...+..+|.++||.|+++|
T Consensus 107 ~faF~vYD~~~~G~I~re---el~~iv~~~~~~~~~~--~~e~-------------~~~i~d~t~~e~D~d~DG~IsfeE 168 (187)
T KOG0034|consen 107 RFAFRVYDLDGDGFISRE---ELKQILRMMVGENDDM--SDEQ-------------LEDIVDKTFEEADTDGDGKISFEE 168 (187)
T ss_pred HHHHHHhcCCCCCcCcHH---HHHHHHHHHHccCCcc--hHHH-------------HHHHHHHHHHHhCCCCCCcCcHHH
Confidence 999999999999666664 4444444333211111 1111 011134568999999999999999
Q ss_pred hhccce
Q psy4132 392 YSSGVK 397 (473)
Q Consensus 392 F~~~~~ 397 (473)
|...+.
T Consensus 169 f~~~v~ 174 (187)
T KOG0034|consen 169 FCKVVE 174 (187)
T ss_pred HHHHHH
Confidence 987664
No 10
>KOG0028|consensus
Probab=99.56 E-value=4.4e-14 Score=120.71 Aligned_cols=138 Identities=19% Similarity=0.289 Sum_probs=116.7
Q ss_pred cchHHHHHHHHHHHhhCCCCCCCccHHHHhc-chhccCCH---HHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHH
Q psy4132 234 KMVVDIRRLGKRFRKLDLDNSGALSIDEFMS-LPELQQNP---LVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRES 309 (473)
Q Consensus 234 ~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~-l~~~~~~~---~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e 309 (473)
....+.++++.+|..||.+++|+|+.+||+. +..++..+ .+..++..+|+++.|.|+|++|...|+......++.+
T Consensus 27 l~~~q~q~i~e~f~lfd~~~~g~iD~~EL~vAmralGFE~~k~ei~kll~d~dk~~~g~i~fe~f~~~mt~k~~e~dt~e 106 (172)
T KOG0028|consen 27 LTEEQKQEIKEAFELFDPDMAGKIDVEELKVAMRALGFEPKKEEILKLLADVDKEGSGKITFEDFRRVMTVKLGERDTKE 106 (172)
T ss_pred ccHHHHhhHHHHHHhhccCCCCcccHHHHHHHHHHcCCCcchHHHHHHHHhhhhccCceechHHHHHHHHHHHhccCcHH
Confidence 3455668999999999999999999999965 56666553 5778999999999999999999999999888888999
Q ss_pred HHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeH
Q psy4132 310 KLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYL 389 (473)
Q Consensus 310 ~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~ 389 (473)
.++.+|+.+|.|++|.++..++..++.-|. +.++++++.++++.+|.++||.|+.
T Consensus 107 Ei~~afrl~D~D~~Gkis~~~lkrvakeLg-------------------------enltD~El~eMIeEAd~d~dgevne 161 (172)
T KOG0028|consen 107 EIKKAFRLFDDDKTGKISQRNLKRVAKELG-------------------------ENLTDEELMEMIEEADRDGDGEVNE 161 (172)
T ss_pred HHHHHHHcccccCCCCcCHHHHHHHHHHhC-------------------------ccccHHHHHHHHHHhcccccccccH
Confidence 999999999999998777743333333332 3689999999999999999999999
Q ss_pred Hhhhccc
Q psy4132 390 KTYSSGV 396 (473)
Q Consensus 390 ~EF~~~~ 396 (473)
+||...+
T Consensus 162 eEF~~im 168 (172)
T KOG0028|consen 162 EEFIRIM 168 (172)
T ss_pred HHHHHHH
Confidence 9997654
No 11
>PTZ00183 centrin; Provisional
Probab=99.52 E-value=2.6e-13 Score=120.93 Aligned_cols=138 Identities=22% Similarity=0.315 Sum_probs=110.6
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhcchh-cc---CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHH
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPE-LQ---QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESK 310 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~-~~---~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~ 310 (473)
...+...+..+|..+|.+++|+|+..||..+.. .+ ....+..++..+|.+++|.|+|.||+.++..........+.
T Consensus 12 ~~~~~~~~~~~F~~~D~~~~G~i~~~e~~~~l~~~g~~~~~~~~~~l~~~~d~~~~g~i~~~eF~~~~~~~~~~~~~~~~ 91 (158)
T PTZ00183 12 TEDQKKEIREAFDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDFEEFLDIMTKKLGERDPREE 91 (158)
T ss_pred CHHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCCCCcEeHHHHHHHHHHHhcCCCcHHH
Confidence 456778899999999999999999999998533 22 23357899999999999999999999988776555566788
Q ss_pred HHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHH
Q psy4132 311 LKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLK 390 (473)
Q Consensus 311 l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~ 390 (473)
++.+|+.+|.+++|.+.. .++..++.. . | ..++++++..+|..+|.+++|.|+++
T Consensus 92 l~~~F~~~D~~~~G~i~~---~e~~~~l~~--------------------~-~-~~l~~~~~~~~~~~~d~~~~g~i~~~ 146 (158)
T PTZ00183 92 ILKAFRLFDDDKTGKISL---KNLKRVAKE--------------------L-G-ETITDEELQEMIDEADRNGDGEISEE 146 (158)
T ss_pred HHHHHHHhCCCCCCcCcH---HHHHHHHHH--------------------h-C-CCCCHHHHHHHHHHhCCCCCCcCcHH
Confidence 999999999999955554 344433332 1 1 14888999999999999999999999
Q ss_pred hhhccce
Q psy4132 391 TYSSGVK 397 (473)
Q Consensus 391 EF~~~~~ 397 (473)
+|...++
T Consensus 147 ef~~~~~ 153 (158)
T PTZ00183 147 EFYRIMK 153 (158)
T ss_pred HHHHHHh
Confidence 9987664
No 12
>PTZ00184 calmodulin; Provisional
Probab=99.49 E-value=4e-13 Score=118.19 Aligned_cols=137 Identities=23% Similarity=0.330 Sum_probs=108.5
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhcchh-cc---CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHH
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPE-LQ---QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESK 310 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~-~~---~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~ 310 (473)
.....+.++..|..+|.+++|.|+.+||..+.. .+ ....+..++..+|.+++|.|+|++|+.++..........+.
T Consensus 6 ~~~~~~~~~~~F~~~D~~~~G~i~~~e~~~~l~~~~~~~~~~~~~~~~~~~d~~~~g~i~~~ef~~~l~~~~~~~~~~~~ 85 (149)
T PTZ00184 6 TEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTLMARKMKDTDSEEE 85 (149)
T ss_pred CHHHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHhCCCCCHHHHHHHHHhcCcCCCCcCcHHHHHHHHHHhccCCcHHHH
Confidence 456678899999999999999999999998532 22 23357899999999999999999999998876555566788
Q ss_pred HHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHH
Q psy4132 311 LKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLK 390 (473)
Q Consensus 311 l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~ 390 (473)
+..+|+.||.+++|.+.. .++..++. .. |. .++.+++..+|..+|.+++|.|+++
T Consensus 86 ~~~~F~~~D~~~~g~i~~---~e~~~~l~--------------------~~-~~-~~~~~~~~~~~~~~d~~~~g~i~~~ 140 (149)
T PTZ00184 86 IKEAFKVFDRDGNGFISA---AELRHVMT--------------------NL-GE-KLTDEEVDEMIREADVDGDGQINYE 140 (149)
T ss_pred HHHHHHhhCCCCCCeEeH---HHHHHHHH--------------------HH-CC-CCCHHHHHHHHHhcCCCCCCcCcHH
Confidence 999999999999855544 33333332 21 21 3678889999999999999999999
Q ss_pred hhhccc
Q psy4132 391 TYSSGV 396 (473)
Q Consensus 391 EF~~~~ 396 (473)
||...+
T Consensus 141 ef~~~~ 146 (149)
T PTZ00184 141 EFVKMM 146 (149)
T ss_pred HHHHHH
Confidence 998654
No 13
>KOG0028|consensus
Probab=99.47 E-value=2.3e-13 Score=116.38 Aligned_cols=131 Identities=22% Similarity=0.346 Sum_probs=111.3
Q ss_pred HHHHHHHHHHHHhhhh-------hhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHHccccccccc
Q psy4132 163 KETSSNINNAFKDLNQ-------LMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVGNTDIHKKM 235 (473)
Q Consensus 163 ~~~~~~l~eaF~~lD~-------~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~~~~ 235 (473)
+++.++++++|++||. ..++..+|+++|..+.+. ++..++.. +|+++.|.|+|++|+..|+... ..
T Consensus 29 ~~q~q~i~e~f~lfd~~~~g~iD~~EL~vAmralGFE~~k~--ei~kll~d--~dk~~~g~i~fe~f~~~mt~k~---~e 101 (172)
T KOG0028|consen 29 EEQKQEIKEAFELFDPDMAGKIDVEELKVAMRALGFEPKKE--EILKLLAD--VDKEGSGKITFEDFRRVMTVKL---GE 101 (172)
T ss_pred HHHHhhHHHHHHhhccCCCCcccHHHHHHHHHHcCCCcchH--HHHHHHHh--hhhccCceechHHHHHHHHHHH---hc
Confidence 3444679999999998 788889999999999988 77777764 8999999999999999988432 23
Q ss_pred hHHHHHHHHHHHhhCCCCCCCccHHHHhcc-hhccC---CHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 236 VVDIRRLGKRFRKLDLDNSGALSIDEFMSL-PELQQ---NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~~G~Is~~el~~l-~~~~~---~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
.+..++++.+|+.+|.|++|.|+..+|+.+ ..++. +..+.+|+..+|.+++|.|+-+||..+|..
T Consensus 102 ~dt~eEi~~afrl~D~D~~Gkis~~~lkrvakeLgenltD~El~eMIeEAd~d~dgevneeEF~~imk~ 170 (172)
T KOG0028|consen 102 RDTKEEIKKAFRLFDDDKTGKISQRNLKRVAKELGENLTDEELMEMIEEADRDGDGEVNEEEFIRIMKK 170 (172)
T ss_pred cCcHHHHHHHHHcccccCCCCcCHHHHHHHHHHhCccccHHHHHHHHHHhcccccccccHHHHHHHHhc
Confidence 348899999999999999999999999996 45554 446889999999999999999999998864
No 14
>KOG0044|consensus
Probab=99.46 E-value=3.4e-13 Score=122.19 Aligned_cols=144 Identities=28% Similarity=0.502 Sum_probs=109.3
Q ss_pred HHHHHHHHHhhC-CCCCCCccHHHHhcchhcc---CCH--HHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHHHH
Q psy4132 239 IRRLGKRFRKLD-LDNSGALSIDEFMSLPELQ---QNP--LVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESKLK 312 (473)
Q Consensus 239 ~~~l~~~F~~~D-~d~~G~Is~~el~~l~~~~---~~~--~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~ 312 (473)
..+++..++.|= ...+|.++.++|+.+.... .++ .++.+|+.+|.|++|.|+|.||+..++.. ..+..+++++
T Consensus 25 ~~ei~~~Yr~Fk~~cP~G~~~~~~F~~i~~~~fp~gd~~~y~~~vF~~fD~~~dg~i~F~Efi~als~~-~rGt~eekl~ 103 (193)
T KOG0044|consen 25 KKEIQQWYRGFKNECPSGRLTLEEFREIYASFFPDGDASKYAELVFRTFDKNKDGTIDFLEFICALSLT-SRGTLEEKLK 103 (193)
T ss_pred HHHHHHHHHHhcccCCCCccCHHHHHHHHHHHCCCCCHHHHHHHHHHHhcccCCCCcCHHHHHHHHHHH-cCCcHHHHhh
Confidence 344444444444 4459999999999964321 122 47899999999999999999999999887 7788999999
Q ss_pred HHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHH-HHHHHhccCCCCCeeHHh
Q psy4132 313 FAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLL-NSCLALDKLPDSPIYLKT 391 (473)
Q Consensus 313 ~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~-~~~~~~D~~~dg~Is~~E 391 (473)
++|++||.|++| ++.. .|+..++..++...+.. ..++ ...+|++.. .+|+.+|.|+||.||++|
T Consensus 104 w~F~lyD~dgdG-~It~--~Eml~iv~~i~~m~~~~-~~~~-----------~~~~~~~~v~~if~k~D~n~Dg~lT~ee 168 (193)
T KOG0044|consen 104 WAFRLYDLDGDG-YITK--EEMLKIVQAIYQMTGSK-ALPE-----------DEETPEERVDKIFSKMDKNKDGKLTLEE 168 (193)
T ss_pred hhheeecCCCCc-eEcH--HHHHHHHHHHHHHcccc-cCCc-----------ccccHHHHHHHHHHHcCCCCCCcccHHH
Confidence 999999999997 5555 78888888766554331 1111 135666655 689999999999999999
Q ss_pred hhcccee
Q psy4132 392 YSSGVKV 398 (473)
Q Consensus 392 F~~~~~v 398 (473)
|..+++.
T Consensus 169 f~~~~~~ 175 (193)
T KOG0044|consen 169 FIEGCKA 175 (193)
T ss_pred HHHHhhh
Confidence 9998863
No 15
>KOG0031|consensus
Probab=99.41 E-value=2.3e-12 Score=109.44 Aligned_cols=133 Identities=14% Similarity=0.203 Sum_probs=108.4
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhcch-hccC---CHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHH
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMSLP-ELQQ---NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESK 310 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~-~~~~---~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~ 310 (473)
...++++++++|..+|.|++|.|+.++|+.++ .++. +..++.|+.+ ..|.|+|.-|+.++.......++++.
T Consensus 27 ~q~QIqEfKEAF~~mDqnrDG~IdkeDL~d~~aSlGk~~~d~elDaM~~E----a~gPINft~FLTmfGekL~gtdpe~~ 102 (171)
T KOG0031|consen 27 DQSQIQEFKEAFNLMDQNRDGFIDKEDLRDMLASLGKIASDEELDAMMKE----APGPINFTVFLTMFGEKLNGTDPEEV 102 (171)
T ss_pred hHHHHHHHHHHHHHHhccCCCcccHHHHHHHHHHcCCCCCHHHHHHHHHh----CCCCeeHHHHHHHHHHHhcCCCHHHH
Confidence 35789999999999999999999999999964 3333 3345555554 58999999999999999899999999
Q ss_pred HHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHH
Q psy4132 311 LKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLK 390 (473)
Q Consensus 311 l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~ 390 (473)
+..||+.||.+++|.+... .+.++|.. .| +.++++++..+++.+..+..|.++|.
T Consensus 103 I~~AF~~FD~~~~G~I~~d---~lre~Ltt---------------------~g-Dr~~~eEV~~m~r~~p~d~~G~~dy~ 157 (171)
T KOG0031|consen 103 ILNAFKTFDDEGSGKIDED---YLRELLTT---------------------MG-DRFTDEEVDEMYREAPIDKKGNFDYK 157 (171)
T ss_pred HHHHHHhcCccCCCccCHH---HHHHHHHH---------------------hc-ccCCHHHHHHHHHhCCcccCCceeHH
Confidence 9999999999999666664 44444432 11 36899999999999999999999999
Q ss_pred hhhccc
Q psy4132 391 TYSSGV 396 (473)
Q Consensus 391 EF~~~~ 396 (473)
+|...+
T Consensus 158 ~~~~~i 163 (171)
T KOG0031|consen 158 AFTYII 163 (171)
T ss_pred HHHHHH
Confidence 997654
No 16
>KOG0037|consensus
Probab=99.33 E-value=2.1e-11 Score=110.10 Aligned_cols=134 Identities=23% Similarity=0.261 Sum_probs=104.2
Q ss_pred HHHHHHHHHHhhCCCCCCCccHHHHhcchhc-c----CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHHHH
Q psy4132 238 DIRRLGKRFRKLDLDNSGALSIDEFMSLPEL-Q----QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESKLK 312 (473)
Q Consensus 238 ~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~-~----~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~ 312 (473)
....+...|...|+|++|.|+.+||+..+.. . ...++..|+..||.+.+|+|++.||..++..+ ..++
T Consensus 55 ~~~~~~~~f~~vD~d~sg~i~~~eLq~aLsn~~~~~Fs~~TcrlmI~mfd~~~~G~i~f~EF~~Lw~~i-------~~Wr 127 (221)
T KOG0037|consen 55 TFPQLAGWFQSVDRDRSGRILAKELQQALSNGTWSPFSIETCRLMISMFDRDNSGTIGFKEFKALWKYI-------NQWR 127 (221)
T ss_pred ccHHHHHHHHhhCccccccccHHHHHHHhhcCCCCCCCHHHHHHHHHHhcCCCCCccCHHHHHHHHHHH-------HHHH
Confidence 3456788999999999999999999996442 2 23358999999999999999999999999988 8999
Q ss_pred HHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhh
Q psy4132 313 FAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTY 392 (473)
Q Consensus 313 ~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF 392 (473)
.+|+.||.|++|.+...|+ ...|.. +.- .+||+-...+++++|.-++|.|.+++|
T Consensus 128 ~vF~~~D~D~SG~I~~sEL---~~Al~~--------------------~Gy--~Lspq~~~~lv~kyd~~~~g~i~FD~F 182 (221)
T KOG0037|consen 128 NVFRTYDRDRSGTIDSSEL---RQALTQ--------------------LGY--RLSPQFYNLLVRKYDRFGGGRIDFDDF 182 (221)
T ss_pred HHHHhcccCCCCcccHHHH---HHHHHH--------------------cCc--CCCHHHHHHHHHHhccccCCceeHHHH
Confidence 9999999999987777444 333332 111 367777777777777666777777777
Q ss_pred hccceeeeecc
Q psy4132 393 SSGVKVLQLKS 403 (473)
Q Consensus 393 ~~~~~vl~~~~ 403 (473)
+++|.+++..+
T Consensus 183 I~ccv~L~~lt 193 (221)
T KOG0037|consen 183 IQCCVVLQRLT 193 (221)
T ss_pred HHHHHHHHHHH
Confidence 77777666544
No 17
>KOG4223|consensus
Probab=99.26 E-value=1.1e-10 Score=111.20 Aligned_cols=171 Identities=17% Similarity=0.281 Sum_probs=122.8
Q ss_pred cccCCCCCceeHHHHHHHHcccc------cc----ccchHHHHHHHHHHHhhCCCCCCCccHHHHhcchhccCCH-----
Q psy4132 208 DSNKDRDGKINFQEFCSIVGNTD------IH----KKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQNP----- 272 (473)
Q Consensus 208 ~~D~d~dG~I~f~EF~~~~~~~~------~~----~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~~~----- 272 (473)
..|.|.||.|+|+|++..+.... .. .....-+..-.+.|+.-|.|++|.++.+||..++.....+
T Consensus 121 ~~d~~~Dg~i~~eey~~~~~~~~~~~~~~~d~e~~~~~~km~~rDe~rFk~AD~d~dg~lt~EEF~aFLHPEe~p~M~~i 200 (325)
T KOG4223|consen 121 EYDKNKDGFITWEEYLPQTYGRVDLPDEFPDEEDNEEYKKMIARDEERFKAADQDGDGSLTLEEFTAFLHPEEHPHMKDI 200 (325)
T ss_pred HhccCccceeeHHHhhhhhhhcccCccccccchhcHHHHHHHHHHHHHHhhcccCCCCcccHHHHHhccChhhcchHHHH
Confidence 47899999999999998776321 00 1112234456778999999999999999999975443232
Q ss_pred HHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcH----HHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCc
Q psy4132 273 LVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRE----SKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGT 348 (473)
Q Consensus 273 ~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~----e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~ 348 (473)
.+.+-+..+|+|+||.|+++||+.-|.......... ..-.+.|..+|+|+||.+.. +|+..++.....
T Consensus 201 Vi~Etl~d~Dkn~DG~I~~eEfigd~~~~~~~~~epeWv~~Ere~F~~~~DknkDG~L~~---dEl~~WI~P~~~----- 272 (325)
T KOG4223|consen 201 VIAETLEDIDKNGDGKISLEEFIGDLYSHEGNEEEPEWVLTEREQFFEFRDKNKDGKLDG---DELLDWILPSEQ----- 272 (325)
T ss_pred HHHHHHhhcccCCCCceeHHHHHhHHhhccCCCCCcccccccHHHHHHHhhcCCCCccCH---HHHhcccCCCCc-----
Confidence 467888999999999999999999887764422221 22346788889999976666 566666653111
Q ss_pred cchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhccceeeeecc
Q psy4132 349 MLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVLQLKS 403 (473)
Q Consensus 349 i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl~~~~ 403 (473)
.....+...+|...|.|+||++|++|.+..--+.-...
T Consensus 273 -----------------d~A~~EA~hL~~eaD~dkD~kLs~eEIl~~~d~FvgSq 310 (325)
T KOG4223|consen 273 -----------------DHAKAEARHLLHEADEDKDGKLSKEEILEHYDVFVGSQ 310 (325)
T ss_pred -----------------cHHHHHHHHHhhhhccCccccccHHHHhhCcceeeeee
Confidence 13455678889999999999999999886554443333
No 18
>KOG0031|consensus
Probab=99.24 E-value=6e-11 Score=100.88 Aligned_cols=127 Identities=19% Similarity=0.291 Sum_probs=107.0
Q ss_pred HHHHHHHHHHHHhhhh-------hhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHHccccccccc
Q psy4132 163 KETSSNINNAFKDLNQ-------LMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVGNTDIHKKM 235 (473)
Q Consensus 163 ~~~~~~l~eaF~~lD~-------~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~~~~ 235 (473)
+.+..+++|||..+|+ -.++...+.+||+.+++. ++..|+.+ ..|.|+|.-|+.+++.+. ..
T Consensus 28 q~QIqEfKEAF~~mDqnrDG~IdkeDL~d~~aSlGk~~~d~--elDaM~~E------a~gPINft~FLTmfGekL---~g 96 (171)
T KOG0031|consen 28 QSQIQEFKEAFNLMDQNRDGFIDKEDLRDMLASLGKIASDE--ELDAMMKE------APGPINFTVFLTMFGEKL---NG 96 (171)
T ss_pred HHHHHHHHHHHHHHhccCCCcccHHHHHHHHHHcCCCCCHH--HHHHHHHh------CCCCeeHHHHHHHHHHHh---cC
Confidence 4567799999999999 567777889999999988 88888875 578999999999999543 23
Q ss_pred hHHHHHHHHHHHhhCCCCCCCccHHHHhcch-hcc---CCHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 236 VVDIRRLGKRFRKLDLDNSGALSIDEFMSLP-ELQ---QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~-~~~---~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
.+..+.+..+|+.||.+++|.|..+.|+.++ ..+ ....++.+++.+-.|..|.++|..|+.++.+
T Consensus 97 tdpe~~I~~AF~~FD~~~~G~I~~d~lre~Ltt~gDr~~~eEV~~m~r~~p~d~~G~~dy~~~~~~ith 165 (171)
T KOG0031|consen 97 TDPEEVILNAFKTFDDEGSGKIDEDYLRELLTTMGDRFTDEEVDEMYREAPIDKKGNFDYKAFTYIITH 165 (171)
T ss_pred CCHHHHHHHHHHhcCccCCCccCHHHHHHHHHHhcccCCHHHHHHHHHhCCcccCCceeHHHHHHHHHc
Confidence 4567889999999999999999999999964 333 3446999999999999999999999998863
No 19
>KOG0036|consensus
Probab=99.19 E-value=1.8e-10 Score=112.60 Aligned_cols=169 Identities=20% Similarity=0.221 Sum_probs=124.3
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhcchhc-----cCCHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHH
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPEL-----QQNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRES 309 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~-----~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e 309 (473)
.++...+++..|+.||.+++|.++..++.+.... ........++..+|.|.||.++|.||.+.+.. .+.
T Consensus 9 ~~er~~r~~~lf~~lD~~~~g~~d~~~l~k~~~~l~~~~~~~~~~~~l~~~~d~~~dg~vDy~eF~~Y~~~------~E~ 82 (463)
T KOG0036|consen 9 DEERDIRIRCLFKELDSKNDGQVDLDQLEKGLEKLDHPKPNYEAAKMLFSAMDANRDGRVDYSEFKRYLDN------KEL 82 (463)
T ss_pred cHHHHHHHHHHHHHhccCCCCceeHHHHHHHHHhcCCCCCchHHHHHHHHhcccCcCCcccHHHHHHHHHH------hHH
Confidence 3456678999999999999999999999973211 12234788999999999999999999998864 467
Q ss_pred HHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeH
Q psy4132 310 KLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYL 389 (473)
Q Consensus 310 ~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~ 389 (473)
++..+|...|.+.||.+.. .|++..+..+.- .++.+++.++++.+|+++++.|++
T Consensus 83 ~l~~~F~~iD~~hdG~i~~-----------------------~Ei~~~l~~~gi--~l~de~~~k~~e~~d~~g~~~I~~ 137 (463)
T KOG0036|consen 83 ELYRIFQSIDLEHDGKIDP-----------------------NEIWRYLKDLGI--QLSDEKAAKFFEHMDKDGKATIDL 137 (463)
T ss_pred HHHHHHhhhccccCCccCH-----------------------HHHHHHHHHhCC--ccCHHHHHHHHHHhccCCCeeecc
Confidence 7888899999988854444 444444444332 489999999999999999999999
Q ss_pred HhhhccceeeeecccCcHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHH
Q psy4132 390 KTYSSGVKVLQLKSCEDASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRL 443 (473)
Q Consensus 390 ~EF~~~~~vl~~~~~~~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l 443 (473)
+||.+...... ++.++.++..+.. ....+|.+...+|-+....+.
T Consensus 138 ~e~rd~~ll~p------~s~i~di~~~W~h---~~~idigE~~~iPdg~s~~e~ 182 (463)
T KOG0036|consen 138 EEWRDHLLLYP------ESDLEDIYDFWRH---VLLIDIGEDAVLPDGDSKLEN 182 (463)
T ss_pred HHHHhhhhcCC------hhHHHHHHHhhhh---heEEEccccccCCcchHHHHh
Confidence 99988765432 5566667666643 344555555555555544443
No 20
>KOG2643|consensus
Probab=99.19 E-value=2.4e-11 Score=119.37 Aligned_cols=177 Identities=19% Similarity=0.265 Sum_probs=118.5
Q ss_pred ccCCCCCceeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcchhc-------cC-----------
Q psy4132 209 SNKDRDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPEL-------QQ----------- 270 (473)
Q Consensus 209 ~D~d~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~-------~~----------- 270 (473)
++-+.+|.|+|.||+-++. ........+.-+|+.||.|+||-|+.+||..+..+ +.
T Consensus 208 ~~lg~~GLIsfSdYiFLlT------lLS~p~~~F~IAFKMFD~dgnG~IdkeEF~~v~~li~sQ~~~g~~hrd~~tt~~s 281 (489)
T KOG2643|consen 208 YKLGESGLISFSDYIFLLT------LLSIPERNFRIAFKMFDLDGNGEIDKEEFETVQQLIRSQTSVGVRHRDHFTTGNS 281 (489)
T ss_pred EEcCCCCeeeHHHHHHHHH------HHccCcccceeeeeeeecCCCCcccHHHHHHHHHHHHhccccceecccCccccce
Confidence 4778899999999988776 33445667888999999999999999999885322 10
Q ss_pred -CHHH-H-HHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHHHHHHhHHhcCCCCc-----------------------
Q psy4132 271 -NPLV-Q-RVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESKLKFAFRIYDIDNDD----------------------- 324 (473)
Q Consensus 271 -~~~~-~-~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~dg----------------------- 324 (473)
...+ . -....|.+++++++++++|..++..+ .++.++.-|..||+..+|
T Consensus 282 ~~~~~nsaL~~yFFG~rg~~kLs~deF~~F~e~L-----q~Eil~lEF~~~~~~~~g~Ise~DFA~~lL~~a~~n~~~k~ 356 (489)
T KOG2643|consen 282 FKVEVNSALLTYFFGKRGNGKLSIDEFLKFQENL-----QEEILELEFERFDKGDSGAISEVDFAELLLAYAGVNSKKKH 356 (489)
T ss_pred ehhhhhhhHHHHhhccCCCccccHHHHHHHHHHH-----HHHHHHHHHHHhCcccccccCHHHHHHHHHHHcccchHhHH
Confidence 0011 1 23455688999999999999988766 223333334444443333
Q ss_pred ---------------hhhHhhHHHHHHHHhch---------hhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhc
Q psy4132 325 ---------------DYYQALGNELIAALIEP---------LTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALD 380 (473)
Q Consensus 325 ---------------~~~~~e~~el~~~L~~~---------~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D 380 (473)
||+..|+..+.+.+.++ +...++.|+..++..+.....|.+ +|+.-+.-+|..||
T Consensus 357 ~~lkrvk~kf~~~~~gISl~Ef~~Ff~Fl~~l~dfd~Al~fy~~Ag~~i~~~~f~raa~~vtGve-LSdhVvdvvF~IFD 435 (489)
T KOG2643|consen 357 KYLKRVKEKFKDDGKGISLQEFKAFFRFLNNLNDFDIALRFYHMAGASIDEKTFQRAAKVVTGVE-LSDHVVDVVFTIFD 435 (489)
T ss_pred HHHHHHHHhccCCCCCcCHHHHHHHHHHHhhhhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCcc-cccceeeeEEEEEc
Confidence 44544444444444432 224555666666666666666654 55444555688899
Q ss_pred cCCCCCeeHHhhhccce
Q psy4132 381 KLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 381 ~~~dg~Is~~EF~~~~~ 397 (473)
.|+||.++.+||+..++
T Consensus 436 ~N~Dg~LS~~EFl~Vmk 452 (489)
T KOG2643|consen 436 ENNDGTLSHKEFLAVMK 452 (489)
T ss_pred cCCCCcccHHHHHHHHH
Confidence 99999999999987664
No 21
>KOG0030|consensus
Probab=99.18 E-value=9.6e-11 Score=98.00 Aligned_cols=130 Identities=15% Similarity=0.253 Sum_probs=98.2
Q ss_pred HHHHHHHHHHhhhh-------hhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHHccccccccchH
Q psy4132 165 TSSNINNAFKDLNQ-------LMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVGNTDIHKKMVV 237 (473)
Q Consensus 165 ~~~~l~eaF~~lD~-------~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~~~~~~ 237 (473)
+..++++||..||. ....+..||+||.+|++. ++...+....-+.-+-.+|+|++|+.++..-. ......
T Consensus 9 ~~~e~ke~F~lfD~~gD~ki~~~q~gdvlRalG~nPT~a--eV~k~l~~~~~~~~~~~rl~FE~fLpm~q~va-knk~q~ 85 (152)
T KOG0030|consen 9 QMEEFKEAFLLFDRTGDGKISGSQVGDVLRALGQNPTNA--EVLKVLGQPKRREMNVKRLDFEEFLPMYQQVA-KNKDQG 85 (152)
T ss_pred hHHHHHHHHHHHhccCcccccHHHHHHHHHHhcCCCcHH--HHHHHHcCcccchhhhhhhhHHHHHHHHHHHH-hccccC
Confidence 34789999999999 678889999999999998 66665554222222446899999999887321 224456
Q ss_pred HHHHHHHHHHhhCCCCCCCccHHHHhcch-hccC---CHHHHHHHHHhcCCCCCcccHHHHHHHH
Q psy4132 238 DIRRLGKRFRKLDLDNSGALSIDEFMSLP-ELQQ---NPLVQRVIDIFDEDRNGEVDFKEFIQGV 298 (473)
Q Consensus 238 ~~~~l~~~F~~~D~d~~G~Is~~el~~l~-~~~~---~~~~~~l~~~~D~d~dG~I~~~EF~~~l 298 (473)
..+++.+..+.||++++|.|...||+.++ .+|. ..+++.++.-. .|++|.|+|+.|+..+
T Consensus 86 t~edfvegLrvFDkeg~G~i~~aeLRhvLttlGekl~eeEVe~Llag~-eD~nG~i~YE~fVk~i 149 (152)
T KOG0030|consen 86 TYEDFVEGLRVFDKEGNGTIMGAELRHVLTTLGEKLTEEEVEELLAGQ-EDSNGCINYEAFVKHI 149 (152)
T ss_pred cHHHHHHHHHhhcccCCcceeHHHHHHHHHHHHhhccHHHHHHHHccc-cccCCcCcHHHHHHHH
Confidence 78899999999999999999999999963 4443 33455554433 4678999999999765
No 22
>KOG0037|consensus
Probab=99.18 E-value=1.3e-10 Score=104.97 Aligned_cols=100 Identities=27% Similarity=0.445 Sum_probs=89.1
Q ss_pred ccCCCCCceeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcc-hhccC---CHHHHHHHHHhcCC
Q psy4132 209 SNKDRDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSL-PELQQ---NPLVQRVIDIFDED 284 (473)
Q Consensus 209 ~D~d~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l-~~~~~---~~~~~~l~~~~D~d 284 (473)
+|.+.+|+|+|.||..+|. .+..|+.+|+.+|.|++|+|+..||+.. ..++. ....+.+++.+|.-
T Consensus 103 fd~~~~G~i~f~EF~~Lw~----------~i~~Wr~vF~~~D~D~SG~I~~sEL~~Al~~~Gy~Lspq~~~~lv~kyd~~ 172 (221)
T KOG0037|consen 103 FDRDNSGTIGFKEFKALWK----------YINQWRNVFRTYDRDRSGTIDSSELRQALTQLGYRLSPQFYNLLVRKYDRF 172 (221)
T ss_pred hcCCCCCccCHHHHHHHHH----------HHHHHHHHHHhcccCCCCcccHHHHHHHHHHcCcCCCHHHHHHHHHHhccc
Confidence 7999999999999999998 7889999999999999999999999994 44443 23478899999988
Q ss_pred CCCcccHHHHHHHHhhcccCCCcHHHHHHHhHHhcCCCCch
Q psy4132 285 RNGEVDFKEFIQGVSQFSVKGDRESKLKFAFRIYDIDNDDD 325 (473)
Q Consensus 285 ~dG~I~~~EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~dg~ 325 (473)
++|.|.|++|+.++..+ ..+.++|+.+|.+..|.
T Consensus 173 ~~g~i~FD~FI~ccv~L-------~~lt~~Fr~~D~~q~G~ 206 (221)
T KOG0037|consen 173 GGGRIDFDDFIQCCVVL-------QRLTEAFRRRDTAQQGS 206 (221)
T ss_pred cCCceeHHHHHHHHHHH-------HHHHHHHHHhcccccee
Confidence 89999999999999988 78899999999998853
No 23
>KOG0038|consensus
Probab=99.15 E-value=3.8e-10 Score=94.90 Aligned_cols=137 Identities=28% Similarity=0.432 Sum_probs=107.5
Q ss_pred hHHHHHHHHHHHhhCCCC-----------CCCccHHHHhcchhccCCHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccC
Q psy4132 236 VVDIRRLGKRFRKLDLDN-----------SGALSIDEFMSLPELQQNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVK 304 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~-----------~G~Is~~el~~l~~~~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~ 304 (473)
...+-.+...|..+.++- .-+++.+.+.++.++..+|.-+++.+.|..||.|.++|++|+.+++.+...
T Consensus 24 rKdIlrl~~Rf~~L~P~lVP~~~~~~~~~~v~vp~e~i~kMPELkenpfk~ri~e~FSeDG~GnlsfddFlDmfSV~sE~ 103 (189)
T KOG0038|consen 24 RKDILRLHKRFYELAPHLVPTDMTGNRPPIVKVPFELIEKMPELKENPFKRRICEVFSEDGRGNLSFDDFLDMFSVFSEM 103 (189)
T ss_pred HHHHHHHHHHHHHhCcccccccccCCCCCceeecHHHHhhChhhhcChHHHHHHHHhccCCCCcccHHHHHHHHHHHHhh
Confidence 445666777777776531 236788888889999999999999999999999999999999999999888
Q ss_pred CCcHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHH----HHHHhc
Q psy4132 305 GDRESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLN----SCLALD 380 (473)
Q Consensus 305 ~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~----~~~~~D 380 (473)
.+.+-++.-||+.||.|+|+ ++. ..|+...+.+.... .+|++++.. +++..|
T Consensus 104 APrdlK~~YAFkIYDfd~D~-~i~----------------------~~DL~~~l~~lTr~-eLs~eEv~~i~ekvieEAD 159 (189)
T KOG0038|consen 104 APRDLKAKYAFKIYDFDGDE-FIG----------------------HDDLEKTLTSLTRD-ELSDEEVELICEKVIEEAD 159 (189)
T ss_pred ChHHhhhhheeEEeecCCCC-ccc----------------------HHHHHHHHHHHhhc-cCCHHHHHHHHHHHHHHhc
Confidence 88889999999999999993 333 33333333333321 488888765 467899
Q ss_pred cCCCCCeeHHhhhccc
Q psy4132 381 KLPDSPIYLKTYSSGV 396 (473)
Q Consensus 381 ~~~dg~Is~~EF~~~~ 396 (473)
.||||++++.||-..+
T Consensus 160 ~DgDgkl~~~eFe~~i 175 (189)
T KOG0038|consen 160 LDGDGKLSFAEFEHVI 175 (189)
T ss_pred CCCCCcccHHHHHHHH
Confidence 9999999999997654
No 24
>PTZ00183 centrin; Provisional
Probab=99.15 E-value=2.6e-10 Score=101.46 Aligned_cols=130 Identities=24% Similarity=0.362 Sum_probs=86.6
Q ss_pred HHHHHHHHHHHhhhh-------hhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHHccccccccch
Q psy4132 164 ETSSNINNAFKDLNQ-------LMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVGNTDIHKKMV 236 (473)
Q Consensus 164 ~~~~~l~eaF~~lD~-------~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~~~~~ 236 (473)
.....+..+|..+|. ..++...+..+|..+... .....+. .+|.+++|.|+|.||...+.... ...
T Consensus 14 ~~~~~~~~~F~~~D~~~~G~i~~~e~~~~l~~~g~~~~~~--~~~~l~~--~~d~~~~g~i~~~eF~~~~~~~~---~~~ 86 (158)
T PTZ00183 14 DQKKEIREAFDLFDTDGSGTIDPKELKVAMRSLGFEPKKE--EIKQMIA--DVDKDGSGKIDFEEFLDIMTKKL---GER 86 (158)
T ss_pred HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhCCCCCHH--HHHHHHH--HhCCCCCCcEeHHHHHHHHHHHh---cCC
Confidence 344568888888886 566666677666555544 3344443 26778888888888887765211 111
Q ss_pred HHHHHHHHHHHhhCCCCCCCccHHHHhcchh-cc---CCHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 237 VDIRRLGKRFRKLDLDNSGALSIDEFMSLPE-LQ---QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 237 ~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~-~~---~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
.....+..+|+.+|.+++|+|+..||..+.. .+ ....+..++..+|.+++|.|+|++|+.++..
T Consensus 87 ~~~~~l~~~F~~~D~~~~G~i~~~e~~~~l~~~~~~l~~~~~~~~~~~~d~~~~g~i~~~ef~~~~~~ 154 (158)
T PTZ00183 87 DPREEILKAFRLFDDDKTGKISLKNLKRVAKELGETITDEELQEMIDEADRNGDGEISEEEFYRIMKK 154 (158)
T ss_pred CcHHHHHHHHHHhCCCCCCcCcHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCCCCcCcHHHHHHHHhc
Confidence 2335677888888888888888888887532 22 2334677888888888888888888877643
No 25
>PTZ00184 calmodulin; Provisional
Probab=99.10 E-value=5.7e-10 Score=98.01 Aligned_cols=126 Identities=21% Similarity=0.388 Sum_probs=58.4
Q ss_pred HHHHHHHHHhhhh-------hhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHHccccccccchHH
Q psy4132 166 SSNINNAFKDLNQ-------LMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVGNTDIHKKMVVD 238 (473)
Q Consensus 166 ~~~l~eaF~~lD~-------~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~~~~~~~ 238 (473)
...++.+|..+|. ..++...+..++..+... ....++. .+|.+++|.|+|++|+.++.... .....
T Consensus 10 ~~~~~~~F~~~D~~~~G~i~~~e~~~~l~~~~~~~~~~--~~~~~~~--~~d~~~~g~i~~~ef~~~l~~~~---~~~~~ 82 (149)
T PTZ00184 10 IAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEA--ELQDMIN--EVDADGNGTIDFPEFLTLMARKM---KDTDS 82 (149)
T ss_pred HHHHHHHHHHHcCCCCCcCCHHHHHHHHHHhCCCCCHH--HHHHHHH--hcCcCCCCcCcHHHHHHHHHHhc---cCCcH
Confidence 3445566666655 333333333344333322 2222222 24555555566666655544110 00112
Q ss_pred HHHHHHHHHhhCCCCCCCccHHHHhcchh-cc---CCHHHHHHHHHhcCCCCCcccHHHHHHHH
Q psy4132 239 IRRLGKRFRKLDLDNSGALSIDEFMSLPE-LQ---QNPLVQRVIDIFDEDRNGEVDFKEFIQGV 298 (473)
Q Consensus 239 ~~~l~~~F~~~D~d~~G~Is~~el~~l~~-~~---~~~~~~~l~~~~D~d~dG~I~~~EF~~~l 298 (473)
...+..+|+.+|.+++|+|+.+||..+.. .+ ....+..++..+|.+++|.|+|+||+.++
T Consensus 83 ~~~~~~~F~~~D~~~~g~i~~~e~~~~l~~~~~~~~~~~~~~~~~~~d~~~~g~i~~~ef~~~~ 146 (149)
T PTZ00184 83 EEEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREADVDGDGQINYEEFVKMM 146 (149)
T ss_pred HHHHHHHHHhhCCCCCCeEeHHHHHHHHHHHCCCCCHHHHHHHHHhcCCCCCCcCcHHHHHHHH
Confidence 23455556666666666666665555321 11 12234555555555555566666555544
No 26
>KOG0377|consensus
Probab=99.06 E-value=2.4e-09 Score=105.18 Aligned_cols=206 Identities=17% Similarity=0.228 Sum_probs=131.4
Q ss_pred CCCCCCeEEEeccCCCchHHHHHHHHHHhhhhhhhccccccccccccccccchHHHHHHHHHHHhHHHHHHHHHHHHhhh
Q psy4132 98 ATSAYDYVKLSFREGIQNEFLDALKSTVDAKIWTVQNKSAQQTKLREIKTRTGIVGIERNIVEKQKETSSNINNAFKDLN 177 (473)
Q Consensus 98 ~~~~~~~iklsFr~gg~~~F~~~l~~~l~~~~w~~~~~~~~~~~~~~~~~~~gi~gi~r~~~~~~~~~~~~l~eaF~~lD 177 (473)
++++++||||.-...++...|++-+.+......++... ==...++.+.++......+|...|+.+|
T Consensus 409 GSNrGAYikl~~~~~PhfvQY~a~k~t~~~tlrqR~~~--------------vEeSAlk~Lrerl~s~~sdL~~eF~~~D 474 (631)
T KOG0377|consen 409 GSNRGAYIKLGNQLTPHFVQYQAAKQTKRLTLRQRMGI--------------VEESALKELRERLRSHRSDLEDEFRKYD 474 (631)
T ss_pred cCCCceEEEeCCCCCchHHHHHhhhhhhhhhHHHHhhH--------------HHHHHHHHHHHHHHhhhhHHHHHHHhcC
Confidence 46789999999989999999998777765555544332 0011266677888888889999999999
Q ss_pred hhhhHHHHHHHHhhhhhhhhhhhhc--ccccccccCCCCCceeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCC
Q psy4132 178 QLMSMAKEMVEISKNISNKIINRQG--EITEDDSNKDRDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSG 255 (473)
Q Consensus 178 ~~~e~~~~l~~lg~~~~~~~~~~~~--~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G 255 (473)
.-......+..++..+.....-... ++...-+..+.||.+.|.+-+..+.....
T Consensus 475 ~~ksG~lsis~Wa~~mE~i~~L~LPWr~L~~kla~~s~d~~v~Y~~~~~~l~~e~~------------------------ 530 (631)
T KOG0377|consen 475 PKKSGKLSISHWAKCMENITGLNLPWRLLRPKLANGSDDGKVEYKSTLDNLDTEVI------------------------ 530 (631)
T ss_pred hhhcCeeeHHHHHHHHHHHhcCCCcHHHhhhhccCCCcCcceehHhHHHHhhhhhH------------------------
Confidence 8555554555555444433111110 22222345566788998888776551100
Q ss_pred CccHHHHhc-ch-hcc-CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHHHHHHhHHhcCCCCchhhHhhHH
Q psy4132 256 ALSIDEFMS-LP-ELQ-QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESKLKFAFRIYDIDNDDDYYQALGN 332 (473)
Q Consensus 256 ~Is~~el~~-l~-~~~-~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~dg~~~~~e~~ 332 (473)
.+|... +. .+- ....++.+|+.+|.|++|.|+.+||..++..+
T Consensus 531 ---~~ea~~slvetLYr~ks~LetiF~~iD~D~SG~isldEF~~a~~l~------------------------------- 576 (631)
T KOG0377|consen 531 ---LEEAGSSLVETLYRNKSSLETIFNIIDADNSGEISLDEFRTAWKLL------------------------------- 576 (631)
T ss_pred ---HHHHHhHHHHHHHhchhhHHHHHHHhccCCCCceeHHHHHHHHHHH-------------------------------
Confidence 111000 00 000 12235677777777777777777777666433
Q ss_pred HHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhccceeeeec
Q psy4132 333 ELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVLQLK 402 (473)
Q Consensus 333 el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl~~~ 402 (473)
.+.+. + .++.+++.++++.+|-|+||.|++.||+.+.+++...
T Consensus 577 ------~sh~~-------------------~--~i~~~~i~~la~~mD~NkDG~IDlNEfLeAFrlvdr~ 619 (631)
T KOG0377|consen 577 ------SSHMN-------------------G--AISDDEILELARSMDLNKDGKIDLNEFLEAFRLVDRR 619 (631)
T ss_pred ------HhhcC-------------------C--CcCHHHHHHHHHhhccCCCCcccHHHHHHHHhhhcch
Confidence 11111 1 3778889999999999999999999999999987653
No 27
>KOG0030|consensus
Probab=98.96 E-value=4.7e-09 Score=87.97 Aligned_cols=136 Identities=18% Similarity=0.234 Sum_probs=103.1
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhc-chhccCCHH---HHHHHHHhcCC--CCCcccHHHHHHHHhhcccC--CC
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMS-LPELQQNPL---VQRVIDIFDED--RNGEVDFKEFIQGVSQFSVK--GD 306 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~-l~~~~~~~~---~~~l~~~~D~d--~dG~I~~~EF~~~l~~~~~~--~~ 306 (473)
..++..+++++|..||..++|+|+..+... ++.++.+|. +.+.+...+.+ +-.+|+|++|+.++..+... +.
T Consensus 6 ~~d~~~e~ke~F~lfD~~gD~ki~~~q~gdvlRalG~nPT~aeV~k~l~~~~~~~~~~~rl~FE~fLpm~q~vaknk~q~ 85 (152)
T KOG0030|consen 6 TPDQMEEFKEAFLLFDRTGDGKISGSQVGDVLRALGQNPTNAEVLKVLGQPKRREMNVKRLDFEEFLPMYQQVAKNKDQG 85 (152)
T ss_pred CcchHHHHHHHHHHHhccCcccccHHHHHHHHHHhcCCCcHHHHHHHHcCcccchhhhhhhhHHHHHHHHHHHHhccccC
Confidence 455678999999999999999999999988 466777775 44445555544 34789999999999876443 34
Q ss_pred cHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCC
Q psy4132 307 RESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSP 386 (473)
Q Consensus 307 ~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~ 386 (473)
.-+..-+-.+.||++++|.+...+++.+...|.. .++.+++..+..-.. |.+|.
T Consensus 86 t~edfvegLrvFDkeg~G~i~~aeLRhvLttlGe-------------------------kl~eeEVe~Llag~e-D~nG~ 139 (152)
T KOG0030|consen 86 TYEDFVEGLRVFDKEGNGTIMGAELRHVLTTLGE-------------------------KLTEEEVEELLAGQE-DSNGC 139 (152)
T ss_pred cHHHHHHHHHhhcccCCcceeHHHHHHHHHHHHh-------------------------hccHHHHHHHHcccc-ccCCc
Confidence 4567778889999999977777666666655552 588888988876554 45899
Q ss_pred eeHHhhhccc
Q psy4132 387 IYLKTYSSGV 396 (473)
Q Consensus 387 Is~~EF~~~~ 396 (473)
|.|+.|+..+
T Consensus 140 i~YE~fVk~i 149 (152)
T KOG0030|consen 140 INYEAFVKHI 149 (152)
T ss_pred CcHHHHHHHH
Confidence 9999998654
No 28
>KOG0751|consensus
Probab=98.91 E-value=1.3e-08 Score=101.48 Aligned_cols=211 Identities=14% Similarity=0.132 Sum_probs=152.5
Q ss_pred ccCCCCCceeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcchhcc-------CCHHHHHHHHHh
Q psy4132 209 SNKDRDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQ-------QNPLVQRVIDIF 281 (473)
Q Consensus 209 ~D~d~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~-------~~~~~~~l~~~~ 281 (473)
.|..+||.|+|+||..+-. ..+........+|+.||+.++|.++.+++..+.... .+...+.+-..|
T Consensus 83 aD~tKDglisf~eF~afe~------~lC~pDal~~~aFqlFDr~~~~~vs~~~~~~if~~t~l~~~~~f~~d~efI~~~F 156 (694)
T KOG0751|consen 83 ADQTKDGLISFQEFRAFES------VLCAPDALFEVAFQLFDRLGNGEVSFEDVADIFGQTNLHHHIPFNWDSEFIKLHF 156 (694)
T ss_pred hhhcccccccHHHHHHHHh------hccCchHHHHHHHHHhcccCCCceehHHHHHHHhccccccCCCccCCcchHHHHh
Confidence 5788999999999999765 345667888999999999999999999999863321 111123333355
Q ss_pred cCCCCCcccHHHHHHHHhhcccCCCcHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhh--------------cCCC
Q psy4132 282 DEDRNGEVDFKEFIQGVSQFSVKGDRESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLT--------------SAGG 347 (473)
Q Consensus 282 D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~--------------~~~g 347 (473)
..+....++|.+|.++++.+ ..|..+++|+..|+.++|.++.-.++.++..++..+. ..+.
T Consensus 157 g~~~~r~~ny~~f~Q~lh~~-----~~E~~~qafr~~d~~~ng~is~Ldfq~imvt~~~h~lt~~v~~nlv~vagg~~~H 231 (694)
T KOG0751|consen 157 GDIRKRHLNYAEFTQFLHEF-----QLEHAEQAFREKDKAKNGFISVLDFQDIMVTIRIHLLTPFVEENLVSVAGGNDSH 231 (694)
T ss_pred hhHHHHhccHHHHHHHHHHH-----HHHHHHHHHHHhcccCCCeeeeechHhhhhhhhhhcCCHHHhhhhhhhcCCCCcc
Confidence 66667889999999999988 5677999999999999987777677776655554221 1223
Q ss_pred ccchhHHHHHHHhhhCCCCCCHHHHHHHHH-HhccCCCCCeeHHhhhccceeeeecccCcHHHHHHHHHHHhhCCCCCHH
Q psy4132 348 TMLLTDAYCRINRARGLELLSPEDLLNSCL-ALDKLPDSPIYLKTYSSGVKVLQLKSCEDASFVEKTYEIVSQNVFVTVE 426 (473)
Q Consensus 348 ~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~-~~D~~~dg~Is~~EF~~~~~vl~~~~~~~~~~~~~~~~~~~~~~~ls~~ 426 (473)
.++.+.+ ..+|.... .-+-+.+++. ..+.-+|-.+++++|....+.....+....+++.++.++.+..+.+|..
T Consensus 232 ~vSf~yf-~afnslL~----~melirk~y~s~~~~~~d~~~~kdq~~~~a~~~~q~t~~~idilf~la~~~~~~~~ltl~ 306 (694)
T KOG0751|consen 232 QVSFSYF-NAFNSLLN----NMELIRKIYSSLAGTRKDVEVTKDQFSLAAQTSKQVTPLEIDILFQLADLYHPMGRLTLA 306 (694)
T ss_pred ccchHHH-HHHHHHHh----hHHHHHHHHHHhcccccchhhhHHHHHHHHHHhhccCchhhhhhhhhhhcccccccccHH
Confidence 4555553 23333221 1223445554 4456778899999998877777666666678999999999999999999
Q ss_pred HHHHhhCCc
Q psy4132 427 QFSRLASVS 435 (473)
Q Consensus 427 e~a~~~~~s 435 (473)
+|.+.....
T Consensus 307 Di~~I~p~~ 315 (694)
T KOG0751|consen 307 DIERIAPLN 315 (694)
T ss_pred HHHhhCChh
Confidence 999988543
No 29
>KOG0044|consensus
Probab=98.87 E-value=1e-08 Score=93.14 Aligned_cols=138 Identities=20% Similarity=0.397 Sum_probs=84.8
Q ss_pred HHHHHHHhHHHHHHHHHHHHhhhh--------hhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHH
Q psy4132 155 ERNIVEKQKETSSNINNAFKDLNQ--------LMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIV 226 (473)
Q Consensus 155 ~r~~~~~~~~~~~~l~eaF~~lD~--------~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~ 226 (473)
+..+.+..+-+.++++.-++.|=. ..+......+..-. ... ......-...+|.|+||.|+|.||+..+
T Consensus 14 ~e~l~~~t~f~~~ei~~~Yr~Fk~~cP~G~~~~~~F~~i~~~~fp~-gd~--~~y~~~vF~~fD~~~dg~i~F~Efi~al 90 (193)
T KOG0044|consen 14 LEQLVQQTKFSKKEIQQWYRGFKNECPSGRLTLEEFREIYASFFPD-GDA--SKYAELVFRTFDKNKDGTIDFLEFICAL 90 (193)
T ss_pred HHHHHHhcCCCHHHHHHHHHHhcccCCCCccCHHHHHHHHHHHCCC-CCH--HHHHHHHHHHhcccCCCCcCHHHHHHHH
Confidence 333444555566677777776644 22222222232221 111 1222222335788889999999988877
Q ss_pred ccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcch----hccC-----------CHHHHHHHHHhcCCCCCcccH
Q psy4132 227 GNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLP----ELQQ-----------NPLVQRVIDIFDEDRNGEVDF 291 (473)
Q Consensus 227 ~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~----~~~~-----------~~~~~~l~~~~D~d~dG~I~~ 291 (473)
+. .......+.+..+|+.+|.|++|+|+..|+..+. .+.. ...++.+|+.+|.|+||.|++
T Consensus 91 s~----~~rGt~eekl~w~F~lyD~dgdG~It~~Eml~iv~~i~~m~~~~~~~~~~~~~~~~v~~if~k~D~n~Dg~lT~ 166 (193)
T KOG0044|consen 91 SL----TSRGTLEEKLKWAFRLYDLDGDGYITKEEMLKIVQAIYQMTGSKALPEDEETPEERVDKIFSKMDKNKDGKLTL 166 (193)
T ss_pred HH----HcCCcHHHHhhhhheeecCCCCceEcHHHHHHHHHHHHHHcccccCCcccccHHHHHHHHHHHcCCCCCCcccH
Confidence 62 2233455677788999999999999988887731 1111 113678888888888888888
Q ss_pred HHHHHHHh
Q psy4132 292 KEFIQGVS 299 (473)
Q Consensus 292 ~EF~~~l~ 299 (473)
+||...+.
T Consensus 167 eef~~~~~ 174 (193)
T KOG0044|consen 167 EEFIEGCK 174 (193)
T ss_pred HHHHHHhh
Confidence 88887664
No 30
>KOG4223|consensus
Probab=98.79 E-value=1e-07 Score=91.29 Aligned_cols=215 Identities=15% Similarity=0.121 Sum_probs=139.3
Q ss_pred ccCCCCCceeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcchhcc----CCHHHHHHHHHhcCC
Q psy4132 209 SNKDRDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQ----QNPLVQRVIDIFDED 284 (473)
Q Consensus 209 ~D~d~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~----~~~~~~~l~~~~D~d 284 (473)
.+.++...+.-.+|..... ........+.+..+|..+|.+++|.|+..|++...... ....+.+-+...|.|
T Consensus 50 ~~~dhe~~~~d~e~~~~fd----~l~~ee~~~rl~~l~~~iD~~~Dgfv~~~El~~wi~~s~k~~v~~~~~~~~~~~d~~ 125 (325)
T KOG4223|consen 50 FQYDHEAFLGDDEFADEFD----QLTPEESQERLGKLVPKIDSDSDGFVTESELKAWIMQSQKKYVVEEAARRWDEYDKN 125 (325)
T ss_pred cCccccccccchhhhhhhh----hhCcchhHHHHHHHHhhhcCCCCCceeHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 3444444455455555443 12234577899999999999999999999999843221 122456778889999
Q ss_pred CCCcccHHHHHHHHhhcccC-------CCcH------HHHHHHhHHhcCCCCchhhHhhHHH--------------HHHH
Q psy4132 285 RNGEVDFKEFIQGVSQFSVK-------GDRE------SKLKFAFRIYDIDNDDDYYQALGNE--------------LIAA 337 (473)
Q Consensus 285 ~dG~I~~~EF~~~l~~~~~~-------~~~~------e~l~~~F~~~D~d~dg~~~~~e~~e--------------l~~~ 337 (473)
.||.|+|+|+...+...... ...+ ..-+.-|+.-|.|++|..+.+||.. +.+.
T Consensus 126 ~Dg~i~~eey~~~~~~~~~~~~~~~d~e~~~~~~km~~rDe~rFk~AD~d~dg~lt~EEF~aFLHPEe~p~M~~iVi~Et 205 (325)
T KOG4223|consen 126 KDGFITWEEYLPQTYGRVDLPDEFPDEEDNEEYKKMIARDEERFKAADQDGDGSLTLEEFTAFLHPEEHPHMKDIVIAET 205 (325)
T ss_pred ccceeeHHHhhhhhhhcccCccccccchhcHHHHHHHHHHHHHHhhcccCCCCcccHHHHHhccChhhcchHHHHHHHHH
Confidence 99999999999888754211 1111 1235669999999999888877722 2344
Q ss_pred HhchhhcCCCccchhHHHHHHHhhhCCCCCCH----HHHHHHHHHhccCCCCCeeHHhhhccceeeeecccCcHHHHHHH
Q psy4132 338 LIEPLTSAGGTMLLTDAYCRINRARGLELLSP----EDLLNSCLALDKLPDSPIYLKTYSSGVKVLQLKSCEDASFVEKT 413 (473)
Q Consensus 338 L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~----~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl~~~~~~~~~~~~~~ 413 (473)
|..+.++.+|.|++.|++..+-+..+-+ --| .+..+++...|+|+||+++-+|..+=+. .....-...-..+|
T Consensus 206 l~d~Dkn~DG~I~~eEfigd~~~~~~~~-~epeWv~~Ere~F~~~~DknkDG~L~~dEl~~WI~--P~~~d~A~~EA~hL 282 (325)
T KOG4223|consen 206 LEDIDKNGDGKISLEEFIGDLYSHEGNE-EEPEWVLTEREQFFEFRDKNKDGKLDGDELLDWIL--PSEQDHAKAEARHL 282 (325)
T ss_pred HhhcccCCCCceeHHHHHhHHhhccCCC-CCcccccccHHHHHHHhhcCCCCccCHHHHhcccC--CCCccHHHHHHHHH
Confidence 4456678889999999998888877511 111 1344778889999999999999764332 11111112222333
Q ss_pred HHHHh--hCCCCCHHHHHH
Q psy4132 414 YEIVS--QNVFVTVEQFSR 430 (473)
Q Consensus 414 ~~~~~--~~~~ls~~e~a~ 430 (473)
+.-.+ +.+.||.+||=.
T Consensus 283 ~~eaD~dkD~kLs~eEIl~ 301 (325)
T KOG4223|consen 283 LHEADEDKDGKLSKEEILE 301 (325)
T ss_pred hhhhccCccccccHHHHhh
Confidence 33322 247888888744
No 31
>KOG0036|consensus
Probab=98.75 E-value=6.6e-08 Score=94.98 Aligned_cols=128 Identities=19% Similarity=0.384 Sum_probs=98.9
Q ss_pred HhHHHHHHHHHHHHhhhh-------hhhHHHHHHHHhhh-hhhhhhhhhcccccccccCCCCCceeHHHHHHHHcccccc
Q psy4132 161 KQKETSSNINNAFKDLNQ-------LMSMAKEMVEISKN-ISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVGNTDIH 232 (473)
Q Consensus 161 ~~~~~~~~l~eaF~~lD~-------~~e~~~~l~~lg~~-~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~ 232 (473)
..++.+.+++..|+.||. +.++.+.+.++... +... -....++ ..|.|.||.++|+||...+.
T Consensus 8 ~~~er~~r~~~lf~~lD~~~~g~~d~~~l~k~~~~l~~~~~~~~--~~~~l~~--~~d~~~dg~vDy~eF~~Y~~----- 78 (463)
T KOG0036|consen 8 TDEERDIRIRCLFKELDSKNDGQVDLDQLEKGLEKLDHPKPNYE--AAKMLFS--AMDANRDGRVDYSEFKRYLD----- 78 (463)
T ss_pred CcHHHHHHHHHHHHHhccCCCCceeHHHHHHHHHhcCCCCCchH--HHHHHHH--hcccCcCCcccHHHHHHHHH-----
Confidence 445667889999999998 55555556666544 2222 1222333 47999999999999999887
Q ss_pred ccchHHHHHHHHHHHhhCCCCCCCccHHHHhc-chhcc---CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 233 KKMVVDIRRLGKRFRKLDLDNSGALSIDEFMS-LPELQ---QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 233 ~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~-l~~~~---~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
..+.++...|+.+|.+.||.|+.+|+.. +..++ .+..++.+++.+|+++++.|+++||...+...
T Consensus 79 ----~~E~~l~~~F~~iD~~hdG~i~~~Ei~~~l~~~gi~l~de~~~k~~e~~d~~g~~~I~~~e~rd~~ll~ 147 (463)
T KOG0036|consen 79 ----NKELELYRIFQSIDLEHDGKIDPNEIWRYLKDLGIQLSDEKAAKFFEHMDKDGKATIDLEEWRDHLLLY 147 (463)
T ss_pred ----HhHHHHHHHHhhhccccCCccCHHHHHHHHHHhCCccCHHHHHHHHHHhccCCCeeeccHHHHhhhhcC
Confidence 5677899999999999999999999988 34443 34457889999999999999999999887655
No 32
>KOG0034|consensus
Probab=98.73 E-value=1.3e-07 Score=85.90 Aligned_cols=128 Identities=22% Similarity=0.396 Sum_probs=87.9
Q ss_pred HHHHHHHHHHHhhhhh-------hhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCc-eeHHHHHHHHccccccccc
Q psy4132 164 ETSSNINNAFKDLNQL-------MSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGK-INFQEFCSIVGNTDIHKKM 235 (473)
Q Consensus 164 ~~~~~l~eaF~~lD~~-------~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~-I~f~EF~~~~~~~~~~~~~ 235 (473)
+....|-+-|..||.. .+--..+-.+..+|-.. .+- +.+|.+++|. |+|.+|+..++ .....
T Consensus 30 ~EI~~L~~rF~kl~~~~~~g~lt~eef~~i~~~~~Np~~~--rI~-----~~f~~~~~~~~v~F~~Fv~~ls---~f~~~ 99 (187)
T KOG0034|consen 30 NEIERLYERFKKLDRNNGDGYLTKEEFLSIPELALNPLAD--RII-----DRFDTDGNGDPVDFEEFVRLLS---VFSPK 99 (187)
T ss_pred HHHHHHHHHHHHhccccccCccCHHHHHHHHHHhcCcHHH--HHH-----HHHhccCCCCccCHHHHHHHHh---hhcCC
Confidence 3344577777777763 11112222444444333 111 2356677776 99999999887 23333
Q ss_pred hHHHHHHHHHHHhhCCCCCCCccHHHHhcchhc----cCC---H----HHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 236 VVDIRRLGKRFRKLDLDNSGALSIDEFMSLPEL----QQN---P----LVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~----~~~---~----~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
....++++-+|+.+|.+++|+|+.+|+..+... ... . .++.++..+|.|+||.|+|+||++++...
T Consensus 100 ~~~~~Kl~faF~vYD~~~~G~I~reel~~iv~~~~~~~~~~~~e~~~~i~d~t~~e~D~d~DG~IsfeEf~~~v~~~ 176 (187)
T KOG0034|consen 100 ASKREKLRFAFRVYDLDGDGFISREELKQILRMMVGENDDMSDEQLEDIVDKTFEEADTDGDGKISFEEFCKVVEKQ 176 (187)
T ss_pred ccHHHHHHHHHHHhcCCCCCcCcHHHHHHHHHHHHccCCcchHHHHHHHHHHHHHHhCCCCCCcCcHHHHHHHHHcC
Confidence 445579999999999999999999999995221 112 1 26889999999999999999999988654
No 33
>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=98.65 E-value=4.2e-08 Score=73.88 Aligned_cols=58 Identities=28% Similarity=0.549 Sum_probs=48.2
Q ss_pred HHHHHHHhhCCCCCCCccHHHHhcchhccC----C----HHHHHHHHHhcCCCCCcccHHHHHHHH
Q psy4132 241 RLGKRFRKLDLDNSGALSIDEFMSLPELQQ----N----PLVQRVIDIFDEDRNGEVDFKEFIQGV 298 (473)
Q Consensus 241 ~l~~~F~~~D~d~~G~Is~~el~~l~~~~~----~----~~~~~l~~~~D~d~dG~I~~~EF~~~l 298 (473)
+++++|+.+|.|++|+|+.+||..+..... . ..++.+++.+|.|++|.|+|+||+.+|
T Consensus 1 ~l~~~F~~~D~d~~G~i~~~el~~~~~~~~~~~~~~~~~~~~~~~~~~~D~d~dG~i~~~Ef~~~~ 66 (66)
T PF13499_consen 1 RLKEAFKKFDKDGDGYISKEELRRALKHLGRDMSDEESDEMIDQIFREFDTDGDGRISFDEFLNFM 66 (66)
T ss_dssp HHHHHHHHHSTTSSSEEEHHHHHHHHHHTTSHSTHHHHHHHHHHHHHHHTTTSSSSEEHHHHHHHH
T ss_pred CHHHHHHHHcCCccCCCCHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCCCCcCCCcHHHHhccC
Confidence 478999999999999999999999643222 1 236777999999999999999999875
No 34
>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=98.65 E-value=8.1e-08 Score=76.65 Aligned_cols=66 Identities=20% Similarity=0.364 Sum_probs=56.8
Q ss_pred hHHHHHHHHHHHhhCC-CCCCCccHHHHhcchh--cc---CC-HHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 236 VVDIRRLGKRFRKLDL-DNSGALSIDEFMSLPE--LQ---QN-PLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~-d~~G~Is~~el~~l~~--~~---~~-~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
+..+..+..+|+.||+ +++|+|+..||+.++. ++ .. ..++.+++.+|.|+||.|+|+||+.++..+
T Consensus 4 E~ai~~l~~~F~~fd~~~~~g~i~~~ELk~ll~~elg~~ls~~~~v~~mi~~~D~d~DG~I~F~EF~~l~~~l 76 (89)
T cd05022 4 EKAIETLVSNFHKASVKGGKESLTASEFQELLTQQLPHLLKDVEGLEEKMKNLDVNQDSKLSFEEFWELIGEL 76 (89)
T ss_pred HHHHHHHHHHHHHHhCCCCCCeECHHHHHHHHHHHhhhhccCHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHH
Confidence 4566789999999999 9999999999999643 33 24 679999999999999999999999998765
No 35
>PLN02964 phosphatidylserine decarboxylase
Probab=98.47 E-value=6.7e-07 Score=95.37 Aligned_cols=114 Identities=18% Similarity=0.239 Sum_probs=82.0
Q ss_pred eeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcc-hhcc----CCH---HHHHHHHHhcCCCCCc
Q psy4132 217 INFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSL-PELQ----QNP---LVQRVIDIFDEDRNGE 288 (473)
Q Consensus 217 I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l-~~~~----~~~---~~~~l~~~~D~d~dG~ 288 (473)
+++++...... ..+......+.++++++|..+|+|++|++ +..+ ..++ ... .++++|+.+|.|++|.
T Consensus 121 ~s~n~lv~~~e-~~~t~f~~kqi~elkeaF~lfD~dgdG~i----Lg~ilrslG~~~pte~e~~fi~~mf~~~D~DgdG~ 195 (644)
T PLN02964 121 LSKNTLVGYCE-LDLFDFVTQEPESACESFDLLDPSSSNKV----VGSIFVSCSIEDPVETERSFARRILAIVDYDEDGQ 195 (644)
T ss_pred CCHHHhhhhee-ecHhhccHHHHHHHHHHHHHHCCCCCCcC----HHHHHHHhCCCCCCHHHHHHHHHHHHHhCCCCCCe
Confidence 45555444332 11123345678999999999999999997 3332 2222 112 2689999999999999
Q ss_pred ccHHHHHHHHhhcccCCCcHHHHHHHhHHhcCCCCchhhHhhHHHHHH
Q psy4132 289 VDFKEFIQGVSQFSVKGDRESKLKFAFRIYDIDNDDDYYQALGNELIA 336 (473)
Q Consensus 289 I~~~EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~ 336 (473)
|+|+||+.++..+ .....++++..+|+.||+|++|.+..+|+.+++.
T Consensus 196 IdfdEFl~lL~~l-g~~~seEEL~eaFk~fDkDgdG~Is~dEL~~vL~ 242 (644)
T PLN02964 196 LSFSEFSDLIKAF-GNLVAANKKEELFKAADLNGDGVVTIDELAALLA 242 (644)
T ss_pred EcHHHHHHHHHHh-ccCCCHHHHHHHHHHhCCCCCCcCCHHHHHHHHH
Confidence 9999999999876 3456788999999999999997777754444433
No 36
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately.S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=98.47 E-value=3.1e-07 Score=74.23 Aligned_cols=67 Identities=24% Similarity=0.393 Sum_probs=55.3
Q ss_pred chHHHHHHHHHHHhhC-CCCCC-CccHHHHhcchhc------c---CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 235 MVVDIRRLGKRFRKLD-LDNSG-ALSIDEFMSLPEL------Q---QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D-~d~~G-~Is~~el~~l~~~------~---~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
.+..+..+.++|..|| .|++| +|+..||+.++.. . ....++++++.+|.|++|.|+|+||+.++..+
T Consensus 5 le~a~~~~~~~F~~~dd~dgdg~~Is~~EL~~ll~~~~~~~~~~~~~~~~v~~i~~elD~n~dG~Idf~EF~~l~~~l 82 (93)
T cd05026 5 LEGAMDTLIRIFHNYSGKEGDRYKLSKGELKELLQRELTDFLSSQKDPMLVDKIMNDLDSNKDNEVDFNEFVVLVAAL 82 (93)
T ss_pred HHHHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHhHHhcccccCHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHH
Confidence 3456678999999999 78998 5999999996522 1 12358999999999999999999999998765
No 37
>KOG0038|consensus
Probab=98.43 E-value=5.3e-07 Score=76.20 Aligned_cols=113 Identities=19% Similarity=0.311 Sum_probs=82.4
Q ss_pred hhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCcc
Q psy4132 179 LMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALS 258 (473)
Q Consensus 179 ~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is 258 (473)
..++...|-+|-.+|-.. .+-.. +..||+|.++|++|+.+++- ........-+..-+|+.+|-|++++|.
T Consensus 57 p~e~i~kMPELkenpfk~--ri~e~-----FSeDG~GnlsfddFlDmfSV---~sE~APrdlK~~YAFkIYDfd~D~~i~ 126 (189)
T KOG0038|consen 57 PFELIEKMPELKENPFKR--RICEV-----FSEDGRGNLSFDDFLDMFSV---FSEMAPRDLKAKYAFKIYDFDGDEFIG 126 (189)
T ss_pred cHHHHhhChhhhcChHHH--HHHHH-----hccCCCCcccHHHHHHHHHH---HHhhChHHhhhhheeEEeecCCCCccc
Confidence 345555666677777655 33333 34589999999999998871 112234445677799999999999999
Q ss_pred HHHHhcc-hhcc---CCH-----HHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 259 IDEFMSL-PELQ---QNP-----LVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 259 ~~el~~l-~~~~---~~~-----~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
..+|... ..+. .++ .+++++.+.|.|+||+++|.||-+++.+.
T Consensus 127 ~~DL~~~l~~lTr~eLs~eEv~~i~ekvieEAD~DgDgkl~~~eFe~~i~ra 178 (189)
T KOG0038|consen 127 HDDLEKTLTSLTRDELSDEEVELICEKVIEEADLDGDGKLSFAEFEHVILRA 178 (189)
T ss_pred HHHHHHHHHHHhhccCCHHHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHhC
Confidence 9999883 2222 111 26889999999999999999999988654
No 38
>cd05027 S-100B S-100B: S-100B domain found in proteins similar to S100B. S100B is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100B group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100B is most abundant in glial cells of the central nervous system, predominately in astrocytes. S100B is involved in signal transduction via the inhibition of protein phoshorylation, regulation of enzyme activity and by affecting the calcium homeostasis. Upon calcium binding the S100B homodimer changes conformation to expose a hydrophobic cleft, which represents the interaction site of S100B with its more than 20 known target proteins. These target proteins include several cellular architecture proteins such as tubulin and GFAP; S100B can inhibit polymerization of these oligomeric molecules. Furthermore, S100B i
Probab=98.43 E-value=5.3e-07 Score=71.96 Aligned_cols=66 Identities=24% Similarity=0.394 Sum_probs=54.9
Q ss_pred hHHHHHHHHHHHhhC-CCCCC-CccHHHHhcchhc------cC--C-HHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 236 VVDIRRLGKRFRKLD-LDNSG-ALSIDEFMSLPEL------QQ--N-PLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D-~d~~G-~Is~~el~~l~~~------~~--~-~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
+..+..++++|+.|| ++++| +|+..||+.++.. +. . ..++++++.+|.|++|.|+|+||+.++...
T Consensus 4 e~~~~~l~~aF~~fD~~dgdG~~I~~~eL~~ll~~~~~~~lg~~~~~~~v~~~i~~~D~n~dG~v~f~eF~~li~~~ 80 (88)
T cd05027 4 EKAMVALIDVFHQYSGREGDKHKLKKSELKELINNELSHFLEEIKEQEVVDKVMETLDSDGDGECDFQEFMAFVAMV 80 (88)
T ss_pred HHHHHHHHHHHHHhcccCCCcCEECHHHHHHHHHHHhHHHhcCCCCHHHHHHHHHHhCCCCCCcCcHHHHHHHHHHH
Confidence 345678999999998 79999 5999999996443 32 2 348999999999999999999999988654
No 39
>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=98.39 E-value=7.8e-07 Score=71.77 Aligned_cols=66 Identities=27% Similarity=0.422 Sum_probs=55.4
Q ss_pred hHHHHHHHHHHHhhC-CCCCCC-ccHHHHhcchh--cc-------CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 236 VVDIRRLGKRFRKLD-LDNSGA-LSIDEFMSLPE--LQ-------QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D-~d~~G~-Is~~el~~l~~--~~-------~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
+.-.+.++++|+.|| .+++|+ |+..||+.++. ++ ....++.+++.+|.+++|.|+|++|+.++..+
T Consensus 5 e~~~~~l~~~F~~fDd~dg~G~~Is~~El~~~l~~~lg~~~~~~~s~~~v~~i~~~~D~d~~G~I~f~eF~~l~~~~ 81 (92)
T cd05025 5 ETAMETLINVFHAHSGKEGDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELDENGDGEVDFQEFVVLVAAL 81 (92)
T ss_pred HHHHHHHHHHHHHHhcccCCCCeECHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHCCCCCCcCcHHHHHHHHHHH
Confidence 445678999999997 999995 99999999753 22 23458999999999999999999999988765
No 40
>cd00252 SPARC_EC SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate cell-matrix interactions; binds to such proteins as collagen and vitronectin and binds to endothelial cells thus inhibiting cellular proliferation. The EC domain interacts with a follistatin-like (FS) domain which appears to stabilize Ca2+ binding. The two EF-hands interact canonically but their conserved disulfide bonds confer a tight association between the EF-hand pair and an acid/amphiphilic N-terminal helix. Proposed active form involves a Ca2+ dependent symmetric homodimerization of EC-FS modules.
Probab=98.34 E-value=1.2e-06 Score=73.47 Aligned_cols=62 Identities=19% Similarity=0.294 Sum_probs=53.8
Q ss_pred HHHHHHHHHHHhhCCCCCCCccHHHHhcchhccCCHHHHHHHHHhcCCCCCcccHHHHHHHH
Q psy4132 237 VDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQNPLVQRVIDIFDEDRNGEVDFKEFIQGV 298 (473)
Q Consensus 237 ~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l 298 (473)
.....+..+|..+|.|++|+|+.+||..+........+..++..+|.|+||.|+++||+..+
T Consensus 45 ~~~~~l~w~F~~lD~d~DG~Ls~~EL~~~~l~~~e~~~~~f~~~~D~n~Dg~IS~~Ef~~cl 106 (116)
T cd00252 45 MCKDPVGWMFNQLDGNYDGKLSHHELAPIRLDPNEHCIKPFFESCDLDKDGSISLDEWCYCF 106 (116)
T ss_pred HHHHHHHHHHHHHCCCCCCcCCHHHHHHHHccchHHHHHHHHHHHCCCCCCCCCHHHHHHHH
Confidence 45678999999999999999999999987622234457899999999999999999999988
No 41
>cd05023 S-100A11 S-100A11: S-100A11 domain found in proteins similar to S100A11. S100A11 is a member of the S-100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A11 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 . S100 proteins have also been associated with a variety of pathological events, including neoplastic transformation and neurodegenerative diseases such as Alzheimer's, usually via over expression of the protein. S100A11 is expressed in smooth muscle and other tissues and involves in calcium-dependent membrane aggregation, which is important for cell vesiculation . As is the case for many other S100 proteins, S
Probab=98.33 E-value=1.2e-06 Score=70.04 Aligned_cols=67 Identities=25% Similarity=0.420 Sum_probs=55.4
Q ss_pred chHHHHHHHHHHHh-hCCCCCC-CccHHHHhcchhcc---------CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 235 MVVDIRRLGKRFRK-LDLDNSG-ALSIDEFMSLPELQ---------QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 235 ~~~~~~~l~~~F~~-~D~d~~G-~Is~~el~~l~~~~---------~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
.+..+..|..+|+. +|.+++| +|+.+||+.++... ....++.+++.+|.|+||.|+|+||+.++..+
T Consensus 4 le~~i~~l~~~F~~y~~~dg~~~~Ls~~Elk~ll~~e~~~~~~~~~~~~~~~~ll~~~D~d~DG~I~f~EF~~l~~~l 81 (89)
T cd05023 4 TERCIESLIAVFQKYAGKDGDSYQLSKTEFLSFMNTELASFTKNQKDPGVLDRMMKKLDLNSDGQLDFQEFLNLIGGL 81 (89)
T ss_pred HHHHHHHHHHHHHHHhccCCCcCeECHHHHHHHHHHhhhHhhcCCCCHHHHHHHHHHcCCCCCCcCcHHHHHHHHHHH
Confidence 34567789999999 8898976 99999999964321 13468999999999999999999999988655
No 42
>PLN02964 phosphatidylserine decarboxylase
Probab=98.33 E-value=9.2e-07 Score=94.35 Aligned_cols=99 Identities=19% Similarity=0.307 Sum_probs=77.1
Q ss_pred HHHHHHHHHHHHhhhh---hhhHHHHHHHHh-hhhhhhhh-hhhcccccccccCCCCCceeHHHHHHHHccccccccchH
Q psy4132 163 KETSSNINNAFKDLNQ---LMSMAKEMVEIS-KNISNKII-NRQGEITEDDSNKDRDGKINFQEFCSIVGNTDIHKKMVV 237 (473)
Q Consensus 163 ~~~~~~l~eaF~~lD~---~~e~~~~l~~lg-~~~~~~~~-~~~~~~~~~~~D~d~dG~I~f~EF~~~~~~~~~~~~~~~ 237 (473)
+.+..+++++|+.+|. -..+...++++| ..++.... .+..++.. +|.|++|.|+|+||+.++... ....
T Consensus 139 ~kqi~elkeaF~lfD~dgdG~iLg~ilrslG~~~pte~e~~fi~~mf~~--~D~DgdG~IdfdEFl~lL~~l----g~~~ 212 (644)
T PLN02964 139 TQEPESACESFDLLDPSSSNKVVGSIFVSCSIEDPVETERSFARRILAI--VDYDEDGQLSFSEFSDLIKAF----GNLV 212 (644)
T ss_pred HHHHHHHHHHHHHHCCCCCCcCHHHHHHHhCCCCCCHHHHHHHHHHHHH--hCCCCCCeEcHHHHHHHHHHh----ccCC
Confidence 3345789999999999 234788899999 57777611 14555553 899999999999999988721 1234
Q ss_pred HHHHHHHHHHhhCCCCCCCccHHHHhcchh
Q psy4132 238 DIRRLGKRFRKLDLDNSGALSIDEFMSLPE 267 (473)
Q Consensus 238 ~~~~l~~~F~~~D~d~~G~Is~~el~~l~~ 267 (473)
..+++.++|+.+|+|++|+|+.+||..++.
T Consensus 213 seEEL~eaFk~fDkDgdG~Is~dEL~~vL~ 242 (644)
T PLN02964 213 AANKKEELFKAADLNGDGVVTIDELAALLA 242 (644)
T ss_pred CHHHHHHHHHHhCCCCCCcCCHHHHHHHHH
Confidence 567899999999999999999999999643
No 43
>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=98.29 E-value=1.7e-06 Score=70.04 Aligned_cols=65 Identities=26% Similarity=0.424 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHhhCC-CC-CCCccHHHHhcchhc------c---CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 237 VDIRRLGKRFRKLDL-DN-SGALSIDEFMSLPEL------Q---QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 237 ~~~~~l~~~F~~~D~-d~-~G~Is~~el~~l~~~------~---~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
.....++.+|..||. |+ +|+|+..||+.++.. + ....++.+++.+|.+++|.|+|+||+.++...
T Consensus 5 ~~~~~l~~~F~~~D~~dg~dG~Is~~El~~~l~~~~g~~lg~~~s~~ei~~~~~~~D~~~dg~I~f~eF~~l~~~~ 80 (94)
T cd05031 5 HAMESLILTFHRYAGKDGDKNTLSRKELKKLMEKELSEFLKNQKDPMAVDKIMKDLDQNRDGKVNFEEFVSLVAGL 80 (94)
T ss_pred HHHHHHHHHHHHHhccCCCCCeECHHHHHHHHHHHhHHHhhccccHHHHHHHHHHhCCCCCCcCcHHHHHHHHHHH
Confidence 446689999999997 97 799999999996432 2 23458999999999999999999999988654
No 44
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=98.29 E-value=2.3e-06 Score=69.59 Aligned_cols=67 Identities=21% Similarity=0.332 Sum_probs=57.1
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhcch-hccC-CHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMSLP-ELQQ-NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~-~~~~-~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
+..+...++.+|+.+|.+++|.|+.+|++.++ ..+. ...++.++..+|.+++|.|+|+||+.++...
T Consensus 5 s~~~~~~l~~~F~~~D~d~~G~Is~~el~~~l~~~~~~~~ev~~i~~~~d~~~~g~I~~~eF~~~~~~~ 73 (96)
T smart00027 5 SPEDKAKYEQIFRSLDKNQDGTVTGAQAKPILLKSGLPQTLLAKIWNLADIDNDGELDKDEFALAMHLI 73 (96)
T ss_pred CHHHHHHHHHHHHHhCCCCCCeEeHHHHHHHHHHcCCCHHHHHHHHHHhcCCCCCCcCHHHHHHHHHHH
Confidence 45678899999999999999999999999963 3333 3458899999999999999999999988755
No 45
>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=98.28 E-value=1.8e-06 Score=69.04 Aligned_cols=66 Identities=26% Similarity=0.423 Sum_probs=56.2
Q ss_pred hHHHHHHHHHHHhhCC--CCCCCccHHHHhcchh--cc-------CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 236 VVDIRRLGKRFRKLDL--DNSGALSIDEFMSLPE--LQ-------QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~--d~~G~Is~~el~~l~~--~~-------~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
+.+++.++.+|..+|. +++|.|+.+||..+.. .+ ....++.++..+|.+++|.|+|++|+.++...
T Consensus 4 ~~~~~~l~~~F~~~D~~~~~~G~Is~~el~~~l~~~~g~~~~~~~~~~ei~~i~~~~d~~~~g~I~f~eF~~~~~~~ 80 (88)
T cd00213 4 EKAIETIIDVFHKYSGKEGDKDTLSKKELKELLETELPNFLKNQKDPEAVDKIMKDLDVNKDGKVDFQEFLVLIGKL 80 (88)
T ss_pred HHHHHHHHHHHHHHhhccCCCCcCcHHHHHHHHHHHhhhhccCCCCHHHHHHHHHHhccCCCCcCcHHHHHHHHHHH
Confidence 4577889999999999 8999999999999653 22 13568999999999999999999999988654
No 46
>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=98.24 E-value=2e-06 Score=68.65 Aligned_cols=65 Identities=20% Similarity=0.225 Sum_probs=47.1
Q ss_pred HHHHHHhHHhcC-CCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCH-HHHHHHHHHhccCCCCC
Q psy4132 309 SKLKFAFRIYDI-DNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSP-EDLLNSCLALDKLPDSP 386 (473)
Q Consensus 309 e~l~~~F~~~D~-d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~-~ei~~~~~~~D~~~dg~ 386 (473)
..+..+|+.||+ +++|.+... ++..+|...+ | +.++. +++.++++.+|.|+||.
T Consensus 8 ~~l~~~F~~fd~~~~~g~i~~~---ELk~ll~~el--------------------g-~~ls~~~~v~~mi~~~D~d~DG~ 63 (89)
T cd05022 8 ETLVSNFHKASVKGGKESLTAS---EFQELLTQQL--------------------P-HLLKDVEGLEEKMKNLDVNQDSK 63 (89)
T ss_pred HHHHHHHHHHhCCCCCCeECHH---HHHHHHHHHh--------------------h-hhccCHHHHHHHHHHhCCCCCCC
Confidence 457889999999 888655554 3443333211 1 13666 88999999999999999
Q ss_pred eeHHhhhccce
Q psy4132 387 IYLKTYSSGVK 397 (473)
Q Consensus 387 Is~~EF~~~~~ 397 (473)
|+|+||...+.
T Consensus 64 I~F~EF~~l~~ 74 (89)
T cd05022 64 LSFEEFWELIG 74 (89)
T ss_pred CcHHHHHHHHH
Confidence 99999986554
No 47
>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=98.23 E-value=2.5e-06 Score=68.14 Aligned_cols=67 Identities=19% Similarity=0.359 Sum_probs=56.1
Q ss_pred chHHHHHHHHHHHhhCC-CC-CCCccHHHHhcchh----ccC---CHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 235 MVVDIRRLGKRFRKLDL-DN-SGALSIDEFMSLPE----LQQ---NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~-d~-~G~Is~~el~~l~~----~~~---~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
.+..+..+..+|..+|. ++ +|+|+.+||+.++. ++. ...++++++.+|.|++|.|+|+||+.++..+
T Consensus 5 ~e~~~~~~i~~F~~y~~~~~~~g~Is~~EL~~~l~~~~~lg~k~t~~ev~~m~~~~D~d~dG~Idf~EFv~lm~~l 80 (88)
T cd05029 5 LDQAIGLLVAIFHKYSGREGDKNTLSKKELKELIQKELTIGSKLQDAEIAKLMEDLDRNKDQEVNFQEYVTFLGAL 80 (88)
T ss_pred HHHHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH
Confidence 35567788999999998 77 89999999999753 342 3458999999999999999999999988655
No 48
>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=98.22 E-value=3.1e-06 Score=63.58 Aligned_cols=65 Identities=25% Similarity=0.133 Sum_probs=44.4
Q ss_pred HHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeH
Q psy4132 310 KLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYL 389 (473)
Q Consensus 310 ~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~ 389 (473)
+++.+|+.||.|++|.+... ++..++....... +. ....+.+..+|+.+|+|+||.|++
T Consensus 1 ~l~~~F~~~D~d~~G~i~~~---el~~~~~~~~~~~----~~--------------~~~~~~~~~~~~~~D~d~dG~i~~ 59 (66)
T PF13499_consen 1 RLKEAFKKFDKDGDGYISKE---ELRRALKHLGRDM----SD--------------EESDEMIDQIFREFDTDGDGRISF 59 (66)
T ss_dssp HHHHHHHHHSTTSSSEEEHH---HHHHHHHHTTSHS----TH--------------HHHHHHHHHHHHHHTTTSSSSEEH
T ss_pred CHHHHHHHHcCCccCCCCHH---HHHHHHHHhcccc----cH--------------HHHHHHHHHHHHHhCCCCcCCCcH
Confidence 47889999999999666664 4444444322110 00 122345667799999999999999
Q ss_pred Hhhhcc
Q psy4132 390 KTYSSG 395 (473)
Q Consensus 390 ~EF~~~ 395 (473)
+||..+
T Consensus 60 ~Ef~~~ 65 (66)
T PF13499_consen 60 DEFLNF 65 (66)
T ss_dssp HHHHHH
T ss_pred HHHhcc
Confidence 999864
No 49
>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=98.21 E-value=2.8e-06 Score=63.79 Aligned_cols=59 Identities=27% Similarity=0.447 Sum_probs=50.1
Q ss_pred HHHHHhhCCCCCCCccHHHHhcch-hcc-CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 243 GKRFRKLDLDNSGALSIDEFMSLP-ELQ-QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 243 ~~~F~~~D~d~~G~Is~~el~~l~-~~~-~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
+++|+.+|.+++|.|+.+|++.++ ..+ ....++.++..+|.+++|.|+|+||+.++...
T Consensus 2 ~~~F~~~D~~~~G~i~~~el~~~l~~~g~~~~~~~~i~~~~d~~~~g~i~~~ef~~~~~~~ 62 (67)
T cd00052 2 DQIFRSLDPDGDGLISGDEARPFLGKSGLPRSVLAQIWDLADTDKDGKLDKEEFAIAMHLI 62 (67)
T ss_pred hHHHHHhCCCCCCcCcHHHHHHHHHHcCCCHHHHHHHHHHhcCCCCCcCCHHHHHHHHHHH
Confidence 578999999999999999999853 333 23458899999999999999999999988654
No 50
>KOG2562|consensus
Probab=98.14 E-value=2.8e-05 Score=77.96 Aligned_cols=168 Identities=20% Similarity=0.263 Sum_probs=110.9
Q ss_pred ccCCCCCceeHHHHHHH-----Hcc--------ccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcch-hccCCHHH
Q psy4132 209 SNKDRDGKINFQEFCSI-----VGN--------TDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLP-ELQQNPLV 274 (473)
Q Consensus 209 ~D~d~dG~I~f~EF~~~-----~~~--------~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~-~~~~~~~~ 274 (473)
+++.+.|+|+..+.+.. |.. +...-.....-..+.-.|..+|+|.+|.|+.++|+... .......+
T Consensus 234 ~nrs~tG~iti~el~~snll~~l~~l~eEed~nq~~~~FS~e~f~viy~kFweLD~Dhd~lidk~~L~ry~d~tlt~~iv 313 (493)
T KOG2562|consen 234 LNRSRTGRITIQELLRSNLLDALLELDEEEDINQVTRYFSYEHFYVIYCKFWELDTDHDGLIDKEDLKRYGDHTLTERIV 313 (493)
T ss_pred eCCccCCceeHHHHHHhHHHHHHHHHHHHhhhhhhhhheeHHHHHHHHHHHhhhccccccccCHHHHHHHhccchhhHHH
Confidence 58999999999886542 210 00000111222233344888999999999999999953 33446678
Q ss_pred HHHHHH----hcCCCCCcccHHHHHHHHhhcccCCCcHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccc
Q psy4132 275 QRVIDI----FDEDRNGEVDFKEFIQGVSQFSVKGDRESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTML 350 (473)
Q Consensus 275 ~~l~~~----~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~ 350 (473)
+++|.. .-.-.+|+++|++|+.++... ........+.--|+..|.+++|-+...+++-+.+.....+...
T Consensus 314 dRIFs~v~r~~~~~~eGrmdykdFv~FilA~-e~k~t~~SleYwFrclDld~~G~Lt~~el~~fyeeq~~rm~~~----- 387 (493)
T KOG2562|consen 314 DRIFSQVPRGFTVKVEGRMDYKDFVDFILAE-EDKDTPASLEYWFRCLDLDGDGILTLNELRYFYEEQLQRMECM----- 387 (493)
T ss_pred HHHHhhccccceeeecCcccHHHHHHHHHHh-ccCCCccchhhheeeeeccCCCcccHHHHHHHHHHHHHHHHhc-----
Confidence 999993 334578999999999998877 4445567788899999999997777766655555544433322
Q ss_pred hhHHHHHHHhhhCCCCCCHHHHH-HHHHHhccCCCCCeeHHhhhc
Q psy4132 351 LTDAYCRINRARGLELLSPEDLL-NSCLALDKLPDSPIYLKTYSS 394 (473)
Q Consensus 351 l~d~~~~~~~~~g~~~ls~~ei~-~~~~~~D~~~dg~Is~~EF~~ 394 (473)
|.+.++-+++. +++..+-....++|++++|+.
T Consensus 388 ------------~~e~l~fed~l~qi~DMvkP~~~~kItLqDlk~ 420 (493)
T KOG2562|consen 388 ------------GQEALPFEDALCQIRDMVKPEDENKITLQDLKG 420 (493)
T ss_pred ------------CCCcccHHHHHHHHHHHhCccCCCceeHHHHhh
Confidence 22334444443 344444444488999999974
No 51
>KOG4251|consensus
Probab=98.14 E-value=1.5e-05 Score=73.32 Aligned_cols=60 Identities=15% Similarity=0.155 Sum_probs=34.0
Q ss_pred HHHHHHHhhhh---hhhHHHHHHHHhhhhh-hhhhhhhc--ccccccccCCCCCceeHHHHHHHHc
Q psy4132 168 NINNAFKDLNQ---LMSMAKEMVEISKNIS-NKIINRQG--EITEDDSNKDRDGKINFQEFCSIVG 227 (473)
Q Consensus 168 ~l~eaF~~lD~---~~e~~~~l~~lg~~~~-~~~~~~~~--~~~~~~~D~d~dG~I~f~EF~~~~~ 227 (473)
.|..+|+..|. -.-.+++|..+...-+ +-+.+... .+....+|+|+||.|+|+||..-+.
T Consensus 102 klmviFsKvDVNtDrkisAkEmqrwImektaEHfqeameeSkthFraVDpdgDGhvsWdEykvkFl 167 (362)
T KOG4251|consen 102 KLMVIFSKVDVNTDRKISAKEMQRWIMEKTAEHFQEAMEESKTHFRAVDPDGDGHVSWDEYKVKFL 167 (362)
T ss_pred HHHHHHhhcccCccccccHHHHHHHHHHHHHHHHHHHHhhhhhheeeeCCCCCCceehhhhhhHHH
Confidence 47778887776 3444566654443333 32222211 2334456888888888888876443
No 52
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately.S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=98.02 E-value=1.3e-05 Score=64.76 Aligned_cols=71 Identities=21% Similarity=0.159 Sum_probs=48.2
Q ss_pred HHHHHHhHHhc-CCCCch-hhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCC
Q psy4132 309 SKLKFAFRIYD-IDNDDD-YYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSP 386 (473)
Q Consensus 309 e~l~~~F~~~D-~d~dg~-~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~ 386 (473)
..+..+|..|| +|++|+ ++. .||..++...... ...+ ..++.++.++++.+|.|+||.
T Consensus 10 ~~~~~~F~~~dd~dgdg~~Is~---~EL~~ll~~~~~~---------------~~~~--~~~~~~v~~i~~elD~n~dG~ 69 (93)
T cd05026 10 DTLIRIFHNYSGKEGDRYKLSK---GELKELLQRELTD---------------FLSS--QKDPMLVDKIMNDLDSNKDNE 69 (93)
T ss_pred HHHHHHHHHHHccCCCCCEECH---HHHHHHHHHHhHH---------------hccc--ccCHHHHHHHHHHhCCCCCCC
Confidence 45677899998 678864 555 4444444331110 0011 247788999999999999999
Q ss_pred eeHHhhhccceee
Q psy4132 387 IYLKTYSSGVKVL 399 (473)
Q Consensus 387 Is~~EF~~~~~vl 399 (473)
|+++||+..+..+
T Consensus 70 Idf~EF~~l~~~l 82 (93)
T cd05026 70 VDFNEFVVLVAAL 82 (93)
T ss_pred CCHHHHHHHHHHH
Confidence 9999998766533
No 53
>cd05027 S-100B S-100B: S-100B domain found in proteins similar to S100B. S100B is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100B group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100B is most abundant in glial cells of the central nervous system, predominately in astrocytes. S100B is involved in signal transduction via the inhibition of protein phoshorylation, regulation of enzyme activity and by affecting the calcium homeostasis. Upon calcium binding the S100B homodimer changes conformation to expose a hydrophobic cleft, which represents the interaction site of S100B with its more than 20 known target proteins. These target proteins include several cellular architecture proteins such as tubulin and GFAP; S100B can inhibit polymerization of these oligomeric molecules. Furthermore, S100B i
Probab=98.00 E-value=1.8e-05 Score=63.10 Aligned_cols=69 Identities=19% Similarity=0.151 Sum_probs=49.2
Q ss_pred HHHHHHhHHhc-CCCCch-hhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCC
Q psy4132 309 SKLKFAFRIYD-IDNDDD-YYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSP 386 (473)
Q Consensus 309 e~l~~~F~~~D-~d~dg~-~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~ 386 (473)
..++.+|+.|| +|++|. +.. .++..+|..-++. ..| ...+++++.++++.+|.|+||.
T Consensus 8 ~~l~~aF~~fD~~dgdG~~I~~---~eL~~ll~~~~~~----------------~lg-~~~~~~~v~~~i~~~D~n~dG~ 67 (88)
T cd05027 8 VALIDVFHQYSGREGDKHKLKK---SELKELINNELSH----------------FLE-EIKEQEVVDKVMETLDSDGDGE 67 (88)
T ss_pred HHHHHHHHHhcccCCCcCEECH---HHHHHHHHHHhHH----------------Hhc-CCCCHHHHHHHHHHhCCCCCCc
Confidence 45789999998 788863 555 4555444431110 112 1368889999999999999999
Q ss_pred eeHHhhhccce
Q psy4132 387 IYLKTYSSGVK 397 (473)
Q Consensus 387 Is~~EF~~~~~ 397 (473)
|+|+||...+.
T Consensus 68 v~f~eF~~li~ 78 (88)
T cd05027 68 CDFQEFMAFVA 78 (88)
T ss_pred CcHHHHHHHHH
Confidence 99999986554
No 54
>KOG2643|consensus
Probab=97.99 E-value=1.8e-05 Score=78.72 Aligned_cols=181 Identities=17% Similarity=0.154 Sum_probs=81.4
Q ss_pred CCCCCCCccHHHHhcchhccCCHH--HHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCc--------------HHHHH-
Q psy4132 250 DLDNSGALSIDEFMSLPELQQNPL--VQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDR--------------ESKLK- 312 (473)
Q Consensus 250 D~d~~G~Is~~el~~l~~~~~~~~--~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~--------------~e~l~- 312 (473)
|.+.+|.|+..|..=+..+...+. ..--|+.||.|+||.|+.+||...+......... .-.+.
T Consensus 209 ~lg~~GLIsfSdYiFLlTlLS~p~~~F~IAFKMFD~dgnG~IdkeEF~~v~~li~sQ~~~g~~hrd~~tt~~s~~~~~ns 288 (489)
T KOG2643|consen 209 KLGESGLISFSDYIFLLTLLSIPERNFRIAFKMFDLDGNGEIDKEEFETVQQLIRSQTSVGVRHRDHFTTGNSFKVEVNS 288 (489)
T ss_pred EcCCCCeeeHHHHHHHHHHHccCcccceeeeeeeecCCCCcccHHHHHHHHHHHHhccccceecccCccccceehhhhhh
Confidence 334556666666555443332222 2334566666666666666665555433221110 00011
Q ss_pred -HHhHHhcCCCCchhhHhhHHHHHHHHhchh---------hcCCCccchhHHHHHHHhhhCCCCCCHH-HHHHHHHHhcc
Q psy4132 313 -FAFRIYDIDNDDDYYQALGNELIAALIEPL---------TSAGGTMLLTDAYCRINRARGLELLSPE-DLLNSCLALDK 381 (473)
Q Consensus 313 -~~F~~~D~d~dg~~~~~e~~el~~~L~~~~---------~~~~g~i~l~d~~~~~~~~~g~~~ls~~-ei~~~~~~~D~ 381 (473)
..-..|-+++++.++.++|.++++-|..-+ ....|.|+..|+-..+-...+....... .+.++-+.++.
T Consensus 289 aL~~yFFG~rg~~kLs~deF~~F~e~Lq~Eil~lEF~~~~~~~~g~Ise~DFA~~lL~~a~~n~~~k~~~lkrvk~kf~~ 368 (489)
T KOG2643|consen 289 ALLTYFFGKRGNGKLSIDEFLKFQENLQEEILELEFERFDKGDSGAISEVDFAELLLAYAGVNSKKKHKYLKRVKEKFKD 368 (489)
T ss_pred hHHHHhhccCCCccccHHHHHHHHHHHHHHHHHHHHHHhCcccccccCHHHHHHHHHHHcccchHhHHHHHHHHHHhccC
Confidence 112234555665666655555555444311 1122556666655555555442111111 12233445554
Q ss_pred CCCCCeeHHhhhccceeeeecccCcHHHHHHHHHHHhhCCCCCHHHHHHhhCCc
Q psy4132 382 LPDSPIYLKTYSSGVKVLQLKSCEDASFVEKTYEIVSQNVFVTVEQFSRLASVS 435 (473)
Q Consensus 382 ~~dg~Is~~EF~~~~~vl~~~~~~~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s 435 (473)
+ +-.||++||.+.++.+.... +-++ .+.=+...+..|+..+|++..+.-
T Consensus 369 ~-~~gISl~Ef~~Ff~Fl~~l~--dfd~--Al~fy~~Ag~~i~~~~f~raa~~v 417 (489)
T KOG2643|consen 369 D-GKGISLQEFKAFFRFLNNLN--DFDI--ALRFYHMAGASIDEKTFQRAAKVV 417 (489)
T ss_pred C-CCCcCHHHHHHHHHHHhhhh--HHHH--HHHHHHHcCCCCCHHHHHHHHHHh
Confidence 4 44566666666666554332 2121 111122234556666666665443
No 55
>KOG4251|consensus
Probab=97.89 E-value=0.0001 Score=67.83 Aligned_cols=189 Identities=15% Similarity=0.134 Sum_probs=105.3
Q ss_pred HHHHHHHHHHHhhCCCCCCCccHHHHhc-chhccCCH------HHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHH
Q psy4132 237 VDIRRLGKRFRKLDLDNSGALSIDEFMS-LPELQQNP------LVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRES 309 (473)
Q Consensus 237 ~~~~~l~~~F~~~D~d~~G~Is~~el~~-l~~~~~~~------~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e 309 (473)
...+.+..+|.+.|.+.+|+|+..|+++ ++...... ..+-.|+..|+|+||.|+|+||.--+..... -.+.
T Consensus 98 rsrrklmviFsKvDVNtDrkisAkEmqrwImektaEHfqeameeSkthFraVDpdgDGhvsWdEykvkFlaskg--hsek 175 (362)
T KOG4251|consen 98 RSRRKLMVIFSKVDVNTDRKISAKEMQRWIMEKTAEHFQEAMEESKTHFRAVDPDGDGHVSWDEYKVKFLASKG--HSEK 175 (362)
T ss_pred HHHHHHHHHHhhcccCccccccHHHHHHHHHHHHHHHHHHHHhhhhhheeeeCCCCCCceehhhhhhHHHhhcC--cchH
Confidence 4457899999999999999999999998 43322111 2345688899999999999999765544321 1222
Q ss_pred HHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcC-----CCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCC
Q psy4132 310 KLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSA-----GGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPD 384 (473)
Q Consensus 310 ~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~-----~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~d 384 (473)
....+.+.-|. ....+|-+++.+.++...... +-.++-.++...+.....- ..--.-+.++...+|+|+|
T Consensus 176 evadairlnee----lkVDeEtqevlenlkdRwyqaDsppadlllteeEflsFLHPEhSr-gmLrfmVkeivrdlDqdgD 250 (362)
T KOG4251|consen 176 EVADAIRLNEE----LKVDEETQEVLENLKDRWYQADSPPADLLLTEEEFLSFLHPEHSR-GMLRFMVKEIVRDLDQDGD 250 (362)
T ss_pred HHHHHhhccCc----ccccHHHHHHHHhhhhhhccccCchhhhhhhHHHHHHHcChHhhh-hhHHHHHHHHHHHhccCCC
Confidence 22222222111 112222244444443322111 1123334444443332110 0111224567889999999
Q ss_pred CCeeHHhhhccce-eeeeccc---CcHHHHHHH---HHHHhh--CCCCCHHHHHHhh
Q psy4132 385 SPIYLKTYSSGVK-VLQLKSC---EDASFVEKT---YEIVSQ--NVFVTVEQFSRLA 432 (473)
Q Consensus 385 g~Is~~EF~~~~~-vl~~~~~---~~~~~~~~~---~~~~~~--~~~ls~~e~a~~~ 432 (473)
..+|..||+++.- .+...+. ++-.+-.+. -++++. .|-+|++|+....
T Consensus 251 kqlSvpeFislpvGTVenqqgqdiddnwvkdRkkEFeElIDsNhDGivTaeELe~y~ 307 (362)
T KOG4251|consen 251 KQLSVPEFISLPVGTVENQQGQDIDDNWVKDRKKEFEELIDSNHDGIVTAEELEDYV 307 (362)
T ss_pred eeecchhhhcCCCcchhhhhccchHHHHHHHHHHHHHHHhhcCCccceeHHHHHhhc
Confidence 9999999998764 2222222 222222222 344444 3678888877654
No 56
>KOG4666|consensus
Probab=97.88 E-value=3.7e-05 Score=73.60 Aligned_cols=152 Identities=15% Similarity=0.199 Sum_probs=102.1
Q ss_pred eHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcchhccCCHHHHHHHHHhcCCCCCcccHHHHHHH
Q psy4132 218 NFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQNPLVQRVIDIFDEDRNGEVDFKEFIQG 297 (473)
Q Consensus 218 ~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~~~~~~~l~~~~D~d~dG~I~~~EF~~~ 297 (473)
++-||..... .+......-+..+...-..--..+.+.|...||..-...........+|..||.+++|.++|.|.+..
T Consensus 207 ~l~eF~~~~r--~lkL~~~gl~k~ld~y~~var~~kg~~igi~efa~~l~vpvsd~l~~~f~LFde~~tg~~D~re~v~~ 284 (412)
T KOG4666|consen 207 SLPEFVAKRR--VLKLPLVGLIKKLDGYVYVAREAKGPDIGIVEFAVNLRVPVSDKLAPTFMLFDEGTTGNGDYRETVKT 284 (412)
T ss_pred chHHHHHHHh--ccCCChHHHHHHHhhHHHHHHhccCCCcceeEeeeeeecchhhhhhhhhheecCCCCCcccHHHHhhh
Confidence 4667766544 12222222222332222222334556777777766444444455778999999999999999999999
Q ss_pred HhhcccCCCcHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHH
Q psy4132 298 VSQFSVKGDRESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCL 377 (473)
Q Consensus 298 l~~~~~~~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~ 377 (473)
++.++......+.++-+|+.|+.+.| |++.+ +++. +.+..+.|++ .-++-.+|.
T Consensus 285 lavlc~p~~t~~iiq~afk~f~v~eD-g~~ge--~~ls--------------------~ilq~~lgv~---~l~v~~lf~ 338 (412)
T KOG4666|consen 285 LAVLCGPPVTPVIIQYAFKRFSVAED-GISGE--HILS--------------------LILQVVLGVE---VLRVPVLFP 338 (412)
T ss_pred heeeeCCCCcHHHHHHHHHhcccccc-cccch--HHHH--------------------HHHHHhcCcc---eeeccccch
Confidence 99999999999999999999999988 55553 3333 3334444532 223445677
Q ss_pred HhccCCCCCeeHHhhhccce
Q psy4132 378 ALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 378 ~~D~~~dg~Is~~EF~~~~~ 397 (473)
.++...||+|++.+|.+...
T Consensus 339 ~i~q~d~~ki~~~~f~~fa~ 358 (412)
T KOG4666|consen 339 SIEQKDDPKIYASNFRKFAA 358 (412)
T ss_pred hhhcccCcceeHHHHHHHHH
Confidence 88888899999999987553
No 57
>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=97.85 E-value=4.4e-05 Score=61.51 Aligned_cols=70 Identities=16% Similarity=0.116 Sum_probs=48.2
Q ss_pred HHHHHHHhHHhc-CCCCc-hhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCC
Q psy4132 308 ESKLKFAFRIYD-IDNDD-DYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDS 385 (473)
Q Consensus 308 ~e~l~~~F~~~D-~d~dg-~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg 385 (473)
.+.++++|+.|| +|++| .+... ++..+|...+.. ..+ ...+++++.++++.+|.|++|
T Consensus 8 ~~~l~~~F~~fDd~dg~G~~Is~~---El~~~l~~~lg~----------------~~~-~~~s~~~v~~i~~~~D~d~~G 67 (92)
T cd05025 8 METLINVFHAHSGKEGDKYKLSKK---ELKDLLQTELSD----------------FLD-AQKDADAVDKIMKELDENGDG 67 (92)
T ss_pred HHHHHHHHHHHhcccCCCCeECHH---HHHHHHHHHHHH----------------Hcc-CCCCHHHHHHHHHHHCCCCCC
Confidence 356888999996 98886 35654 444444321100 001 025788999999999999999
Q ss_pred CeeHHhhhccce
Q psy4132 386 PIYLKTYSSGVK 397 (473)
Q Consensus 386 ~Is~~EF~~~~~ 397 (473)
.|++++|+..+.
T Consensus 68 ~I~f~eF~~l~~ 79 (92)
T cd05025 68 EVDFQEFVVLVA 79 (92)
T ss_pred cCcHHHHHHHHH
Confidence 999999986554
No 58
>KOG0041|consensus
Probab=97.83 E-value=4.3e-05 Score=68.31 Aligned_cols=66 Identities=24% Similarity=0.393 Sum_probs=57.1
Q ss_pred hHHHHHHHHHHHhhCCCCCCCccHHHHhcchhccCCH----HHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 236 VVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQNP----LVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~~~----~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
..++..+...|+.+|.+.||+|+..||+.++.....| -+..|+..+|.|.||+|+|.||+-++...
T Consensus 95 rkqIk~~~~~Fk~yDe~rDgfIdl~ELK~mmEKLgapQTHL~lK~mikeVded~dgklSfreflLIfrka 164 (244)
T KOG0041|consen 95 RKQIKDAESMFKQYDEDRDGFIDLMELKRMMEKLGAPQTHLGLKNMIKEVDEDFDGKLSFREFLLIFRKA 164 (244)
T ss_pred HHHHHHHHHHHHHhcccccccccHHHHHHHHHHhCCchhhHHHHHHHHHhhcccccchhHHHHHHHHHHH
Confidence 4688899999999999999999999999986554333 37899999999999999999998877654
No 59
>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=97.81 E-value=3.7e-05 Score=55.18 Aligned_cols=50 Identities=18% Similarity=0.165 Sum_probs=42.8
Q ss_pred CCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhccc
Q psy4132 346 GGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGV 396 (473)
Q Consensus 346 ~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~ 396 (473)
+|.|+..++..++ +..|...++++++..+|..+|.|++|.|+++||+..+
T Consensus 2 ~G~i~~~~~~~~l-~~~g~~~~s~~e~~~l~~~~D~~~~G~I~~~EF~~~~ 51 (54)
T PF13833_consen 2 DGKITREEFRRAL-SKLGIKDLSEEEVDRLFREFDTDGDGYISFDEFISMM 51 (54)
T ss_dssp SSEEEHHHHHHHH-HHTTSSSSCHHHHHHHHHHHTTSSSSSEEHHHHHHHH
T ss_pred cCEECHHHHHHHH-HHhCCCCCCHHHHHHHHHhcccCCCCCCCHHHHHHHH
Confidence 4788888988888 5556434999999999999999999999999998765
No 60
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=97.76 E-value=6.1e-05 Score=60.15 Aligned_cols=66 Identities=20% Similarity=0.383 Sum_probs=54.0
Q ss_pred hHHHHHHHHHHHhhCCC--CCCCccHHHHhcchh-c-c---C----CHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 236 VVDIRRLGKRFRKLDLD--NSGALSIDEFMSLPE-L-Q---Q----NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d--~~G~Is~~el~~l~~-~-~---~----~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
+..+..+...|+.++.. .+|+|+.+||+.++. . + . ...++.++..+|.+++|.|+|+||+.++..+
T Consensus 4 e~~i~~~~~~f~~y~~~~~~~~~Is~~El~~ll~~~~g~~~t~~~~~~~v~~i~~~~D~d~dG~I~f~eF~~~~~~~ 80 (88)
T cd05030 4 EKAIETIINVFHQYSVRKGHPDTLYKKEFKQLVEKELPNFLKKEKNQKAIDKIFEDLDTNQDGQLSFEEFLVLVIKV 80 (88)
T ss_pred HHHHHHHHHHHHHHhccCCCcccCCHHHHHHHHHHHhhHhhccCCCHHHHHHHHHHcCCCCCCcCcHHHHHHHHHHH
Confidence 44567788999999966 489999999999753 2 2 1 3458999999999999999999999988654
No 61
>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=97.75 E-value=5.4e-05 Score=56.66 Aligned_cols=61 Identities=18% Similarity=0.180 Sum_probs=45.1
Q ss_pred HHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHh
Q psy4132 312 KFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKT 391 (473)
Q Consensus 312 ~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~E 391 (473)
+.+|+.+|.|++|.+.. .++...+... | ++.+++.++++.+|.+++|.|+++|
T Consensus 2 ~~~F~~~D~~~~G~i~~-----------------------~el~~~l~~~-g---~~~~~~~~i~~~~d~~~~g~i~~~e 54 (67)
T cd00052 2 DQIFRSLDPDGDGLISG-----------------------DEARPFLGKS-G---LPRSVLAQIWDLADTDKDGKLDKEE 54 (67)
T ss_pred hHHHHHhCCCCCCcCcH-----------------------HHHHHHHHHc-C---CCHHHHHHHHHHhcCCCCCcCCHHH
Confidence 46899999988854444 3333333322 3 5788899999999999999999999
Q ss_pred hhccceee
Q psy4132 392 YSSGVKVL 399 (473)
Q Consensus 392 F~~~~~vl 399 (473)
|...+.++
T Consensus 55 f~~~~~~~ 62 (67)
T cd00052 55 FAIAMHLI 62 (67)
T ss_pred HHHHHHHH
Confidence 98877643
No 62
>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=97.69 E-value=0.00013 Score=58.14 Aligned_cols=65 Identities=18% Similarity=0.226 Sum_probs=45.3
Q ss_pred HHHHHhHHhcC-CCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhh--hCCCCCCHHHHHHHHHHhccCCCCC
Q psy4132 310 KLKFAFRIYDI-DNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRA--RGLELLSPEDLLNSCLALDKLPDSP 386 (473)
Q Consensus 310 ~l~~~F~~~D~-d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~--~g~~~ls~~ei~~~~~~~D~~~dg~ 386 (473)
.+..+|..||. |++. |.|+..|+...+.+. .| +.++++++.++++.+|.|++|.
T Consensus 11 ~~i~~F~~y~~~~~~~----------------------g~Is~~EL~~~l~~~~~lg-~k~t~~ev~~m~~~~D~d~dG~ 67 (88)
T cd05029 11 LLVAIFHKYSGREGDK----------------------NTLSKKELKELIQKELTIG-SKLQDAEIAKLMEDLDRNKDQE 67 (88)
T ss_pred HHHHHHHHHHccCCCC----------------------CEECHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHhcCCCCCC
Confidence 46678999987 5532 333334444444321 23 3489999999999999999999
Q ss_pred eeHHhhhccce
Q psy4132 387 IYLKTYSSGVK 397 (473)
Q Consensus 387 Is~~EF~~~~~ 397 (473)
|+|+||...+.
T Consensus 68 Idf~EFv~lm~ 78 (88)
T cd05029 68 VNFQEYVTFLG 78 (88)
T ss_pred CcHHHHHHHHH
Confidence 99999976543
No 63
>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=97.67 E-value=9.7e-05 Score=53.52 Aligned_cols=57 Identities=30% Similarity=0.536 Sum_probs=45.6
Q ss_pred HHHHHHhhCCCCCCCccHHHHhcchhc----cCCHHHHHHHHHhcCCCCCcccHHHHHHHH
Q psy4132 242 LGKRFRKLDLDNSGALSIDEFMSLPEL----QQNPLVQRVIDIFDEDRNGEVDFKEFIQGV 298 (473)
Q Consensus 242 l~~~F~~~D~d~~G~Is~~el~~l~~~----~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l 298 (473)
+..+|..+|.+++|.|+.+|+..+... .....+..++..+|.+++|.|++++|+.++
T Consensus 2 ~~~~f~~~d~~~~g~l~~~e~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ef~~~~ 62 (63)
T cd00051 2 LREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLELM 62 (63)
T ss_pred HHHHHHHhCCCCCCcCcHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCCCCeEeHHHHHHHh
Confidence 567899999999999999999885432 223346789999999999999999998765
No 64
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=97.66 E-value=9.2e-05 Score=60.14 Aligned_cols=65 Identities=17% Similarity=0.167 Sum_probs=48.6
Q ss_pred HHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCe
Q psy4132 308 ESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPI 387 (473)
Q Consensus 308 ~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~I 387 (473)
...++.+|+.||.|++|.+.. .++..++.. .| ++++++.+++..+|.+++|.|
T Consensus 9 ~~~l~~~F~~~D~d~~G~Is~-----------------------~el~~~l~~-~~---~~~~ev~~i~~~~d~~~~g~I 61 (96)
T smart00027 9 KAKYEQIFRSLDKNQDGTVTG-----------------------AQAKPILLK-SG---LPQTLLAKIWNLADIDNDGEL 61 (96)
T ss_pred HHHHHHHHHHhCCCCCCeEeH-----------------------HHHHHHHHH-cC---CCHHHHHHHHHHhcCCCCCCc
Confidence 356888999999999855544 333333322 23 778899999999999999999
Q ss_pred eHHhhhccceee
Q psy4132 388 YLKTYSSGVKVL 399 (473)
Q Consensus 388 s~~EF~~~~~vl 399 (473)
+++||+..+..+
T Consensus 62 ~~~eF~~~~~~~ 73 (96)
T smart00027 62 DKDEFALAMHLI 73 (96)
T ss_pred CHHHHHHHHHHH
Confidence 999998766533
No 65
>cd05023 S-100A11 S-100A11: S-100A11 domain found in proteins similar to S100A11. S100A11 is a member of the S-100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A11 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 . S100 proteins have also been associated with a variety of pathological events, including neoplastic transformation and neurodegenerative diseases such as Alzheimer's, usually via over expression of the protein. S100A11 is expressed in smooth muscle and other tissues and involves in calcium-dependent membrane aggregation, which is important for cell vesiculation . As is the case for many other S100 proteins, S
Probab=97.63 E-value=0.00011 Score=58.66 Aligned_cols=70 Identities=17% Similarity=0.140 Sum_probs=47.1
Q ss_pred HHHHHHhHH-hcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCe
Q psy4132 309 SKLKFAFRI-YDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPI 387 (473)
Q Consensus 309 e~l~~~F~~-~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~I 387 (473)
..+..+|+. +|+|++++.++. .|+..++...+... .+ ...++.++.++++.+|.|+||.|
T Consensus 9 ~~l~~~F~~y~~~dg~~~~Ls~--~Elk~ll~~e~~~~----------------~~-~~~~~~~~~~ll~~~D~d~DG~I 69 (89)
T cd05023 9 ESLIAVFQKYAGKDGDSYQLSK--TEFLSFMNTELASF----------------TK-NQKDPGVLDRMMKKLDLNSDGQL 69 (89)
T ss_pred HHHHHHHHHHhccCCCcCeECH--HHHHHHHHHhhhHh----------------hc-CCCCHHHHHHHHHHcCCCCCCcC
Confidence 456778888 667777533333 45555554322110 00 13678899999999999999999
Q ss_pred eHHhhhccce
Q psy4132 388 YLKTYSSGVK 397 (473)
Q Consensus 388 s~~EF~~~~~ 397 (473)
+|+||+..+.
T Consensus 70 ~f~EF~~l~~ 79 (89)
T cd05023 70 DFQEFLNLIG 79 (89)
T ss_pred cHHHHHHHHH
Confidence 9999986554
No 66
>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=97.59 E-value=7.2e-05 Score=53.66 Aligned_cols=46 Identities=28% Similarity=0.478 Sum_probs=30.9
Q ss_pred CCCccHHHHhcchhc-c----CCHHHHHHHHHhcCCCCCcccHHHHHHHHh
Q psy4132 254 SGALSIDEFMSLPEL-Q----QNPLVQRVIDIFDEDRNGEVDFKEFIQGVS 299 (473)
Q Consensus 254 ~G~Is~~el~~l~~~-~----~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~ 299 (473)
+|.|+.++|+.++.. + ....++.++..+|.+++|.|+|+||+.++.
T Consensus 2 ~G~i~~~~~~~~l~~~g~~~~s~~e~~~l~~~~D~~~~G~I~~~EF~~~~~ 52 (54)
T PF13833_consen 2 DGKITREEFRRALSKLGIKDLSEEEVDRLFREFDTDGDGYISFDEFISMMQ 52 (54)
T ss_dssp SSEEEHHHHHHHHHHTTSSSSCHHHHHHHHHHHTTSSSSSEEHHHHHHHHH
T ss_pred cCEECHHHHHHHHHHhCCCCCCHHHHHHHHHhcccCCCCCCCHHHHHHHHH
Confidence 455555555553211 1 123578889999999999999999988775
No 67
>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=97.58 E-value=0.00019 Score=58.04 Aligned_cols=69 Identities=19% Similarity=0.210 Sum_probs=47.3
Q ss_pred HHHHHHhHHhcC-CC-CchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCC
Q psy4132 309 SKLKFAFRIYDI-DN-DDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSP 386 (473)
Q Consensus 309 e~l~~~F~~~D~-d~-dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~ 386 (473)
..++.+|..||. |+ +|.+.. .++..+|...... ..| ..++.+++..+++.+|.+++|.
T Consensus 8 ~~l~~~F~~~D~~dg~dG~Is~---~El~~~l~~~~g~----------------~lg-~~~s~~ei~~~~~~~D~~~dg~ 67 (94)
T cd05031 8 ESLILTFHRYAGKDGDKNTLSR---KELKKLMEKELSE----------------FLK-NQKDPMAVDKIMKDLDQNRDGK 67 (94)
T ss_pred HHHHHHHHHHhccCCCCCeECH---HHHHHHHHHHhHH----------------Hhh-ccccHHHHHHHHHHhCCCCCCc
Confidence 567889999996 86 555555 3444443321100 011 1367889999999999999999
Q ss_pred eeHHhhhccce
Q psy4132 387 IYLKTYSSGVK 397 (473)
Q Consensus 387 Is~~EF~~~~~ 397 (473)
|+++||...+.
T Consensus 68 I~f~eF~~l~~ 78 (94)
T cd05031 68 VNFEEFVSLVA 78 (94)
T ss_pred CcHHHHHHHHH
Confidence 99999986654
No 68
>cd00252 SPARC_EC SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate cell-matrix interactions; binds to such proteins as collagen and vitronectin and binds to endothelial cells thus inhibiting cellular proliferation. The EC domain interacts with a follistatin-like (FS) domain which appears to stabilize Ca2+ binding. The two EF-hands interact canonically but their conserved disulfide bonds confer a tight association between the EF-hand pair and an acid/amphiphilic N-terminal helix. Proposed active form involves a Ca2+ dependent symmetric homodimerization of EC-FS modules.
Probab=97.57 E-value=0.00015 Score=60.83 Aligned_cols=60 Identities=13% Similarity=0.036 Sum_probs=43.8
Q ss_pred HHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCe
Q psy4132 308 ESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPI 387 (473)
Q Consensus 308 ~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~I 387 (473)
...+..+|..+|.|+||.++..|+..+. + ......+..+|+.+|.|+||.|
T Consensus 47 ~~~l~w~F~~lD~d~DG~Ls~~EL~~~~--l---------------------------~~~e~~~~~f~~~~D~n~Dg~I 97 (116)
T cd00252 47 KDPVGWMFNQLDGNYDGKLSHHELAPIR--L---------------------------DPNEHCIKPFFESCDLDKDGSI 97 (116)
T ss_pred HHHHHHHHHHHCCCCCCcCCHHHHHHHH--c---------------------------cchHHHHHHHHHHHCCCCCCCC
Confidence 3678889999999998666664333222 0 0223446779999999999999
Q ss_pred eHHhhhccc
Q psy4132 388 YLKTYSSGV 396 (473)
Q Consensus 388 s~~EF~~~~ 396 (473)
|++||...+
T Consensus 98 S~~Ef~~cl 106 (116)
T cd00252 98 SLDEWCYCF 106 (116)
T ss_pred CHHHHHHHH
Confidence 999998877
No 69
>cd05024 S-100A10 S-100A10: A subgroup of the 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-100A10 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=97.56 E-value=0.00026 Score=56.30 Aligned_cols=65 Identities=22% Similarity=0.366 Sum_probs=51.5
Q ss_pred hHHHHHHHHHHHhhCCCCCCCccHHHHhcchhc--------c-CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 236 VVDIRRLGKRFRKLDLDNSGALSIDEFMSLPEL--------Q-QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~--------~-~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
+..+..+...|..+.. ++++++..||+.++.. . ....++.+++.+|.|+||.|+|.||+.++..+
T Consensus 4 E~ai~~lI~~FhkYaG-~~~tLsk~Elk~Ll~~Elp~~l~~~~d~~~vd~im~~LD~n~Dg~vdF~EF~~Lv~~l 77 (91)
T cd05024 4 EHSMEKMMLTFHKFAG-EKNYLNRDDLQKLMEKEFSEFLKNQNDPMAVDKIMKDLDDCRDGKVGFQSFFSLIAGL 77 (91)
T ss_pred HHHHHHHHHHHHHHcC-CCCcCCHHHHHHHHHHHhHHHHcCCCCHHHHHHHHHHhCCCCCCcCcHHHHHHHHHHH
Confidence 3456678889999984 4679999999996321 1 22358999999999999999999999988655
No 70
>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=97.55 E-value=0.0001 Score=45.59 Aligned_cols=26 Identities=31% Similarity=0.677 Sum_probs=16.7
Q ss_pred HHHHHHHhcCCCCCcccHHHHHHHHh
Q psy4132 274 VQRVIDIFDEDRNGEVDFKEFIQGVS 299 (473)
Q Consensus 274 ~~~l~~~~D~d~dG~I~~~EF~~~l~ 299 (473)
++.+|+.+|.|+||.|+++||+.+|.
T Consensus 2 ~~~~F~~~D~d~dG~I~~~Ef~~~~~ 27 (29)
T PF00036_consen 2 LKEAFREFDKDGDGKIDFEEFKEMMK 27 (29)
T ss_dssp HHHHHHHHSTTSSSEEEHHHHHHHHH
T ss_pred HHHHHHHHCCCCCCcCCHHHHHHHHH
Confidence 34566666666666666666666654
No 71
>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=97.53 E-value=5.7e-05 Score=46.75 Aligned_cols=27 Identities=22% Similarity=0.290 Sum_probs=24.4
Q ss_pred HHHHHHHHhccCCCCCeeHHhhhccce
Q psy4132 371 DLLNSCLALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 371 ei~~~~~~~D~~~dg~Is~~EF~~~~~ 397 (473)
|+.++|+.+|+|+||.|+++||..+++
T Consensus 1 E~~~~F~~~D~d~dG~I~~~Ef~~~~~ 27 (29)
T PF00036_consen 1 ELKEAFREFDKDGDGKIDFEEFKEMMK 27 (29)
T ss_dssp HHHHHHHHHSTTSSSEEEHHHHHHHHH
T ss_pred CHHHHHHHHCCCCCCcCCHHHHHHHHH
Confidence 578899999999999999999988764
No 72
>PF14658 EF-hand_9: EF-hand domain
Probab=97.45 E-value=0.00018 Score=53.34 Aligned_cols=57 Identities=18% Similarity=0.450 Sum_probs=47.9
Q ss_pred HHHHhhCCCCCCCccHHHHhcch-hccC----CHHHHHHHHHhcCCCC-CcccHHHHHHHHhh
Q psy4132 244 KRFRKLDLDNSGALSIDEFMSLP-ELQQ----NPLVQRVIDIFDEDRN-GEVDFKEFIQGVSQ 300 (473)
Q Consensus 244 ~~F~~~D~d~~G~Is~~el~~l~-~~~~----~~~~~~l~~~~D~d~d-G~I~~~EF~~~l~~ 300 (473)
.+|..||.++.|.|...++..++ ..+. +..++.+.+.+|+++. |.|+++.|+..|+.
T Consensus 2 ~~F~~fD~~~tG~V~v~~l~~~Lra~~~~~p~e~~Lq~l~~elDP~g~~~~v~~d~F~~iM~~ 64 (66)
T PF14658_consen 2 TAFDAFDTQKTGRVPVSDLITYLRAVTGRSPEESELQDLINELDPEGRDGSVNFDTFLAIMRD 64 (66)
T ss_pred cchhhcCCcCCceEeHHHHHHHHHHHcCCCCcHHHHHHHHHHhCCCCCCceEeHHHHHHHHHH
Confidence 36999999999999999999953 3333 2358999999999988 99999999999865
No 73
>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=97.43 E-value=0.00037 Score=55.51 Aligned_cols=69 Identities=17% Similarity=0.154 Sum_probs=47.3
Q ss_pred HHHHHHhHHhcC--CCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCC
Q psy4132 309 SKLKFAFRIYDI--DNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSP 386 (473)
Q Consensus 309 e~l~~~F~~~D~--d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~ 386 (473)
+.++.+|..||. |++|.+.. .++..++...+... .+ ...+.+++..++..+|.+++|.
T Consensus 8 ~~l~~~F~~~D~~~~~~G~Is~---~el~~~l~~~~g~~----------------~~-~~~~~~ei~~i~~~~d~~~~g~ 67 (88)
T cd00213 8 ETIIDVFHKYSGKEGDKDTLSK---KELKELLETELPNF----------------LK-NQKDPEAVDKIMKDLDVNKDGK 67 (88)
T ss_pred HHHHHHHHHHhhccCCCCcCcH---HHHHHHHHHHhhhh----------------cc-CCCCHHHHHHHHHHhccCCCCc
Confidence 567889999999 78855555 34443333211000 00 1246888999999999999999
Q ss_pred eeHHhhhccce
Q psy4132 387 IYLKTYSSGVK 397 (473)
Q Consensus 387 Is~~EF~~~~~ 397 (473)
|++++|+..+.
T Consensus 68 I~f~eF~~~~~ 78 (88)
T cd00213 68 VDFQEFLVLIG 78 (88)
T ss_pred CcHHHHHHHHH
Confidence 99999987665
No 74
>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=97.31 E-value=0.00096 Score=48.10 Aligned_cols=61 Identities=23% Similarity=0.275 Sum_probs=43.1
Q ss_pred HHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHH
Q psy4132 311 LKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLK 390 (473)
Q Consensus 311 l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~ 390 (473)
+..+|..+|.+++|.+.. .++...+....- ..+.+.+..++..+|.+++|.|+++
T Consensus 2 ~~~~f~~~d~~~~g~l~~-----------------------~e~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~ 56 (63)
T cd00051 2 LREAFRLFDKDGDGTISA-----------------------DELKAALKSLGE--GLSEEEIDEMIREVDKDGDGKIDFE 56 (63)
T ss_pred HHHHHHHhCCCCCCcCcH-----------------------HHHHHHHHHhCC--CCCHHHHHHHHHHhCCCCCCeEeHH
Confidence 467789999888855544 333333322211 3677788899999999999999999
Q ss_pred hhhccc
Q psy4132 391 TYSSGV 396 (473)
Q Consensus 391 EF~~~~ 396 (473)
+|...+
T Consensus 57 ef~~~~ 62 (63)
T cd00051 57 EFLELM 62 (63)
T ss_pred HHHHHh
Confidence 997643
No 75
>KOG2760|consensus
Probab=97.21 E-value=0.00036 Score=68.79 Aligned_cols=73 Identities=22% Similarity=0.174 Sum_probs=59.9
Q ss_pred ccccc------CCCCCCCCceEEeecceeeecCCCC-CcccCcEEEeeeeeeeee-cCccccccchhhhhHHHhhhhccc
Q psy4132 3 RFEYC------SFELSPDESPVLKHSNVRLYDGENK-SQFQRGELILTSHRLFWQ-KDITLCLALSYIQNAVEEAKSMFN 74 (473)
Q Consensus 3 ~~~~~------~~~l~~~E~~~~~~~~v~ly~g~~~-~~~~~G~l~LTshRii~~-~~~~~~l~l~~v~~~~~~~~~~~~ 74 (473)
+|.|+ +|.|.|+|..++.++.|++|+|..+ ...++|+++||+.||+|. +..-. +.|++...+-..+ ++|
T Consensus 1 ~~fy~ett~s~~~~~~~~e~~~~~~q~~~~~fg~~~~~~~~ne~l~lt~~~I~~~D~~~k~-~~~~dg~~vltt~-Rli- 77 (432)
T KOG2760|consen 1 YWFYVETTSSGQPLLSPGEEDIFIDQSVMLRFGWSKILRSQNETLLLTSQRIIIYDGDKKT-TKFDDGTLVLTTH-RLI- 77 (432)
T ss_pred CceEEEecCCCCCCCCCcccceeeecccchhcccchhhhccCceEEEeecceEEecCCCcc-ccccchhhhhhhc-eee-
Confidence 47776 8889999999999999999999999 667899999999999999 22211 8888888887777 453
Q ss_pred ccCcc
Q psy4132 75 LTAGR 79 (473)
Q Consensus 75 ~~~s~ 79 (473)
.+||
T Consensus 78 -w~~p 81 (432)
T KOG2760|consen 78 -WRSP 81 (432)
T ss_pred -ecCc
Confidence 5665
No 76
>KOG0040|consensus
Probab=97.21 E-value=0.0022 Score=72.29 Aligned_cols=140 Identities=12% Similarity=0.250 Sum_probs=96.0
Q ss_pred HHHHHHHHhHH---------HHHHHHHHHHhhhh-------hhhHHHHHHHHhhhhhhhhh-----hhhcccccccccCC
Q psy4132 154 IERNIVEKQKE---------TSSNINNAFKDLNQ-------LMSMAKEMVEISKNISNKII-----NRQGEITEDDSNKD 212 (473)
Q Consensus 154 i~r~~~~~~~~---------~~~~l~eaF~~lD~-------~~e~~~~l~~lg~~~~~~~~-----~~~~~~~~~~~D~d 212 (473)
++++++|+++. +-.++.-+|+.||+ ......+|+++|.+++.... +.+..+ .-+|++
T Consensus 2231 MqhnlEQqIqarn~~GVtEe~L~EFs~~fkhFDkek~G~Ldhq~F~sCLrslgY~lpmvEe~~~~p~fe~~l--d~vDP~ 2308 (2399)
T KOG0040|consen 2231 MQHNLEQQIQARNHNGVTEEQLKEFSMMFKHFDKEKNGRLDHQHFKSCLRSLGYDLPMVEEGEPEPEFEEIL--DLVDPN 2308 (2399)
T ss_pred HHHHHHHHHHhhccCCCCHHHHHHHHHHHHHhchhhccCCcHHHHHHHHHhcCCCCcccccCCCChhHHHHH--HhcCCC
Confidence 45556666543 56688899999999 67888999999999854311 112222 237999
Q ss_pred CCCceeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcchh-ccCCHHHHHHHHHhcCC----CCC
Q psy4132 213 RDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPE-LQQNPLVQRVIDIFDED----RNG 287 (473)
Q Consensus 213 ~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~-~~~~~~~~~l~~~~D~d----~dG 287 (473)
.+|.|+..+|+++|.++... .......+..+|+.+|. +.-||+..++..-+. -.....+..|-..+++. -.+
T Consensus 2309 r~G~Vsl~dY~afmi~~ETe--NI~s~~eIE~AfraL~a-~~~yvtke~~~~~ltreqaefc~s~m~~~~e~~~~~s~q~ 2385 (2399)
T KOG0040|consen 2309 RDGYVSLQDYMAFMISKETE--NILSSEEIEDAFRALDA-GKPYVTKEELYQNLTREQAEFCMSKMKPYAETSSGRSDQV 2385 (2399)
T ss_pred CcCcccHHHHHHHHHhcccc--cccchHHHHHHHHHhhc-CCccccHHHHHhcCCHHHHHHHHHHhhhhcccccCCCccc
Confidence 99999999999999854322 22334489999999999 888999999876322 11122244555555552 245
Q ss_pred cccHHHHHHHH
Q psy4132 288 EVDFKEFIQGV 298 (473)
Q Consensus 288 ~I~~~EF~~~l 298 (473)
.++|.+|++.+
T Consensus 2386 ~l~y~dfv~sl 2396 (2399)
T KOG0040|consen 2386 ALDYKDFVNSL 2396 (2399)
T ss_pred cccHHHHHHHH
Confidence 78999998765
No 77
>KOG2562|consensus
Probab=97.21 E-value=0.0019 Score=65.16 Aligned_cols=214 Identities=15% Similarity=0.139 Sum_probs=143.6
Q ss_pred cccCCCCCceeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcch-----hc-----cCCH-----
Q psy4132 208 DSNKDRDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLP-----EL-----QQNP----- 272 (473)
Q Consensus 208 ~~D~d~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~-----~~-----~~~~----- 272 (473)
.++.|..|.|+...|..++.. ........+.+.+..++..+.|++...+|+... +. ...+
T Consensus 147 k~~~d~~g~it~~~Fi~~~~~-----~~~l~~t~~~~~v~~l~~~~~~yl~q~df~~~Lqeli~Thpl~~l~~~pEf~~~ 221 (493)
T KOG2562|consen 147 KIDGDDTGHITRDKFINYWMR-----GLMLTHTRLEQFVNLLIQAGCSYLRQDDFKPYLQELIATHPLEFLDEEPEFQER 221 (493)
T ss_pred hhccCcCCceeHHHHHHHHHh-----hhhHHHHHHHHHHHHHhccCccceeccccHHHHHHHHhcCCchhhccChhHHHH
Confidence 468899999999999998873 234456677788999999999999998888721 11 1111
Q ss_pred ----HHHHHHHHhcCCCCCcccHHHHHH-----HHhhcccCCCc--------HHHHHHH---hHHhcCCCCchhhHhhHH
Q psy4132 273 ----LVQRVIDIFDEDRNGEVDFKEFIQ-----GVSQFSVKGDR--------ESKLKFA---FRIYDIDNDDDYYQALGN 332 (473)
Q Consensus 273 ----~~~~l~~~~D~d~dG~I~~~EF~~-----~l~~~~~~~~~--------~e~l~~~---F~~~D~d~dg~~~~~e~~ 332 (473)
.+.++|-.++..+.|.|+..+... .|..+....+. -+....+ |..+|+|.||.+..+++.
T Consensus 222 Y~~tvi~rIFy~~nrs~tG~iti~el~~snll~~l~~l~eEed~nq~~~~FS~e~f~viy~kFweLD~Dhd~lidk~~L~ 301 (493)
T KOG2562|consen 222 YAETVIQRIFYYLNRSRTGRITIQELLRSNLLDALLELDEEEDINQVTRYFSYEHFYVIYCKFWELDTDHDGLIDKEDLK 301 (493)
T ss_pred HHHHHhhhhheeeCCccCCceeHHHHHHhHHHHHHHHHHHHhhhhhhhhheeHHHHHHHHHHHhhhccccccccCHHHHH
Confidence 257888888999999999988643 23332221111 1222333 788899999777775542
Q ss_pred HHH------HHHhchh--------hcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhccce-
Q psy4132 333 ELI------AALIEPL--------TSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVK- 397 (473)
Q Consensus 333 el~------~~L~~~~--------~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~- 397 (473)
... .++..++ ....|.|+..++...+-...+ .-+|.-++-.|+.+|.+++|.++..|......
T Consensus 302 ry~d~tlt~~ivdRIFs~v~r~~~~~~eGrmdykdFv~FilA~e~--k~t~~SleYwFrclDld~~G~Lt~~el~~fyee 379 (493)
T KOG2562|consen 302 RYGDHTLTERIVDRIFSQVPRGFTVKVEGRMDYKDFVDFILAEED--KDTPASLEYWFRCLDLDGDGILTLNELRYFYEE 379 (493)
T ss_pred HHhccchhhHHHHHHHhhccccceeeecCcccHHHHHHHHHHhcc--CCCccchhhheeeeeccCCCcccHHHHHHHHHH
Confidence 111 1111111 234578999999888887776 56777788889999999999999988543222
Q ss_pred --------eeeecccCcHHHHHHHHHHHhh--CCCCCHHHHHH
Q psy4132 398 --------VLQLKSCEDASFVEKTYEIVSQ--NVFVTVEQFSR 430 (473)
Q Consensus 398 --------vl~~~~~~~~~~~~~~~~~~~~--~~~ls~~e~a~ 430 (473)
...... =+.++.++..++.. .+.+|.+++-.
T Consensus 380 q~~rm~~~~~e~l~--fed~l~qi~DMvkP~~~~kItLqDlk~ 420 (493)
T KOG2562|consen 380 QLQRMECMGQEALP--FEDALCQIRDMVKPEDENKITLQDLKG 420 (493)
T ss_pred HHHHHHhcCCCccc--HHHHHHHHHHHhCccCCCceeHHHHhh
Confidence 111111 16788888888863 46899998754
No 78
>PF14470 bPH_3: Bacterial PH domain
Probab=97.18 E-value=0.00048 Score=55.66 Aligned_cols=88 Identities=22% Similarity=0.233 Sum_probs=65.8
Q ss_pred CCCCCceEEeecceeeecCCCCCcccCcEEEeeeeeeeee------cCccccccchhhhhHHHhhhhcccccCcccEEEE
Q psy4132 11 LSPDESPVLKHSNVRLYDGENKSQFQRGELILTSHRLFWQ------KDITLCLALSYIQNAVEEAKSMFNLTAGRKIILY 84 (473)
Q Consensus 11 l~~~E~~~~~~~~v~ly~g~~~~~~~~G~l~LTshRii~~------~~~~~~l~l~~v~~~~~~~~~~~~~~~s~ki~~~ 84 (473)
|.+||.+++...+.--+. .....|.++||+.|||+. +...-.+|++.|.+++... ++ -.++|.+.
T Consensus 1 L~~~E~I~~~~~~~~~~~----~~~~~g~l~~TnkRlif~~~~~~~~~~~~~i~y~~I~~v~~~~-g~----~~~~i~i~ 71 (96)
T PF14470_consen 1 LKEDEEIEYVAVGSYNYF----FTSFPGVLVLTNKRLIFYSKGMFGGKKFESIPYDDITSVSFKK-GI----LGGKITIE 71 (96)
T ss_pred CcCCCEEEEEEEEEEeec----ccCceeEEEEeCCEEEEEEcccCCCceEEEEEhhheEEEEEEc-cc----cccEEEEE
Confidence 679999999986643333 567889999999999999 2345699999999998776 55 23567777
Q ss_pred eecCCCCCCCCCCCCCCCCeEEEe-ccCCCchHHHHHHH
Q psy4132 85 LSKAVPGKNLGPSATSAYDYVKLS-FREGIQNEFLDALK 122 (473)
Q Consensus 85 l~~~~~~~~~~p~~~~~~~~ikls-Fr~gg~~~F~~~l~ 122 (473)
.. ...+++. +.++....|++.++
T Consensus 72 ~~---------------~~~~~i~~i~k~~~~~~~~~i~ 95 (96)
T PF14470_consen 72 TN---------------GEKIKIDNIQKGDVKEFYEYIK 95 (96)
T ss_pred EC---------------CEEEEEEEcCHHHHHHHHHHHh
Confidence 62 3466664 66777788887764
No 79
>PRK12309 transaldolase/EF-hand domain-containing protein; Provisional
Probab=97.06 E-value=0.0011 Score=67.50 Aligned_cols=53 Identities=25% Similarity=0.474 Sum_probs=35.5
Q ss_pred HHHHHHHHHhhCCCCCCCccHHHHhcchhccCCHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 239 IRRLGKRFRKLDLDNSGALSIDEFMSLPELQQNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 239 ~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
...+..+|+.+|.+++|.|+.+||.. ++.+|..+|.|+||.|+++||..++..
T Consensus 333 ~~~l~~aF~~~D~dgdG~Is~~E~~~---------~~~~F~~~D~d~DG~Is~eEf~~~~~~ 385 (391)
T PRK12309 333 THAAQEIFRLYDLDGDGFITREEWLG---------SDAVFDALDLNHDGKITPEEMRAGLGA 385 (391)
T ss_pred hHHHHHHHHHhCCCCCCcCcHHHHHH---------HHHHHHHhCCCCCCCCcHHHHHHHHHH
Confidence 34456677777777777777777631 456777777777777777777766643
No 80
>PF10591 SPARC_Ca_bdg: Secreted protein acidic and rich in cysteine Ca binding region; InterPro: IPR019577 This entry represents the calcium-binding domain found in SPARC (Secreted Protein Acidic and Rich in Cysteine) and Testican (also known as SPOCK; or SParc/Osteonectin, Cwcv and Kazal-like domains) proteins. SPARC proteins are down-regulated in various tumours and may have a tumour-suppressor function [, ]. Testican-3 appears to be a novel regulator that reduces the activity of matrix metalloproteinase (MMP) in adult T-cell leukemia (ATL) []. This cysteine-rich domain is responsible for the anti-spreading activity of human urothelial cells. This extracellular calcium-binding domain is rich in alpha-helices and contains two EF-hands that each coordinates one Ca2+ ion, forming a helix-loop-helix structure that not only drives the conformation of the protein but is also necessary for biological activity. The anti-spreading activity was dependent on the coordination of Ca2+ by a Glu residue at the Z position of EF-hand 2 []. ; GO: 0005509 calcium ion binding, 0007165 signal transduction, 0005578 proteinaceous extracellular matrix; PDB: 1BMO_A 1SRA_A 2V53_A 1NUB_B.
Probab=97.03 E-value=0.00095 Score=55.82 Aligned_cols=61 Identities=18% Similarity=0.279 Sum_probs=45.4
Q ss_pred hHHHHHHHHHHHhhCCCCCCCccHHHHhcchhccC--CHHHHHHHHHhcCCCCCcccHHHHHH
Q psy4132 236 VVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQ--NPLVQRVIDIFDEDRNGEVDFKEFIQ 296 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~--~~~~~~l~~~~D~d~dG~I~~~EF~~ 296 (473)
......+...|..+|.|+||.++..|+..+..... ..-+...+...|.|+||.|++.||..
T Consensus 50 ~~~~~~~~W~F~~LD~n~d~~L~~~El~~l~~~l~~~e~C~~~F~~~CD~n~d~~Is~~EW~~ 112 (113)
T PF10591_consen 50 SECKRVVHWKFCQLDRNKDGVLDRSELKPLRRPLMPPEHCARPFFRSCDVNKDGKISLDEWCN 112 (113)
T ss_dssp GGGHHHHHHHHHHH--T-SSEE-TTTTGGGGSTTSTTGGGHHHHHHHH-TT-SSSEEHHHHHH
T ss_pred hhhhhhhhhhHhhhcCCCCCccCHHHHHHHHHHHhhhHHHHHHHHHHcCCCCCCCCCHHHHcc
Confidence 34566788899999999999999999999866332 33378899999999999999999975
No 81
>KOG0040|consensus
Probab=97.02 E-value=0.0052 Score=69.45 Aligned_cols=88 Identities=20% Similarity=0.381 Sum_probs=71.0
Q ss_pred ccchHHHHHHHHHHHhhCCCCCCCccHHHHhc-chhcc----------CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 233 KKMVVDIRRLGKRFRKLDLDNSGALSIDEFMS-LPELQ----------QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 233 ~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~-l~~~~----------~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
..++....++.-+|+.||++.+|.++..+|+. +..+| +.|..++++..+|++.+|.|+..+|+.+|...
T Consensus 2246 GVtEe~L~EFs~~fkhFDkek~G~Ldhq~F~sCLrslgY~lpmvEe~~~~p~fe~~ld~vDP~r~G~Vsl~dY~afmi~~ 2325 (2399)
T KOG0040|consen 2246 GVTEEQLKEFSMMFKHFDKEKNGRLDHQHFKSCLRSLGYDLPMVEEGEPEPEFEEILDLVDPNRDGYVSLQDYMAFMISK 2325 (2399)
T ss_pred CCCHHHHHHHHHHHHHhchhhccCCcHHHHHHHHHhcCCCCcccccCCCChhHHHHHHhcCCCCcCcccHHHHHHHHHhc
Confidence 34567788899999999999999999999988 43433 24568899999999999999999999999766
Q ss_pred ccC-CCcHHHHHHHhHHhcC
Q psy4132 302 SVK-GDRESKLKFAFRIYDI 320 (473)
Q Consensus 302 ~~~-~~~~e~l~~~F~~~D~ 320 (473)
... ....+.+..||+.+|.
T Consensus 2326 ETeNI~s~~eIE~AfraL~a 2345 (2399)
T KOG0040|consen 2326 ETENILSSEEIEDAFRALDA 2345 (2399)
T ss_pred ccccccchHHHHHHHHHhhc
Confidence 432 3345578888888887
No 82
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=96.97 E-value=0.002 Score=51.37 Aligned_cols=31 Identities=13% Similarity=0.075 Sum_probs=27.6
Q ss_pred CCHHHHHHHHHHhccCCCCCeeHHhhhccce
Q psy4132 367 LSPEDLLNSCLALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 367 ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~ 397 (473)
.+++++..+++.+|.|++|.|+++||...+.
T Consensus 48 ~~~~~v~~i~~~~D~d~dG~I~f~eF~~~~~ 78 (88)
T cd05030 48 KNQKAIDKIFEDLDTNQDGQLSFEEFLVLVI 78 (88)
T ss_pred CCHHHHHHHHHHcCCCCCCcCcHHHHHHHHH
Confidence 4488999999999999999999999987664
No 83
>KOG0377|consensus
Probab=96.90 E-value=0.0068 Score=60.66 Aligned_cols=146 Identities=16% Similarity=0.180 Sum_probs=83.9
Q ss_pred HHHHHHHHHhhCCCCCCCccHHHHhcchhc--cCCHHHHHH-HHHhcCCCCCcccHHHHHHHHhhcccCCCcHHHHHHHh
Q psy4132 239 IRRLGKRFRKLDLDNSGALSIDEFMSLPEL--QQNPLVQRV-IDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESKLKFAF 315 (473)
Q Consensus 239 ~~~l~~~F~~~D~d~~G~Is~~el~~l~~~--~~~~~~~~l-~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~~~F 315 (473)
..+|...|+.+|.+++|+|+...+...++. +.+.....+ =+....+.+|.+.|.+....+.
T Consensus 463 ~sdL~~eF~~~D~~ksG~lsis~Wa~~mE~i~~L~LPWr~L~~kla~~s~d~~v~Y~~~~~~l~---------------- 526 (631)
T KOG0377|consen 463 RSDLEDEFRKYDPKKSGKLSISHWAKCMENITGLNLPWRLLRPKLANGSDDGKVEYKSTLDNLD---------------- 526 (631)
T ss_pred hhHHHHHHHhcChhhcCeeeHHHHHHHHHHHhcCCCcHHHhhhhccCCCcCcceehHhHHHHhh----------------
Confidence 456777899999999999998888763221 111111111 1222345577887777655442
Q ss_pred HHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhcc
Q psy4132 316 RIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSG 395 (473)
Q Consensus 316 ~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~ 395 (473)
. + ++..+ + -..++..++ | ....++.+|+.+|+|+.|.||++||..+
T Consensus 527 ----~--e-~~~~e-a--~~slvetLY-----------------r-------~ks~LetiF~~iD~D~SG~isldEF~~a 572 (631)
T KOG0377|consen 527 ----T--E-VILEE-A--GSSLVETLY-----------------R-------NKSSLETIFNIIDADNSGEISLDEFRTA 572 (631)
T ss_pred ----h--h-hHHHH-H--HhHHHHHHH-----------------h-------chhhHHHHHHHhccCCCCceeHHHHHHH
Confidence 1 1 22221 0 111111111 1 1234788999999999999999999999
Q ss_pred ceeeeec--ccCcHHHHHHHHHHHh--hCCCCCHHHHHHhhCC
Q psy4132 396 VKVLQLK--SCEDASFVEKTYEIVS--QNVFVTVEQFSRLASV 434 (473)
Q Consensus 396 ~~vl~~~--~~~~~~~~~~~~~~~~--~~~~ls~~e~a~~~~~ 434 (473)
+.++... -.-+.+.+..+.+.++ +.|.+..-||-+.|-+
T Consensus 573 ~~l~~sh~~~~i~~~~i~~la~~mD~NkDG~IDlNEfLeAFrl 615 (631)
T KOG0377|consen 573 WKLLSSHMNGAISDDEILELARSMDLNKDGKIDLNEFLEAFRL 615 (631)
T ss_pred HHHHHhhcCCCcCHHHHHHHHHhhccCCCCcccHHHHHHHHhh
Confidence 8855432 2222344455555443 4578888888776644
No 84
>KOG0751|consensus
Probab=96.82 E-value=0.012 Score=59.68 Aligned_cols=150 Identities=13% Similarity=0.184 Sum_probs=93.3
Q ss_pred hHHHHHHHHHHHhhCCCCCCCccHHHHhcc----h-hccCCHHHHHH-HHHhcCCCCCcccHHHHHHHHhhcccCCCcHH
Q psy4132 236 VVDIRRLGKRFRKLDLDNSGALSIDEFMSL----P-ELQQNPLVQRV-IDIFDEDRNGEVDFKEFIQGVSQFSVKGDRES 309 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~~G~Is~~el~~l----~-~~~~~~~~~~l-~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e 309 (473)
..+...+--.|...+.++.-+.+.++|.+- . ....++.+-++ -...|.-.||-|+|+||+.+=..++. ++.
T Consensus 32 ~~eLr~if~~~as~e~~ge~~mt~edFv~~ylgL~~e~~~n~~~v~Lla~iaD~tKDglisf~eF~afe~~lC~---pDa 108 (694)
T KOG0751|consen 32 PKELRSIFLKYASIEKNGESYMTPEDFVRRYLGLYNESNFNDKIVRLLASIADQTKDGLISFQEFRAFESVLCA---PDA 108 (694)
T ss_pred hHHHHHHHHHHhHHhhccccccCHHHHHHHHHhhcccccCChHHHHHHHhhhhhcccccccHHHHHHHHhhccC---chH
Confidence 334444444455567788889999999872 1 12233443344 44457788999999999987766644 367
Q ss_pred HHHHHhHHhcCCCCchhhHhhHHHHHHHHhch----hhcCC------------CccchhHHHHHHHhhhCCCCCCHHHHH
Q psy4132 310 KLKFAFRIYDIDNDDDYYQALGNELIAALIEP----LTSAG------------GTMLLTDAYCRINRARGLELLSPEDLL 373 (473)
Q Consensus 310 ~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~----~~~~~------------g~i~l~d~~~~~~~~~g~~~ls~~ei~ 373 (473)
....+|..||+.++|.++.+++.++.....-. +.-.+ ..++..++-..+.. .-.|...
T Consensus 109 l~~~aFqlFDr~~~~~vs~~~~~~if~~t~l~~~~~f~~d~efI~~~Fg~~~~r~~ny~~f~Q~lh~------~~~E~~~ 182 (694)
T KOG0751|consen 109 LFEVAFQLFDRLGNGEVSFEDVADIFGQTNLHHHIPFNWDSEFIKLHFGDIRKRHLNYAEFTQFLHE------FQLEHAE 182 (694)
T ss_pred HHHHHHHHhcccCCCceehHHHHHHHhccccccCCCccCCcchHHHHhhhHHHHhccHHHHHHHHHH------HHHHHHH
Confidence 77889999999999998885544443322211 00000 12333333333322 2234566
Q ss_pred HHHHHhccCCCCCeeHHhhhc
Q psy4132 374 NSCLALDKLPDSPIYLKTYSS 394 (473)
Q Consensus 374 ~~~~~~D~~~dg~Is~~EF~~ 394 (473)
++|+.-|+.++|.||--+|..
T Consensus 183 qafr~~d~~~ng~is~Ldfq~ 203 (694)
T KOG0751|consen 183 QAFREKDKAKNGFISVLDFQD 203 (694)
T ss_pred HHHHHhcccCCCeeeeechHh
Confidence 789999999999998777754
No 85
>PF13202 EF-hand_5: EF hand; PDB: 3DD4_A 2Q4U_A 2BE4_A 1UHJ_B 1UHI_A 1UHH_B 1EJ3_B 1UHK_A 2ZFD_A 1UHN_A ....
Probab=96.78 E-value=0.00089 Score=39.84 Aligned_cols=22 Identities=32% Similarity=0.668 Sum_probs=13.2
Q ss_pred HHHHHhhCCCCCCCccHHHHhc
Q psy4132 243 GKRFRKLDLDNSGALSIDEFMS 264 (473)
Q Consensus 243 ~~~F~~~D~d~~G~Is~~el~~ 264 (473)
+++|+.+|.|++|.|+.+||.+
T Consensus 2 ~~~F~~~D~d~DG~is~~E~~~ 23 (25)
T PF13202_consen 2 KDAFQQFDTDGDGKISFEEFQR 23 (25)
T ss_dssp HHHHHHHTTTSSSEEEHHHHHH
T ss_pred HHHHHHHcCCCCCcCCHHHHHH
Confidence 4456666666666666666554
No 86
>PF14658 EF-hand_9: EF-hand domain
Probab=96.71 E-value=0.0016 Score=48.28 Aligned_cols=53 Identities=19% Similarity=0.371 Sum_probs=45.8
Q ss_pred HHHHhhhh-------hhhHHHHHHHHhh-hhhhhhhhhhcccccccccCCCC-CceeHHHHHHHHc
Q psy4132 171 NAFKDLNQ-------LMSMAKEMVEISK-NISNKIINRQGEITEDDSNKDRD-GKINFQEFCSIVG 227 (473)
Q Consensus 171 eaF~~lD~-------~~e~~~~l~~lg~-~~~~~~~~~~~~~~~~~~D~d~d-G~I~f~EF~~~~~ 227 (473)
.+|+.+|. +..+...|++++. .|++. +++....+ +|+++. |.|+|+.|+.+|.
T Consensus 2 ~~F~~fD~~~tG~V~v~~l~~~Lra~~~~~p~e~--~Lq~l~~e--lDP~g~~~~v~~d~F~~iM~ 63 (66)
T PF14658_consen 2 TAFDAFDTQKTGRVPVSDLITYLRAVTGRSPEES--ELQDLINE--LDPEGRDGSVNFDTFLAIMR 63 (66)
T ss_pred cchhhcCCcCCceEeHHHHHHHHHHHcCCCCcHH--HHHHHHHH--hCCCCCCceEeHHHHHHHHH
Confidence 37888888 7888899999999 88888 77777664 899987 9999999999986
No 87
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=96.71 E-value=0.0011 Score=41.68 Aligned_cols=26 Identities=27% Similarity=0.560 Sum_probs=18.0
Q ss_pred HHHHHHHhhCCCCCCCccHHHHhcch
Q psy4132 241 RLGKRFRKLDLDNSGALSIDEFMSLP 266 (473)
Q Consensus 241 ~l~~~F~~~D~d~~G~Is~~el~~l~ 266 (473)
+++.+|+.+|.|++|+|+.+||..++
T Consensus 1 ~l~~~F~~~D~d~dG~I~~~el~~~l 26 (31)
T PF13405_consen 1 RLREAFKMFDKDGDGFIDFEELRAIL 26 (31)
T ss_dssp HHHHHHHHH-TTSSSEEEHHHHHHHH
T ss_pred CHHHHHHHHCCCCCCcCcHHHHHHHH
Confidence 35677777777777777777777643
No 88
>cd05024 S-100A10 S-100A10: A subgroup of the 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-100A10 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=96.63 E-value=0.0076 Score=47.96 Aligned_cols=31 Identities=16% Similarity=0.158 Sum_probs=27.5
Q ss_pred CCHHHHHHHHHHhccCCCCCeeHHhhhccce
Q psy4132 367 LSPEDLLNSCLALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 367 ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~ 397 (473)
-.|..+.++++.+|.|+||.|+|+||...+-
T Consensus 45 ~d~~~vd~im~~LD~n~Dg~vdF~EF~~Lv~ 75 (91)
T cd05024 45 NDPMAVDKIMKDLDDCRDGKVGFQSFFSLIA 75 (91)
T ss_pred CCHHHHHHHHHHhCCCCCCcCcHHHHHHHHH
Confidence 4688899999999999999999999986554
No 89
>PF12763 EF-hand_4: Cytoskeletal-regulatory complex EF hand; PDB: 2QPT_A 2KSP_A 2KFG_A 2JQ6_A 2KFH_A 2KFF_A 1IQ3_A 3FIA_A 2KHN_A 2KGR_A ....
Probab=96.55 E-value=0.0042 Score=51.02 Aligned_cols=66 Identities=20% Similarity=0.338 Sum_probs=53.3
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhcchh-cc-CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPE-LQ-QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~-~~-~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
...+...+...|+.+|. ++|.|+.++.+.++. .+ ....+..++...|.+++|.++++||+-+|+..
T Consensus 5 s~~e~~~y~~~F~~l~~-~~g~isg~~a~~~f~~S~L~~~~L~~IW~LaD~~~dG~L~~~EF~iAm~Li 72 (104)
T PF12763_consen 5 SPEEKQKYDQIFQSLDP-QDGKISGDQAREFFMKSGLPRDVLAQIWNLADIDNDGKLDFEEFAIAMHLI 72 (104)
T ss_dssp SCCHHHHHHHHHHCTSS-STTEEEHHHHHHHHHHTTSSHHHHHHHHHHH-SSSSSEEEHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhcCC-CCCeEeHHHHHHHHHHcCCCHHHHHHHHhhhcCCCCCcCCHHHHHHHHHHH
Confidence 45677889999999986 689999999998643 22 23568999999999999999999999988654
No 90
>PF13202 EF-hand_5: EF hand; PDB: 3DD4_A 2Q4U_A 2BE4_A 1UHJ_B 1UHI_A 1UHH_B 1EJ3_B 1UHK_A 2ZFD_A 1UHN_A ....
Probab=96.40 E-value=0.0043 Score=36.87 Aligned_cols=23 Identities=30% Similarity=0.641 Sum_probs=18.9
Q ss_pred HHHHHHhcCCCCCcccHHHHHHH
Q psy4132 275 QRVIDIFDEDRNGEVDFKEFIQG 297 (473)
Q Consensus 275 ~~l~~~~D~d~dG~I~~~EF~~~ 297 (473)
+..|+.+|.|+||.|+++||..+
T Consensus 2 ~~~F~~~D~d~DG~is~~E~~~~ 24 (25)
T PF13202_consen 2 KDAFQQFDTDGDGKISFEEFQRL 24 (25)
T ss_dssp HHHHHHHTTTSSSEEEHHHHHHH
T ss_pred HHHHHHHcCCCCCcCCHHHHHHH
Confidence 46788888888899988888764
No 91
>PF02893 GRAM: GRAM domain; InterPro: IPR004182 The GRAM domain is found in glucosyltransferases, myotubularins and other putative membrane-associated proteins. It is normally about 70 amino acids in length. It is thought to be an intracellular protein-binding or lipid-binding signalling domain, which has an important function in membrane-associated processes. Mutations in the GRAM domain of myotubularins cause a muscle disease, which suggests that the domain is essential for the full function of the enzyme []. Myotubularin-related proteins are a large subfamily of protein tyrosine phosphatases (PTPs) that dephosphorylate D3-phosphorylated inositol lipids [].; PDB: 1M7R_B 1LW3_A 1ZVR_A 1ZSQ_A.
Probab=96.37 E-value=0.00074 Score=51.12 Aligned_cols=53 Identities=19% Similarity=0.283 Sum_probs=33.2
Q ss_pred CCCCCceEEeecceeeecCCCCCcccCcEEEeeeeeeeee----cC--ccccccchhhhhHHH
Q psy4132 11 LSPDESPVLKHSNVRLYDGENKSQFQRGELILTSHRLFWQ----KD--ITLCLALSYIQNAVE 67 (473)
Q Consensus 11 l~~~E~~~~~~~~v~ly~g~~~~~~~~G~l~LTshRii~~----~~--~~~~l~l~~v~~~~~ 67 (473)
|-++|.++-. -.+.|..+ .....|+||||+|||+|. .. ..+.|||.+|.+++.
T Consensus 9 lp~~E~li~~-~~c~l~~~---~~~~~G~LyiT~~~lcF~s~~~~~~~~~~~ipl~~I~~i~k 67 (69)
T PF02893_consen 9 LPEEERLIEE-YSCALFKS---KIPVQGRLYITNNYLCFYSNKFGSKTCKFVIPLSDIKSIEK 67 (69)
T ss_dssp --TT--EEEE-EEETTTEE------EEEEEEEESSEEEEEESSSSS-E-EEEEEGGGEEEEEE
T ss_pred CCCCCeEEEE-EEEEEECC---ccceeeEEEECCCEEEEEECCCCCceEEEEEEhHheeEEEE
Confidence 4556666554 23333332 456889999999999999 22 268999999998764
No 92
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=96.36 E-value=0.0024 Score=47.03 Aligned_cols=52 Identities=17% Similarity=0.250 Sum_probs=36.9
Q ss_pred CCCCCceEEeecceeeecCCCCCcccCcEEEeeeeeeeee----c-Cc-cccccchhhhhHHH
Q psy4132 11 LSPDESPVLKHSNVRLYDGENKSQFQRGELILTSHRLFWQ----K-DI-TLCLALSYIQNAVE 67 (473)
Q Consensus 11 l~~~E~~~~~~~~v~ly~g~~~~~~~~G~l~LTshRii~~----~-~~-~~~l~l~~v~~~~~ 67 (473)
|-++|..+.. -.+.|. ......|+||||+|||+|. + .. .+.|||.+|.+++.
T Consensus 2 l~~~E~l~~~-~~C~l~----~~~~~~G~lyiT~~~l~F~S~~~~~~~~~~~ipl~~I~~i~k 59 (61)
T smart00568 2 LPEEEKLIAD-YSCYLS----RDGPVQGRLYISNYRLCFRSDLPGKLTPKVVIPLADITRIEK 59 (61)
T ss_pred cCCCcEEEEE-EEeEEC----CCccccEEEEEECCEEEEEccCCCCeeEEEEEEHHHeeEEEE
Confidence 3456665443 444444 3356799999999999999 2 23 68999999998764
No 93
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=96.08 E-value=0.027 Score=42.42 Aligned_cols=52 Identities=21% Similarity=0.254 Sum_probs=46.6
Q ss_pred cHHHHHHHHHHHhhCCC--CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 406 DASFVEKTYEIVSQNVF--VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 406 ~~~~~~~~~~~~~~~~~--ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
+...-.+++.++...+. +|+.|+|..+|++..-++..|...++.|+|+++.+
T Consensus 4 ~~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~~~~ 57 (68)
T smart00550 4 QDSLEEKILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCKQGG 57 (68)
T ss_pred chHHHHHHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCC
Confidence 34566788888888877 99999999999999999999999999999999876
No 94
>PF08000 bPH_1: Bacterial PH domain; InterPro: IPR012544 This family contains many bacterial hypothetical proteins.; PDB: 3DCX_E 3HSA_C 3B77_D.
Probab=95.79 E-value=0.012 Score=49.84 Aligned_cols=90 Identities=18% Similarity=0.175 Sum_probs=65.1
Q ss_pred CCCCCCCCceEEeecceeeecCCCCCcccCcEEEeeeeeeeee------c-Cc-cccccchhhhhHHHhhhhcccccCcc
Q psy4132 8 SFELSPDESPVLKHSNVRLYDGENKSQFQRGELILTSHRLFWQ------K-DI-TLCLALSYIQNAVEEAKSMFNLTAGR 79 (473)
Q Consensus 8 ~~~l~~~E~~~~~~~~v~ly~g~~~~~~~~G~l~LTshRii~~------~-~~-~~~l~l~~v~~~~~~~~~~~~~~~s~ 79 (473)
.+.|-+||.++..-.- ....+.+|++|||.+ + +. -.++|.+.|.++..+.+|.| -...
T Consensus 24 ~~~L~~gE~I~~ayk~------------iRD~~vFTnkRlI~vD~QG~TGkK~~~~siPY~~I~~~siETAG~~--DlD~ 89 (124)
T PF08000_consen 24 EPLLLDGEEIEAAYKL------------IRDEIVFTNKRLILVDKQGITGKKVEYKSIPYSSITHFSIETAGTF--DLDS 89 (124)
T ss_dssp GGGSSTT--EEEEEEE------------SSEEEEEESSEEEEEEEESSSSSEEEEEEEEGGGEEEEEEEECSST--TSEE
T ss_pred HHhcCCCCeeeeeehh------------hceeEEEecChheEEecccCccceEEEEEEehhhccEEEEEeCCcc--cCcc
Confidence 5567788888765433 367899999999999 2 22 35999999999998888875 5788
Q ss_pred cEEEEeecCCCCCCCCCCCCCCCCeEEEeccCCC-chHHHHHHHHH
Q psy4132 80 KIILYLSKAVPGKNLGPSATSAYDYVKLSFREGI-QNEFLDALKST 124 (473)
Q Consensus 80 ki~~~l~~~~~~~~~~p~~~~~~~~iklsFr~gg-~~~F~~~l~~~ 124 (473)
-|+++++. ....+.+.|+++- -.++++.|...
T Consensus 90 Elki~i~~-------------~~~~i~~~f~k~~di~~i~k~L~~~ 122 (124)
T PF08000_consen 90 ELKIWISG-------------QGFPIEFEFKKKTDIYEIYKALAEY 122 (124)
T ss_dssp EEEEEETT-------------ESSEEEEEEGTTSHHHHHHHHHHHH
T ss_pred cEEEEECC-------------CcEEEEEecCCCCCHHHHHHHHHHH
Confidence 89998852 2234667898774 46788877654
No 95
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=95.76 E-value=0.0068 Score=37.94 Aligned_cols=27 Identities=19% Similarity=0.134 Sum_probs=22.8
Q ss_pred HHHHHHHHhccCCCCCeeHHhhhccce
Q psy4132 371 DLLNSCLALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 371 ei~~~~~~~D~~~dg~Is~~EF~~~~~ 397 (473)
++..+|+.+|.|+||.|+.+||..+++
T Consensus 1 ~l~~~F~~~D~d~dG~I~~~el~~~l~ 27 (31)
T PF13405_consen 1 RLREAFKMFDKDGDGFIDFEELRAILR 27 (31)
T ss_dssp HHHHHHHHH-TTSSSEEEHHHHHHHHH
T ss_pred CHHHHHHHHCCCCCCcCcHHHHHHHHH
Confidence 367899999999999999999987664
No 96
>KOG0041|consensus
Probab=95.61 E-value=0.028 Score=50.69 Aligned_cols=64 Identities=25% Similarity=0.431 Sum_probs=51.6
Q ss_pred HHhHHHHHHHHHHHHhhhh-------hhhHHHHHHHHhhhhhhhhhhhhcccccccccCCCCCceeHHHHHHHHc
Q psy4132 160 EKQKETSSNINNAFKDLNQ-------LMSMAKEMVEISKNISNKIINRQGEITEDDSNKDRDGKINFQEFCSIVG 227 (473)
Q Consensus 160 ~~~~~~~~~l~eaF~~lD~-------~~e~~~~l~~lg~~~~~~~~~~~~~~~~~~~D~d~dG~I~f~EF~~~~~ 227 (473)
+=.+.+.+.+...|..+|. ++++..-|.+||..-+.. .+..+|++ +|.|.||+|+|.||+.++.
T Consensus 92 eFsrkqIk~~~~~Fk~yDe~rDgfIdl~ELK~mmEKLgapQTHL--~lK~mike--Vded~dgklSfreflLIfr 162 (244)
T KOG0041|consen 92 EFSRKQIKDAESMFKQYDEDRDGFIDLMELKRMMEKLGAPQTHL--GLKNMIKE--VDEDFDGKLSFREFLLIFR 162 (244)
T ss_pred HHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHhCCchhhH--HHHHHHHH--hhcccccchhHHHHHHHHH
Confidence 4445566778888888887 888999999998777766 66777775 8889999999999998876
No 97
>PRK12309 transaldolase/EF-hand domain-containing protein; Provisional
Probab=95.26 E-value=0.039 Score=56.32 Aligned_cols=25 Identities=24% Similarity=0.112 Sum_probs=17.4
Q ss_pred HHHHHHhccCCCCCeeHHhhhccce
Q psy4132 373 LNSCLALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 373 ~~~~~~~D~~~dg~Is~~EF~~~~~ 397 (473)
..+|..+|.|+||.|+++||..++.
T Consensus 360 ~~~F~~~D~d~DG~Is~eEf~~~~~ 384 (391)
T PRK12309 360 DAVFDALDLNHDGKITPEEMRAGLG 384 (391)
T ss_pred HHHHHHhCCCCCCCCcHHHHHHHHH
Confidence 4567777777777777777776554
No 98
>KOG4666|consensus
Probab=95.09 E-value=0.034 Score=53.74 Aligned_cols=90 Identities=8% Similarity=0.058 Sum_probs=69.8
Q ss_pred ccCCCCCceeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcchhccC---CHHHHHHHHHhcCCC
Q psy4132 209 SNKDRDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQ---NPLVQRVIDIFDEDR 285 (473)
Q Consensus 209 ~D~d~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~---~~~~~~l~~~~D~d~ 285 (473)
+|.+++|.++|.|.+..++-- -........++-+|+.|+.+.||.+...+|..+.+... ...+-.+|...+...
T Consensus 268 Fde~~tg~~D~re~v~~lavl---c~p~~t~~iiq~afk~f~v~eDg~~ge~~ls~ilq~~lgv~~l~v~~lf~~i~q~d 344 (412)
T KOG4666|consen 268 FDEGTTGNGDYRETVKTLAVL---CGPPVTPVIIQYAFKRFSVAEDGISGEHILSLILQVVLGVEVLRVPVLFPSIEQKD 344 (412)
T ss_pred ecCCCCCcccHHHHhhhheee---eCCCCcHHHHHHHHHhcccccccccchHHHHHHHHHhcCcceeeccccchhhhccc
Confidence 689999999999998766521 13345677888999999999999999998888644321 223667888899888
Q ss_pred CCcccHHHHHHHHhhc
Q psy4132 286 NGEVDFKEFIQGVSQF 301 (473)
Q Consensus 286 dG~I~~~EF~~~l~~~ 301 (473)
+|+|+|.+|..++...
T Consensus 345 ~~ki~~~~f~~fa~~~ 360 (412)
T KOG4666|consen 345 DPKIYASNFRKFAATE 360 (412)
T ss_pred CcceeHHHHHHHHHhC
Confidence 9999999998887543
No 99
>KOG3341|consensus
Probab=94.75 E-value=0.44 Score=43.60 Aligned_cols=134 Identities=16% Similarity=0.113 Sum_probs=93.0
Q ss_pred HHHHHhchhhcCCCccchhHHHHHHHhhhCC--CCCCHHHHHHHHHHhccCCCCCeeHHh-hhccceeeeecccCcHHHH
Q psy4132 334 LIAALIEPLTSAGGTMLLTDAYCRINRARGL--ELLSPEDLLNSCLALDKLPDSPIYLKT-YSSGVKVLQLKSCEDASFV 410 (473)
Q Consensus 334 l~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~--~~ls~~ei~~~~~~~D~~~dg~Is~~E-F~~~~~vl~~~~~~~~~~~ 410 (473)
+.++....-..++|.|++.|+-..+.+.++. +.++.+|+..+++.+-.-+.|..-..= =...++.++.-...|.
T Consensus 102 viEvC~at~~~nGGlislqel~~~l~~~R~~~~e~vt~dD~lrAi~kLk~LG~gFev~~iggK~~vrSVP~ELn~Dh--- 178 (249)
T KOG3341|consen 102 VIEVCLATKHTNGGLISLQELCNHLLQRRKKDHEAVTEDDLLRAIDKLKVLGSGFEVIKIGGKKLVRSVPTELNMDH--- 178 (249)
T ss_pred HHHHHHHhhcccCCeeeHHHHHHHHHHHhcccchhccHHHHHHHHHHhhccCCCeEEEEecCEEeeecCcchhcccH---
Confidence 3333333334567899999988766666653 458999999999888888877432110 0111222222222222
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccc--ccccccccCc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEG--LRFYENKFLL 470 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g--~~~~~n~~~~ 470 (473)
..++++.+..+.+|...+-.-++|...=|..-|+.....|++-.|.+..+ ..|+|-.|..
T Consensus 179 t~ILela~~~gyvt~s~l~~~l~We~~Ra~qaLe~lv~egL~WiD~q~g~e~~YW~ps~~~~ 240 (249)
T KOG3341|consen 179 TVILELAEILGYVTISLLKANLGWERSRAIQALEHLVKEGLAWIDLQAGDEAAYWFPSLFTD 240 (249)
T ss_pred HHHHHHHHhcCceeHHHHHHhccchHHHHHHHHHHHHhccceeeeccCCcceeeechhhhhH
Confidence 46677888889999999999999999999999999999999999965544 6677776643
No 100
>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=94.73 E-value=0.036 Score=41.86 Aligned_cols=47 Identities=11% Similarity=0.101 Sum_probs=40.4
Q ss_pred HHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 410 VEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 410 ~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
+..|.+++...+.+|..|+|+.|++|.......|+..+.+|.|.+-+
T Consensus 2 L~~i~~~l~~~~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~~~ 48 (69)
T PF09012_consen 2 LQEIRDYLRERGRVSLAELAREFGISPEAVEAMLEQLIRKGYIRKVD 48 (69)
T ss_dssp CHHHHHHHHHS-SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEEEE
T ss_pred HHHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEEec
Confidence 45788899999999999999999999999999999999999998755
No 101
>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=94.73 E-value=0.079 Score=38.82 Aligned_cols=52 Identities=13% Similarity=0.172 Sum_probs=46.9
Q ss_pred CcHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 405 EDASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 405 ~~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
+.+.+++.|+.+-...+.++..+||+.+++|..-+.+.|...++.|+|+++.
T Consensus 5 ~~e~YL~~Iy~l~~~~~~v~~~~iA~~L~vs~~tvt~ml~~L~~~GlV~~~~ 56 (60)
T PF01325_consen 5 SEEDYLKAIYELSEEGGPVRTKDIAERLGVSPPTVTEMLKRLAEKGLVEYEP 56 (60)
T ss_dssp HHHHHHHHHHHHHHCTSSBBHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEET
T ss_pred HHHHHHHHHHHHHcCCCCccHHHHHHHHCCChHHHHHHHHHHHHCCCEEecC
Confidence 4578999999999888899999999999999999999999999999998754
No 102
>KOG0046|consensus
Probab=94.56 E-value=0.071 Score=54.81 Aligned_cols=67 Identities=22% Similarity=0.400 Sum_probs=54.8
Q ss_pred cchHHHHHHHHHHHhhCCCCCCCccHHHHhcchhcc-------CCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 234 KMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQ-------QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 234 ~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~-------~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
.+..+...+++.|..+| +++|+|+..|+..++... ....++.++...+.|.+|.|+|++|+..+..+
T Consensus 13 ~tq~El~~l~~kF~~~d-~~~G~v~~~~l~~~f~k~~~~~g~~~~eei~~~l~~~~~~~~g~v~fe~f~~~~~~l 86 (627)
T KOG0046|consen 13 LTQEELRELKEKFNKLD-DQKGYVTVYELPDAFKKAKLPLGYFVREEIKEILGEVGVDADGRVEFEEFVGIFLNL 86 (627)
T ss_pred ccHHHHHHHHHHHHhhc-CCCCeeehHHhHHHHHHhcccccchhHHHHHHHHhccCCCcCCccCHHHHHHHHHhh
Confidence 45677888999999999 999999999998853321 13357889999999999999999999976544
No 103
>PF10349 WWbp: WW-domain ligand protein; InterPro: IPR018826 This entry represents a sequence domain found in WW domain-binding protein that is characterised by several short PY and PT-like motifs of the PPPPY form. These appear to bind directly to the WW domains of WWP1 and WWP2 and other such diverse proteins as dystrophin and YAP (Yes-associated protein). The presence of a phosphotyrosine residue in the pWBP-1 peptide abolishes WW domain binding which suggests a potential regulatory role for tyrosine phosphorylation in modulating WW domain-ligand interactions. Given the likelihood that WWP1 and WWP2 function as E3 ubiquitin-protein ligases, it is possible that initial substrate-specific recognition occurs via WW domain-substrate protein interaction followed by ubiquitin transfer and subsequent proteolysis []. This domain lies just downstream of IPR004182 from INTERPRO in many sequences.
Probab=94.51 E-value=0.043 Score=46.08 Aligned_cols=31 Identities=23% Similarity=0.231 Sum_probs=26.5
Q ss_pred CCCCCCeEEEeccCCCchHHHHHHHHHHhhh
Q psy4132 98 ATSAYDYVKLSFREGIQNEFLDALKSTVDAK 128 (473)
Q Consensus 98 ~~~~~~~iklsFr~gg~~~F~~~l~~~l~~~ 128 (473)
+|.....+||+||+||+++|.+++.++-++-
T Consensus 4 Gw~g~~~fKltFk~GGAieFgq~~~~~~~~a 34 (116)
T PF10349_consen 4 GWEGQAEFKLTFKSGGAIEFGQAMLRLAERA 34 (116)
T ss_pred CccCceEEEEEeCCCChHHHHHHHHHHHHHH
Confidence 4667789999999999999999998876553
No 104
>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=94.50 E-value=0.088 Score=38.13 Aligned_cols=46 Identities=20% Similarity=0.261 Sum_probs=42.2
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..+++++...+.+|..++|+.+++|..-++.-|...++.|.|-|--
T Consensus 3 ~~Il~~l~~~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~i~r~~ 48 (57)
T PF08220_consen 3 QQILELLKEKGKVSVKELAEEFGVSEMTIRRDLNKLEKQGLIKRTH 48 (57)
T ss_pred HHHHHHHHHcCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 5678889999999999999999999999999999999999987643
No 105
>PF08567 TFIIH_BTF_p62_N: TFIIH p62 subunit, N-terminal domain; InterPro: IPR013876 The N-terminal region of the TFIIH basal transcription factor complex p62 subunit (BTF2-p62) forms an interaction with the 3' endonuclease XPG, which is essential for activity. The 3' endonuclease XPG is a major component of the nucleotide excision repair machinery. The structure of the N-terminal region reveals that it adopts a pleckstrin homology (PH) fold [, ]. ; PDB: 1Y5O_A 2LOX_A 2GS0_A 2L2I_A 2K2U_A 1PFJ_A 2RNR_B.
Probab=94.45 E-value=0.017 Score=44.88 Aligned_cols=48 Identities=27% Similarity=0.408 Sum_probs=38.0
Q ss_pred ccCcEEEeeeee--eeee-----cCccccccchhhhhHHHhhhhcccccCcccEEEEeecC
Q psy4132 35 FQRGELILTSHR--LFWQ-----KDITLCLALSYIQNAVEEAKSMFNLTAGRKIILYLSKA 88 (473)
Q Consensus 35 ~~~G~l~LTshR--ii~~-----~~~~~~l~l~~v~~~~~~~~~~~~~~~s~ki~~~l~~~ 88 (473)
.++|+|+||+-| +.|. +...+++|+..|.+..... -.|||+.|.|-..
T Consensus 11 K~~G~L~l~~d~~~~~W~~~~~~~~~~v~i~~~~I~~lq~Sp------~~s~Kv~Lki~~~ 65 (79)
T PF08567_consen 11 KKDGTLTLTEDRKPLEWTPKASDGPSTVSIPLNDIKNLQQSP------EGSPKVMLKIVLK 65 (79)
T ss_dssp TEEEEEEEETTCSSEEEEECCSSSSSEEEEETTTEEEEEE--------TTSSTEEEEEEET
T ss_pred cCCcEEEEecCCceEEEeecCCCCCceEEEEHHHhhhhccCC------CCCcceEEEEEEe
Confidence 577999999999 9999 2235999999999985554 3789999998643
No 106
>smart00683 DM16 Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc.
Probab=94.43 E-value=0.042 Score=39.23 Aligned_cols=48 Identities=21% Similarity=0.342 Sum_probs=32.5
Q ss_pred CceEEeecceeeecCCCCCcccCcEEEeeeeeeeee----cCccccccchhhhhH
Q psy4132 15 ESPVLKHSNVRLYDGENKSQFQRGELILTSHRLFWQ----KDITLCLALSYIQNA 65 (473)
Q Consensus 15 E~~~~~~~~v~ly~g~~~~~~~~G~l~LTshRii~~----~~~~~~l~l~~v~~~ 65 (473)
|.++-..++|.=--|+ +=+-|++++|+.|+||. +..-+|||.-.|..+
T Consensus 1 E~v~~~~~~Ved~kgn---~G~~G~l~VTNlRiiW~s~~~~~~NlSIgy~~i~~i 52 (55)
T smart00683 1 ERVLTRINGVEDTKGN---NGDLGVFFVTNLRLVWHSDTNPRFNISVGYLQITNV 52 (55)
T ss_pred CEEEeeecCeEecCCC---CCCeeEEEEEeeEEEEEeCCCCceEEEEcceeEEEE
Confidence 4455555665422222 22569999999999999 555689988777654
No 107
>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=94.28 E-value=0.19 Score=34.77 Aligned_cols=43 Identities=16% Similarity=0.177 Sum_probs=37.8
Q ss_pred HHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCc
Q psy4132 410 VEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKL 452 (473)
Q Consensus 410 ~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l 452 (473)
-.+++.++..++++|..|+|+.+++|..-+...|...++.|.|
T Consensus 5 ~~~Il~~l~~~~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 5 QRKILNYLRENPRITQKELAEKLGISRSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp HHHHHHHHHHCTTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHHcCCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCc
Confidence 4677888889999999999999999999999999999999986
No 108
>PF07289 DUF1448: Protein of unknown function (DUF1448); InterPro: IPR006606 This entry represents the Bardet-Biedl syndrome 5 protein (BBL5). It consists of eukaryotic proteins of around 375 residues in length.
Probab=94.10 E-value=0.16 Score=50.06 Aligned_cols=97 Identities=19% Similarity=0.340 Sum_probs=71.1
Q ss_pred CCCCCCCCceEEeecceeeecCCCCCcccCcEEEeeeeeeeee----cCccccccchhhhhHHHhhhhcccccCcccEEE
Q psy4132 8 SFELSPDESPVLKHSNVRLYDGENKSQFQRGELILTSHRLFWQ----KDITLCLALSYIQNAVEEAKSMFNLTAGRKIIL 83 (473)
Q Consensus 8 ~~~l~~~E~~~~~~~~v~ly~g~~~~~~~~G~l~LTshRii~~----~~~~~~l~l~~v~~~~~~~~~~~~~~~s~ki~~ 83 (473)
+..|-|+|.++-..+||---..++- +. |+.++|++||+|. ...-+|||.=.|.++..-...| .. -+++
T Consensus 148 ~L~lLp~E~v~~~~~gVwnls~dqG-nL--GtfivTNvRiVW~A~~ne~fNVSiPylqi~~i~ir~SKf----G~-aLVi 219 (339)
T PF07289_consen 148 QLKLLPQEQVYSRVNGVWNLSSDQG-NL--GTFIVTNVRIVWFADMNESFNVSIPYLQIKSIRIRDSKF----GP-ALVI 219 (339)
T ss_pred eEeeCCccEEeeccCCEEEcccCCC-ce--eEEEEeeeEEEEEccCCccccccchHhhheeeeeecccc----ce-EEEE
Confidence 3447899999999999988877643 22 9999999999999 4456899999999986555334 22 2444
Q ss_pred EeecCCCCCCCCCCCCCCCCeEEEeccCCCchHHHHHHHHHH
Q psy4132 84 YLSKAVPGKNLGPSATSAYDYVKLSFREGIQNEFLDALKSTV 125 (473)
Q Consensus 84 ~l~~~~~~~~~~p~~~~~~~~iklsFr~gg~~~F~~~l~~~l 125 (473)
...+ .++.|| |.||-.+.....+.+++..
T Consensus 220 eT~~------------~sGgYV-LGFRvDP~ErL~~l~KEi~ 248 (339)
T PF07289_consen 220 ETSE------------SSGGYV-LGFRVDPEERLQELFKEIQ 248 (339)
T ss_pred EEec------------cCCcEE-EEEEcCHHHHHHHHHHHHH
Confidence 4432 244676 8999998887777777654
No 109
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=94.01 E-value=0.088 Score=38.79 Aligned_cols=51 Identities=24% Similarity=0.240 Sum_probs=41.3
Q ss_pred HHHHHHHhh-CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccc
Q psy4132 411 EKTYEIVSQ-NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGL 461 (473)
Q Consensus 411 ~~~~~~~~~-~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~ 461 (473)
++|+.++.. .++++..|+|..+++|..-|+..|...+..|.|-+....-|.
T Consensus 3 e~Il~~i~~~~~p~~T~eiA~~~gls~~~aR~yL~~Le~eG~V~~~~~~rG~ 54 (62)
T PF04703_consen 3 EKILEYIKEQNGPLKTREIADALGLSIYQARYYLEKLEKEGKVERSPVRRGK 54 (62)
T ss_dssp HCHHHHHHHHTS-EEHHHHHHHHTS-HHHHHHHHHHHHHCTSEEEES-SSSS
T ss_pred HHHHHHHHHcCCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEecCCCCc
Confidence 346666666 789999999999999999999999999999999887765553
No 110
>PF14788 EF-hand_10: EF hand; PDB: 1DJW_B 1DJI_B 1DJG_B 1QAS_B 2ISD_B 1DJZ_B 1DJY_B 1DJX_B 1QAT_A 1DJH_A ....
Probab=93.65 E-value=0.2 Score=35.17 Aligned_cols=26 Identities=15% Similarity=0.296 Sum_probs=15.6
Q ss_pred HHHHHHHhcCCCCCcccHHHHHHHHh
Q psy4132 274 VQRVIDIFDEDRNGEVDFKEFIQGVS 299 (473)
Q Consensus 274 ~~~l~~~~D~d~dG~I~~~EF~~~l~ 299 (473)
+..+|+.+|.+++|.+.-+||..++.
T Consensus 23 A~~LFq~~D~s~~g~Le~~Ef~~Fy~ 48 (51)
T PF14788_consen 23 ARQLFQECDKSQSGRLEGEEFEEFYK 48 (51)
T ss_dssp HHHHHHHH-SSSSSEBEHHHHHHHHH
T ss_pred HHHHHHHhcccCCCCccHHHHHHHHH
Confidence 55666666666666666666665554
No 111
>PF12763 EF-hand_4: Cytoskeletal-regulatory complex EF hand; PDB: 2QPT_A 2KSP_A 2KFG_A 2JQ6_A 2KFH_A 2KFF_A 1IQ3_A 3FIA_A 2KHN_A 2KGR_A ....
Probab=93.60 E-value=0.16 Score=41.76 Aligned_cols=34 Identities=12% Similarity=0.112 Sum_probs=29.3
Q ss_pred CCCHHHHHHHHHHhccCCCCCeeHHhhhccceee
Q psy4132 366 LLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVL 399 (473)
Q Consensus 366 ~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl 399 (473)
.++.+.+.+|+...|.++||.++++||.-++..+
T Consensus 39 ~L~~~~L~~IW~LaD~~~dG~L~~~EF~iAm~Li 72 (104)
T PF12763_consen 39 GLPRDVLAQIWNLADIDNDGKLDFEEFAIAMHLI 72 (104)
T ss_dssp TSSHHHHHHHHHHH-SSSSSEEEHHHHHHHHHHH
T ss_pred CCCHHHHHHHHhhhcCCCCCcCCHHHHHHHHHHH
Confidence 3889999999999999999999999998777644
No 112
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=93.11 E-value=0.33 Score=37.29 Aligned_cols=47 Identities=17% Similarity=0.140 Sum_probs=43.3
Q ss_pred HHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 410 VEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 410 ~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
+.++-.++..++..++.++|+.|+.|..+...+|+..+.+|+|.|=+
T Consensus 4 L~qlRd~l~~~gr~s~~~Ls~~~~~p~~~VeaMLe~l~~kGkverv~ 50 (78)
T PRK15431 4 LIQVRDLLALRGRMEAAQISQTLNTPQPMINAMLQQLESMGKAVRIQ 50 (78)
T ss_pred HHHHHHHHHHcCcccHHHHHHHHCcCHHHHHHHHHHHHHCCCeEeec
Confidence 56677888999999999999999999999999999999999999754
No 113
>smart00054 EFh EF-hand, calcium binding motif. EF-hands are calcium-binding motifs that occur at least in pairs. Links between disease states and genes encoding EF-hands, particularly the S100 subclass, are emerging. Each motif consists of a 12 residue loop flanked on either side by a 12 residue alpha-helix. EF-hands undergo a conformational change unpon binding calcium ions.
Probab=92.88 E-value=0.17 Score=29.62 Aligned_cols=24 Identities=33% Similarity=0.762 Sum_probs=13.7
Q ss_pred HHHHHHhcCCCCCcccHHHHHHHH
Q psy4132 275 QRVIDIFDEDRNGEVDFKEFIQGV 298 (473)
Q Consensus 275 ~~l~~~~D~d~dG~I~~~EF~~~l 298 (473)
..+|..+|.+++|.|++.+|..++
T Consensus 3 ~~~f~~~d~~~~g~i~~~e~~~~~ 26 (29)
T smart00054 3 KEAFRLFDKDGDGKIDFEEFKDLL 26 (29)
T ss_pred HHHHHHHCCCCCCcEeHHHHHHHH
Confidence 345555566656666666665554
No 114
>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=92.68 E-value=0.25 Score=36.87 Aligned_cols=52 Identities=19% Similarity=0.187 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHhhCC-CCCHHHHHHhhCCc-HHHHHHHHHHHHHcCCccccCCc
Q psy4132 407 ASFVEKTYEIVSQNV-FVTVEQFSRLASVS-LVIAKHRLLLAETHGKLCRDQSI 458 (473)
Q Consensus 407 ~~~~~~~~~~~~~~~-~ls~~e~a~~~~~s-~~~~~~~l~~~~~~g~l~~d~~~ 458 (473)
..++..|.+++..+| .-|.-|||+.+|++ ..-+...|...|+.|+|-|+...
T Consensus 9 ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~r~~~~ 62 (65)
T PF01726_consen 9 KEVLEFIREYIEENGYPPTVREIAEALGLKSTSTVQRHLKALERKGYIRRDPGK 62 (65)
T ss_dssp HHHHHHHHHHHHHHSS---HHHHHHHHTSSSHHHHHHHHHHHHHTTSEEEGCCS
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCcCccCCCCC
Confidence 567778888777655 57999999999996 99999999999999999998753
No 115
>PF14788 EF-hand_10: EF hand; PDB: 1DJW_B 1DJI_B 1DJG_B 1QAS_B 2ISD_B 1DJZ_B 1DJY_B 1DJX_B 1QAT_A 1DJH_A ....
Probab=92.03 E-value=0.19 Score=35.26 Aligned_cols=32 Identities=13% Similarity=-0.023 Sum_probs=25.4
Q ss_pred CCHHHHHHHHHHhccCCCCCeeHHhhhcccee
Q psy4132 367 LSPEDLLNSCLALDKLPDSPIYLKTYSSGVKV 398 (473)
Q Consensus 367 ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~v 398 (473)
++.+-+..+|+..|++++|.+..+||...++.
T Consensus 18 ~~~~yA~~LFq~~D~s~~g~Le~~Ef~~Fy~~ 49 (51)
T PF14788_consen 18 MDDEYARQLFQECDKSQSGRLEGEEFEEFYKR 49 (51)
T ss_dssp --HHHHHHHHHHH-SSSSSEBEHHHHHHHHHH
T ss_pred cCHHHHHHHHHHhcccCCCCccHHHHHHHHHH
Confidence 67777889999999999999999999876653
No 116
>PF10591 SPARC_Ca_bdg: Secreted protein acidic and rich in cysteine Ca binding region; InterPro: IPR019577 This entry represents the calcium-binding domain found in SPARC (Secreted Protein Acidic and Rich in Cysteine) and Testican (also known as SPOCK; or SParc/Osteonectin, Cwcv and Kazal-like domains) proteins. SPARC proteins are down-regulated in various tumours and may have a tumour-suppressor function [, ]. Testican-3 appears to be a novel regulator that reduces the activity of matrix metalloproteinase (MMP) in adult T-cell leukemia (ATL) []. This cysteine-rich domain is responsible for the anti-spreading activity of human urothelial cells. This extracellular calcium-binding domain is rich in alpha-helices and contains two EF-hands that each coordinates one Ca2+ ion, forming a helix-loop-helix structure that not only drives the conformation of the protein but is also necessary for biological activity. The anti-spreading activity was dependent on the coordination of Ca2+ by a Glu residue at the Z position of EF-hand 2 []. ; GO: 0005509 calcium ion binding, 0007165 signal transduction, 0005578 proteinaceous extracellular matrix; PDB: 1BMO_A 1SRA_A 2V53_A 1NUB_B.
Probab=91.97 E-value=0.075 Score=44.43 Aligned_cols=61 Identities=15% Similarity=0.075 Sum_probs=34.8
Q ss_pred cHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCC
Q psy4132 307 RESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSP 386 (473)
Q Consensus 307 ~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~ 386 (473)
....+...|..+|.|+||.+...|+..|...|. -...=+..+++..|.|+||.
T Consensus 52 ~~~~~~W~F~~LD~n~d~~L~~~El~~l~~~l~---------------------------~~e~C~~~F~~~CD~n~d~~ 104 (113)
T PF10591_consen 52 CKRVVHWKFCQLDRNKDGVLDRSELKPLRRPLM---------------------------PPEHCARPFFRSCDVNKDGK 104 (113)
T ss_dssp GHHHHHHHHHHH--T-SSEE-TTTTGGGGSTTS---------------------------TTGGGHHHHHHHH-TT-SSS
T ss_pred hhhhhhhhHhhhcCCCCCccCHHHHHHHHHHHh---------------------------hhHHHHHHHHHHcCCCCCCC
Confidence 345677788888988886666644433332221 00111556788999999999
Q ss_pred eeHHhhhc
Q psy4132 387 IYLKTYSS 394 (473)
Q Consensus 387 Is~~EF~~ 394 (473)
||+.||..
T Consensus 105 Is~~EW~~ 112 (113)
T PF10591_consen 105 ISLDEWCN 112 (113)
T ss_dssp EEHHHHHH
T ss_pred CCHHHHcc
Confidence 99999853
No 117
>smart00054 EFh EF-hand, calcium binding motif. EF-hands are calcium-binding motifs that occur at least in pairs. Links between disease states and genes encoding EF-hands, particularly the S100 subclass, are emerging. Each motif consists of a 12 residue loop flanked on either side by a 12 residue alpha-helix. EF-hands undergo a conformational change unpon binding calcium ions.
Probab=91.72 E-value=0.12 Score=30.21 Aligned_cols=26 Identities=23% Similarity=0.247 Sum_probs=22.4
Q ss_pred HHHHHHHhccCCCCCeeHHhhhccce
Q psy4132 372 LLNSCLALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 372 i~~~~~~~D~~~dg~Is~~EF~~~~~ 397 (473)
+..+|+.+|.+++|.|++.+|...++
T Consensus 2 ~~~~f~~~d~~~~g~i~~~e~~~~~~ 27 (29)
T smart00054 2 LKEAFRLFDKDGDGKIDFEEFKDLLK 27 (29)
T ss_pred HHHHHHHHCCCCCCcEeHHHHHHHHH
Confidence 56789999999999999999987654
No 118
>KOG4065|consensus
Probab=91.35 E-value=0.29 Score=40.24 Aligned_cols=54 Identities=26% Similarity=0.373 Sum_probs=38.0
Q ss_pred HHHHhhCCCCCCCccHHHHhcchh-------ccC-------CH----HHHHHHHHhcCCCCCcccHHHHHHH
Q psy4132 244 KRFRKLDLDNSGALSIDEFMSLPE-------LQQ-------NP----LVQRVIDIFDEDRNGEVDFKEFIQG 297 (473)
Q Consensus 244 ~~F~~~D~d~~G~Is~~el~~l~~-------~~~-------~~----~~~~l~~~~D~d~dG~I~~~EF~~~ 297 (473)
..|+..|-|++|.++--|+..... .+. .. .++.+++.-|.|+||.|+|-||+..
T Consensus 71 HYF~MHDldknn~lDGiEl~kAiTH~H~~h~~ghep~Pl~sE~Ele~~iD~vL~DdDfN~DG~IDYgEflK~ 142 (144)
T KOG4065|consen 71 HYFSMHDLDKNNFLDGIELLKAITHTHDAHDSGHEPVPLSSEAELERLIDAVLDDDDFNGDGVIDYGEFLKR 142 (144)
T ss_pred hhhhhhccCcCCcchHHHHHHHHHHHhhhhhcCCCCCCCCCHHHHHHHHHHHhcccccCCCceeeHHHHHhh
Confidence 457888888888888888776311 111 11 2456667778999999999999863
No 119
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=91.31 E-value=0.64 Score=32.25 Aligned_cols=46 Identities=28% Similarity=0.343 Sum_probs=39.6
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
.++.++...+++|..++++.+++|..-+...|...+..|+|.+..+
T Consensus 4 ~il~~l~~~~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~~~~ 49 (53)
T smart00420 4 QILELLAQQGKVSVEELAELLGVSEMTIRRDLNKLEEQGLLTRVHG 49 (53)
T ss_pred HHHHHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeec
Confidence 3455566678899999999999999999999999999999987653
No 120
>KOG0169|consensus
Probab=90.92 E-value=2 Score=46.71 Aligned_cols=135 Identities=14% Similarity=0.230 Sum_probs=86.6
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhcchhc----cCCHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHH
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPEL----QQNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESK 310 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~----~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~ 310 (473)
.......+...|+..|++++|.++..+...+... ....-+..+|++.+.-+++++...+|..+....... . .
T Consensus 131 ~~~~~~wi~~~~~~ad~~~~~~~~~~~~~~~~~~~n~~l~~~~~~~~f~e~~~~~~~k~~~~~~~~~~~~~~~r---p-e 206 (746)
T KOG0169|consen 131 RSRREHWIHSIFQEADKNKNGHMSFDEVLDLLKQLNVQLSESKARRLFKESDNSQTGKLEEEEFVKFRKELTKR---P-E 206 (746)
T ss_pred cchHHHHHHHHHHHHccccccccchhhHHHHHHHHHHhhhHHHHHHHHHHHHhhccceehHHHHHHHHHhhccC---c-h
Confidence 3455677888999999999999999988775221 122346778888888889999999999887655222 2 5
Q ss_pred HHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccC----CCCC
Q psy4132 311 LKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKL----PDSP 386 (473)
Q Consensus 311 l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~----~dg~ 386 (473)
+..+|..+-.+ .+..+. .+++.+| .-..|.+.++.+..+++++.+... ..+.
T Consensus 207 v~~~f~~~s~~-~~~ls~---~~L~~Fl--------------------~~~q~e~~~~~~~ae~ii~~~e~~k~~~~~~~ 262 (746)
T KOG0169|consen 207 VYFLFVQYSHG-KEYLST---DDLLRFL--------------------EEEQGEDGATLDEAEEIIERYEPSKEFRRHGL 262 (746)
T ss_pred HHHHHHHHhCC-CCccCH---HHHHHHH--------------------HHhcccccccHHHHHHHHHHhhhhhhccccce
Confidence 66666666433 223333 3333333 333333456666666666555322 3456
Q ss_pred eeHHhhhccce
Q psy4132 387 IYLKTYSSGVK 397 (473)
Q Consensus 387 Is~~EF~~~~~ 397 (473)
++++.|.+.+.
T Consensus 263 l~ldgF~~yL~ 273 (746)
T KOG0169|consen 263 LSLDGFTRYLF 273 (746)
T ss_pred ecHHHHHHHhc
Confidence 88888876665
No 121
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=90.86 E-value=0.6 Score=36.69 Aligned_cols=48 Identities=21% Similarity=0.264 Sum_probs=43.2
Q ss_pred cHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 406 DASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 406 ~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
|.+..+++.+-+.....+|+.-++..+++..++|+..|..+|++|.|.
T Consensus 25 dk~t~dkl~kEV~~~K~ITps~lserlkI~~SlAr~~Lr~L~~kG~Ik 72 (86)
T PRK09334 25 DEELLKRVAKEVKKEKIVTPYTLASKYGIKISVAKKVLRELEKRGVLV 72 (86)
T ss_pred CHHHHHHHHHHhccCcEEcHHHHHHHhcchHHHHHHHHHHHHHCCCEE
Confidence 567778888777778899999999999999999999999999999884
No 122
>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=90.74 E-value=0.5 Score=33.32 Aligned_cols=44 Identities=16% Similarity=0.163 Sum_probs=36.4
Q ss_pred HHHHHhh-CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 413 TYEIVSQ-NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 413 ~~~~~~~-~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
+++++.. .+++|..|+|+..++|..-+...|...++.|+|.||+
T Consensus 8 iL~~l~~~~~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v~~dp 52 (52)
T PF09339_consen 8 ILEALAESGGPLTLSEIARALGLPKSTVHRLLQTLVEEGYVERDP 52 (52)
T ss_dssp HHHCHHCTBSCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEECS
T ss_pred HHHHHHcCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCeecCc
Confidence 3444433 4568999999999999999999999999999999985
No 123
>PF07289 DUF1448: Protein of unknown function (DUF1448); InterPro: IPR006606 This entry represents the Bardet-Biedl syndrome 5 protein (BBL5). It consists of eukaryotic proteins of around 375 residues in length.
Probab=90.36 E-value=0.2 Score=49.41 Aligned_cols=52 Identities=31% Similarity=0.522 Sum_probs=43.7
Q ss_pred CCCCCceEEeecceeeecCCCC-CcccCcEEEeeeeeeeee----cCccccccchhhhhHH
Q psy4132 11 LSPDESPVLKHSNVRLYDGENK-SQFQRGELILTSHRLFWQ----KDITLCLALSYIQNAV 66 (473)
Q Consensus 11 l~~~E~~~~~~~~v~ly~g~~~-~~~~~G~l~LTshRii~~----~~~~~~l~l~~v~~~~ 66 (473)
|++||.++-..++|. |.| -+-+.|+|++|+-||||. +...+||-+..|.++.
T Consensus 19 lr~GE~~i~~~~~VE----DtKGN~G~~G~l~vTNLR~iW~s~~~~r~NlSIG~~~i~~i~ 75 (339)
T PF07289_consen 19 LRPGEFIIDRLDPVE----DTKGNNGDRGRLVVTNLRLIWHSLKRPRINLSIGYNCITNIS 75 (339)
T ss_pred cccceEEEEeeecee----eccCCCCCeeEEEEEeeeeEEeccCCCceeEEeeceeEEEEE
Confidence 789999999999985 444 344899999999999999 6677888888888774
No 124
>KOG1029|consensus
Probab=90.30 E-value=1.5 Score=47.45 Aligned_cols=58 Identities=17% Similarity=0.308 Sum_probs=39.0
Q ss_pred HHHHHHhhC--CCCCCCccHHHHhcc-hhc-cCCHHHHHHHHHhcCCCCCcccHHHHHHHHh
Q psy4132 242 LGKRFRKLD--LDNSGALSIDEFMSL-PEL-QQNPLVQRVIDIFDEDRNGEVDFKEFIQGVS 299 (473)
Q Consensus 242 l~~~F~~~D--~d~~G~Is~~el~~l-~~~-~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~ 299 (473)
..+-|..|+ +-+.|+|+-..-+.+ +.. ...+.+..|+...|.|+||+++..||.-+|.
T Consensus 15 r~K~~~qF~~Lkp~~gfitg~qArnfflqS~LP~~VLaqIWALsDldkDGrmdi~EfSIAmk 76 (1118)
T KOG1029|consen 15 RQKHDAQFGQLKPGQGFITGDQARNFFLQSGLPTPVLAQIWALSDLDKDGRMDIREFSIAMK 76 (1118)
T ss_pred HHHHHHHHhccCCCCCccchHhhhhhHHhcCCChHHHHHHHHhhhcCccccchHHHHHHHHH
Confidence 334444444 345788888877774 222 2345577888888888888888888877664
No 125
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=89.94 E-value=0.59 Score=43.95 Aligned_cols=58 Identities=12% Similarity=0.167 Sum_probs=52.1
Q ss_pred eeecccCcHHHHHHHHHHHhh-CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 399 LQLKSCEDASFVEKTYEIVSQ-NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 399 l~~~~~~~~~~~~~~~~~~~~-~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
+...++++-+.+++|++.++. ++.++..++|..+|+|....++++...|..|.+-...
T Consensus 174 i~tLSySEleAv~~IL~~L~~~egrlse~eLAerlGVSRs~ireAlrkLE~aGvIe~r~ 232 (251)
T TIGR02787 174 INTLSYSELEAVEHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRS 232 (251)
T ss_pred HHhccHhHHHHHHHHHHHhccccccccHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecc
Confidence 455677777888999999999 5999999999999999999999999999999998766
No 126
>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=89.88 E-value=0.67 Score=33.66 Aligned_cols=48 Identities=10% Similarity=0.075 Sum_probs=39.2
Q ss_pred HHHHHHHhhCCC--CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCc
Q psy4132 411 EKTYEIVSQNVF--VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSI 458 (473)
Q Consensus 411 ~~~~~~~~~~~~--ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~ 458 (473)
..++.++...++ +|+.++|+.++++..-+...+...++.|+|.|..+.
T Consensus 8 ~~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~~~ 57 (62)
T PF12802_consen 8 FRVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERERDP 57 (62)
T ss_dssp HHHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE-S
T ss_pred HHHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCC
Confidence 345556666666 999999999999999999999999999999987554
No 127
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=89.45 E-value=1.4 Score=37.11 Aligned_cols=51 Identities=20% Similarity=0.201 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 407 ASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 407 ~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
+.+..+|.+++.++|.+|..++....|.+...+...+..+++.|.|-+-+.
T Consensus 11 ~eLk~rIvElVRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l~~~G~ 61 (127)
T PF06163_consen 11 EELKARIVELVREHGRITIKQLVAKTGASRNTVKRYLRELVARGDLYRHGR 61 (127)
T ss_pred HHHHHHHHHHHHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCCeEeCCC
Confidence 578899999999999999999999999999999999999999999998553
No 128
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=88.58 E-value=0.99 Score=32.48 Aligned_cols=51 Identities=10% Similarity=0.105 Sum_probs=40.0
Q ss_pred HHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 414 YEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 414 ~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
+.++. .+.+|..++++.+++|..-+...|...++.|.+-+........|+.
T Consensus 3 l~~l~-~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~~~ 53 (66)
T smart00418 3 LKLLA-EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYYSL 53 (66)
T ss_pred HHHhh-cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeecCCEEEEEE
Confidence 33444 6789999999999999999999999999999998665433334443
No 129
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=88.44 E-value=1.3 Score=37.46 Aligned_cols=53 Identities=17% Similarity=0.182 Sum_probs=43.8
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCc-cccccc
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSI-EGLRFY 464 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~-~g~~~~ 464 (473)
-...+++.++++|.+++|..++.+-.-+..-|+.....|.+-|.... .|-+||
T Consensus 32 v~~~LL~~~~~~tvdelae~lnr~rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~ 85 (126)
T COG3355 32 VYKALLEENGPLTVDELAEILNRSRSTVYRSLQNLLEAGLVEREKVNLKGGGYY 85 (126)
T ss_pred HHHHHHhhcCCcCHHHHHHHHCccHHHHHHHHHHHHHcCCeeeeeeccCCCcee
Confidence 33445557899999999999999999999999999999999997733 554444
No 130
>KOG3555|consensus
Probab=88.38 E-value=0.8 Score=44.92 Aligned_cols=64 Identities=17% Similarity=0.211 Sum_probs=55.8
Q ss_pred HHHHHHHHHHhhCCCCCCCccHHHHhcchhccCCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 238 DIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 238 ~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
-...+...|..+|.+.+|.++..||..+..-....-++.+|...|...||.|+-.||+..+.+-
T Consensus 248 CKds~gWMFnklD~N~Dl~Ld~sEl~~I~ldknE~CikpFfnsCD~~kDg~iS~~EWC~CF~k~ 311 (434)
T KOG3555|consen 248 CKDSLGWMFNKLDTNYDLLLDQSELRAIELDKNEACIKPFFNSCDTYKDGSISTNEWCYCFQKS 311 (434)
T ss_pred hhhhhhhhhhccccccccccCHHHhhhhhccCchhHHHHHHhhhcccccCccccchhhhhhccC
Confidence 4567888999999999999999999998666656668999999999999999999999877654
No 131
>COG4901 Ribosomal protein S25 [Translation, ribosomal structure and biogenesis]
Probab=88.22 E-value=1.1 Score=36.06 Aligned_cols=48 Identities=19% Similarity=0.164 Sum_probs=43.8
Q ss_pred cHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 406 DASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 406 ~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
+++.+.++.+-+.....+|+-.++..+|+..++|+..|...+++|.|.
T Consensus 43 dee~~~ki~KEV~~~r~VTpy~la~r~gI~~SvAr~vLR~LeeeGvv~ 90 (107)
T COG4901 43 DEELLDKIRKEVPRERVVTPYVLASRYGINGSVARIVLRHLEEEGVVQ 90 (107)
T ss_pred cHHHHHHHHHhcccceeecHHHHHHHhccchHHHHHHHHHHHhCCcee
Confidence 577888888877777889999999999999999999999999999886
No 132
>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=87.65 E-value=0.76 Score=33.08 Aligned_cols=47 Identities=15% Similarity=0.162 Sum_probs=40.0
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCc
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSI 458 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~ 458 (473)
.++.++...+++|..++|+.++++.+-+...+...+..|+|.|-.++
T Consensus 7 ~iL~~l~~~~~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~~~ 53 (59)
T PF01047_consen 7 RILRILYENGGITQSELAEKLGISRSTVTRIIKRLEKKGLIERERDP 53 (59)
T ss_dssp HHHHHHHHHSSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEEET
T ss_pred HHHHHHHHcCCCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEeccCC
Confidence 45566677788999999999999999999999999999999986543
No 133
>PHA02943 hypothetical protein; Provisional
Probab=87.49 E-value=1.3 Score=38.37 Aligned_cols=47 Identities=17% Similarity=0.186 Sum_probs=41.0
Q ss_pred HHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 409 FVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 409 ~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
-...+++++ ..|+.|..|+|+.+|+|.+-|+-.|...|..|.|-+-.
T Consensus 12 R~~eILE~L-k~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~VkrV~ 58 (165)
T PHA02943 12 RMIKTLRLL-ADGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLKVE 58 (165)
T ss_pred HHHHHHHHH-hcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEEEe
Confidence 345567777 77899999999999999999999999999999998844
No 134
>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=86.96 E-value=0.7 Score=34.53 Aligned_cols=52 Identities=19% Similarity=0.146 Sum_probs=42.3
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccc
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFY 464 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~ 464 (473)
+++..+-..+..|+.|+|+..++|-.-+...|...+++|++-|..+. ..+|+
T Consensus 12 ~vy~~Ll~~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~~~~-~~~Y~ 63 (68)
T PF01978_consen 12 KVYLALLKNGPATAEEIAEELGISRSTVYRALKSLEEKGLVEREEGR-PKVYR 63 (68)
T ss_dssp HHHHHHHHHCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEEEC-CEEEE
T ss_pred HHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcCc-eEEEE
Confidence 44444446789999999999999999999999999999999988733 33443
No 135
>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=86.93 E-value=1.5 Score=31.95 Aligned_cols=47 Identities=15% Similarity=0.104 Sum_probs=39.9
Q ss_pred HHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 409 FVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 409 ~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
..-.|+.++...++.|..++|+.+++|..-+...|...++.|+|-..
T Consensus 11 ~R~~Il~~L~~~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~~ 57 (61)
T PF12840_consen 11 TRLRILRLLASNGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEVE 57 (61)
T ss_dssp HHHHHHHHHHHCSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEe
Confidence 34566777777899999999999999999999999999999998643
No 136
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=86.66 E-value=1.7 Score=34.15 Aligned_cols=46 Identities=13% Similarity=0.075 Sum_probs=40.1
Q ss_pred HHHHHHHhhC-CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 411 EKTYEIVSQN-VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 411 ~~~~~~~~~~-~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
-.++.++... +++|..|+|+.+++|..-+...|...++.|+|.++.
T Consensus 8 ~~Il~~l~~~~~~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~~~ 54 (91)
T smart00346 8 LAVLRALAEEPGGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQDG 54 (91)
T ss_pred HHHHHHHHhCCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeeecC
Confidence 4455666655 789999999999999999999999999999999874
No 137
>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=86.57 E-value=1.2 Score=36.56 Aligned_cols=52 Identities=17% Similarity=0.146 Sum_probs=45.4
Q ss_pred cHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 406 DASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 406 ~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
|.+....+.+-+.....||+..+|..+++..++|+..|..++.+|.|..=..
T Consensus 43 d~~~~~kl~kEV~~~K~ITp~~lserlkI~~SlAr~~Lr~L~~kG~Ik~V~k 94 (105)
T PF03297_consen 43 DKETYDKLLKEVPKMKLITPSVLSERLKINGSLARKALRELESKGLIKPVSK 94 (105)
T ss_dssp TCHHHHHHHHHCTTSSCECHHHHHHHHCCSCHHHHHHHHHHHHCCSSEEEEC
T ss_pred cHHHHHHHHHHhccCcEeeHHHHHHhHhhHHHHHHHHHHHHHHCCCEEEEec
Confidence 4677788887777788999999999999999999999999999999975433
No 138
>KOG4578|consensus
Probab=86.46 E-value=0.32 Score=47.25 Aligned_cols=64 Identities=13% Similarity=0.262 Sum_probs=51.0
Q ss_pred HHHHHHHHHHhhCCCCCCCccHHHHhcchhcc---CCH--HHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 238 DIRRLGKRFRKLDLDNSGALSIDEFMSLPELQ---QNP--LVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 238 ~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~---~~~--~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
+...+...|..+|+|.++.|...|++.+.... .++ -...+++..|.|+|..|+++|+...+..-
T Consensus 331 eeRvv~w~F~qLdkN~nn~i~rrEwKpFK~~l~k~s~~rkC~rk~~~yCDlNkDKkISl~Ew~~CL~~~ 399 (421)
T KOG4578|consen 331 EERVVHWYFNQLDKNSNNDIERREWKPFKRVLLKKSKPRKCSRKFFKYCDLNKDKKISLDEWRGCLGVE 399 (421)
T ss_pred hhheeeeeeeeecccccCccchhhcchHHHHHHhhccHHHHhhhcchhcccCCCceecHHHHhhhhccc
Confidence 34456778999999999999999998853322 222 25789999999999999999999988654
No 139
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=86.26 E-value=1.8 Score=37.59 Aligned_cols=51 Identities=12% Similarity=0.203 Sum_probs=46.8
Q ss_pred CcHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 405 EDASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 405 ~~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
..+.+++.++.++...+..+..++|+.+++|.+-+...|...+..|+|.+.
T Consensus 5 ~~edyL~~I~~l~~~~~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~~~ 55 (142)
T PRK03902 5 SMEDYIEQIYLLIEEKGYARVSDIAEALSVHPSSVTKMVQKLDKDEYLIYE 55 (142)
T ss_pred hHHHHHHHHHHHHhcCCCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEEEe
Confidence 346889999999998999999999999999999999999999999999854
No 140
>KOG0035|consensus
Probab=85.71 E-value=7.2 Score=43.60 Aligned_cols=92 Identities=20% Similarity=0.175 Sum_probs=73.1
Q ss_pred cccchHHHHHHHHHHHhhCCCCCCCccHHHHhc-chhccCCHH-----H---HHHHHHhcCCCCCcccHHHHHHHHhhcc
Q psy4132 232 HKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMS-LPELQQNPL-----V---QRVIDIFDEDRNGEVDFKEFIQGVSQFS 302 (473)
Q Consensus 232 ~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~-l~~~~~~~~-----~---~~l~~~~D~d~dG~I~~~EF~~~l~~~~ 302 (473)
.........+++..|+.+|+...|..+.+++.. ++.++.+.. . ..++...|.+..|.++|.+|...|.+-.
T Consensus 739 k~~sQ~v~~ElrAle~~~~~~d~~aa~~e~~~~~Lmslg~~~e~ee~~~~e~~~lvn~~n~l~~~qv~~~e~~ddl~R~~ 818 (890)
T KOG0035|consen 739 KGTSQYVLDELRALENEQDKIDGGAASPEELLRCLMSLGYNTEEEEQGIAEWFRLVNKKNPLIQGQVQLLEFEDDLEREY 818 (890)
T ss_pred cchhHHHHHHHHHHHhHHHHhhcccCCHHHHHHHHHhcCcccchhHHHHHHHHHHHhccCcccccceeHHHHHhHhhhhh
Confidence 334456788999999999999999999999998 555554322 2 3455556777789999999999999888
Q ss_pred cCCCcHHHHHHHhHHhcCCCC
Q psy4132 303 VKGDRESKLKFAFRIYDIDND 323 (473)
Q Consensus 303 ~~~~~~e~l~~~F~~~D~d~d 323 (473)
...+.+.++..+|+.+-++..
T Consensus 819 e~l~~~~r~i~s~~d~~ktk~ 839 (890)
T KOG0035|consen 819 EDLDTELRAILAFEDWAKTKA 839 (890)
T ss_pred hhhcHHHHHHHHHHHHHcchh
Confidence 888888999999998876554
No 141
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=85.69 E-value=1.6 Score=39.00 Aligned_cols=45 Identities=11% Similarity=0.066 Sum_probs=42.0
Q ss_pred HHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc
Q psy4132 410 VEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCR 454 (473)
Q Consensus 410 ~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~ 454 (473)
=.+|+..++.++.+|..++|+..|+|..-..+++...++.|.+.+
T Consensus 16 D~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 16 DRNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred HHHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEE
Confidence 367888999999999999999999999999999999999999874
No 142
>KOG0169|consensus
Probab=85.23 E-value=5.7 Score=43.32 Aligned_cols=89 Identities=16% Similarity=0.363 Sum_probs=66.6
Q ss_pred cccCCCCCceeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhcc-hhccCCHHHHHHHHHhcCCCC
Q psy4132 208 DSNKDRDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMSL-PELQQNPLVQRVIDIFDEDRN 286 (473)
Q Consensus 208 ~~D~d~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l-~~~~~~~~~~~l~~~~D~d~d 286 (473)
.+|++.+|.+++.+-+.+... ....-....++..|+..|..++|.+...++..+ ......+.+..+|..+-.+ .
T Consensus 144 ~ad~~~~~~~~~~~~~~~~~~----~n~~l~~~~~~~~f~e~~~~~~~k~~~~~~~~~~~~~~~rpev~~~f~~~s~~-~ 218 (746)
T KOG0169|consen 144 EADKNKNGHMSFDEVLDLLKQ----LNVQLSESKARRLFKESDNSQTGKLEEEEFVKFRKELTKRPEVYFLFVQYSHG-K 218 (746)
T ss_pred HHccccccccchhhHHHHHHH----HHHhhhHHHHHHHHHHHHhhccceehHHHHHHHHHhhccCchHHHHHHHHhCC-C
Confidence 368889999999987776651 122334556778888889999999999999986 4455566777887777665 8
Q ss_pred CcccHHHHHHHHhhc
Q psy4132 287 GEVDFKEFIQGVSQF 301 (473)
Q Consensus 287 G~I~~~EF~~~l~~~ 301 (473)
+.++.++...++...
T Consensus 219 ~~ls~~~L~~Fl~~~ 233 (746)
T KOG0169|consen 219 EYLSTDDLLRFLEEE 233 (746)
T ss_pred CccCHHHHHHHHHHh
Confidence 888888888877655
No 143
>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=84.66 E-value=3.2 Score=27.92 Aligned_cols=37 Identities=11% Similarity=0.129 Sum_probs=30.4
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHH
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAE 447 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~ 447 (473)
.+|+..++.++..|..++|+..|+|..-..+++...+
T Consensus 6 ~~Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri~rL~ 42 (42)
T PF13404_consen 6 RKILRLLQEDGRRSYAELAEELGLSESTVRRRIRRLE 42 (42)
T ss_dssp HHHHHHHHH-TTS-HHHHHHHHTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCccHHHHHHHHCcCHHHHHHHHHHhC
Confidence 5788899999999999999999999999999987653
No 144
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=84.09 E-value=1.9 Score=41.53 Aligned_cols=50 Identities=14% Similarity=0.178 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 407 ASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 407 ~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
+....+|+++++..+.++..|+|+.+++|..-++.-|...|++|.|-|--
T Consensus 4 ~eR~~~Il~~L~~~~~v~v~eLa~~l~VS~~TIRRDL~~Le~~g~l~r~~ 53 (256)
T PRK10434 4 RQRQAAILEYLQKQGKTSVEELAQYFDTTGTTIRKDLVILEHAGTVIRTY 53 (256)
T ss_pred HHHHHHHHHHHHHcCCEEHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEE
Confidence 35678899999999999999999999999999999999999999998743
No 145
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=84.08 E-value=2.3 Score=39.66 Aligned_cols=52 Identities=15% Similarity=0.182 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCc
Q psy4132 407 ASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSI 458 (473)
Q Consensus 407 ~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~ 458 (473)
.+....|+.++...+++|+.|+|..+++|..=++..|+..|.+|.|.+-...
T Consensus 10 ~~tr~~il~lL~~~g~~sa~elA~~Lgis~~avR~HL~~Le~~Glv~~~~~~ 61 (218)
T COG2345 10 GSTRERILELLKKSGPVSADELAEELGISPMAVRRHLDDLEAEGLVEVERQQ 61 (218)
T ss_pred ccHHHHHHHHHhccCCccHHHHHHHhCCCHHHHHHHHHHHHhCcceeeeecc
Confidence 4567888899999999999999999999999999999999999999866433
No 146
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=84.01 E-value=2.4 Score=34.63 Aligned_cols=44 Identities=14% Similarity=0.226 Sum_probs=40.5
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCR 454 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~ 454 (473)
.+++..+..++++|..++|+.+|+|..-+.+++...++.|.|-|
T Consensus 6 ~~il~~L~~~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~~ 49 (108)
T smart00344 6 RKILEELQKDARISLAELAKKVGLSPSTVHNRVKRLEEEGVIKG 49 (108)
T ss_pred HHHHHHHHHhCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeec
Confidence 56778888889999999999999999999999999999999874
No 147
>KOG4065|consensus
Probab=83.57 E-value=2.3 Score=35.09 Aligned_cols=29 Identities=17% Similarity=-0.052 Sum_probs=21.7
Q ss_pred CCHHHHHH----HHHHhccCCCCCeeHHhhhcc
Q psy4132 367 LSPEDLLN----SCLALDKLPDSPIYLKTYSSG 395 (473)
Q Consensus 367 ls~~ei~~----~~~~~D~~~dg~Is~~EF~~~ 395 (473)
.|..++.. +++.-|.|+||.|+|-||+..
T Consensus 110 ~sE~Ele~~iD~vL~DdDfN~DG~IDYgEflK~ 142 (144)
T KOG4065|consen 110 SSEAELERLIDAVLDDDDFNGDGVIDYGEFLKR 142 (144)
T ss_pred CCHHHHHHHHHHHhcccccCCCceeeHHHHHhh
Confidence 44445443 467789999999999999754
No 148
>KOG0046|consensus
Probab=83.45 E-value=2 Score=44.63 Aligned_cols=51 Identities=10% Similarity=0.070 Sum_probs=36.3
Q ss_pred CccchhHHHHHHHhhhC-CCCCCHHHHHHHHHHhccCCCCCeeHHhhhccce
Q psy4132 347 GTMLLTDAYCRINRARG-LELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 347 g~i~l~d~~~~~~~~~g-~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~ 397 (473)
|.++..++..++.++.- ......+++.+++...+.|.+|.|++++|...+.
T Consensus 33 G~v~~~~l~~~f~k~~~~~g~~~~eei~~~l~~~~~~~~g~v~fe~f~~~~~ 84 (627)
T KOG0046|consen 33 GYVTVYELPDAFKKAKLPLGYFVREEIKEILGEVGVDADGRVEFEEFVGIFL 84 (627)
T ss_pred CeeehHHhHHHHHHhcccccchhHHHHHHHHhccCCCcCCccCHHHHHHHHH
Confidence 55555555555555442 1134578899999999999999999999987443
No 149
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=83.42 E-value=2.5 Score=37.26 Aligned_cols=43 Identities=14% Similarity=0.100 Sum_probs=41.1
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
.+++..++.++..|..++|+.+|+|..-...++...++.|.+-
T Consensus 12 ~~Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 12 RGILEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCee
Confidence 6788999999999999999999999999999999999999985
No 150
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=83.25 E-value=2 Score=41.26 Aligned_cols=48 Identities=27% Similarity=0.274 Sum_probs=44.9
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
....+|++++++.+.++..|+++.|++|..-++.=|...|++|.|-|-
T Consensus 5 eR~~~Il~~l~~~g~v~v~eLa~~~~VS~~TIRRDL~~Le~~g~l~R~ 52 (253)
T COG1349 5 ERHQKILELLKEKGKVSVEELAELFGVSEMTIRRDLNELEEQGLLLRV 52 (253)
T ss_pred HHHHHHHHHHHHcCcEEHHHHHHHhCCCHHHHHHhHHHHHHCCcEEEE
Confidence 456789999999999999999999999999999999999999999983
No 151
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=82.89 E-value=2.9 Score=40.17 Aligned_cols=47 Identities=26% Similarity=0.261 Sum_probs=43.8
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCR 454 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~ 454 (473)
.....+++++...+.++..|+|+.+++|..-++..|...++.|.+.|
T Consensus 5 ~R~~~Il~~l~~~~~~~~~ela~~l~vS~~TirRdL~~Le~~g~i~r 51 (251)
T PRK13509 5 QRHQILLELLAQLGFVTVEKVIERLGISPATARRDINKLDESGKLKK 51 (251)
T ss_pred HHHHHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEE
Confidence 45678899999999999999999999999999999999999999987
No 152
>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=82.75 E-value=3.2 Score=29.34 Aligned_cols=40 Identities=10% Similarity=0.150 Sum_probs=33.6
Q ss_pred HHHHHHH-hhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcC
Q psy4132 411 EKTYEIV-SQNVFVTVEQFSRLASVSLVIAKHRLLLAETHG 450 (473)
Q Consensus 411 ~~~~~~~-~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g 450 (473)
.+++.++ ...+.+|..++|..+++|..-+...|....+.|
T Consensus 3 ~~il~~L~~~~~~it~~eLa~~l~vS~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 3 KQILKLLLESKEPITAKELAEELGVSRRTIRRDIKELREWG 43 (55)
T ss_dssp HHHHHHHHHTTTSBEHHHHHHHCTS-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHcCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCC
Confidence 3456666 566679999999999999999999999999998
No 153
>KOG1955|consensus
Probab=82.50 E-value=2.6 Score=43.42 Aligned_cols=70 Identities=16% Similarity=0.185 Sum_probs=57.0
Q ss_pred cchHHHHHHHHHHHhhCCCCCCCccHHHHhcchhccC--CHHHHHHHHHhcCCCCCcccHHHHHHHHhhccc
Q psy4132 234 KMVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQ--NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSV 303 (473)
Q Consensus 234 ~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~--~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~ 303 (473)
...++.+.+.+.|+.+-.|-+|.|+-.--+.++.... -+++..|++..|.|.||.+++.|||..++....
T Consensus 225 IT~EQReYYvnQFrtvQpDp~gfisGsaAknFFtKSklpi~ELshIWeLsD~d~DGALtL~EFcAAfHLVVa 296 (737)
T KOG1955|consen 225 ITPEQREYYVNQFRTVQPDPHGFISGSAAKNFFTKSKLPIEELSHIWELSDVDRDGALTLSEFCAAFHLVVA 296 (737)
T ss_pred cCHHHHHHHHhhhhcccCCcccccccHHHHhhhhhccCchHHHHHHHhhcccCccccccHHHHHhhHhheee
Confidence 4566777788899999999999999887777654432 345778999999999999999999999986643
No 154
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=82.31 E-value=2.6 Score=40.53 Aligned_cols=48 Identities=23% Similarity=0.217 Sum_probs=44.2
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
.....+.+++...+.++..|+++.+++|..-++.-|...|++|.|.|-
T Consensus 5 ~R~~~Il~~l~~~~~~~~~ela~~l~vS~~TiRRdL~~Le~~g~l~r~ 52 (252)
T PRK10906 5 QRHDAIIELVKQQGYVSTEELVEHFSVSPQTIRRDLNDLAEQNKILRH 52 (252)
T ss_pred HHHHHHHHHHHHcCCEeHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe
Confidence 456788999999999999999999999999999999999999999874
No 155
>PRK00082 hrcA heat-inducible transcription repressor; Provisional
Probab=82.28 E-value=1.9 Score=43.45 Aligned_cols=56 Identities=18% Similarity=0.265 Sum_probs=49.0
Q ss_pred HHHhhCCCCCHHHHHHh--hCCcHHHHHHHHHHHHHcCCccccC-------CcccccccccccCc
Q psy4132 415 EIVSQNVFVTVEQFSRL--ASVSLVIAKHRLLLAETHGKLCRDQ-------SIEGLRFYENKFLL 470 (473)
Q Consensus 415 ~~~~~~~~ls~~e~a~~--~~~s~~~~~~~l~~~~~~g~l~~d~-------~~~g~~~~~n~~~~ 470 (473)
.++....+++..++++. +++|..-++..|...|+.|+|.+-. +..|.|||.+..+.
T Consensus 18 ~yi~~~~pv~s~~l~~~~~l~~S~aTIR~dm~~Le~~G~l~~~h~sagrIPT~kGYR~YVd~L~~ 82 (339)
T PRK00082 18 DYIATGEPVGSKTLSKRYGLGVSSATIRNDMADLEELGLLEKPHTSSGRIPTDKGYRYFVDHLLE 82 (339)
T ss_pred HHHhcCCCcCHHHHHHHhCCCCChHHHHHHHHHHHhCCCcCCCcCCCCCCcCHHHHHHHHHHhCC
Confidence 36777899999999976 9999999999999999999999765 55589999997765
No 156
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=81.28 E-value=3.3 Score=36.19 Aligned_cols=46 Identities=9% Similarity=0.127 Sum_probs=42.5
Q ss_pred HHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 410 VEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 410 ~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
=.+++++++.++..|..++|+..|+|..-..+++...++.|.+-+-
T Consensus 10 D~~IL~~L~~d~r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~ 55 (154)
T COG1522 10 DRRILRLLQEDARISNAELAERVGLSPSTVLRRIKRLEEEGVIKGY 55 (154)
T ss_pred HHHHHHHHHHhCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeE
Confidence 3788999999999999999999999999999999999999988753
No 157
>PRK11050 manganese transport regulator MntR; Provisional
Probab=80.91 E-value=4.6 Score=35.57 Aligned_cols=51 Identities=12% Similarity=0.014 Sum_probs=44.9
Q ss_pred cHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 406 DASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 406 ~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
.+.++..+..++...++++..++|+.++++..-....|...+..|+|.|..
T Consensus 35 ~e~~l~~I~~~l~~~~~~t~~eLA~~l~is~stVsr~l~~Le~~GlI~r~~ 85 (152)
T PRK11050 35 IEDYVELIADLIAEVGEARQVDIAARLGVSQPTVAKMLKRLARDGLVEMRP 85 (152)
T ss_pred HHHHHHHHHHHHHhcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEec
Confidence 356667778788778899999999999999999999999999999998754
No 158
>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=80.88 E-value=4 Score=28.65 Aligned_cols=44 Identities=25% Similarity=0.204 Sum_probs=39.2
Q ss_pred HHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 414 YEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 414 ~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
.++++.++.+|..++-..++.|=..|.-.|+.....|...|.+.
T Consensus 2 ~~~~~~~~~itv~~~rd~lg~sRK~ai~lLE~lD~~g~T~R~gd 45 (50)
T PF09107_consen 2 RELLQKNGEITVAEFRDLLGLSRKYAIPLLEYLDREGITRRVGD 45 (50)
T ss_dssp HHHHHTTSSBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETT
T ss_pred hHHHhcCCcCcHHHHHHHHCccHHHHHHHHHHHhccCCEEEeCC
Confidence 35667789999999999999999999999999999999999874
No 159
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=80.65 E-value=4 Score=36.99 Aligned_cols=43 Identities=12% Similarity=-0.012 Sum_probs=37.5
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
..++..+-..+.+|.+++|..+|++..-.+..|....+.|++.
T Consensus 25 ~~Vl~~L~~~g~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~ 67 (178)
T PRK06266 25 FEVLKALIKKGEVTDEEIAEQTGIKLNTVRKILYKLYDARLAD 67 (178)
T ss_pred hHHHHHHHHcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeE
Confidence 3445555566789999999999999999999999999999999
No 160
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=80.57 E-value=3.3 Score=40.24 Aligned_cols=50 Identities=26% Similarity=0.248 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 407 ASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 407 ~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
......|.++++..+.++..|+|+.+++|..-++.-|...|++|.+.|-.
T Consensus 16 ~eR~~~Il~~L~~~~~vtv~eLa~~l~VS~~TIRRDL~~Le~~G~l~r~~ 65 (269)
T PRK09802 16 SERREQIIQRLRQQGSVQVNDLSALYGVSTVTIRNDLAFLEKQGIAVRAY 65 (269)
T ss_pred HHHHHHHHHHHHHcCCEeHHHHHHHHCCCHHHHHHHHHHHHhCCCeEEEe
Confidence 45678888999999999999999999999999999999999999999866
No 161
>PF09279 EF-hand_like: Phosphoinositide-specific phospholipase C, efhand-like; InterPro: IPR015359 This domain is predominantly found in the enzyme phosphoinositol-specific phospholipase C. It adopts a structure consisting of a core of four alpha helices, in an EF like fold, and is required for functioning of the enzyme []. ; PDB: 3OHM_B 3QR0_A 2ZKM_X 2FJU_B 3QR1_D 1DJW_B 1DJI_B 1DJG_B 1QAS_B 2ISD_B ....
Probab=80.51 E-value=2.7 Score=32.62 Aligned_cols=51 Identities=10% Similarity=0.029 Sum_probs=36.7
Q ss_pred CccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccC----CCCCeeHHhhhccce
Q psy4132 347 GTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKL----PDSPIYLKTYSSGVK 397 (473)
Q Consensus 347 g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~----~dg~Is~~EF~~~~~ 397 (473)
+.|+..++...++...+...++++++.++++.+..+ ..+.++++.|...+.
T Consensus 14 ~~mt~~~f~~FL~~eQ~~~~~~~~~~~~li~~~~~~~~~~~~~~lt~~gF~~fL~ 68 (83)
T PF09279_consen 14 EYMTAEEFRRFLREEQGEPRLTDEQAKELIEKFEPDERNRQKGQLTLEGFTRFLF 68 (83)
T ss_dssp SSEEHHHHHHHHHHTSS-TTSSHHHHHHHHHHHHHHHHHHCTTEEEHHHHHHHHH
T ss_pred CcCCHHHHHHHHHHHhccccCcHHHHHHHHHHHccchhhcccCCcCHHHHHHHHC
Confidence 556666666666666665457889999988887654 378999999987664
No 162
>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=80.11 E-value=3.8 Score=37.90 Aligned_cols=47 Identities=17% Similarity=0.138 Sum_probs=42.4
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
..++.++...++++..++|+.+++|...+...|...++.|+|.|...
T Consensus 146 ~~IL~~l~~~g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~~~ 192 (203)
T TIGR01884 146 LKVLEVLKAEGEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQKGR 192 (203)
T ss_pred HHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcC
Confidence 46677777778899999999999999999999999999999999874
No 163
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=79.72 E-value=14 Score=34.29 Aligned_cols=78 Identities=22% Similarity=0.181 Sum_probs=57.7
Q ss_pred CCCHHHHHHHHHHhccCCCCCeeHHhhhccceeeeecccCcHHHHHHHHHHHhh-CCCCCHHHHHHhhCCcHHHHHHHHH
Q psy4132 366 LLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVLQLKSCEDASFVEKTYEIVSQ-NVFVTVEQFSRLASVSLVIAKHRLL 444 (473)
Q Consensus 366 ~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl~~~~~~~~~~~~~~~~~~~~-~~~ls~~e~a~~~~~s~~~~~~~l~ 444 (473)
.+|.++++++|..-.+ ...+.. .+..-++..+..+.+.++. ....|++|+|+..|+|=.-|+..|+
T Consensus 129 ~~sQ~~lD~l~~~~~k-~~~~~~------------LPkGi~~~Tl~~i~~~~~~~~~~~Taeela~~~giSRvTaRRYLe 195 (224)
T COG4565 129 QLSQKELDQLFNIQSK-EQPPDD------------LPKGLDELTLQKVREALKEPDQELTAEELAQALGISRVTARRYLE 195 (224)
T ss_pred ccCHHHHHHHHhcccc-ccCccc------------CCCCcCHHHHHHHHHHHhCcCCccCHHHHHHHhCccHHHHHHHHH
Confidence 4888888888865433 222221 1122246777788888773 4789999999999999999999999
Q ss_pred HHHHcCCccccC
Q psy4132 445 LAETHGKLCRDQ 456 (473)
Q Consensus 445 ~~~~~g~l~~d~ 456 (473)
.++..|.|--+-
T Consensus 196 yl~~~~~l~a~i 207 (224)
T COG4565 196 YLVSNGILEAEI 207 (224)
T ss_pred HHHhcCeeeEEe
Confidence 999999887543
No 164
>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=79.07 E-value=4.3 Score=27.83 Aligned_cols=41 Identities=17% Similarity=0.192 Sum_probs=34.7
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKL 452 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l 452 (473)
-+++.++.. +..+..|+++.+++|.+.....|...++.|.|
T Consensus 5 ~~Il~~L~~-~~~~~~el~~~l~~s~~~vs~hL~~L~~~glV 45 (47)
T PF01022_consen 5 LRILKLLSE-GPLTVSELAEELGLSQSTVSHHLKKLREAGLV 45 (47)
T ss_dssp HHHHHHHTT-SSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHh-CCCchhhHHHhccccchHHHHHHHHHHHCcCe
Confidence 345556655 88999999999999999999999999999986
No 165
>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=79.00 E-value=8.5 Score=28.04 Aligned_cols=37 Identities=14% Similarity=0.157 Sum_probs=34.5
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
...+|..++|+.+++|..-+...|...++.|+|.++.
T Consensus 23 ~~~~s~~ela~~~g~s~~tv~r~l~~L~~~g~i~~~~ 59 (67)
T cd00092 23 QLPLTRQEIADYLGLTRETVSRTLKELEEEGLISRRG 59 (67)
T ss_pred cCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecC
Confidence 3579999999999999999999999999999999876
No 166
>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=78.97 E-value=6.1 Score=29.13 Aligned_cols=47 Identities=13% Similarity=0.116 Sum_probs=38.5
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSI 458 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~ 458 (473)
..++..+...+ ++..++++.++++..-+...|...+..|++.+....
T Consensus 10 ~~il~~l~~~~-~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~ 56 (78)
T cd00090 10 LRILRLLLEGP-LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREG 56 (78)
T ss_pred HHHHHHHHHCC-cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEec
Confidence 34455544445 999999999999999999999999999999976543
No 167
>TIGR00331 hrcA heat shock gene repressor HrcA. In Bacillus subtilis, hrcA is the first gene of the dnaK operon and so is itself a heat shock gene.
Probab=78.90 E-value=2.7 Score=42.25 Aligned_cols=56 Identities=16% Similarity=0.226 Sum_probs=49.2
Q ss_pred HHHhhCCCCCHHHHHHh--hCCcHHHHHHHHHHHHHcCCccccC-------CcccccccccccCc
Q psy4132 415 EIVSQNVFVTVEQFSRL--ASVSLVIAKHRLLLAETHGKLCRDQ-------SIEGLRFYENKFLL 470 (473)
Q Consensus 415 ~~~~~~~~ls~~e~a~~--~~~s~~~~~~~l~~~~~~g~l~~d~-------~~~g~~~~~n~~~~ 470 (473)
.++...+.++..++++. +++|..-++..|...|+.|+|.|-. +..|.|||.+.+..
T Consensus 14 ~~l~~~~pv~s~~l~~~~~~~vS~aTiR~d~~~Le~~G~l~~~h~sagript~kGYR~yv~~~~~ 78 (337)
T TIGR00331 14 EYIKTGQPVGSKTLLEKYNLGLSSATIRNDMADLEDLGFIEKPHTSSGRIPTDKGYRYYVDHLLK 78 (337)
T ss_pred HHHhcCCCcCHHHHHhhcCCCCChHHHHHHHHHHHHCCCccCCCCCCCcCcChhHHHHHHHHhcc
Confidence 57778899999999999 9999999999999999999999765 34578899987765
No 168
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=78.44 E-value=4.5 Score=35.75 Aligned_cols=53 Identities=17% Similarity=0.230 Sum_probs=48.0
Q ss_pred cCcHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 404 CEDASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 404 ~~~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
...+.++..|+.+....+.+...++|..++++..-+.+++...+..|+|-.+.
T Consensus 6 ~~~edYL~~Iy~l~~~~~~~~~~diA~~L~Vsp~sVt~ml~rL~~~GlV~~~~ 58 (154)
T COG1321 6 ETEEDYLETIYELLEEKGFARTKDIAERLKVSPPSVTEMLKRLERLGLVEYEP 58 (154)
T ss_pred hHHHHHHHHHHHHHhccCcccHHHHHHHhCCCcHHHHHHHHHHHHCCCeEEec
Confidence 34578999999999888999999999999999999999999999999998754
No 169
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=78.21 E-value=4.8 Score=37.24 Aligned_cols=46 Identities=15% Similarity=0.122 Sum_probs=41.3
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..++.++...+.+|..++|..++++..-+...|...+..|+|.|..
T Consensus 4 ~~IL~~L~~~~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~~ 49 (203)
T TIGR02702 4 EDILSYLLKQGQATAAALAEALAISPQAVRRHLKDLETEGLIEYEA 49 (203)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEee
Confidence 5667777777889999999999999999999999999999999863
No 170
>PF12068 DUF3548: Domain of unknown function (DUF3548); InterPro: IPR021935 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes and is typically between 184 to 216 amino acids in length. The domain is found associated with PF00566 from PFAM and at the N terminus of GYP7 proteins.
Probab=77.88 E-value=1.5 Score=40.80 Aligned_cols=58 Identities=21% Similarity=0.313 Sum_probs=47.1
Q ss_pred cCccccccchhhhhHHHhhhhcccccCcccEEEEeecCCCCCCCCCCCCCCCCeEEEeccCCCchHHHHHHHHHH
Q psy4132 51 KDITLCLALSYIQNAVEEAKSMFNLTAGRKIILYLSKAVPGKNLGPSATSAYDYVKLSFREGIQNEFLDALKSTV 125 (473)
Q Consensus 51 ~~~~~~l~l~~v~~~~~~~~~~~~~~~s~ki~~~l~~~~~~~~~~p~~~~~~~~iklsFr~gg~~~F~~~l~~~l 125 (473)
+..++++||++|.++....+++ +-+.|++.++. +..+.-|-|+.||..+|.++|++-+
T Consensus 110 ~~~aFsv~lsdl~Si~~~~p~~----G~~~lv~~~kd-------------G~~~p~L~Fh~gg~~~fl~~L~~~v 167 (213)
T PF12068_consen 110 SSYAFSVPLSDLKSIRVSKPSL----GWWYLVFILKD-------------GTSLPPLHFHDGGSKEFLKSLQRYV 167 (213)
T ss_pred cceEEEEEhhheeeEEecCCCC----CceEEEEEecC-------------CCccCceEEecCCHHHHHHHHHhhE
Confidence 5558899999999998777765 45679999873 3456678999999999999998865
No 171
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=77.85 E-value=2.8 Score=38.28 Aligned_cols=49 Identities=16% Similarity=0.095 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 407 ASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 407 ~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
..-...|+.++...+.++..++++.+++|..-++.-|...+..|.|.|-
T Consensus 6 ~~R~~~Il~~l~~~~~~~~~~La~~~~vS~~TiRRDl~~L~~~g~~~r~ 54 (185)
T PRK04424 6 KERQKALQELIEENPFITDEELAEKFGVSIQTIRLDRMELGIPELRERI 54 (185)
T ss_pred HHHHHHHHHHHHHCCCEEHHHHHHHHCcCHHHHHHHHHHHhcchHHHHH
Confidence 3466788999999999999999999999999999999999999999863
No 172
>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=77.61 E-value=5.8 Score=33.01 Aligned_cols=46 Identities=15% Similarity=0.091 Sum_probs=39.6
Q ss_pred HHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCc
Q psy4132 413 TYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSI 458 (473)
Q Consensus 413 ~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~ 458 (473)
++..+...+++|..++|..++++-.-+...|...|.+|+|.|-...
T Consensus 33 iL~~l~~~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~ 78 (118)
T TIGR02337 33 ILRILAEQGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKAS 78 (118)
T ss_pred HHHHHHHcCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCC
Confidence 4455566789999999999999999999999999999999985543
No 173
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=77.43 E-value=6.2 Score=34.20 Aligned_cols=46 Identities=15% Similarity=0.031 Sum_probs=39.4
Q ss_pred HHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcc
Q psy4132 414 YEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIE 459 (473)
Q Consensus 414 ~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~ 459 (473)
+..+...+++|..++|..++++.+-....|...|+.|+|.|..+.+
T Consensus 46 L~~l~~~~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~ 91 (144)
T PRK11512 46 LCSIRCAACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPN 91 (144)
T ss_pred HHHHHHcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcc
Confidence 3334456789999999999999999999999999999999876544
No 174
>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=76.07 E-value=8.4 Score=32.66 Aligned_cols=44 Identities=14% Similarity=0.061 Sum_probs=37.4
Q ss_pred CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 421 VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 421 ~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
+.+|..++|+.+++|.....+.|......|+|.+..+..| .|.+
T Consensus 24 ~~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~~g~~g-gy~l 67 (132)
T TIGR00738 24 GPVSVKEIAERQGISRSYLEKILRTLRRAGLVESVRGPGG-GYRL 67 (132)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEeccCCCC-CccC
Confidence 4799999999999999999999999999999987654444 3443
No 175
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=75.64 E-value=7.8 Score=30.62 Aligned_cols=47 Identities=19% Similarity=0.104 Sum_probs=40.7
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
..++.++...+.+|..++++.++++..-+...|...++.|+|.+...
T Consensus 13 ~~il~~l~~~~~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~ 59 (101)
T smart00347 13 FLVLRILYEEGPLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPS 59 (101)
T ss_pred HHHHHHHHHcCCcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCC
Confidence 45566666678899999999999999999999999999999987654
No 176
>KOG1029|consensus
Probab=75.61 E-value=2.8 Score=45.47 Aligned_cols=63 Identities=22% Similarity=0.255 Sum_probs=50.3
Q ss_pred HHHHHHHHHHhhCCCCCCCccHHHHhcchhcc--CCHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 238 DIRRLGKRFRKLDLDNSGALSIDEFMSLPELQ--QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 238 ~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~--~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
....++.+|+.+|+..+|+++-..=+.++... ....+..|+..-|.|+||+++-+||+-.|..
T Consensus 193 ~klKY~QlFNa~DktrsG~Lsg~qaR~aL~qS~Lpq~~LA~IW~LsDvd~DGkL~~dEfilam~l 257 (1118)
T KOG1029|consen 193 NKLKYRQLFNALDKTRSGYLSGQQARSALGQSGLPQNQLAHIWTLSDVDGDGKLSADEFILAMHL 257 (1118)
T ss_pred hhhHHHHHhhhcccccccccccHHHHHHHHhcCCchhhHhhheeeeccCCCCcccHHHHHHHHHH
Confidence 45578889999999999999988877743322 2234678889999999999999999988754
No 177
>KOG4347|consensus
Probab=75.40 E-value=3.7 Score=43.85 Aligned_cols=55 Identities=25% Similarity=0.539 Sum_probs=47.0
Q ss_pred HHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHHHHHHhHHhcCCCCchhhH
Q psy4132 272 PLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESKLKFAFRIYDIDNDDDYYQ 328 (473)
Q Consensus 272 ~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~dg~~~~ 328 (473)
....++|...|.+.+|.++|.+++..+..+ ..++.-++++.+|+.||.+++ ....
T Consensus 555 ~~~~rlF~l~D~s~~g~Ltf~~lv~gL~~l-~~~~~~ek~~l~y~lh~~p~~-~~d~ 609 (671)
T KOG4347|consen 555 IFLERLFRLLDDSMTGLLTFKDLVSGLSIL-KAGDALEKLKLLYKLHDPPAD-ELDR 609 (671)
T ss_pred HHHHHHHHhcccCCcceeEHHHHHHHHHHH-HhhhHHHHHHHHHhhccCCcc-cccc
Confidence 347899999999999999999999999887 556677889999999999887 4443
No 178
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=75.22 E-value=5.7 Score=26.77 Aligned_cols=36 Identities=17% Similarity=0.233 Sum_probs=33.0
Q ss_pred CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 421 VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 421 ~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..+|..++|+.+++|..-+.+.|...++.|+|.++.
T Consensus 7 ~~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~~~~ 42 (48)
T smart00419 7 LPLTRQEIAELLGLTRETVSRTLKRLEKEGLISREG 42 (48)
T ss_pred eccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeC
Confidence 358899999999999999999999999999998764
No 179
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=75.03 E-value=6.8 Score=36.00 Aligned_cols=58 Identities=14% Similarity=0.202 Sum_probs=44.8
Q ss_pred cHHHHHHHHHHHhhC-CCCCHHHHHHhhCCc-HHHHHHHHHHHHHcCCccccCCcc-cccc
Q psy4132 406 DASFVEKTYEIVSQN-VFVTVEQFSRLASVS-LVIAKHRLLLAETHGKLCRDQSIE-GLRF 463 (473)
Q Consensus 406 ~~~~~~~~~~~~~~~-~~ls~~e~a~~~~~s-~~~~~~~l~~~~~~g~l~~d~~~~-g~~~ 463 (473)
+..++..+.+..... -..|..|+|+.++++ ..-+.++|...++.|.|.++++.. |+++
T Consensus 8 q~~iL~~l~~~~~~~~~~~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~~~~~~~~~~~~ 68 (199)
T TIGR00498 8 QQEVLDLIRAHIESTGYPPSIREIARAVGLRSPSAAEEHLKALERKGYIERDPGKPRAIRI 68 (199)
T ss_pred HHHHHHHHHHHHHhcCCCCcHHHHHHHhCCCChHHHHHHHHHHHHCCCEecCCCCCCeEEe
Confidence 345566666554433 358899999999998 999999999999999999977543 5555
No 180
>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=74.63 E-value=9.7 Score=27.88 Aligned_cols=36 Identities=17% Similarity=0.130 Sum_probs=31.2
Q ss_pred CCC-CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 421 VFV-TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 421 ~~l-s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..+ |..++|+.+++|...+++-|..++..|+|.+..
T Consensus 22 ~~lps~~~la~~~~vsr~tvr~al~~L~~~g~i~~~~ 58 (64)
T PF00392_consen 22 DRLPSERELAERYGVSRTTVREALRRLEAEGLIERRP 58 (64)
T ss_dssp SBE--HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEET
T ss_pred CEeCCHHHHHHHhccCCcHHHHHHHHHHHCCcEEEEC
Confidence 468 999999999999999999999999999998654
No 181
>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=74.03 E-value=23 Score=34.71 Aligned_cols=57 Identities=11% Similarity=-0.056 Sum_probs=42.0
Q ss_pred HHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHH-HHHHcCCccccC-----Cccccccccc
Q psy4132 409 FVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLL-LAETHGKLCRDQ-----SIEGLRFYEN 466 (473)
Q Consensus 409 ~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~-~~~~~g~l~~d~-----~~~g~~~~~n 466 (473)
++..+.+.. ..+..+..++|..+|++..-+...++ ...+.|.|-... ...|..|+.|
T Consensus 243 ~L~al~~~~-~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~~~~~g~~~~~~~~~~~~~ 305 (305)
T TIGR00635 243 LLSVLIEQF-QGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRTPRGRIATELAYEHLGL 305 (305)
T ss_pred HHHHHHHHh-CCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCCcccCCchhhhhHHHHHHhCC
Confidence 343343443 34468999999999999999999999 699999996544 3447777665
No 182
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=74.02 E-value=7.5 Score=33.58 Aligned_cols=41 Identities=12% Similarity=0.034 Sum_probs=36.5
Q ss_pred hCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcc
Q psy4132 419 QNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIE 459 (473)
Q Consensus 419 ~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~ 459 (473)
..+++|..++|..++++.+-....+...|..|+|+|..++.
T Consensus 43 ~~~~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~ 83 (144)
T PRK03573 43 LPPEQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCAS 83 (144)
T ss_pred cCCCCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCC
Confidence 34678999999999999999999999999999999876544
No 183
>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=74.02 E-value=26 Score=34.01 Aligned_cols=110 Identities=17% Similarity=0.269 Sum_probs=67.4
Q ss_pred CCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhccceee
Q psy4132 320 IDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVL 399 (473)
Q Consensus 320 ~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl 399 (473)
.||. .|++. ++|..-+..-+...+|.+++.|+-..+ + +....++...+.+=++ +..+.+. .| ..+
T Consensus 45 ~dGk-eyiT~--~~L~~EI~~el~~~gGRv~~~dL~~~L----n---Vd~~~ie~~~~~i~~~-~~~~~l~---~g-eli 109 (272)
T PF09743_consen 45 TDGK-EYITP--EQLEKEIKDELYVHGGRVNLVDLAQAL----N---VDLDHIERRAQEIVKS-DKSLQLV---QG-ELI 109 (272)
T ss_pred CCCC-EEECH--HHHHHHHHHHHHHcCCceEHHHHHHhc----C---cCHHHHHHHHHHHHhC-CCcEEEE---CC-EEc
Confidence 3565 45554 666666666555678999999985444 3 5566677666655444 2222111 11 111
Q ss_pred eecccCcHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHH
Q psy4132 400 QLKSCEDASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLA 446 (473)
Q Consensus 400 ~~~~~~~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~ 446 (473)
. ..+- ..+...+-+.++..|.+|..|+|+.++.|..+..+.+...
T Consensus 110 t-~~Yl-d~l~~Eine~Lqe~G~vsi~eLa~~~~Lp~efl~~~li~~ 154 (272)
T PF09743_consen 110 T-DSYL-DSLAEEINEKLQESGQVSISELAKQYDLPSEFLKEELISK 154 (272)
T ss_pred c-HHHH-HHHHHHHHHHHHHcCeEeHHHHHHhcCCcHHHHHHHHhhh
Confidence 0 1110 2444455567777899999999999999999999655555
No 184
>KOG4471|consensus
Probab=73.86 E-value=8.3 Score=40.88 Aligned_cols=56 Identities=23% Similarity=0.309 Sum_probs=41.5
Q ss_pred CCCCCCCceEEeecceeeecCCCCCcccCcEEEeeeeeeeee-----cCccccccchhhhhHHHhhh
Q psy4132 9 FELSPDESPVLKHSNVRLYDGENKSQFQRGELILTSHRLFWQ-----KDITLCLALSYIQNAVEEAK 70 (473)
Q Consensus 9 ~~l~~~E~~~~~~~~v~ly~g~~~~~~~~G~l~LTshRii~~-----~~~~~~l~l~~v~~~~~~~~ 70 (473)
+.+.+||.++...- |. .+.+-.+|+|+||+.||.+- +..-+-+||..|.+++.-.+
T Consensus 34 ~~~L~GE~i~~~~y-~c-----~f~G~~~g~l~lsNyRl~fks~~t~~~~~~~VPLg~Ie~vek~~~ 94 (717)
T KOG4471|consen 34 FPLLPGESIIDEKY-IC-----PFLGAVDGTLALSNYRLYFKSKETDPPFVLDVPLGVIERVEKRGG 94 (717)
T ss_pred ccccCCccccccee-cc-----cccccccceEEeeeeEEEEEeccCCCceeEeechhhhhhhhhcCc
Confidence 34677888866651 11 22457899999999999999 22357999999999987664
No 185
>PF09279 EF-hand_like: Phosphoinositide-specific phospholipase C, efhand-like; InterPro: IPR015359 This domain is predominantly found in the enzyme phosphoinositol-specific phospholipase C. It adopts a structure consisting of a core of four alpha helices, in an EF like fold, and is required for functioning of the enzyme []. ; PDB: 3OHM_B 3QR0_A 2ZKM_X 2FJU_B 3QR1_D 1DJW_B 1DJI_B 1DJG_B 1QAS_B 2ISD_B ....
Probab=73.82 E-value=6.4 Score=30.49 Aligned_cols=60 Identities=17% Similarity=0.332 Sum_probs=43.2
Q ss_pred HHHHHHHhhCCCCCCCccHHHHhcchhc--c----CCHHHHHHHHHhcCC----CCCcccHHHHHHHHhhc
Q psy4132 241 RLGKRFRKLDLDNSGALSIDEFMSLPEL--Q----QNPLVQRVIDIFDED----RNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 241 ~l~~~F~~~D~d~~G~Is~~el~~l~~~--~----~~~~~~~l~~~~D~d----~dG~I~~~EF~~~l~~~ 301 (473)
++..+|..+-. +.+.|+.++|...+.. + ....+..++..+.++ ..+.++++.|..+|..-
T Consensus 1 ei~~if~~ys~-~~~~mt~~~f~~FL~~eQ~~~~~~~~~~~~li~~~~~~~~~~~~~~lt~~gF~~fL~S~ 70 (83)
T PF09279_consen 1 EIEEIFRKYSS-DKEYMTAEEFRRFLREEQGEPRLTDEQAKELIEKFEPDERNRQKGQLTLEGFTRFLFSD 70 (83)
T ss_dssp HHHHHHHHHCT-TSSSEEHHHHHHHHHHTSS-TTSSHHHHHHHHHHHHHHHHHHCTTEEEHHHHHHHHHST
T ss_pred CHHHHHHHHhC-CCCcCCHHHHHHHHHHHhccccCcHHHHHHHHHHHccchhhcccCCcCHHHHHHHHCCC
Confidence 46778888855 7889999999885321 1 123467788887654 47899999999988654
No 186
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=73.69 E-value=4.9 Score=37.65 Aligned_cols=55 Identities=20% Similarity=0.186 Sum_probs=43.1
Q ss_pred HHHHHHHH--HhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccc
Q psy4132 409 FVEKTYEI--VSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRF 463 (473)
Q Consensus 409 ~~~~~~~~--~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~ 463 (473)
.++.+..+ ++....+|..++|+.+++|..-+...|...|+.|+|.|.....+..+
T Consensus 6 ~Lk~iallg~l~~~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v 62 (217)
T PRK14165 6 ALKKLALLGAVNNTVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIVPRGQLI 62 (217)
T ss_pred HHHHHHHHhccCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEcCCceEE
Confidence 34444333 34456799999999999999999999999999999999776555433
No 187
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=73.33 E-value=8.4 Score=27.16 Aligned_cols=37 Identities=16% Similarity=0.132 Sum_probs=32.8
Q ss_pred CCCC-CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 420 NVFV-TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 420 ~~~l-s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
...+ |..++|+.+++|..-+...|...++.|.|.+..
T Consensus 17 ~~~l~s~~~la~~~~vs~~tv~~~l~~L~~~g~i~~~~ 54 (60)
T smart00345 17 GDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRP 54 (60)
T ss_pred CCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEec
Confidence 3457 899999999999999999999999999987643
No 188
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=73.30 E-value=9.7 Score=35.38 Aligned_cols=63 Identities=11% Similarity=0.139 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccccccC
Q psy4132 407 ASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYENKFL 469 (473)
Q Consensus 407 ~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n~~~ 469 (473)
.+...++++++..+++.+..|+++.+++..+-++-+|...|..+++-----..-++||||-+-
T Consensus 100 ns~R~~Iy~~i~~nPG~~lsEl~~nl~i~R~TlRyhlriLe~~~li~a~~~~g~~~yfpa~~t 162 (240)
T COG3398 100 NSKRDGIYNYIKPNPGFSLSELRANLYINRSTLRYHLRILESNPLIEAGRVGGALRYFPADMT 162 (240)
T ss_pred hhhHHHHHHHhccCCCccHHHHHHhcCCChHHHHHHHHHHHhCcchhhhccCCceEEccCCCC
Confidence 456678899999999999999999999999999999999999998864333334999999764
No 189
>PLN02952 phosphoinositide phospholipase C
Probab=73.19 E-value=20 Score=38.82 Aligned_cols=35 Identities=17% Similarity=0.332 Sum_probs=23.3
Q ss_pred CCcccHHHHHHHHhhcc-cCCCcHHHHHHHhHHhcC
Q psy4132 286 NGEVDFKEFIQGVSQFS-VKGDRESKLKFAFRIYDI 320 (473)
Q Consensus 286 dG~I~~~EF~~~l~~~~-~~~~~~e~l~~~F~~~D~ 320 (473)
.|.++|++|..+...+. ....+..++..+|..|-.
T Consensus 14 ~g~l~f~~f~~f~~~~k~~~~~~r~ei~~lf~~~~~ 49 (599)
T PLN02952 14 SGSYNYKMFNLFNRKFKITEAEPPDDVKDVFCKFSV 49 (599)
T ss_pred CCCcCHHHHHHHHHHhccccCCChHHHHHHHHHHhC
Confidence 57888888877776653 233356677777777743
No 190
>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=72.90 E-value=9.8 Score=28.29 Aligned_cols=49 Identities=14% Similarity=0.127 Sum_probs=39.5
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
........++-..+..|..-+.+.|++.+.=|...++..|..|.|---+
T Consensus 6 ~ly~~a~~~V~~~~~~S~S~lQR~~rIGynrAariid~LE~~GiVs~~~ 54 (65)
T PF09397_consen 6 PLYEEAVEFVIEEGKASISLLQRKFRIGYNRAARIIDQLEEEGIVSPAN 54 (65)
T ss_dssp TTHHHHHHHHHHCTCECHHHHHHHHT--HHHHHHHHHHHHHCTSBE---
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCCC
Confidence 4456677788888999999999999999999999999999999987543
No 191
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=72.64 E-value=9.3 Score=34.87 Aligned_cols=47 Identities=11% Similarity=0.029 Sum_probs=39.5
Q ss_pred HHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcc
Q psy4132 413 TYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIE 459 (473)
Q Consensus 413 ~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~ 459 (473)
++..+...+++|..++|+...++..-+...|...|++|+|.|-.++.
T Consensus 50 iL~~L~~~~~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R~~~~~ 96 (185)
T PRK13777 50 ILWIAYHLKGASISEIAKFGVMHVSTAFNFSKKLEERGYLTFSKKED 96 (185)
T ss_pred HHHHHHhCCCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCC
Confidence 34455566789999999999999999999999999999999875544
No 192
>PF04283 CheF-arch: Chemotaxis signal transduction system protein F from archaea; InterPro: IPR007381 This is an archaeal protein of unknown function.
Probab=72.05 E-value=12 Score=35.16 Aligned_cols=84 Identities=14% Similarity=0.169 Sum_probs=53.0
Q ss_pred CcccCcEEEeeeeeeeee-cCccccccchhhhhHHHhhhhc-ccccCcccEEEEeecCCCCCCCCCCCCCCCCeEEEecc
Q psy4132 33 SQFQRGELILTSHRLFWQ-KDITLCLALSYIQNAVEEAKSM-FNLTAGRKIILYLSKAVPGKNLGPSATSAYDYVKLSFR 110 (473)
Q Consensus 33 ~~~~~G~l~LTshRii~~-~~~~~~l~l~~v~~~~~~~~~~-~~~~~s~ki~~~l~~~~~~~~~~p~~~~~~~~iklsFr 110 (473)
..+.+|+++||+.||+.. .+....+||+.|..+....+.- ....=+..+.+....+ +....+-++..
T Consensus 23 ~~W~~~rIiLs~~rlvl~~~~~k~~Ipls~I~Di~~~~~~~~~~~~~~~~~si~~~~~-----------~~~~v~~i~~~ 91 (221)
T PF04283_consen 23 GKWVKGRIILSNDRLVLAFNDGKITIPLSSIEDIGVRLPPNQLLAFFSDYVSIKYKSD-----------EGERVILISPE 91 (221)
T ss_pred CCcEEEEEEEecCEEEEEcCCCeEEEecceeEecccccCccccccccCceEEEEEecC-----------CCcEEEEEEcC
Confidence 678999999999999999 5667899999999997643211 0011344555555421 12223333433
Q ss_pred CC-CchHHHHHHHHHHhh
Q psy4132 111 EG-IQNEFLDALKSTVDA 127 (473)
Q Consensus 111 ~g-g~~~F~~~l~~~l~~ 127 (473)
.. .-..|...|-.++-.
T Consensus 92 ~~~~~e~F~~~lf~~lL~ 109 (221)
T PF04283_consen 92 DSKTIEKFETKLFRALLN 109 (221)
T ss_pred CcccHHHHHHHHHHHhhC
Confidence 33 337888777776644
No 193
>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=71.23 E-value=12 Score=31.75 Aligned_cols=46 Identities=9% Similarity=0.109 Sum_probs=37.6
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
.+.+|..++|+.+++|.....+.|...++.|+|....+..| .|..+
T Consensus 23 ~~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~g~~g-gy~l~ 68 (130)
T TIGR02944 23 SQPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKRGVEG-GYTLA 68 (130)
T ss_pred CCCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecCCCCC-Chhhc
Confidence 45799999999999999999999999999999976443444 35444
No 194
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=71.12 E-value=11 Score=36.03 Aligned_cols=47 Identities=19% Similarity=0.222 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCR 454 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~ 454 (473)
....++++++.+.+.++..|+|+.+++|..-++.-|...+..|.|.|
T Consensus 4 ~R~~~Il~~l~~~~~~~~~eLa~~l~VS~~TiRRdL~~L~~~~~l~r 50 (240)
T PRK10411 4 ARQQAIVDLLLNHTSLTTEALAEQLNVSKETIRRDLNELQTQGKILR 50 (240)
T ss_pred HHHHHHHHHHHHcCCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEE
Confidence 34567888998999999999999999999999999999999999988
No 195
>PF07789 DUF1627: Protein of unknown function (DUF1627); InterPro: IPR012432 This is a group of sequences found in hypothetical proteins predicted to be expressed in a number of bacterial species. The region in question is approximately 150 amino acid residues long.
Probab=70.67 E-value=4.9 Score=34.77 Aligned_cols=46 Identities=20% Similarity=0.208 Sum_probs=42.2
Q ss_pred hCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccc
Q psy4132 419 QNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFY 464 (473)
Q Consensus 419 ~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~ 464 (473)
+.|..|.+|+|-.||++..=....|.++...|.|.|-.+.-+.||-
T Consensus 3 q~Ga~T~eELA~~FGvttRkvaStLa~~ta~Grl~Rv~q~gkfRy~ 48 (155)
T PF07789_consen 3 QEGAKTAEELAGKFGVTTRKVASTLAMVTATGRLIRVNQNGKFRYC 48 (155)
T ss_pred ccCcccHHHHHHHhCcchhhhHHHHHHHHhcceeEEecCCCceEEe
Confidence 4578999999999999999999999999999999999888888884
No 196
>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=70.64 E-value=13 Score=30.56 Aligned_cols=41 Identities=10% Similarity=0.094 Sum_probs=36.7
Q ss_pred hCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcc
Q psy4132 419 QNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIE 459 (473)
Q Consensus 419 ~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~ 459 (473)
..+++|..++|..++++.+-+...+...|.+|+|.|..+..
T Consensus 40 ~~~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~~~~ 80 (109)
T TIGR01889 40 NEGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSED 80 (109)
T ss_pred cCCcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccCCcc
Confidence 45789999999999999999999999999999999865544
No 197
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=69.73 E-value=9 Score=36.77 Aligned_cols=45 Identities=11% Similarity=0.111 Sum_probs=38.7
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
.+++++...+.+|..|||+..++|-.-+...|...++.|+|-+|.
T Consensus 18 ~IL~~l~~~~~l~l~eia~~lgl~kstv~Rll~tL~~~G~l~~~~ 62 (257)
T PRK15090 18 GILQALGEEREIGITELSQRVMMSKSTVYRFLQTMKTLGYVAQEG 62 (257)
T ss_pred HHHHHhhcCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEcC
Confidence 334445555679999999999999999999999999999999984
No 198
>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=69.39 E-value=4 Score=30.73 Aligned_cols=55 Identities=13% Similarity=0.193 Sum_probs=37.4
Q ss_pred HHHHHHHHHHhhCCCCCCCccHHHHhcchhccCCHHHHHHHHHhcCC-------CCCcccHHHHHH
Q psy4132 238 DIRRLGKRFRKLDLDNSGALSIDEFMSLPELQQNPLVQRVIDIFDED-------RNGEVDFKEFIQ 296 (473)
Q Consensus 238 ~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~~~~~~~~l~~~~D~d-------~dG~I~~~EF~~ 296 (473)
..+.+..+|+.+ .+++++|+.+||++.+.. ..++-+++.+..- ..|..+|..|+.
T Consensus 4 s~eqv~~aFr~l-A~~KpyVT~~dLr~~l~p---e~aey~~~~Mp~~~~~~~~~~~~~~DY~~f~~ 65 (69)
T PF08726_consen 4 SAEQVEEAFRAL-AGGKPYVTEEDLRRSLTP---EQAEYCISRMPPYEGPDGDAIPGAYDYESFTN 65 (69)
T ss_dssp TCHHHHHHHHHH-CTSSSCEEHHHHHHHS-C---CCHHHHHCCSEC--SSS----TTEEECHHHHC
T ss_pred CHHHHHHHHHHH-HcCCCcccHHHHHHHcCc---HHHHHHHHHCcccCCCCcCCCCCCcCHHHHHH
Confidence 346789999999 788899999999984322 1234555555332 237788888874
No 199
>PF14513 DAG_kinase_N: Diacylglycerol kinase N-terminus; PDB: 1TUZ_A.
Probab=69.37 E-value=7.6 Score=33.55 Aligned_cols=68 Identities=16% Similarity=0.231 Sum_probs=40.7
Q ss_pred CCccHHHHhcchhcc--CCHHHHHHHHHhcC-------CCCCcccHHHHHHHHhhcccCCCcHHHHHHHhHHhcCCC
Q psy4132 255 GALSIDEFMSLPELQ--QNPLVQRVIDIFDE-------DRNGEVDFKEFIQGVSQFSVKGDRESKLKFAFRIYDIDN 322 (473)
Q Consensus 255 G~Is~~el~~l~~~~--~~~~~~~l~~~~D~-------d~dG~I~~~EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~ 322 (473)
+.|++.||.++.... ....+..++..|.. +..+.|+|+-|..+|........+++-.+.+|..|-+..
T Consensus 6 ~~lsp~eF~qLq~y~eys~kklkdvl~eF~~~g~~~~~~~~~~Id~egF~~Fm~~yLe~d~P~~lc~hLF~sF~~~~ 82 (138)
T PF14513_consen 6 VSLSPEEFAQLQKYSEYSTKKLKDVLKEFHGDGSLAKYNPEEPIDYEGFKLFMKTYLEVDLPEDLCQHLFLSFQKKP 82 (138)
T ss_dssp S-S-HHHHHHHHHHHHH----HHHHHHHH-HTSGGGGGEETTEE-HHHHHHHHHHHTT-S--HHHHHHHHHHS----
T ss_pred eccCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccccCCCCCcCHHHHHHHHHHHHcCCCCHHHHHHHHHHHhCcc
Confidence 567788888763221 23346777777743 345689999999999988777788888999999886544
No 200
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=69.32 E-value=10 Score=31.75 Aligned_cols=56 Identities=11% Similarity=0.002 Sum_probs=43.5
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
-+++.++...+..+..|+++.+++|..-+...|...++.|+|......--..|..|
T Consensus 19 l~IL~~L~~~~~~~v~ela~~l~lsqstvS~HL~~L~~AGLV~~~r~Gr~~~Y~l~ 74 (117)
T PRK10141 19 LGIVLLLRESGELCVCDLCTALDQSQPKISRHLALLRESGLLLDRKQGKWVHYRLS 74 (117)
T ss_pred HHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEEEcCEEEEEEC
Confidence 45556665557899999999999999999999999999999975444333445444
No 201
>PF03517 Voldacs: Regulator of volume decrease after cellular swelling; InterPro: IPR003521 The nucleotide-sensitive chloride conductance regulatory protein (ICln) is found ubiquitously in mammalian (and other) cell types and is postulated to play a critical role in cell volume regulation. Initial studies proposed that ICln was itself a swelling-activated anion channel; however, further studies demonstrated that it is localised primarily to the cell cytoplasm. It has therefore been postulated that activation of cell volume regulation may involve reversible translocation of ICln from the cytoplasm, and its insertion into the plasma membrane. It is not resolved whether the anionic channel involved in cell volume regulation after cell-swelling comprises one or more subunits, and if it does, whether ICln is in fact one of them [].; GO: 0006821 chloride transport, 0006884 cell volume homeostasis; PDB: 1ZYI_A.
Probab=68.84 E-value=2.7 Score=36.23 Aligned_cols=26 Identities=27% Similarity=0.523 Sum_probs=19.0
Q ss_pred cEEEeeeeeeeeec----Cccccccchhhh
Q psy4132 38 GELILTSHRLFWQK----DITLCLALSYIQ 63 (473)
Q Consensus 38 G~l~LTshRii~~~----~~~~~l~l~~v~ 63 (473)
|.||+|+.||+|.. ...++||-..|.
T Consensus 1 g~L~Vt~~~l~w~~~~~~~~G~~ipY~sI~ 30 (135)
T PF03517_consen 1 GTLYVTESRLIWFSNEDSSKGFSIPYPSIS 30 (135)
T ss_dssp EEEEEETTEEEEEET--TTEEEEESS---S
T ss_pred CEEEEecCEEEEECCCcCCcceeecCCeEE
Confidence 78999999999994 456777776665
No 202
>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=68.81 E-value=19 Score=26.62 Aligned_cols=49 Identities=12% Similarity=0.114 Sum_probs=43.4
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
........++-..+..|..-+.+.|.+-+.=|...++..|+.|.|---+
T Consensus 5 ~ly~~a~~~V~~~~~~S~S~lQR~~~IGynrAariid~lE~~GiV~p~~ 53 (63)
T smart00843 5 ELYDEAVELVIETQKASTSLLQRRLRIGYNRAARLIDQLEEEGIVGPAN 53 (63)
T ss_pred HHHHHHHHHHHHhCCCChHHHHHHHhcchhHHHHHHHHHHHCcCCCCCC
Confidence 4567777888888999999999999999999999999999999987644
No 203
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=68.58 E-value=5.2 Score=31.03 Aligned_cols=49 Identities=14% Similarity=0.101 Sum_probs=40.5
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccc
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEG 460 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g 460 (473)
.++.++...+.+++.++...++++.+-....|...|+.|+|-+.....|
T Consensus 4 ~Il~~L~~~~~~~f~~L~~~l~lt~g~Ls~hL~~Le~~GyV~~~k~~~~ 52 (80)
T PF13601_consen 4 AILALLYANEEATFSELKEELGLTDGNLSKHLKKLEEAGYVEVEKEFEG 52 (80)
T ss_dssp HHHHHHHHHSEEEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEE-SS
T ss_pred HHHHHHhhcCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEEEeccC
Confidence 4566677778999999999999999999999999999999998776555
No 204
>KOG3555|consensus
Probab=68.02 E-value=9.7 Score=37.62 Aligned_cols=86 Identities=17% Similarity=0.110 Sum_probs=64.6
Q ss_pred HHHHHHHHHhhCCCCCCCccHHHHhcch---hc----cCCHHHHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHHH
Q psy4132 239 IRRLGKRFRKLDLDNSGALSIDEFMSLP---EL----QQNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESKL 311 (473)
Q Consensus 239 ~~~l~~~F~~~D~d~~G~Is~~el~~l~---~~----~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l 311 (473)
..+|+..|+.+=.+.++......+.... .. ....++.-||..+|.|.|+.++-.|...+. ....+.-+
T Consensus 210 g~RL~dWF~~lhe~s~~~~~~ss~~~~~~~~d~s~~p~CKds~gWMFnklD~N~Dl~Ld~sEl~~I~-----ldknE~Ci 284 (434)
T KOG3555|consen 210 GNRLRDWFKALHEDSSQNDKTSSLHSAASGFDTSILPICKDSLGWMFNKLDTNYDLLLDQSELRAIE-----LDKNEACI 284 (434)
T ss_pred HHHHHHHHHHHHhhhhccCcchhhcccccccccccCcchhhhhhhhhhccccccccccCHHHhhhhh-----ccCchhHH
Confidence 3478899999888877777666665531 11 123357789999999999999999987654 34467788
Q ss_pred HHHhHHhcCCCCchhhHh
Q psy4132 312 KFAFRIYDIDNDDDYYQA 329 (473)
Q Consensus 312 ~~~F~~~D~d~dg~~~~~ 329 (473)
+..|...|...||.++..
T Consensus 285 kpFfnsCD~~kDg~iS~~ 302 (434)
T KOG3555|consen 285 KPFFNSCDTYKDGSISTN 302 (434)
T ss_pred HHHHhhhcccccCccccc
Confidence 999999999998777773
No 205
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=68.00 E-value=13 Score=28.42 Aligned_cols=47 Identities=15% Similarity=0.079 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc
Q psy4132 407 ASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCR 454 (473)
Q Consensus 407 ~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~ 454 (473)
..++..++..+. .++.+..+++...+++...+...|...++.|+|-.
T Consensus 5 ~~Ii~~IL~~l~-~~~~~~t~i~~~~~L~~~~~~~yL~~L~~~gLI~~ 51 (77)
T PF14947_consen 5 LEIIFDILKILS-KGGAKKTEIMYKANLNYSTLKKYLKELEEKGLIKK 51 (77)
T ss_dssp THHHHHHHHHH--TT-B-HHHHHTTST--HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHH-cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCcCeeC
Confidence 357777888876 68999999999999999999999999999999944
No 206
>PHA00738 putative HTH transcription regulator
Probab=67.95 E-value=12 Score=30.67 Aligned_cols=59 Identities=14% Similarity=0.102 Sum_probs=46.0
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
...-+|+.++...+.++..+++..+++|-.-....|...++.|+|.......-..|..|
T Consensus 12 ptRr~IL~lL~~~e~~~V~eLae~l~lSQptVS~HLKvLreAGLV~srK~Gr~vyY~Ln 70 (108)
T PHA00738 12 ILRRKILELIAENYILSASLISHTLLLSYTTVLRHLKILNEQGYIELYKEGRTLYAKIR 70 (108)
T ss_pred HHHHHHHHHHHHcCCccHHHHHHhhCCCHHHHHHHHHHHHHCCceEEEEECCEEEEEEC
Confidence 34566777777766799999999999999999999999999999986544333444433
No 207
>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=67.93 E-value=7.3 Score=31.79 Aligned_cols=42 Identities=10% Similarity=0.070 Sum_probs=30.8
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
.++.++-..+.++.+++|..++++..-.+..|....+.|+++
T Consensus 17 ~Il~~L~~~~~l~de~la~~~~l~~~~vRkiL~~L~~~~lv~ 58 (105)
T PF02002_consen 17 RILDALLRKGELTDEDLAKKLGLKPKEVRKILYKLYEDGLVS 58 (105)
T ss_dssp HHHHHHHHH--B-HHHHHHTT-S-HHHHHHHHHHHHHHSS-E
T ss_pred HHHHHHHHcCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeE
Confidence 344555556889999999999999999999999999999995
No 208
>KOG1707|consensus
Probab=67.88 E-value=28 Score=37.15 Aligned_cols=141 Identities=20% Similarity=0.242 Sum_probs=78.3
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhcch----hccCCH-H---HHHHHHHhcCC--CCCcccHHHHHHHHhhcccC
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMSLP----ELQQNP-L---VQRVIDIFDED--RNGEVDFKEFIQGVSQFSVK 304 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~----~~~~~~-~---~~~l~~~~D~d--~dG~I~~~EF~~~l~~~~~~ 304 (473)
.......|..+|+..|.|++|.++-.|+..+. .....+ . +...+...-++ .++.++..-|+.+-..+...
T Consensus 190 kp~~v~al~RIFki~D~d~D~~Lsd~Eln~fQ~~CF~~pl~p~~l~~vk~vv~e~~p~gv~~~~ltl~GFLfL~~lfier 269 (625)
T KOG1707|consen 190 KPRCVKALKRIFKISDSDNDGALSDAELNDFQKKCFNTPLDPQELEDVKNVVQEICPDGVYERGLTLPGFLFLNTLFIER 269 (625)
T ss_pred cHHHHHHHHHHHhhhccccccccchhhhhHHHHHhcCCCCCHHHHHHHHHHHHhhcCchhhhccccccchHHHHHHHHHh
Confidence 45567889999999999999999999987752 222222 2 23333333332 24567777787776666444
Q ss_pred CCcHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhc-hhhcCCCccchhHHHHHHHhhhCCCCCCHHH---HHHHHHHhc
Q psy4132 305 GDRESKLKFAFRIYDIDNDDDYYQALGNELIAALIE-PLTSAGGTMLLTDAYCRINRARGLELLSPED---LLNSCLALD 380 (473)
Q Consensus 305 ~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~-~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~e---i~~~~~~~D 380 (473)
+..+.. ..+-+.|--+.+ -+|...+.. .+..+.+.. + .+++.- +..+|..+|
T Consensus 270 gr~Ett-W~iLR~fgY~Ds--------leL~~~~l~p~~~~~p~~s--------------~-ELs~~~~~Fl~~~f~~~D 325 (625)
T KOG1707|consen 270 GRHETT-WTILRKFGYTDS--------LELTDEYLPPRLKVPPDQS--------------V-ELSPKGYRFLVDVFEKFD 325 (625)
T ss_pred ccccch-hhhhhhcCCcch--------hhhhhhhcCccccCCCCcc--------------e-eccHHHHHHHHHHHHhcc
Confidence 444333 223333322222 333333332 111111110 0 134433 345688889
Q ss_pred cCCCCCeeHHhhhccceee
Q psy4132 381 KLPDSPIYLKTYSSGVKVL 399 (473)
Q Consensus 381 ~~~dg~Is~~EF~~~~~vl 399 (473)
.|+||.++=.|+.....+.
T Consensus 326 ~d~Dg~L~p~El~~LF~~~ 344 (625)
T KOG1707|consen 326 RDNDGALSPEELKDLFSTA 344 (625)
T ss_pred CCCCCCcCHHHHHHHhhhC
Confidence 9999998888886555533
No 209
>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=67.79 E-value=20 Score=28.72 Aligned_cols=37 Identities=14% Similarity=0.069 Sum_probs=34.8
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
...+|..|||...+++-.-+...|...+.+|+|.|+.
T Consensus 45 ~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~r~~ 81 (95)
T TIGR01610 45 QDRVTATVIAELTGLSRTHVSDAIKSLARRRIIFRQG 81 (95)
T ss_pred CCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeec
Confidence 4689999999999999999999999999999999876
No 210
>PRK00215 LexA repressor; Validated
Probab=66.39 E-value=14 Score=33.98 Aligned_cols=53 Identities=11% Similarity=0.108 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHhh-CCCCCHHHHHHhhCC-cHHHHHHHHHHHHHcCCccccCCcc
Q psy4132 407 ASFVEKTYEIVSQ-NVFVTVEQFSRLASV-SLVIAKHRLLLAETHGKLCRDQSIE 459 (473)
Q Consensus 407 ~~~~~~~~~~~~~-~~~ls~~e~a~~~~~-s~~~~~~~l~~~~~~g~l~~d~~~~ 459 (473)
..+++.+.++... ..+.|..|+|+.+++ +-.-+...|...++.|+|.|+.+..
T Consensus 7 ~~il~~i~~~~~~~~~~~s~~ela~~~~~~~~~tv~~~l~~L~~~g~i~~~~~~~ 61 (205)
T PRK00215 7 QEILDFIRDHIEETGYPPSRREIADALGLRSPSAVHEHLKALERKGFIRRDPGRS 61 (205)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCCCEEeCCCCc
Confidence 4566666665433 457899999999999 9999999999999999999987553
No 211
>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=63.65 E-value=24 Score=26.11 Aligned_cols=41 Identities=7% Similarity=0.069 Sum_probs=34.3
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
+++.++.. +..|..++|+.+++|...+...+...++.|...
T Consensus 4 ~il~~L~~-~~~~~~eLa~~l~vS~~tv~~~l~~L~~~g~~i 44 (69)
T TIGR00122 4 RLLALLAD-NPFSGEKLGEALGMSRTAVNKHIQTLREWGVDV 44 (69)
T ss_pred HHHHHHHc-CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeE
Confidence 45555554 468899999999999999999999999999844
No 212
>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=63.54 E-value=27 Score=25.04 Aligned_cols=34 Identities=18% Similarity=0.150 Sum_probs=30.5
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
.|..++|+.+++|..-+.+.|...++.|.|-+..
T Consensus 26 ~~~~~la~~~~is~~~v~~~l~~L~~~G~i~~~~ 59 (66)
T cd07377 26 PSERELAEELGVSRTTVREALRELEAEGLVERRP 59 (66)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecC
Confidence 4599999999999999999999999999986543
No 213
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=63.43 E-value=40 Score=26.06 Aligned_cols=47 Identities=11% Similarity=0.038 Sum_probs=39.3
Q ss_pred HHHHHHHHHH-hhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc
Q psy4132 408 SFVEKTYEIV-SQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCR 454 (473)
Q Consensus 408 ~~~~~~~~~~-~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~ 454 (473)
.++..+.+.. +....+...++|+.+++|..-++..+...|+.|+|.-
T Consensus 8 ~IL~alV~~Y~~~~~PVgSk~ia~~l~~s~aTIRN~M~~Le~lGlve~ 55 (78)
T PF03444_consen 8 EILKALVELYIETGEPVGSKTIAEELGRSPATIRNEMADLEELGLVES 55 (78)
T ss_pred HHHHHHHHHHHhcCCCcCHHHHHHHHCCChHHHHHHHHHHHHCCCccC
Confidence 4566665444 4567899999999999999999999999999999963
No 214
>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=62.49 E-value=13 Score=27.19 Aligned_cols=46 Identities=9% Similarity=0.086 Sum_probs=34.9
Q ss_pred HHHHHh-hCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCc
Q psy4132 413 TYEIVS-QNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSI 458 (473)
Q Consensus 413 ~~~~~~-~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~ 458 (473)
++..+. ..+.++..++++.++++..-+...|..+++.|+|-+..+.
T Consensus 8 vL~~l~~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~ 54 (68)
T PF13463_consen 8 VLRALAHSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERDP 54 (68)
T ss_dssp HHHHHT--TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEES
T ss_pred HHHHHHccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCC
Confidence 344444 6789999999999999999999999999999999765443
No 215
>PF03428 RP-C: Replication protein C N-terminal domain; InterPro: IPR005090 Proteins in this group have homology with the RepC protein of Agrobacterium Ri and Ti plasmids []. They may be involved in plasmid replication and stabilisation functions.
Probab=62.37 E-value=12 Score=33.80 Aligned_cols=44 Identities=20% Similarity=0.237 Sum_probs=39.2
Q ss_pred CCCHHHHHHhh-CCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 422 FVTVEQFSRLA-SVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 422 ~ls~~e~a~~~-~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
.-|-..+|... |+|..-.+..|....+.|+|+|.+|+.|-||-.
T Consensus 70 fpSN~~La~r~~G~s~~tlrR~l~~LveaGLI~rrDS~NgkRy~~ 114 (177)
T PF03428_consen 70 FPSNAQLAERLNGMSERTLRRHLARLVEAGLIVRRDSPNGKRYAR 114 (177)
T ss_pred ecCHHHHHHHHcCCCHHHHHHHHHHHHHCCCeeeccCCCCCccCc
Confidence 34567888888 999999999999999999999999999999854
No 216
>TIGR03879 near_KaiC_dom probable regulatory domain. This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation.
Probab=61.63 E-value=12 Score=28.58 Aligned_cols=44 Identities=11% Similarity=0.071 Sum_probs=35.7
Q ss_pred HHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 410 VEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 410 ~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
..+++.+.....+.|..|||+.+++|..-++..+......|.|+
T Consensus 20 ~r~af~L~R~~eGlS~kEIAe~LGIS~~TVk~~l~~~~~~~~~~ 63 (73)
T TIGR03879 20 AEAAAALAREEAGKTASEIAEELGRTEQTVRNHLKGETKAGGLV 63 (73)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHhcCcccchHH
Confidence 34455555555889999999999999999999999888888765
No 217
>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=61.07 E-value=13 Score=26.45 Aligned_cols=34 Identities=18% Similarity=0.136 Sum_probs=29.6
Q ss_pred HHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHc
Q psy4132 416 IVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETH 449 (473)
Q Consensus 416 ~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~ 449 (473)
+.+....+|..|+|..+|+|-.-..++|..|+.+
T Consensus 17 Yfd~PR~~tl~elA~~lgis~st~~~~LRrae~k 50 (53)
T PF04967_consen 17 YFDVPRRITLEELAEELGISKSTVSEHLRRAERK 50 (53)
T ss_pred CCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 3444568999999999999999999999999864
No 218
>PF14502 HTH_41: Helix-turn-helix domain
Probab=60.87 E-value=15 Score=25.47 Aligned_cols=32 Identities=22% Similarity=0.227 Sum_probs=29.3
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCR 454 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~ 454 (473)
-|..|++..+++|.+..+.-|...++.|.+.-
T Consensus 7 ~tI~e~~~~~~vs~GtiQ~Alk~Le~~gaI~L 38 (48)
T PF14502_consen 7 PTISEYSEKFGVSRGTIQNALKFLEENGAIKL 38 (48)
T ss_pred CCHHHHHHHhCcchhHHHHHHHHHHHCCcEEe
Confidence 47889999999999999999999999998764
No 219
>KOG1089|consensus
Probab=60.63 E-value=22 Score=37.93 Aligned_cols=71 Identities=31% Similarity=0.345 Sum_probs=51.8
Q ss_pred ceEEeecceeeecCCCC-CcccCcEEEeeeeeeeee-c------CccccccchhhhhHHHhhhhcccccCcccEEEEee
Q psy4132 16 SPVLKHSNVRLYDGENK-SQFQRGELILTSHRLFWQ-K------DITLCLALSYIQNAVEEAKSMFNLTAGRKIILYLS 86 (473)
Q Consensus 16 ~~~~~~~~v~ly~g~~~-~~~~~G~l~LTshRii~~-~------~~~~~l~l~~v~~~~~~~~~~~~~~~s~ki~~~l~ 86 (473)
.-+-..++|.++++... +.-..|+++||+|.+|+. . ..-+-++.+.|..++.....+-...+..-|.++.+
T Consensus 7 i~~~kv~~v~l~~~~~~~~~~~~Gtl~lt~~hli~~~~~~~~~~~~e~w~l~~~i~~v~k~~~~~~~~~~g~~i~l~CK 85 (573)
T KOG1089|consen 7 IKVPKVHNVELHDRENPVTLALVGTLLLTTHHLIFKILQCRQANSKELWLLHDNIDSVEKDPSTFKNSTSGGPITLKCK 85 (573)
T ss_pred CccceecceeEecCCCCccccccceEEEeeceeeeeecccccccchhhccccchHhhhccCcceeeccccCCchhhhhh
Confidence 44556789999999866 448999999999999999 2 34578899999999776643311345555666554
No 220
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=60.53 E-value=18 Score=34.44 Aligned_cols=43 Identities=16% Similarity=0.156 Sum_probs=37.3
Q ss_pred HHHHhh-CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 414 YEIVSQ-NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 414 ~~~~~~-~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
++++.. .+++|..|||+..++|-.-+...|...++.|+|.+|.
T Consensus 15 L~~l~~~~~~~~l~eia~~lglpksT~~RlL~tL~~~G~l~~~~ 58 (248)
T TIGR02431 15 IEAFGAERPRLTLTDVAEATGLTRAAARRFLLTLVELGYVTSDG 58 (248)
T ss_pred HHHHhcCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCC
Confidence 344433 5689999999999999999999999999999999874
No 221
>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=59.86 E-value=21 Score=30.48 Aligned_cols=54 Identities=15% Similarity=0.014 Sum_probs=40.1
Q ss_pred HHHHHHhhCCCCCHHHHHHh----hCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 412 KTYEIVSQNVFVTVEQFSRL----ASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~----~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
.++.++-..+.+|+.|+... .+|+..-..-.|.-.+++|+|-|....-...|+|
T Consensus 8 ~VM~vlW~~~~~t~~eI~~~l~~~~~~~~tTv~T~L~rL~~KG~v~~~k~gr~~~Y~p 65 (130)
T TIGR02698 8 EVMRVVWTLGETTSRDIIRILAEKKDWSDSTIKTLLGRLVDKGCLTTEKEGRKFIYTA 65 (130)
T ss_pred HHHHHHHcCCCCCHHHHHHHHhhccCCcHHHHHHHHHHHHHCCceeeecCCCcEEEEe
Confidence 35566656778999995554 4899999999999999999998874433344443
No 222
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=58.87 E-value=20 Score=34.47 Aligned_cols=44 Identities=16% Similarity=0.166 Sum_probs=37.5
Q ss_pred HHHHhh-CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 414 YEIVSQ-NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 414 ~~~~~~-~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
++++.. .+++|..|+++.++++-.-+...|...++.|+|.||..
T Consensus 17 L~~l~~~~~~ls~~eia~~lgl~kstv~RlL~tL~~~g~v~~~~~ 61 (263)
T PRK09834 17 LRALNRLDGGATVGLLAELTGLHRTTVRRLLETLQEEGYVRRSAS 61 (263)
T ss_pred HHHHHhcCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEecC
Confidence 344433 45699999999999999999999999999999999863
No 223
>KOG3866|consensus
Probab=58.84 E-value=7.3 Score=37.83 Aligned_cols=88 Identities=16% Similarity=0.255 Sum_probs=56.2
Q ss_pred HHHhhCCCCCCCccHHHHhcchhc----cCCH----------------HHHHHHHHhcCCCCCcccHHHHHHHHhhcccC
Q psy4132 245 RFRKLDLDNSGALSIDEFMSLPEL----QQNP----------------LVQRVIDIFDEDRNGEVDFKEFIQGVSQFSVK 304 (473)
Q Consensus 245 ~F~~~D~d~~G~Is~~el~~l~~~----~~~~----------------~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~ 304 (473)
.|...|.|++|.++-.||..++.. ..++ .-+-+++.+|.|.|.-|+.+||++.-......
T Consensus 249 FF~LHD~NsDGfldeqELEaLFtkELEKvYdpkNeeDDM~EmeEErlRMREHVMk~vDtNqDRlvtleEFL~~t~~kef~ 328 (442)
T KOG3866|consen 249 FFALHDLNSDGFLDEQELEALFTKELEKVYDPKNEEDDMKEMEEERLRMREHVMKQVDTNQDRLVTLEEFLNDTDNKEFN 328 (442)
T ss_pred heeeeccCCcccccHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHHHHHHHHhcccchhhhhhHHHHHhhhhhcccC
Confidence 577889999999999999986432 1111 12456888999999999999999876544222
Q ss_pred CCcHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHh
Q psy4132 305 GDRESKLKFAFRIYDIDNDDDYYQALGNELIAALI 339 (473)
Q Consensus 305 ~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~ 339 (473)
.+. +. |..++ ....|+.+|++++-..+.
T Consensus 329 ~p~-e~----WEtl~--q~~~yTeEEL~~fE~e~A 356 (442)
T KOG3866|consen 329 PPK-EE----WETLG--QKKVYTEEELQQFEREYA 356 (442)
T ss_pred Ccc-hh----hhhhc--ccccccHHHHHHHHHHHH
Confidence 221 22 23232 223566666666655544
No 224
>KOG4347|consensus
Probab=58.64 E-value=6.2 Score=42.22 Aligned_cols=53 Identities=11% Similarity=0.173 Sum_probs=40.0
Q ss_pred cccCcEEEeeeeeeeee----cCccccccchhhhhHHHhhhh--c---ccccCcccEEEEee
Q psy4132 34 QFQRGELILTSHRLFWQ----KDITLCLALSYIQNAVEEAKS--M---FNLTAGRKIILYLS 86 (473)
Q Consensus 34 ~~~~G~l~LTshRii~~----~~~~~~l~l~~v~~~~~~~~~--~---~~~~~s~ki~~~l~ 86 (473)
.+-.|++|+++++|+|. ..+++.+||..|..++....+ | ++..-++++.+...
T Consensus 37 ~~~~G~l~~s~~f~cF~s~~~~~c~~~~Pl~~vr~ve~~~~ss~~~~~i~~~~~~~~~~~f~ 98 (671)
T KOG4347|consen 37 YHEQGRLFLSTNFICFASDTEWLCSFITPLLAVRSVERLDDSSLFTQLISLFTSNMVGMRFG 98 (671)
T ss_pred hhccceeeeccceEEeecCCcccceEeeehhhhhhhhccCccccchhhhHHhhcCcceEEec
Confidence 35799999999999999 446899999999999876632 1 23346666666654
No 225
>PRK10870 transcriptional repressor MprA; Provisional
Probab=58.31 E-value=26 Score=31.57 Aligned_cols=40 Identities=20% Similarity=0.023 Sum_probs=36.6
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcc
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIE 459 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~ 459 (473)
++++|..++|+.++++-.-+...+...|.+|+|.|..+.+
T Consensus 69 ~~~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~~~~~ 108 (176)
T PRK10870 69 NHSIQPSELSCALGSSRTNATRIADELEKRGWIERRESDN 108 (176)
T ss_pred CCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCC
Confidence 4689999999999999999999999999999999976554
No 226
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=57.62 E-value=20 Score=22.63 Aligned_cols=31 Identities=13% Similarity=0.103 Sum_probs=25.5
Q ss_pred CCCHHHHHHhhCCcHHHHHHHHHHHHHcCCc
Q psy4132 422 FVTVEQFSRLASVSLVIAKHRLLLAETHGKL 452 (473)
Q Consensus 422 ~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l 452 (473)
.+|-+|+|..+|.+.......|...+++|.+
T Consensus 2 ~mtr~diA~~lG~t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 2 PMTRQDIADYLGLTRETVSRILKKLERQGLI 32 (32)
T ss_dssp E--HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred CcCHHHHHHHhCCcHHHHHHHHHHHHHcCCC
Confidence 3678999999999999999999999999875
No 227
>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=56.62 E-value=28 Score=30.85 Aligned_cols=35 Identities=17% Similarity=-0.022 Sum_probs=32.5
Q ss_pred hCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 419 QNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 419 ~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
..+.+|.+|+|..+|++....+..|....+.|++.
T Consensus 25 ~~~~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv~ 59 (158)
T TIGR00373 25 IKGEFTDEEISLELGIKLNEVRKALYALYDAGLAD 59 (158)
T ss_pred ccCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCce
Confidence 44689999999999999999999999999999995
No 228
>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=56.12 E-value=28 Score=26.93 Aligned_cols=39 Identities=13% Similarity=0.113 Sum_probs=32.5
Q ss_pred CCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccc
Q psy4132 422 FVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEG 460 (473)
Q Consensus 422 ~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g 460 (473)
.+|..++|+..++|.......+......|.|-.-.+..|
T Consensus 25 ~~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~G~~G 63 (83)
T PF02082_consen 25 PVSSKEIAERLGISPSYLRKILQKLKKAGLIESSRGRGG 63 (83)
T ss_dssp -BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETSTTS
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecCCCCC
Confidence 499999999999999999999999999999865444444
No 229
>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=56.04 E-value=35 Score=26.43 Aligned_cols=50 Identities=10% Similarity=0.231 Sum_probs=40.4
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCc-cccCCccc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKL-CRDQSIEG 460 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l-~~d~~~~g 460 (473)
..+..+......++..++++.++++..-+...|..+...|.| ++=++..|
T Consensus 13 ~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~ 63 (88)
T smart00088 13 TNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNG 63 (88)
T ss_pred HHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCC
Confidence 344566666789999999999999999999999999999988 44455566
No 230
>smart00753 PAM PCI/PINT associated module.
Probab=56.04 E-value=35 Score=26.43 Aligned_cols=50 Identities=10% Similarity=0.231 Sum_probs=40.4
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCc-cccCCccc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKL-CRDQSIEG 460 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l-~~d~~~~g 460 (473)
..+..+......++..++++.++++..-+...|..+...|.| ++=++..|
T Consensus 13 ~~l~~l~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID~~~~ 63 (88)
T smart00753 13 TNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNG 63 (88)
T ss_pred HHHHHHhHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEcCcCC
Confidence 344566666789999999999999999999999999999988 44455566
No 231
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=55.92 E-value=24 Score=34.19 Aligned_cols=45 Identities=11% Similarity=0.073 Sum_probs=38.5
Q ss_pred HHHHHhh-CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 413 TYEIVSQ-NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 413 ~~~~~~~-~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
|++++.. .+++|..|||+.+++|-.-+...|...++.|+|-+|+.
T Consensus 30 IL~~~~~~~~~~tl~eIa~~lglpkStv~RlL~tL~~~G~l~~~~~ 75 (271)
T PRK10163 30 ILQYLEKSGGSSSVSDISLNLDLPLSTTFRLLKVLQAADFVYQDSQ 75 (271)
T ss_pred HHHHHHhCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEcCC
Confidence 3444444 46799999999999999999999999999999999864
No 232
>PRK09954 putative kinase; Provisional
Probab=54.47 E-value=27 Score=35.28 Aligned_cols=43 Identities=9% Similarity=0.219 Sum_probs=40.1
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
.++++++.+++.+|..|+|+.+++|..-+..+|...++.|.+.
T Consensus 6 ~~il~~l~~~~~~s~~~la~~l~~s~~~v~~~i~~L~~~g~i~ 48 (362)
T PRK09954 6 KEILAILRRNPLIQQNEIADILQISRSRVAAHIMDLMRKGRIK 48 (362)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCcC
Confidence 5688899999999999999999999999999999999999873
No 233
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=54.44 E-value=36 Score=27.25 Aligned_cols=48 Identities=17% Similarity=0.061 Sum_probs=41.1
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSI 458 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~ 458 (473)
-.|+..+...+.-.+--+|+.++++..-+.+.++..|+.|+|-|.++.
T Consensus 10 ~~IL~hl~~~~~Dy~k~ia~~l~~~~~~v~~~l~~Le~~GLler~~g~ 57 (92)
T PF10007_consen 10 LKILQHLKKAGPDYAKSIARRLKIPLEEVREALEKLEEMGLLERVEGK 57 (92)
T ss_pred HHHHHHHHHHCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEecCc
Confidence 345556666688889999999999999999999999999999998743
No 234
>PRK11569 transcriptional repressor IclR; Provisional
Probab=54.29 E-value=25 Score=34.11 Aligned_cols=44 Identities=14% Similarity=0.154 Sum_probs=37.9
Q ss_pred HHHHhh-CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 414 YEIVSQ-NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 414 ~~~~~~-~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
++++.. .+++|..|||+..|++-.-+...|...++.|+|.+|+.
T Consensus 34 L~~l~~~~~~~~lseia~~lglpksTv~RlL~tL~~~G~l~~~~~ 78 (274)
T PRK11569 34 LEWIAESNGSVALTELAQQAGLPNSTTHRLLTTMQQQGFVRQVGE 78 (274)
T ss_pred HHHHHhCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEcCC
Confidence 344433 56799999999999999999999999999999998864
No 235
>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=54.14 E-value=35 Score=29.19 Aligned_cols=44 Identities=16% Similarity=0.093 Sum_probs=36.1
Q ss_pred CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 421 VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 421 ~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
+.+|..++|+.+++|.....+.|......|+|..-.+..| -|.+
T Consensus 24 ~~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~G-gy~l 67 (135)
T TIGR02010 24 GPVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGG-GYQL 67 (135)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCC-CEec
Confidence 4699999999999999999999999999999975434344 3444
No 236
>KOG2243|consensus
Probab=53.75 E-value=15 Score=42.53 Aligned_cols=57 Identities=19% Similarity=0.406 Sum_probs=45.7
Q ss_pred HHHHhhCCCCCCCccHHHHhcchhcc---CCHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 244 KRFRKLDLDNSGALSIDEFMSLPELQ---QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 244 ~~F~~~D~d~~G~Is~~el~~l~~~~---~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
..|+.+|+|+.|.|+..+|.+.++-- ....++.++.-...|.+...+|++|+.-++.
T Consensus 4061 dtfkeydpdgkgiiskkdf~kame~~k~ytqse~dfllscae~dend~~~y~dfv~rfhe 4120 (5019)
T KOG2243|consen 4061 DTFKEYDPDGKGIISKKDFHKAMEGHKHYTQSEIDFLLSCAEADENDMFDYEDFVDRFHE 4120 (5019)
T ss_pred ccchhcCCCCCccccHHHHHHHHhccccchhHHHHHHHHhhccCccccccHHHHHHHhcC
Confidence 35888999999999999999865432 2335778888888899999999999987643
No 237
>PF10557 Cullin_Nedd8: Cullin protein neddylation domain; InterPro: IPR019559 This is the neddylation site of cullin proteins, which are a family of structurally related proteins containing an evolutionarily conserved cullin domain. With the exception of APC2, each member of the cullin family is modified by Nedd8 and several cullins function in Ubiquitin-dependent proteolysis, a process in which the 26S proteasome recognises and subsequently degrades a target protein tagged with K48-linked poly-ubiquitin chains. Cullins are molecular scaffolds responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like protein, which was originally found to be conjugated to Cdc53, a cullin component of the SCF (Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in Saccharomyces cerevisiae (Baker's yeast), and Nedd8 modification has now emerged as a regulatory pathway of fundamental importance for cell cycle control and for embryogenesis in metazoans. The only identified Nedd8 substrates are cullins. Neddylation results in covalent conjugation of a Nedd8 moiety onto a conserved cullin lysine residue []. ; GO: 0031625 ubiquitin protein ligase binding, 0006511 ubiquitin-dependent protein catabolic process, 0031461 cullin-RING ubiquitin ligase complex; PDB: 3RTR_G 3TDU_D 1LDJ_A 3TDZ_D 1LDK_B 1U6G_A 3O6B_J 3O2P_E 4A0K_A 2HYE_C ....
Probab=53.64 E-value=28 Score=25.95 Aligned_cols=47 Identities=15% Similarity=0.123 Sum_probs=31.7
Q ss_pred HHHHHHHhhCCCCCHHHH--------HHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 411 EKTYEIVSQNVFVTVEQF--------SRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~--------a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
+.+.+++.....++..++ +..|.++....++.|+.+.++|+|-||++
T Consensus 11 AaIVrimK~~k~~~~~~L~~~v~~~l~~~f~~~~~~ik~~Ie~LIekeyi~Rd~~ 65 (68)
T PF10557_consen 11 AAIVRIMKQEKKLSHDELINEVIEELKKRFPPSVSDIKKRIESLIEKEYIERDED 65 (68)
T ss_dssp HHHHHHHHHSSEEEHHHHHHHHHHHTTTTS---HHHHHHHHHHHHHTTSEEEESS
T ss_pred hheehhhhhcCceeHHHHHHHHHHHhcCCcCCCHHHHHHHHHHHHHhhhhhcCCC
Confidence 344455555555554443 33678999999999999999999999985
No 238
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=53.10 E-value=28 Score=33.20 Aligned_cols=46 Identities=7% Similarity=0.085 Sum_probs=38.9
Q ss_pred HHHHHHhhC-CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 412 KTYEIVSQN-VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 412 ~~~~~~~~~-~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
.+++++... .+++..|+|+..|+|-.-+...|...++.|+|-+|+.
T Consensus 8 ~iL~~l~~~~~~l~l~ela~~~glpksT~~RlL~tL~~~G~v~~d~~ 54 (246)
T COG1414 8 AILDLLAEGPGGLSLAELAERLGLPKSTVHRLLQTLVELGYVEQDPE 54 (246)
T ss_pred HHHHHHHhCCCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEcCC
Confidence 344555443 4489999999999999999999999999999999985
No 239
>PRK12423 LexA repressor; Provisional
Probab=52.90 E-value=40 Score=31.09 Aligned_cols=52 Identities=12% Similarity=0.068 Sum_probs=42.4
Q ss_pred cHHHHHHHHHHHhhCC-CCCHHHHHHhhC-CcHHHHHHHHHHHHHcCCccccCC
Q psy4132 406 DASFVEKTYEIVSQNV-FVTVEQFSRLAS-VSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 406 ~~~~~~~~~~~~~~~~-~ls~~e~a~~~~-~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
..+++..+...+...+ .-|..|+|+.+| .|....++.|...++.|.|-++.+
T Consensus 8 q~~il~~l~~~i~~~g~~Ps~~eia~~~g~~s~~~v~~~l~~L~~~G~l~~~~~ 61 (202)
T PRK12423 8 RAAILAFIRERIAQAGQPPSLAEIAQAFGFASRSVARKHVQALAEAGLIEVVPN 61 (202)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCCCEEecCC
Confidence 3466777777665544 359999999999 599999999999999999998765
No 240
>KOG4004|consensus
Probab=52.72 E-value=8.6 Score=34.98 Aligned_cols=58 Identities=21% Similarity=0.193 Sum_probs=43.9
Q ss_pred HHHHhhCCC-CCCCccHHHHhcchhccCCH--HHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 244 KRFRKLDLD-NSGALSIDEFMSLPELQQNP--LVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 244 ~~F~~~D~d-~~G~Is~~el~~l~~~~~~~--~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
..|-.+|.. -+|++|-.||..+....... -+...|...|.|+||.|+.+||...+...
T Consensus 191 wqf~qld~~p~d~~~sh~el~pl~ap~ipme~c~~~f~e~cd~~nd~~ial~ew~~c~gik 251 (259)
T KOG4004|consen 191 WQFGQLDQHPIDGYLSHTELAPLRAPLIPMEHCTTRFFETCDLDNDKYIALDEWAGCFGIK 251 (259)
T ss_pred eeeccccCCCccccccccccccccCCcccHHhhchhhhhcccCCCCCceeHHHhhcccCcc
Confidence 346777764 58999999998875443222 25788999999999999999998766443
No 241
>PF13730 HTH_36: Helix-turn-helix domain
Probab=51.51 E-value=46 Score=23.20 Aligned_cols=45 Identities=13% Similarity=-0.004 Sum_probs=34.9
Q ss_pred HHHHHHHHHHhhCCC--CCHHHHHHhhCCcHHHHHHHHHHHHHcCCc
Q psy4132 408 SFVEKTYEIVSQNVF--VTVEQFSRLASVSLVIAKHRLLLAETHGKL 452 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~--ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l 452 (473)
.+.-.+..+.+..+. -|...+|...|.|..-....|...++.|+|
T Consensus 9 ~v~~~l~~~~~~~~~~~pS~~~la~~~g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 9 LVYLYLASYANKNGGCFPSQETLAKDLGVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred HHHHHHHHhcCCCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCcCC
Confidence 344455555544433 378999999999999999999999999986
No 242
>KOG1955|consensus
Probab=51.45 E-value=26 Score=36.43 Aligned_cols=32 Identities=19% Similarity=0.170 Sum_probs=28.9
Q ss_pred CCCHHHHHHHHHHhccCCCCCeeHHhhhccce
Q psy4132 366 LLSPEDLLNSCLALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 366 ~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~ 397 (473)
.+..+|+..|++..|.+.||.+++.||..++.
T Consensus 261 klpi~ELshIWeLsD~d~DGALtL~EFcAAfH 292 (737)
T KOG1955|consen 261 KLPIEELSHIWELSDVDRDGALTLSEFCAAFH 292 (737)
T ss_pred cCchHHHHHHHhhcccCccccccHHHHHhhHh
Confidence 48888999999999999999999999987665
No 243
>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=51.20 E-value=36 Score=27.43 Aligned_cols=46 Identities=15% Similarity=0.225 Sum_probs=38.1
Q ss_pred HHHHHHHHHHhh----CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 408 SFVEKTYEIVSQ----NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 408 ~~~~~~~~~~~~----~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
....+++.+++. ..+++..+|++.++++..-.++.|+.+...|.|=
T Consensus 47 ~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~IY 96 (102)
T PF08784_consen 47 PLQDKVLNFIKQQPNSEEGVHVDEIAQQLGMSENEVRKALDFLSNEGHIY 96 (102)
T ss_dssp HHHHHHHHHHHC----TTTEEHHHHHHHSTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHhcCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHhCCeEe
Confidence 455677777766 4689999999999999999999999999999873
No 244
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=51.08 E-value=30 Score=23.31 Aligned_cols=38 Identities=29% Similarity=0.411 Sum_probs=27.1
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFY 464 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~ 464 (473)
.|..|+|+.+|++... |..-+.+|.|+-.....|-++|
T Consensus 1 ~~~~e~a~~~gv~~~t----lr~~~~~g~l~~~~~~~~~~~y 38 (49)
T cd04761 1 YTIGELAKLTGVSPST----LRYYERIGLLSPARTEGGYRLY 38 (49)
T ss_pred CcHHHHHHHHCcCHHH----HHHHHHCCCCCCCcCCCCCEEe
Confidence 3678999999998764 5566899999843333366666
No 245
>cd01105 HTH_GlnR-like Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator GlnR and related proteins, N-terminal domain. The GlnR and TnrA (also known as ScgR) proteins have been shown to regulate expression of glutamine synthetase as well as several genes involved in nitrogen metabolism. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=50.98 E-value=26 Score=27.53 Aligned_cols=39 Identities=26% Similarity=0.270 Sum_probs=30.6
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcc-cccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIE-GLRFYE 465 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~-g~~~~~ 465 (473)
.|..|+|+.+|+|..-.+ .-|..|.+.-..... |-|+|.
T Consensus 2 ~ti~evA~~~gvs~~tLR----~ye~~Gll~p~r~~~~g~R~Ys 41 (88)
T cd01105 2 IGIGEVSKLTGVSPRQLR----YWEEKGLIKSIRSDGGGQRKYS 41 (88)
T ss_pred cCHHHHHHHHCcCHHHHH----HHHHCCCCCCCccCCCCceecC
Confidence 578899999999876554 558899998666665 889885
No 246
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=50.75 E-value=94 Score=34.81 Aligned_cols=123 Identities=17% Similarity=0.223 Sum_probs=71.6
Q ss_pred CCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhccceeee
Q psy4132 321 DNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVLQ 400 (473)
Q Consensus 321 d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl~ 400 (473)
||. .|++. ++|..-+...+ ..+|.+++.|+-..+ + +....++...+.+-.+ |..+.+- .|- .+
T Consensus 51 DGK-EYiT~--~qL~~EI~~El-~~gGRvnlvdLa~~L----n---VD~~hiEr~~~~iv~~-d~~~~l~---~Ge-Li- 113 (803)
T PLN03083 51 SGK-EYITQ--DQLRNEIEAEI-KKLGRVSLVDLADTI----G---VDLYHVERQAQQVVSD-DPGLMLV---QGE-II- 113 (803)
T ss_pred CCc-eeeCH--HHHHHHHHHHH-HhCCCeeHHHHhhhc----C---CCHHHHHHHHHHHhcC-CCceEEe---cCE-ec-
Confidence 555 34443 34433333333 236899999875444 3 5566677767666554 3333221 111 11
Q ss_pred ecccCcHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccc
Q psy4132 401 LKSCEDASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFY 464 (473)
Q Consensus 401 ~~~~~~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~ 464 (473)
...+- ..+...+-+.++..|.++..|+|+.+++|..+.+..|... .|.+ .+...+|-.+|
T Consensus 114 t~~Yl-d~iaeEIne~LqE~G~isI~eLa~~~~Lpsefl~~~l~~r--lG~i-I~g~~~g~~ly 173 (803)
T PLN03083 114 SQSYW-DSIAEEINERLQECSQIALAELARQLQVGSELVTSMLEPR--LGTI-VKARLEGGQLY 173 (803)
T ss_pred chHHH-HHHHHHHHHHHHHcCcChHHHHHHhcCChHHHHHHHHHHH--hccc-eEEEecCCEEe
Confidence 11111 3455556677788999999999999999999999999654 5543 33333443334
No 247
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=50.66 E-value=42 Score=27.29 Aligned_cols=47 Identities=15% Similarity=0.070 Sum_probs=38.1
Q ss_pred HHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccc
Q psy4132 414 YEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEG 460 (473)
Q Consensus 414 ~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g 460 (473)
+..+...++.+..++|..++++.+-....+...|.+|+|.|-.+.+-
T Consensus 28 L~~l~~~~~~~~~~la~~l~i~~~~vt~~l~~Le~~glv~r~~~~~D 74 (126)
T COG1846 28 LLALYEAGGITVKELAERLGLDRSTVTRLLKRLEDKGLIERLRDPED 74 (126)
T ss_pred HHHHHHhCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCeeecCCccc
Confidence 33444445555599999999999999999999999999998776553
No 248
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=50.54 E-value=94 Score=27.24 Aligned_cols=89 Identities=16% Similarity=0.093 Sum_probs=64.0
Q ss_pred CCHHHHHHHHHHhccCCCCCeeHHhhhcccee--e-eecccCcHHHHHHHHHHHhh---CCCCCHHHHHHhhCC------
Q psy4132 367 LSPEDLLNSCLALDKLPDSPIYLKTYSSGVKV--L-QLKSCEDASFVEKTYEIVSQ---NVFVTVEQFSRLASV------ 434 (473)
Q Consensus 367 ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~v--l-~~~~~~~~~~~~~~~~~~~~---~~~ls~~e~a~~~~~------ 434 (473)
+.++++.+.+..+=+ +.|+|..-+|...++. . .+...+++.+.-+...+++. .+++....++..+|.
T Consensus 7 Vpa~~~I~~~A~~LK-~~~ki~~P~W~~~vKTg~~kE~~P~~~DW~Y~R~AsIlR~vY~~gpvGV~~L~~~yGg~k~~G~ 85 (150)
T PRK09333 7 VPADLLIERLAEYLK-NVDEIKPPEWAAFVKTGVHKERPPEQEDWWYVRAASILRKVYIDGPVGVERLRTAYGGRKNRGV 85 (150)
T ss_pred CCHHHHHHHHHHHHH-hcCCcCCCcchhhhcccccccCCCCCCchHHHHHHHHHHHHHHcCCccHHHHHHHHCCCcCCCC
Confidence 677777776554433 3788888888776662 1 22333445666666666554 689999999999977
Q ss_pred --------cHHHHHHHHHHHHHcCCccccC
Q psy4132 435 --------SLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 435 --------s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
|-.+++..|+..|..|+|-.+.
T Consensus 86 ~P~h~~~~sg~iiR~~LqqLE~~glVek~~ 115 (150)
T PRK09333 86 RPEHFVKGSGSIIRKILQQLEKAGLVEKTK 115 (150)
T ss_pred CCCccccCccHHHHHHHHHHHHCCCeeeCC
Confidence 5677999999999999998665
No 249
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=50.36 E-value=98 Score=30.74 Aligned_cols=37 Identities=8% Similarity=-0.045 Sum_probs=33.3
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHH-HHHHcCCccccC
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLL-LAETHGKLCRDQ 456 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~-~~~~~g~l~~d~ 456 (473)
.+.++...+|..+|.+..-+.+.++ .....|+|-+..
T Consensus 274 ~~~~~~~~~a~~lg~~~~~~~~~~e~~Li~~~li~~~~ 311 (328)
T PRK00080 274 GGPVGLDTLAAALGEERDTIEDVYEPYLIQQGFIQRTP 311 (328)
T ss_pred CCceeHHHHHHHHCCCcchHHHHhhHHHHHcCCcccCC
Confidence 4679999999999999999999999 999999997554
No 250
>cd07313 terB_like_2 tellurium resistance terB-like protein, subgroup 2. This family includes several uncharacterized bacterial proteins. Protein sequence homology analysis shows they are similar to tellurium resistance protein terB, but the function of this family is unknown.
Probab=50.28 E-value=23 Score=28.49 Aligned_cols=65 Identities=15% Similarity=0.111 Sum_probs=42.2
Q ss_pred CCHHHHHHHHHHhccCCCCCeeHHhhhccceeeeecccC-cHHHHHHHHHHHhhCCCCCHHHHHHhhC
Q psy4132 367 LSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVLQLKSCE-DASFVEKTYEIVSQNVFVTVEQFSRLAS 433 (473)
Q Consensus 367 ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl~~~~~~-~~~~~~~~~~~~~~~~~ls~~e~a~~~~ 433 (473)
+++++...++..+........++.+|.+.+.... ++. -..++..+..+.-.+|.+++.|-.-+..
T Consensus 34 l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~r~~~l~~L~~vA~ADG~~~~~E~~~l~~ 99 (104)
T cd07313 34 LDAEEAAELLAEAEALEEEAPDLYEFTSLIKEHF--DYEERLELVEALWEVAYADGELDEYEEHLIRR 99 (104)
T ss_pred cCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHhC--CHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence 6777777777766665566778888877654221 111 1456666677777788888888655443
No 251
>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=48.82 E-value=44 Score=27.44 Aligned_cols=53 Identities=23% Similarity=0.221 Sum_probs=41.3
Q ss_pred HHHHHHhh-CCCCCHHHHHHhh-----CCcHHHHHHHHHHHHHcCCccccCCccccccc
Q psy4132 412 KTYEIVSQ-NVFVTVEQFSRLA-----SVSLVIAKHRLLLAETHGKLCRDQSIEGLRFY 464 (473)
Q Consensus 412 ~~~~~~~~-~~~ls~~e~a~~~-----~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~ 464 (473)
.+++++.. ...+|+.|+.+.+ +++..-.-..|...++.|.|-+-....|..+|
T Consensus 5 ~Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~~~~~~~~~y 63 (116)
T cd07153 5 AILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGKARY 63 (116)
T ss_pred HHHHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEEEeCCCceEE
Confidence 34555544 5689999999888 67888888999999999999987766664444
No 252
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=48.49 E-value=42 Score=34.76 Aligned_cols=46 Identities=15% Similarity=0.108 Sum_probs=38.7
Q ss_pred hhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 418 SQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 418 ~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
+...++|..++++..+++..+.++.|+..++.|.|.|.++. .|.+.
T Consensus 306 ~~g~~~t~~~La~~l~~~~~~v~~iL~~L~~agLI~~~~~g---~~~l~ 351 (412)
T PRK04214 306 KHGKALDVDEIRRLEPMGYDELGELLCELARIGLLRRGERG---QWVLA 351 (412)
T ss_pred hcCCCCCHHHHHHHhCCCHHHHHHHHHHHHhCCCeEecCCC---ceEec
Confidence 34568999999999999999999999999999999975532 46554
No 253
>KOG1707|consensus
Probab=47.29 E-value=24 Score=37.65 Aligned_cols=86 Identities=24% Similarity=0.281 Sum_probs=51.7
Q ss_pred hHHHHHHHHHHHhhCCCCCCCccHHHHhcchhcc-CCHHHHHHH-HHhcCCCCCcccHHHHHHHHhhcccCCCcHHHHHH
Q psy4132 236 VVDIRRLGKRFRKLDLDNSGALSIDEFMSLPELQ-QNPLVQRVI-DIFDEDRNGEVDFKEFIQGVSQFSVKGDRESKLKF 313 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~~-~~~~~~~l~-~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~~ 313 (473)
..-.+-+...|..+|.|+||.++..||..++... ..+.....+ ...-.+..|.++|.-|+..++..........-...
T Consensus 311 ~~~~~Fl~~~f~~~D~d~Dg~L~p~El~~LF~~~P~~pW~~~~~~~~t~~~~~G~ltl~g~l~~WsL~Tlld~~~t~~~L 390 (625)
T KOG1707|consen 311 PKGYRFLVDVFEKFDRDNDGALSPEELKDLFSTAPGSPWTSSPYKDSTVKNERGWLTLNGFLSQWSLMTLLDPRRTLEYL 390 (625)
T ss_pred HHHHHHHHHHHHhccCCCCCCcCHHHHHHHhhhCCCCCCCCCcccccceecccceeehhhHHHHHHHHhhccHHHHHHHH
Confidence 4456788999999999999999999999974332 112100000 00012358999999999887655332222222333
Q ss_pred HhHHhcCC
Q psy4132 314 AFRIYDID 321 (473)
Q Consensus 314 ~F~~~D~d 321 (473)
+|--|..+
T Consensus 391 ~Ylgf~~~ 398 (625)
T KOG1707|consen 391 AYLGFPTD 398 (625)
T ss_pred HhcCCccc
Confidence 44444443
No 254
>KOG3866|consensus
Probab=46.65 E-value=36 Score=33.22 Aligned_cols=24 Identities=13% Similarity=0.188 Sum_probs=20.7
Q ss_pred HHHHHhccCCCCCeeHHhhhccce
Q psy4132 374 NSCLALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 374 ~~~~~~D~~~dg~Is~~EF~~~~~ 397 (473)
.+++..|+|.|--||++||+....
T Consensus 300 HVMk~vDtNqDRlvtleEFL~~t~ 323 (442)
T KOG3866|consen 300 HVMKQVDTNQDRLVTLEEFLNDTD 323 (442)
T ss_pred HHHHhcccchhhhhhHHHHHhhhh
Confidence 568999999999999999986554
No 255
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=46.60 E-value=47 Score=29.62 Aligned_cols=41 Identities=15% Similarity=0.113 Sum_probs=35.7
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccc
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEG 460 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g 460 (473)
.+.+|..+||+.+++|..+..+.|......|+|..--+..|
T Consensus 23 ~~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~G 63 (164)
T PRK10857 23 AGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGG 63 (164)
T ss_pred CCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCC
Confidence 35799999999999999999999999999999986544444
No 256
>PF12174 RST: RCD1-SRO-TAF4 (RST) plant domain; InterPro: IPR022003 This domain is found in many plant proteins including SROs and RCD1s; it is required for interaction with multiple plant transcription factors.
Probab=46.41 E-value=17 Score=27.53 Aligned_cols=48 Identities=8% Similarity=0.140 Sum_probs=38.0
Q ss_pred CccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhccceee
Q psy4132 347 GTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVL 399 (473)
Q Consensus 347 g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl 399 (473)
..++++.++..+.. .+++.++..+...++.-..++|+.+||+..++.+
T Consensus 7 p~~~F~~L~~~l~~-----~l~~~~~~~l~~~Y~~~k~~kIsR~~fvr~lR~I 54 (70)
T PF12174_consen 7 PWMPFPMLFSALSK-----HLPPSKMDLLQKHYEEFKKKKISREEFVRKLRQI 54 (70)
T ss_pred CcccHHHHHHHHHH-----HCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence 34667777777766 4778888888888887789999999999888743
No 257
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=46.15 E-value=51 Score=30.80 Aligned_cols=57 Identities=14% Similarity=0.039 Sum_probs=50.4
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccccc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYENK 467 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n~ 467 (473)
+.+...++.+++.|..++|+..|+|+.-..=.+..+++.|.+--|...--+-||.|-
T Consensus 177 k~I~~eiq~~~~~t~~~ia~~l~ls~aTV~~~lk~l~~~Gii~~~~~Gr~iiy~in~ 233 (240)
T COG3398 177 KAIIYEIQENKCNTNLLIAYELNLSVATVAYHLKKLEELGIIPEDREGRSIIYSINP 233 (240)
T ss_pred HHHHHHHhcCCcchHHHHHHHcCccHHHHHHHHHHHHHcCCCcccccCceEEEEeCH
Confidence 556677888999999999999999999999999999999999888777778888873
No 258
>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=45.91 E-value=58 Score=23.79 Aligned_cols=46 Identities=20% Similarity=0.181 Sum_probs=37.7
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
++.+++.+.+-..|++|..++.+..++|..-.+.-|-.....|++.
T Consensus 13 ~~~~~V~~~Ll~~G~ltl~~i~~~t~l~~~~Vk~~L~~LiQh~~v~ 58 (62)
T PF08221_consen 13 EIVAKVGEVLLSRGRLTLREIVRRTGLSPKQVKKALVVLIQHNLVQ 58 (62)
T ss_dssp HHHHHHHHHHHHC-SEEHHHHHHHHT--HHHHHHHHHHHHHTTSEE
T ss_pred hHHHHHHHHHHHcCCcCHHHHHHHhCCCHHHHHHHHHHHHHcCCee
Confidence 5667778888888999999999999999999999999999988763
No 259
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=45.80 E-value=1.1e+02 Score=32.09 Aligned_cols=56 Identities=21% Similarity=0.226 Sum_probs=48.1
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
+.+++++..++.+|..++++.+++|-.-+...|......|.+.+-++...-.||..
T Consensus 405 ~~il~~~~en~~~T~~~L~~~l~is~~~i~r~i~~Lv~~g~~~~~g~~~~g~~~v~ 460 (467)
T COG2865 405 EKILELIKENGKVTARELREILGISSETIRRRIANLVKRGLLKQLGSSGRGTWYVK 460 (467)
T ss_pred HHHHHHHhhccccCHHHHHHHhCcchhhHHHHHHHHhcccHHHHhCcCCCCcEEec
Confidence 46788889999999999999999999999999999999999999886443445543
No 260
>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=45.72 E-value=35 Score=31.17 Aligned_cols=49 Identities=14% Similarity=0.226 Sum_probs=38.8
Q ss_pred HHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc--ccCC
Q psy4132 409 FVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC--RDQS 457 (473)
Q Consensus 409 ~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~--~d~~ 457 (473)
.+..+..++.....+..+++|..||++...+..+|...+..|.|. .|+.
T Consensus 100 lL~~Fi~yIK~~Kvv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv~Ddr 150 (188)
T PF09756_consen 100 LLQEFINYIKEHKVVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGVIDDR 150 (188)
T ss_dssp HHHHHHHHHHH-SEE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EEE-TT
T ss_pred HHHHHHHHHHHcceeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceeeEcCC
Confidence 677778888889999999999999999999999999999999885 5663
No 261
>PF08976 DUF1880: Domain of unknown function (DUF1880); InterPro: IPR015070 This entry represents EF-hand calcium-binding domain-containing protein 6 that negatively regulates the androgen receptor by recruiting histone deacetylase complex, and protein DJ-1 antagonises this inhibition by abrogation of this complex [].; PDB: 1WLZ_C.
Probab=45.48 E-value=16 Score=30.34 Aligned_cols=32 Identities=9% Similarity=0.090 Sum_probs=23.2
Q ss_pred CCCHHHHHHHHHHhccCCCCCeeHHhhhccce
Q psy4132 366 LLSPEDLLNSCLALDKLPDSPIYLKTYSSGVK 397 (473)
Q Consensus 366 ~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~ 397 (473)
.+|+++++.+...+..|..|.|.|.||++-.-
T Consensus 3 iLtDeQFdrLW~e~Pvn~~GrLkY~eFL~kfs 34 (118)
T PF08976_consen 3 ILTDEQFDRLWNEMPVNAKGRLKYQEFLSKFS 34 (118)
T ss_dssp ---HHHHHHHHTTS-B-TTS-EEHHHHHHHT-
T ss_pred cccHHHhhhhhhhCcCCccCCEeHHHHHHHcc
Confidence 48999999999999999999999999986554
No 262
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=45.24 E-value=44 Score=32.02 Aligned_cols=44 Identities=9% Similarity=0.051 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcC
Q psy4132 407 ASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHG 450 (473)
Q Consensus 407 ~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g 450 (473)
++....|.++++..+.++..|+|+.|++|..-++.-|...|..|
T Consensus 6 ~eR~~~I~~~l~~~~~v~v~eLa~~~~VS~~TIRRDL~~Le~~~ 49 (252)
T PRK10681 6 DERIGQLLQALKRSDKLHLKDAAALLGVSEMTIRRDLNAHSAPV 49 (252)
T ss_pred HHHHHHHHHHHHHcCCCcHHHHHHHhCCCHHHHHHHHHHhhcCe
Confidence 35678899999999999999999999999999999999888544
No 263
>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=45.10 E-value=85 Score=23.84 Aligned_cols=49 Identities=20% Similarity=0.148 Sum_probs=40.8
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEG 460 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g 460 (473)
..++-.+... +.|.+|+....|++=....-.|.....+|.+.|.-.-.|
T Consensus 8 ~~IL~~ls~~-c~TLeeL~ekTgi~k~~LlV~LsrL~k~GiI~Rkw~~~~ 56 (72)
T PF05584_consen 8 QKILIILSKR-CCTLEELEEKTGISKNTLLVYLSRLAKRGIIERKWRKFG 56 (72)
T ss_pred HHHHHHHHhc-cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeeEEec
Confidence 4455556565 999999999999999999999999999999999754333
No 264
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=45.07 E-value=85 Score=28.52 Aligned_cols=50 Identities=16% Similarity=0.154 Sum_probs=42.4
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
+.+.++...+..++++|+.+||+.++++=.=++..|-.....|.|+--++
T Consensus 13 ~lv~~~~~~l~~~~~~~a~~i~~~l~~~k~~vNr~LY~l~~~~~v~~~~~ 62 (183)
T PHA03103 13 ELVKKEVKNLGLGEGITAIEISRKLNIEKSEVNKQLYKLQREGMVYMSDS 62 (183)
T ss_pred HHHHHHHHHhccCCCccHHHHHHHhCCCHHHHHHHHHHHHhcCceecCCC
Confidence 45566666677788999999999999999999999999999999975443
No 265
>PF05042 Caleosin: Caleosin related protein; InterPro: IPR007736 This family contains plant proteins related to caleosin. Caleosins contain calcium-binding domains and have an oleosin-like association with lipid bodies. Caleosins are present at relatively low levels and are mainly bound to microsomal membrane fractions at the early stages of seed development. As the seeds mature, overall levels of caleosins increased dramatically and they were associated almost exclusively with storage lipid bodies []. The calcium binding domain is probably related to the calcium-binding EF-hands motif IPR002048 from INTERPRO.
Probab=44.99 E-value=87 Score=28.12 Aligned_cols=33 Identities=18% Similarity=0.128 Sum_probs=24.7
Q ss_pred HHHHHHHhhCCCCCCCccHHHHhc-chhccCCHH
Q psy4132 241 RLGKRFRKLDLDNSGALSIDEFMS-LPELQQNPL 273 (473)
Q Consensus 241 ~l~~~F~~~D~d~~G~Is~~el~~-l~~~~~~~~ 273 (473)
.|++-..-||.|+||.|.+-|--. +..++.+..
T Consensus 8 ~LQqHvaFFDrd~DGiI~P~dTy~GFraLGf~~~ 41 (174)
T PF05042_consen 8 VLQQHVAFFDRDKDGIIYPWDTYQGFRALGFGIL 41 (174)
T ss_pred HHhhhhceeCCCCCeeECHHHHHHHHHHhCCCHH
Confidence 466667779999999999887655 666666554
No 266
>PF02295 z-alpha: Adenosine deaminase z-alpha domain; InterPro: IPR000607 Double-stranded RNA-specific adenosine deaminase (3.5 from EC) converts multiple adenosines to inosines and creates I/U mismatched base pairs in double-helical RNA substrates without apparent sequence specificity. DRADA has been found to modify adenosines in AU-rich regions more frequently, probably due to the relative ease of melting A/U base pairs compared to G/C base pairs. The protein functions to modify viral RNA genomes, and may be responsible for hypermutation of certain negative-stranded viruses. DRADA edits the mRNAs for the glutamate receptor subunits by site-selective adenosine deamination. The DRADA repeat is also found in viral E3 proteins, which contain a double-stranded RNA-binding domain.; GO: 0003723 RNA binding, 0003726 double-stranded RNA adenosine deaminase activity; PDB: 1OYI_A 3EYI_A 2L4M_A 2HEO_D 1J75_A 1SFU_B 3IRR_B 2ACJ_C 3F22_B 2L54_A ....
Probab=44.88 E-value=27 Score=25.97 Aligned_cols=49 Identities=20% Similarity=0.167 Sum_probs=36.0
Q ss_pred HHHHHHHHHhhCCC--CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 409 FVEKTYEIVSQNVF--VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 409 ~~~~~~~~~~~~~~--ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
.-++|+.++...++ .++...+..++++-...+..|-..+..|.||+..+
T Consensus 5 ~ee~Il~~L~~~g~~~a~~ia~~~~L~~~kk~VN~~LY~L~k~g~v~k~~~ 55 (66)
T PF02295_consen 5 LEEKILDFLKELGGSTATAIAKALGLSVPKKEVNRVLYRLEKQGKVCKEGG 55 (66)
T ss_dssp HHHHHHHHHHHHTSSEEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEECS
T ss_pred HHHHHHHHHHhcCCccHHHHHHHhCcchhHHHHHHHHHHHHHCCCEeeCCC
Confidence 44667777776554 45555556666768999999999999999998553
No 267
>KOG0035|consensus
Probab=44.45 E-value=57 Score=36.82 Aligned_cols=104 Identities=12% Similarity=0.120 Sum_probs=68.5
Q ss_pred HHHHHHHhHHHHHHHHHHHHhhhh-------hhhHHHHHHHHhhhhhhh---hhhhhcccccccccCCCCCceeHHHHHH
Q psy4132 155 ERNIVEKQKETSSNINNAFKDLNQ-------LMSMAKEMVEISKNISNK---IINRQGEITEDDSNKDRDGKINFQEFCS 224 (473)
Q Consensus 155 ~r~~~~~~~~~~~~l~eaF~~lD~-------~~e~~~~l~~lg~~~~~~---~~~~~~~~~~~~~D~d~dG~I~f~EF~~ 224 (473)
+|...-..+....+|+..|..+|+ ..++..++..+|.+..+. +.+...+++ ..|++.-|.++|.+|..
T Consensus 735 ~R~sk~~sQ~v~~ElrAle~~~~~~d~~aa~~e~~~~~Lmslg~~~e~ee~~~~e~~~lvn--~~n~l~~~qv~~~e~~d 812 (890)
T KOG0035|consen 735 ERDSKGTSQYVLDELRALENEQDKIDGGAASPEELLRCLMSLGYNTEEEEQGIAEWFRLVN--KKNPLIQGQVQLLEFED 812 (890)
T ss_pred HhcccchhHHHHHHHHHHHhHHHHhhcccCCHHHHHHHHHhcCcccchhHHHHHHHHHHHh--ccCcccccceeHHHHHh
Confidence 333334446677889999999988 455666777777776642 111122232 35777789999999999
Q ss_pred HHccccccccchHHHHHHHHHHHhhCCCCCCCccHHHHhc
Q psy4132 225 IVGNTDIHKKMVVDIRRLGKRFRKLDLDNSGALSIDEFMS 264 (473)
Q Consensus 225 ~~~~~~~~~~~~~~~~~l~~~F~~~D~d~~G~Is~~el~~ 264 (473)
.|.+.. ..-.....+..+|+.+-+++. +|..+||..
T Consensus 813 dl~R~~---e~l~~~~r~i~s~~d~~ktk~-~lL~eEL~~ 848 (890)
T KOG0035|consen 813 DLEREY---EDLDTELRAILAFEDWAKTKA-YLLLEELVR 848 (890)
T ss_pred Hhhhhh---hhhcHHHHHHHHHHHHHcchh-HHHHHHHHh
Confidence 988422 223455677778888877666 777777765
No 268
>PF00376 MerR: MerR family regulatory protein; InterPro: IPR000551 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 is the MerR subfamily. MerR, which is found in many bacterial species mediates the mercuric-dependent induction of the mercury resistance operon. In the absence of mercury merR represses transcription by binding tightly, as a dimer, to the 'mer' operator region; when mercury is present the dimeric complex binds a single ion and becomes a potent transcriptional activator, while remaining bound to the mer site. Members of the family include the mercuric resistance operon regulatory protein merR; Bacillus subtilis bltR and bmrR; Bacillus glnR; Streptomyces coelicolor hspR; Bradyrhizobium japonicum nolA; Escherichia coli superoxide response regulator soxR; and Streptomyces lividans transcriptional activator tipA [, , , , , ]. Other members include hypothetical proteins from E. coli, B. subtilis and Haemophilus influenzae. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3HH0_A 2DG6_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q07_A 1Q06_A 1Q05_B ....
Probab=44.26 E-value=31 Score=22.53 Aligned_cols=37 Identities=30% Similarity=0.391 Sum_probs=24.4
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCccc-cCCccccccc
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCR-DQSIEGLRFY 464 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~-d~~~~g~~~~ 464 (473)
|..|+|+.+|+|+ ..|..=|+.|+|.- .....|-|+|
T Consensus 1 ti~e~A~~~gvs~----~tlR~ye~~Gll~~~~r~~~g~R~Y 38 (38)
T PF00376_consen 1 TIGEVAKLLGVSP----RTLRYYEREGLLPPPERTEGGYRRY 38 (38)
T ss_dssp EHHHHHHHHTS-H----HHHHHHHHTTSS-SSEETTTS-EEE
T ss_pred CHHHHHHHHCCCH----HHHHHHHHCCCCCCCccCCCCeecC
Confidence 4578899998886 56777889999943 3355567765
No 269
>PRK03911 heat-inducible transcription repressor; Provisional
Probab=43.42 E-value=46 Score=31.78 Aligned_cols=63 Identities=14% Similarity=0.181 Sum_probs=48.8
Q ss_pred HHHHHHH-HHHhhCCCCCHHHHHHhh--CCcHHHHHHHHHHHHHcCCcccc-------CCcccccccccccCc
Q psy4132 408 SFVEKTY-EIVSQNVFVTVEQFSRLA--SVSLVIAKHRLLLAETHGKLCRD-------QSIEGLRFYENKFLL 470 (473)
Q Consensus 408 ~~~~~~~-~~~~~~~~ls~~e~a~~~--~~s~~~~~~~l~~~~~~g~l~~d-------~~~~g~~~~~n~~~~ 470 (473)
.++..+. .+++...++....+++.. ++|..-.+..+...|+.|.|..- -+..|.|||++.-+.
T Consensus 7 ~IL~~iV~~Yi~t~~PVGSk~L~~~~~l~~SsATIRn~m~~LE~~G~L~qpHtSsGRIPT~~gyr~Yvd~~l~ 79 (260)
T PRK03911 7 LLLDSIIQTYLQDNEPIGSNELKSLMNLKISAATIRNYFKKLSDEGLLTQLHISGGRIPTIKAMKNYWQKSLD 79 (260)
T ss_pred HHHHHHHHHHhccCCccCHHHHHHHcCCCCCcHHHHHHHHHHHHCcCccCCcCCCCcCCCHHHHHHHHHhhcC
Confidence 3444443 566777899999999987 58888889999999999999843 466689999986543
No 270
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=43.20 E-value=37 Score=28.68 Aligned_cols=40 Identities=20% Similarity=0.291 Sum_probs=30.6
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc-ccCCccccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLC-RDQSIEGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~-~d~~~~g~~~~~n 466 (473)
++..|+|+.+|+|+... ..=|+.|.|. -.-...|.|+|..
T Consensus 1 m~I~e~a~~~gvs~~tl----R~Ye~~GLl~~~~r~~~gyR~Y~~ 41 (126)
T cd04783 1 LTIGELAKAAGVNVETI----RYYQRRGLLPEPPRPEGGYRRYPE 41 (126)
T ss_pred CCHHHHHHHHCcCHHHH----HHHHHCCCCCCCCcCCCCCeecCH
Confidence 36789999999998765 5559999998 3334568999863
No 271
>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=42.86 E-value=63 Score=25.09 Aligned_cols=35 Identities=14% Similarity=0.093 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHH
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRL 443 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l 443 (473)
.-...|.+++.. +.+|..++|+.+|+|..-+...|
T Consensus 6 ~R~~~I~e~l~~-~~~ti~dvA~~~gvS~~TVsr~L 40 (80)
T TIGR02844 6 ERVLEIGKYIVE-TKATVRETAKVFGVSKSTVHKDV 40 (80)
T ss_pred HHHHHHHHHHHH-CCCCHHHHHHHhCCCHHHHHHHh
Confidence 456778899999 99999999999999999888755
No 272
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=42.43 E-value=29 Score=28.74 Aligned_cols=55 Identities=16% Similarity=0.071 Sum_probs=40.8
Q ss_pred HHHHHHHhhCCCCCHHHHHHhh----CCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLA----SVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~----~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
..+++++-..+.+|+.|+...+ +|+..-..-.|.-.+++|.|-|+...-...|+|
T Consensus 6 ~~IM~~lW~~~~~t~~eI~~~l~~~~~~~~sTv~t~L~rL~~Kg~l~~~~~gr~~~Y~p 64 (115)
T PF03965_consen 6 LEIMEILWESGEATVREIHEALPEERSWAYSTVQTLLNRLVEKGFLTREKIGRAYVYSP 64 (115)
T ss_dssp HHHHHHHHHHSSEEHHHHHHHHCTTSS--HHHHHHHHHHHHHTTSEEEEEETTCEEEEE
T ss_pred HHHHHHHHhCCCCCHHHHHHHHHhccccchhHHHHHHHHHHhCCceeEeecCCceEEEe
Confidence 3566777666779999988877 578999999999999999999986533333443
No 273
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=42.32 E-value=39 Score=24.61 Aligned_cols=48 Identities=15% Similarity=0.087 Sum_probs=34.3
Q ss_pred HHHHHHHHHhhCCCCCHHHHHHhhCCcHHHH-HHHHHHHHHcCCccccC
Q psy4132 409 FVEKTYEIVSQNVFVTVEQFSRLASVSLVIA-KHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 409 ~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~-~~~l~~~~~~g~l~~d~ 456 (473)
..+.++--+.-+.+++..++.+.++.+..-. ...|+..++.|+|+.++
T Consensus 7 ~~e~i~~~LR~~~Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~Gll~~~~ 55 (66)
T PF06969_consen 7 LREYIMLGLRCNEGIDLSEFEQRFGIDFAEEFQKELEELQEDGLLEIDG 55 (66)
T ss_dssp HHHHHHHHHHHHSEEEHHHHHHHTT--THHH-HHHHHHHHHTTSEEE-S
T ss_pred HHHHHHHHHHhHCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEEeC
Confidence 3444444455568999999999999874333 77799999999998877
No 274
>PF01090 Ribosomal_S19e: Ribosomal protein S19e; InterPro: IPR001266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes a number of eukaryotic and archaebacterial ribosomal proteins; mammalian S19, Drosophila S19, Ascaris lumbricoides S19g (ALEP-1) and S19s, yeast YS16 (RP55A and RP55B), Aspergillus S16 and Haloarcula marismortui HS12.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZ6_S 3U5G_T 3U5C_T 3O30_M 3O2Z_M 3IZB_S 2XZN_T 2XZM_T 2V7F_A.
Probab=42.06 E-value=1.2e+02 Score=26.15 Aligned_cols=89 Identities=16% Similarity=0.174 Sum_probs=62.4
Q ss_pred CCHHHHHHHHHHhccCCCCCeeHHhhhcccee--ee-ecccCcHHHHHHHHHHHhh---CCCCCHHHHHHhh--------
Q psy4132 367 LSPEDLLNSCLALDKLPDSPIYLKTYSSGVKV--LQ-LKSCEDASFVEKTYEIVSQ---NVFVTVEQFSRLA-------- 432 (473)
Q Consensus 367 ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~v--l~-~~~~~~~~~~~~~~~~~~~---~~~ls~~e~a~~~-------- 432 (473)
++++++.+.+..+=+. +|+|..-+|...++. .. +...+++.+.-+..++++. .+++....|+..+
T Consensus 6 V~a~~fI~~~A~~LK~-~gki~~P~w~d~vKTg~~kE~~P~~~DW~Y~RaASilRklY~~g~~GV~~lr~~YGg~k~~G~ 84 (139)
T PF01090_consen 6 VPADEFIKALAEFLKK-SGKIEPPEWADIVKTGSHKELAPYDPDWWYIRAASILRKLYIRGPVGVGRLRKIYGGRKRRGV 84 (139)
T ss_dssp SSHHHHHHHHHHHHTC-SSTS--TSCGGGTSSSSS-SSTTCHHTHHHHHHHHHHHHHHHCTSB-HHHHHHHH--EEEETS
T ss_pred cCHHHHHHHHHHHHHH-cCCcCCcchHHHHhhcccccCCCCCCCeeeeeHHHHHHHHHHhcCcchHHHHHHhCCCCCCCC
Confidence 6777777766555444 589999998877762 22 2233335666666666665 6899999999877
Q ss_pred ------CCcHHHHHHHHHHHHHcCCccccC
Q psy4132 433 ------SVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 433 ------~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
.-|-.+++..|+..|..|+|-.+.
T Consensus 85 ~p~h~~~asg~iiR~~LqqLE~~glv~k~~ 114 (139)
T PF01090_consen 85 RPSHFVKASGSIIRKILQQLEKAGLVEKDP 114 (139)
T ss_dssp SCCEE--CHHHHHHHHHHHHHHTTSEEEET
T ss_pred CCCCCCCCCcHHHHHHHHHHHHCCCEEecC
Confidence 567889999999999999999885
No 275
>KOG3411|consensus
Probab=41.74 E-value=1.5e+02 Score=25.30 Aligned_cols=90 Identities=16% Similarity=0.162 Sum_probs=61.1
Q ss_pred CCCHHHHHHHHHHhccCCCCCeeHHhhhcccee---eeecccCcHHHHHHHHHHHhh---CCCCCHHHHHHhh-------
Q psy4132 366 LLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKV---LQLKSCEDASFVEKTYEIVSQ---NVFVTVEQFSRLA------- 432 (473)
Q Consensus 366 ~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~v---l~~~~~~~~~~~~~~~~~~~~---~~~ls~~e~a~~~------- 432 (473)
.+.++++.+++..|=+. .|+|..-++..-++. =.+..++++.+..+..+++.. .+.++..-|+...
T Consensus 8 dV~~~~f~~a~asfLK~-sgkv~vp~~~DivKtg~~kElAP~D~dWfytRaASiaRhiylR~~~gvg~~~KiYGg~krrG 86 (143)
T KOG3411|consen 8 DVDPHKFTKAYASFLKR-SGKVEVPQWVDIVKTGKGKELAPYDPDWYYTRAASIARHIYLRGPVGVGALTKIYGGSKRRG 86 (143)
T ss_pred hcCHHHHHHHHHHHHHh-cCCccCcchhhhhhcccCcccCCCCccHHHHHHHHHHHHHHhccccchhHHHHHhcccccCC
Confidence 36777777776655443 677777777665552 223344556666666666554 3566666666665
Q ss_pred -------CCcHHHHHHHHHHHHHcCCccccC
Q psy4132 433 -------SVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 433 -------~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
.-|-++++..|+..|..|+|-.+.
T Consensus 87 vrPsh~~~as~~i~rkvlQ~Le~~~~ve~hp 117 (143)
T KOG3411|consen 87 VRPSHFCDASGGIARKVLQALEKMGIVEKHP 117 (143)
T ss_pred CCChhhhccccHHHHHHHHHHHhCCceeeCC
Confidence 457899999999999999998765
No 276
>COG3888 Predicted transcriptional regulator [Transcription]
Probab=40.92 E-value=57 Score=31.31 Aligned_cols=46 Identities=17% Similarity=0.133 Sum_probs=39.1
Q ss_pred HHHHHHHhhCC--CCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 411 EKTYEIVSQNV--FVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 411 ~~~~~~~~~~~--~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
+.+.+.+...+ +++..|+.+++|.|=.-+-|.|...|.+|.+.|-.
T Consensus 7 eklir~Lk~a~~~GI~Q~eIeel~GlSKStvSEaLs~LE~~giv~Rrk 54 (321)
T COG3888 7 EKLIRELKRAGPEGIDQTEIEELMGLSKSTVSEALSELEKQGIVKRRK 54 (321)
T ss_pred HHHHHHHHhcCCCCccHHHHHHHhCcchhHHHHHHHHHHhcCeeeeee
Confidence 45555565555 59999999999999999999999999999999864
No 277
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=40.72 E-value=36 Score=36.13 Aligned_cols=46 Identities=11% Similarity=0.076 Sum_probs=40.5
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..++..+...+.+|..++|+.++++..-....+...+.+|+|.|.+
T Consensus 9 ~~vL~~L~~~~~~s~~eLA~~l~l~~~tVt~~i~~Le~kGlV~~~~ 54 (489)
T PRK04172 9 KKVLKALKELKEATLEELAEKLGLPPEAVMRAAEWLEEKGLVKVEE 54 (489)
T ss_pred HHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHHHHhCCCEEEEe
Confidence 4455666667789999999999999999999999999999999876
No 278
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=40.57 E-value=47 Score=26.16 Aligned_cols=39 Identities=18% Similarity=0.199 Sum_probs=29.8
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
.|..++|+.+|+|+...+.. ++.|.|.-..+..|-|+|.
T Consensus 2 ~~i~e~A~~~gvs~~tLr~y----e~~Gli~p~r~~~g~R~y~ 40 (91)
T cd04766 2 YVISVAAELSGMHPQTLRLY----ERLGLLSPSRTDGGTRRYS 40 (91)
T ss_pred cCHHHHHHHHCcCHHHHHHH----HHCCCcCCCcCCCCCeeEC
Confidence 57889999999998766554 7789998544455878875
No 279
>PF08512 Rtt106: Histone chaperone Rttp106-like; InterPro: IPR013719 This is a domain of unknown function that is associated with a number of different protein families. It is found in Rtt106p, which is a histone chaperone involved in heterochromatin-mediated silencing []. It is also found in genes annotated as transcription factors/regulators. This domain is the C-terminal domain of yeast Spt16p P32558 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p-Pob3p, IPR000969 from INTERPRO) []. In addition Spt16p and its relatives, in this entry, are described as non-peptidase homologues belonging to the MEROPS peptidase family M24. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. ; PDB: 3TW1_A 3GYO_A 3TO1_A 3FSS_A 3TVV_B 3GYP_A 2GCJ_D 2GCL_A.
Probab=39.68 E-value=15 Score=29.50 Aligned_cols=36 Identities=17% Similarity=0.185 Sum_probs=30.1
Q ss_pred cccCcEEEeeeeeeeee-cCccccccchhhhhHHHhh
Q psy4132 34 QFQRGELILTSHRLFWQ-KDITLCLALSYIQNAVEEA 69 (473)
Q Consensus 34 ~~~~G~l~LTshRii~~-~~~~~~l~l~~v~~~~~~~ 69 (473)
+-.+|.||.|.+-++|+ ++..+.||+++|..++.+-
T Consensus 9 ka~~g~L~pl~~~l~f~~~kP~~~i~~~dI~~v~feR 45 (95)
T PF08512_consen 9 KANEGFLYPLEKCLLFGLEKPPFVIPLDDIESVEFER 45 (95)
T ss_dssp TTEEEEEEEESSEEEEECSSS-EEEEGGGEEEEEEE-
T ss_pred cccCEEEEEccceEEEecCCCeEEEEhhHeeEEEEEe
Confidence 34789999999999995 9999999999999987654
No 280
>KOG1090|consensus
Probab=39.65 E-value=29 Score=39.25 Aligned_cols=41 Identities=32% Similarity=0.472 Sum_probs=29.4
Q ss_pred CCCCCCCCceEEeecceeee---cCCCC-------Cc--ccCcEEEeeeeeeeee
Q psy4132 8 SFELSPDESPVLKHSNVRLY---DGENK-------SQ--FQRGELILTSHRLFWQ 50 (473)
Q Consensus 8 ~~~l~~~E~~~~~~~~v~ly---~g~~~-------~~--~~~G~l~LTshRii~~ 50 (473)
.|.|.|||..+ .|+++.| +|..- .+ --+|-|+||++|+||-
T Consensus 785 ~P~LlpGE~lv--~D~lrcyLlpdgrE~e~~~~~~~~LlPAeGalFLTnYRVIFk 837 (1732)
T KOG1090|consen 785 DPVLLPGEFLV--SDPLRCYLLPDGRESEMSLNRLENLLPAEGALFLTNYRVIFK 837 (1732)
T ss_pred CccccCchhhc--cCCceEEEecCcccccccccccccccccCcceEEeeeEEEec
Confidence 67799999865 4666666 33311 11 2689999999999999
No 281
>PRK15466 carboxysome structural protein EutK; Provisional
Probab=38.21 E-value=1.5e+02 Score=26.38 Aligned_cols=42 Identities=17% Similarity=0.050 Sum_probs=35.2
Q ss_pred HHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 415 EIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 415 ~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
.+..-.++.|+.|.+..|+||..-++.-|+..-..|.|-.-.
T Consensus 117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 (166)
T PRK15466 117 LLTSVRQGMTAGEVAAHFGWPLEKARNALEQLFSAGTLRKRS 158 (166)
T ss_pred HHHHHHccccHHHHHHHhCCcHHHHHHHHHHHHhccchhhcc
Confidence 333446799999999999999999999999999999886433
No 282
>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=37.58 E-value=94 Score=23.61 Aligned_cols=55 Identities=11% Similarity=0.093 Sum_probs=45.7
Q ss_pred HHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHH--HHcCCccccCCccc-cccc
Q psy4132 410 VEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLA--ETHGKLCRDQSIEG-LRFY 464 (473)
Q Consensus 410 ~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~--~~~g~l~~d~~~~g-~~~~ 464 (473)
..++..++....+.|..+++..+||-..-.+.-|.=+ -..|+-...+-++| -|=|
T Consensus 12 qa~li~mL~rp~GATi~ei~~atGWq~HTvRgalsg~~kKklGl~i~s~k~~g~~r~Y 69 (72)
T PF11994_consen 12 QAQLIAMLRRPEGATIAEICEATGWQPHTVRGALSGLLKKKLGLTITSEKVDGGGRRY 69 (72)
T ss_pred HHHHHHHHcCCCCCCHHHHHHhhCCchhhHHHHHHHHHHHhcCcEEEeeecCCCeeeE
Confidence 4678889999999999999999999999999999888 56788887776666 4433
No 283
>KOG0042|consensus
Probab=37.45 E-value=40 Score=35.85 Aligned_cols=67 Identities=25% Similarity=0.327 Sum_probs=54.1
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhcchhc-c--C-CHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMSLPEL-Q--Q-NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~~~-~--~-~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
...+....+..|..+|.|+.|+++..+..+++.. . . ....+++++..|.+-+|.+...||.++++..
T Consensus 588 ~~~~~~~~~~rf~~lD~~k~~~~~i~~v~~vlk~~~~~~d~~~~~~~l~ea~~~~~g~v~l~e~~q~~s~~ 658 (680)
T KOG0042|consen 588 TPEDFLRRKTRFAFLDADKKAYQAIADVLKVLKSENVGWDEDRLHEELQEADENLNGFVELREFLQLMSAI 658 (680)
T ss_pred CHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhhcceeeHHHHHHHHHHH
Confidence 3456667788999999999999999998885432 2 1 2347889999999999999999999998776
No 284
>KOG3238|consensus
Probab=37.00 E-value=21 Score=32.46 Aligned_cols=37 Identities=19% Similarity=0.362 Sum_probs=25.9
Q ss_pred CCCCceEE-eecceeeecCCCCCcccCcEEEeeeeeeeee
Q psy4132 12 SPDESPVL-KHSNVRLYDGENKSQFQRGELILTSHRLFWQ 50 (473)
Q Consensus 12 ~~~E~~~~-~~~~v~ly~g~~~~~~~~G~l~LTshRii~~ 50 (473)
.|-|-+++ .+.|+....+. .-.-.|+||+|.-+|+|.
T Consensus 11 ~P~eg~l~~~t~n~~a~ln~--kvlg~GTlYIa~s~LsWl 48 (216)
T KOG3238|consen 11 PPAEGLLYTQTPNTKAVLNR--KVLGTGTLYIAESTLSWL 48 (216)
T ss_pred CCccchhhccccchheeecC--cccccceEEEecceEEee
Confidence 45555565 34566665543 245689999999999999
No 285
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=36.26 E-value=64 Score=30.37 Aligned_cols=45 Identities=7% Similarity=0.095 Sum_probs=39.6
Q ss_pred HHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 409 FVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 409 ~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
+.-+++++++..+++..-|+|+.++.|-....-.+...|+.|++-
T Consensus 24 vRv~Il~lL~~k~plNvneiAe~lgLpqst~s~~ik~Le~aGlir 68 (308)
T COG4189 24 VRVAILQLLHRKGPLNVNEIAEALGLPQSTMSANIKVLEKAGLIR 68 (308)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHhCCchhhhhhhHHHHHhcCcee
Confidence 444567788888999999999999999999999999999999874
No 286
>KOG2059|consensus
Probab=35.93 E-value=63 Score=35.28 Aligned_cols=49 Identities=24% Similarity=0.316 Sum_probs=37.6
Q ss_pred CCcccCcEEEeeeeeeeee----cCccccccchhhhhHHH-hhhhcccccCcccEEE
Q psy4132 32 KSQFQRGELILTSHRLFWQ----KDITLCLALSYIQNAVE-EAKSMFNLTAGRKIIL 83 (473)
Q Consensus 32 ~~~~~~G~l~LTshRii~~----~~~~~~l~l~~v~~~~~-~~~~~~~~~~s~ki~~ 83 (473)
+.+|+.--.-||||-+.|. ...+-.|||+.|..+|. +.++| ..++-+.+
T Consensus 583 ~~~FKKryf~LT~~~Ls~~Ksp~~q~~~~Ipl~nI~avEklee~sF---~~knv~qV 636 (800)
T KOG2059|consen 583 KKNFKKRYFRLTTEELSYAKSPGKQPIYTIPLSNIRAVEKLEEKSF---KMKNVFQV 636 (800)
T ss_pred hhhhhheEEEeccceeEEecCCccCcccceeHHHHHHHHHhhhhcc---CCCceEEE
Confidence 3788999999999999999 44567999999999985 44466 44444443
No 287
>PRK06474 hypothetical protein; Provisional
Probab=35.92 E-value=83 Score=28.39 Aligned_cols=47 Identities=15% Similarity=0.087 Sum_probs=38.8
Q ss_pred HHHHHHHHhhCCC-CCHHHHHHhh-CCcHHHHHHHHHHHHHcCCccccC
Q psy4132 410 VEKTYEIVSQNVF-VTVEQFSRLA-SVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 410 ~~~~~~~~~~~~~-ls~~e~a~~~-~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..+|++++...+. +|+.++++.+ ++|..-.-..|...++.|+|.+..
T Consensus 13 R~~Il~~L~~~~~~~ta~el~~~l~~is~aTvYrhL~~L~e~GLI~~~~ 61 (178)
T PRK06474 13 RMKICQVLMRNKEGLTPLELVKILKDVPQATLYRHLQTMVDSGILHVVK 61 (178)
T ss_pred HHHHHHHHHhCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHHCCCEEEee
Confidence 4566676666554 9999999999 789888899999999999999755
No 288
>KOG4578|consensus
Probab=35.83 E-value=25 Score=34.66 Aligned_cols=62 Identities=15% Similarity=0.195 Sum_probs=43.7
Q ss_pred HHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHh
Q psy4132 275 QRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESKLKFAFRIYDIDNDDDYYQALGNELIAALI 339 (473)
Q Consensus 275 ~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~ 339 (473)
.-.|..+|.|.++.|+-.|+..+-..+........-.+.+|+..|.|+|..|+. .|++..|.
T Consensus 336 ~w~F~qLdkN~nn~i~rrEwKpFK~~l~k~s~~rkC~rk~~~yCDlNkDKkISl---~Ew~~CL~ 397 (421)
T KOG4578|consen 336 HWYFNQLDKNSNNDIERREWKPFKRVLLKKSKPRKCSRKFFKYCDLNKDKKISL---DEWRGCLG 397 (421)
T ss_pred eeeeeeecccccCccchhhcchHHHHHHhhccHHHHhhhcchhcccCCCceecH---HHHhhhhc
Confidence 345778888989888888877666655555666677788888889888855554 44444444
No 289
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=35.48 E-value=56 Score=28.10 Aligned_cols=40 Identities=10% Similarity=0.075 Sum_probs=35.4
Q ss_pred CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccc
Q psy4132 421 VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEG 460 (473)
Q Consensus 421 ~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g 460 (473)
..+|..++|+.+++|....++.|......|+|..-.+..|
T Consensus 24 ~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G~~G 63 (141)
T PRK11014 24 RMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNG 63 (141)
T ss_pred CccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecCCCC
Confidence 4689999999999999999999999999999987665544
No 290
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=35.21 E-value=83 Score=31.18 Aligned_cols=47 Identities=13% Similarity=0.058 Sum_probs=40.0
Q ss_pred HHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 410 VEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 410 ~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..+++.++.....++..++|+.+++|..-....|...++.|.+....
T Consensus 6 ~~~il~~L~~~~~~s~~~LA~~lgvsr~tV~~~l~~L~~~G~~i~~~ 52 (319)
T PRK11886 6 MLQLLSLLADGDFHSGEQLGEELGISRAAIWKHIQTLEEWGLDIFSV 52 (319)
T ss_pred HHHHHHHHHcCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCceEEe
Confidence 35667777777889999999999999999999999999999955443
No 291
>cd04774 HTH_YfmP Helix-Turn-Helix DNA binding domain of the YfmP transcription regulator. Helix-turn-helix (HTH) transcription regulator, YfmP, and related proteins; N-terminal domain. YfmP regulates the multidrug efflux protein, YfmO, and indirectly regulates the expression of the Bacillus subtilis copZA operon encoding a metallochaperone, CopZ, and a CPx-type ATPase efflux protein, CopA. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=34.99 E-value=64 Score=25.85 Aligned_cols=38 Identities=18% Similarity=0.254 Sum_probs=28.9
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
+..|+|+.+|+|....+.. |+.|.|.-..+..|.|+|.
T Consensus 2 ~I~e~a~~~gvs~~tLR~y----e~~Gll~p~r~~~g~R~Y~ 39 (96)
T cd04774 2 KVDEVAKRLGLTKRTLKYY----EEIGLVSPERSEGRYRLYS 39 (96)
T ss_pred CHHHHHHHHCcCHHHHHHH----HHCCCCCCCcCCCCCEEEC
Confidence 6789999998887665554 7789998555567888885
No 292
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=34.78 E-value=38 Score=31.49 Aligned_cols=35 Identities=14% Similarity=0.096 Sum_probs=30.3
Q ss_pred HHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHc
Q psy4132 415 EIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETH 449 (473)
Q Consensus 415 ~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~ 449 (473)
.+.+....++..|+|..+|+|..-..++|..||.+
T Consensus 171 GYFd~PR~~~l~dLA~~lGISkst~~ehLRrAe~K 205 (215)
T COG3413 171 GYFDYPRRVSLKDLAKELGISKSTLSEHLRRAERK 205 (215)
T ss_pred CCCCCCccCCHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 34455678999999999999999999999999963
No 293
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=34.56 E-value=57 Score=25.63 Aligned_cols=33 Identities=15% Similarity=0.076 Sum_probs=30.4
Q ss_pred HHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 425 VEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 425 ~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
+.++|+.++++.+-+...|...+..|+|.|+..
T Consensus 2 ~~ela~~l~is~stvs~~l~~L~~~glI~r~~~ 34 (96)
T smart00529 2 TSEIAERLNVSPPTVTQMLKKLEKDGLVEYEPY 34 (96)
T ss_pred HHHHHHHhCCChHHHHHHHHHHHHCCCEEEcCC
Confidence 458999999999999999999999999999774
No 294
>PF10897 DUF2713: Protein of unknown function (DUF2713); InterPro: IPR020404 This entry contains proteins with no known function. In some organisms this represents the C-terminal domain of a fusion protein with YjbL.
Probab=34.45 E-value=3.5e+02 Score=24.80 Aligned_cols=24 Identities=21% Similarity=0.458 Sum_probs=16.9
Q ss_pred HHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 275 QRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 275 ~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
.+|-+..| .|.++|+.++.-|...
T Consensus 167 ~eMK~Lad---~geldFn~iL~~Mk~~ 190 (246)
T PF10897_consen 167 GEMKRLAD---KGELDFNDILDKMKLQ 190 (246)
T ss_pred HHHHHhhh---cCCCcHHHHHHHHHHh
Confidence 34444444 6789999998888766
No 295
>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=34.45 E-value=74 Score=25.10 Aligned_cols=41 Identities=7% Similarity=0.073 Sum_probs=35.3
Q ss_pred HHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc
Q psy4132 413 TYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC 453 (473)
Q Consensus 413 ~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~ 453 (473)
+.++......++..++|+.++++..-+...|..+...|.|.
T Consensus 51 l~~l~~~y~~i~~~~ia~~l~~~~~~vE~~l~~~I~~~~i~ 91 (105)
T PF01399_consen 51 LRQLSKPYSSISISEIAKALQLSEEEVESILIDLISNGLIK 91 (105)
T ss_dssp HHHHHHC-SEEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSE
T ss_pred HHHHHHHhcccchHHHHHHhccchHHHHHHHHHHHHCCCEE
Confidence 34555567889999999999999999999999999999986
No 296
>COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon [Transcription / Coenzyme metabolism]
Probab=34.12 E-value=44 Score=30.57 Aligned_cols=40 Identities=30% Similarity=0.293 Sum_probs=37.4
Q ss_pred CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccc
Q psy4132 421 VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEG 460 (473)
Q Consensus 421 ~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g 460 (473)
..+|..++|..++.|.--|...|...|..|.+.|+.+..|
T Consensus 18 ~~~t~~ela~~l~~S~qta~R~l~~le~~~~I~R~~~~~G 57 (214)
T COG1339 18 VKVTSSELAKRLGVSSQTAARKLKELEDEGYITRTISKRG 57 (214)
T ss_pred ccccHHHHHHHhCcCcHHHHHHHHhhccCCcEEEEecCCC
Confidence 5699999999999999999999999999999999887766
No 297
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=33.87 E-value=92 Score=28.23 Aligned_cols=45 Identities=9% Similarity=0.015 Sum_probs=40.3
Q ss_pred HHHHHHHHhhCC-CCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc
Q psy4132 410 VEKTYEIVSQNV-FVTVEQFSRLASVSLVIAKHRLLLAETHGKLCR 454 (473)
Q Consensus 410 ~~~~~~~~~~~~-~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~ 454 (473)
-..|+.++..++ .+|+.+||+.+|++=.-++..|-...+.|.|+-
T Consensus 6 ~~~i~~~l~~~~~~~~a~~i~k~l~i~k~~vNr~LY~L~~~~~v~~ 51 (183)
T PHA02701 6 ASLILTLLSSSGDKLPAKRIAKELGISKHEANRCLYRLLESDAVSC 51 (183)
T ss_pred HHHHHHHHHhcCCCCcHHHHHHHhCccHHHHHHHHHHHhhcCcEec
Confidence 357888998888 799999999999999999999999999999854
No 298
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=33.47 E-value=67 Score=26.83 Aligned_cols=40 Identities=25% Similarity=0.343 Sum_probs=30.5
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc-ccCCccccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLC-RDQSIEGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~-~d~~~~g~~~~~n 466 (473)
+|..|+|+.+|+|+.. |..=|+.|.|. -.-...|.|+|..
T Consensus 1 ~~I~eva~~~gvs~~t----LRyYe~~GLl~p~~r~~~gyR~Y~~ 41 (123)
T cd04770 1 MKIGELAKAAGVSPDT----IRYYERIGLLPPPQRSENGYRLYGE 41 (123)
T ss_pred CCHHHHHHHHCcCHHH----HHHHHHCCCCCCCCCCCCCCccCCH
Confidence 3678999999999764 56688999998 2334568999963
No 299
>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=33.35 E-value=73 Score=23.68 Aligned_cols=36 Identities=17% Similarity=0.128 Sum_probs=32.3
Q ss_pred CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 421 VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 421 ~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
-.+|.+++|...|+|..-....|...+++|.|-...
T Consensus 27 ~~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~~~~ 62 (76)
T PF13545_consen 27 LPLTQEEIADMLGVSRETVSRILKRLKDEGIIEVKR 62 (76)
T ss_dssp EESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEET
T ss_pred ecCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEcC
Confidence 368999999999999999999999999999987543
No 300
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=33.01 E-value=61 Score=27.27 Aligned_cols=39 Identities=26% Similarity=0.398 Sum_probs=29.4
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCccc-cCCccccccccc
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCR-DQSIEGLRFYEN 466 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~-d~~~~g~~~~~n 466 (473)
|..|+|+.+|+|+...+ .=|..|.|.- .....|-|+|..
T Consensus 1 ~I~e~a~~~gvs~~tlR----~Ye~~GLl~~~~r~~~g~R~Y~~ 40 (124)
T TIGR02051 1 TIGELAKAAGVNVETIR----YYERKGLLPEPDRPEGGYRRYPE 40 (124)
T ss_pred CHHHHHHHHCcCHHHHH----HHHHCCCCCCCccCCCCCEeECH
Confidence 46799999999987654 4499999972 335678999853
No 301
>PLN02952 phosphoinositide phospholipase C
Probab=32.75 E-value=1.8e+02 Score=31.70 Aligned_cols=85 Identities=8% Similarity=-0.003 Sum_probs=53.3
Q ss_pred CccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhccceeeeecccCcHHHHHHHH-HHHhh------
Q psy4132 347 GTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVLQLKSCEDASFVEKTY-EIVSQ------ 419 (473)
Q Consensus 347 g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl~~~~~~~~~~~~~~~-~~~~~------ 419 (473)
|.+++.++.+........+...+.|+..+|..+-.+ ++.++.++|...+...|.....+......++ ++++.
T Consensus 15 g~l~f~~f~~f~~~~k~~~~~~r~ei~~lf~~~~~~-~~~mt~~~l~~FL~~~Q~e~~~~~~~~~~i~~~~~~~~~~~~~ 93 (599)
T PLN02952 15 GSYNYKMFNLFNRKFKITEAEPPDDVKDVFCKFSVG-GGHMGADQLRRFLVLHQDELDCTLAEAQRIVEEVINRRHHVTR 93 (599)
T ss_pred CCcCHHHHHHHHHHhccccCCChHHHHHHHHHHhCC-CCccCHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHhhcccccc
Confidence 567777776665555433346788999999988654 4689999999999877764433323233332 22221
Q ss_pred --CCCCCHHHHHHhh
Q psy4132 420 --NVFVTVEQFSRLA 432 (473)
Q Consensus 420 --~~~ls~~e~a~~~ 432 (473)
...++.+.|...+
T Consensus 94 ~~~~~l~~~~F~~~l 108 (599)
T PLN02952 94 YTRHGLNLDDFFHFL 108 (599)
T ss_pred ccccCcCHHHHHHHH
Confidence 1346777766655
No 302
>COG1420 HrcA Transcriptional regulator of heat shock gene [Transcription]
Probab=32.70 E-value=51 Score=33.25 Aligned_cols=65 Identities=17% Similarity=0.206 Sum_probs=51.9
Q ss_pred HHHHHHH-HHHhhCCCCCHHHHHHhh--CCcHHHHHHHHHHHHHcCCcc-------ccCCcccccccccccCccC
Q psy4132 408 SFVEKTY-EIVSQNVFVTVEQFSRLA--SVSLVIAKHRLLLAETHGKLC-------RDQSIEGLRFYENKFLLEE 472 (473)
Q Consensus 408 ~~~~~~~-~~~~~~~~ls~~e~a~~~--~~s~~~~~~~l~~~~~~g~l~-------~d~~~~g~~~~~n~~~~~~ 472 (473)
.++..+. .++....++..--+.+.. +.|..-.+..+...|+.|+|- |=-+.-|.|||...++...
T Consensus 10 ~IL~aIV~~Yi~t~ePVGSk~L~e~~~l~~SsATIRN~Ma~LE~~GlI~k~HtSsGRvPT~~Gyr~YVd~ll~~~ 84 (346)
T COG1420 10 LILRAIVEDYLATGEPVGSKTLSEKYNLDLSSATIRNEMADLEKLGLIEKPHTSSGRVPTDKGYRYYVDHLLEVE 84 (346)
T ss_pred HHHHHHHHHHHhcCCccchHHHHHHhCCCCCchhHHHHHHHHHHCCCccCccccCCcCCcHhHHHHHHHHhcccC
Confidence 4445554 455666789888899888 889999999999999999998 4447779999999987653
No 303
>PTZ00095 40S ribosomal protein S19; Provisional
Probab=32.64 E-value=2.8e+02 Score=24.81 Aligned_cols=89 Identities=13% Similarity=0.070 Sum_probs=64.8
Q ss_pred CCHHHHHHHHHHhccCCCCCeeHHhhhccceee---eecccCcHHHHHHHHHHHhh---CCCCCHHHHHHhh--------
Q psy4132 367 LSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVL---QLKSCEDASFVEKTYEIVSQ---NVFVTVEQFSRLA-------- 432 (473)
Q Consensus 367 ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl---~~~~~~~~~~~~~~~~~~~~---~~~ls~~e~a~~~-------- 432 (473)
++++++.+.+..+=+ ..|+|..-+|...++.= .+...+++.+.-+...++.. .+++....+...+
T Consensus 31 Vpa~~fI~~~A~~LK-~~gki~~P~W~d~vKTg~~KElaP~d~DW~YiRaASilRkiYlrgpvGV~~Lrk~YGg~krrG~ 109 (169)
T PTZ00095 31 VSPWRFIKAFAQHFK-LEGKIFVPKCTEIVKTSHGRELAPQNPDWYYIRCAAVLRALYLRPDVGYGGLRKRFSSKKRRGS 109 (169)
T ss_pred CCHHHHHHHHHHHHH-HcCCCCCCcchhhhcccccccCCCCCccHHHHHHHHHHHHHHhcCCccHHHHHHHHCCCCCCCC
Confidence 778888877655534 37889888888777621 23334456666677666655 5678888888777
Q ss_pred ------CCcHHHHHHHHHHHHHcCCccccC
Q psy4132 433 ------SVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 433 ------~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
.-|-.+++..|+.+|..|+|-.+.
T Consensus 110 ~P~h~~~aSg~iiR~~LQqLE~~glVek~~ 139 (169)
T PTZ00095 110 APNHTVRASGKILRWICQQLEKLGLVEQGP 139 (169)
T ss_pred CCCcccCCchHHHHHHHHHHHHCCCEEecC
Confidence 367889999999999999998774
No 304
>KOG4286|consensus
Probab=32.28 E-value=3.5e+02 Score=30.09 Aligned_cols=109 Identities=16% Similarity=0.224 Sum_probs=67.0
Q ss_pred HHHHHHHhcCCCCCcccHHHHHHHHhhcccCCCcHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhH
Q psy4132 274 VQRVIDIFDEDRNGEVDFKEFIQGVSQFSVKGDRESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTD 353 (473)
Q Consensus 274 ~~~l~~~~D~d~dG~I~~~EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d 353 (473)
+.-+++.||...+|.|..-+|.-.+..+ +....+++++.+|+..-.++. -.+...+..+..-+..+. -
T Consensus 472 lN~llNvyD~~R~g~irvls~ki~~i~l-ck~~leek~~ylF~~vA~~~s-q~~q~~l~lLL~dliqip----------r 539 (966)
T KOG4286|consen 472 LNWLLNVYDTGRTGRIRVLSFKIGIISL-CKAHLEDKYRYLFKQVASSTS-QCDQRRLGLLLHDLIQIP----------R 539 (966)
T ss_pred HHHHHHhcccCCCcceEEeeehhhHHHH-hcchhHHHHHHHHHHHcCchh-hHHHHHHHHHHHHHHHHH----------H
Confidence 4678999999999999999998888777 566678889999999865554 333322222222222111 1
Q ss_pred HHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhcccee
Q psy4132 354 AYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKV 398 (473)
Q Consensus 354 ~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~v 398 (473)
...-.. +-|..++.|. +..-|+ -.++.-.|++..|+..+.+
T Consensus 540 ~lGE~a-AfGgsNveps-vrsCF~--~v~~~pei~~~~f~dw~~~ 580 (966)
T KOG4286|consen 540 QLGEVA-AFGGSNIEPS-VRSCFQ--FVNNKPEIEAALFLDWMRL 580 (966)
T ss_pred HHhHHH-hhcCCCCChH-HHHHHH--hcCCCCcchHHHHHHHhcc
Confidence 111111 2232335553 444454 2345678999999988874
No 305
>PF05042 Caleosin: Caleosin related protein; InterPro: IPR007736 This family contains plant proteins related to caleosin. Caleosins contain calcium-binding domains and have an oleosin-like association with lipid bodies. Caleosins are present at relatively low levels and are mainly bound to microsomal membrane fractions at the early stages of seed development. As the seeds mature, overall levels of caleosins increased dramatically and they were associated almost exclusively with storage lipid bodies []. The calcium binding domain is probably related to the calcium-binding EF-hands motif IPR002048 from INTERPRO.
Probab=32.07 E-value=1.2e+02 Score=27.17 Aligned_cols=18 Identities=22% Similarity=0.198 Sum_probs=12.6
Q ss_pred ccCCCCCceeHHHHHHHH
Q psy4132 209 SNKDRDGKINFQEFCSIV 226 (473)
Q Consensus 209 ~D~d~dG~I~f~EF~~~~ 226 (473)
+|.|+||.|..-|-..-+
T Consensus 16 FDrd~DGiI~P~dTy~GF 33 (174)
T PF05042_consen 16 FDRDKDGIIYPWDTYQGF 33 (174)
T ss_pred eCCCCCeeECHHHHHHHH
Confidence 488888888777765543
No 306
>PF09645 F-112: F-112 protein; InterPro: IPR018601 This entry is represented by Sulfolobus virus-like particle SSV1, p11. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; PDB: 2VQC_A.
Probab=31.37 E-value=74 Score=25.39 Aligned_cols=48 Identities=21% Similarity=0.225 Sum_probs=32.7
Q ss_pred cHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHH---HH-HHHcCCcc
Q psy4132 406 DASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRL---LL-AETHGKLC 453 (473)
Q Consensus 406 ~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l---~~-~~~~g~l~ 453 (473)
+....+.++++++..+-+|+++|-..|.+|+..|-... .+ ||.+-..|
T Consensus 5 ~~q~A~~l~kiLq~K~Eit~eDIlaqfeIS~s~Ay~I~~~lr~iCe~hq~eC 56 (110)
T PF09645_consen 5 SYQMAEILYKILQEKKEITLEDILAQFEISYSRAYNIQRVLRKICEQHQDEC 56 (110)
T ss_dssp HHHHHHHHHHHHHHHSEE-HHHHHHHH---HHHHHHHHHHHHHHHHH-TTTE
T ss_pred HHHHHHHHHHHHHHcCcCcHHHHHHHhccchhhhhHHHHHHHHHHHhCcchh
Confidence 34566788999999999999999999999998886543 33 44546666
No 307
>PF14493 HTH_40: Helix-turn-helix domain
Probab=31.06 E-value=1.4e+02 Score=23.52 Aligned_cols=38 Identities=16% Similarity=0.217 Sum_probs=32.7
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCC
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGK 451 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~ 451 (473)
..+.+++ .+.|.+|||+.-+++.+-..+.|..+...|.
T Consensus 5 ~T~~l~~--~G~si~eIA~~R~L~~sTI~~HL~~~~~~g~ 42 (91)
T PF14493_consen 5 ITYELFQ--KGLSIEEIAKIRGLKESTIYGHLAELIESGE 42 (91)
T ss_pred HHHHHHH--cCCCHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence 4456665 4799999999999999999999999999888
No 308
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=30.91 E-value=58 Score=29.35 Aligned_cols=58 Identities=14% Similarity=0.037 Sum_probs=35.5
Q ss_pred eHHhhhccce-eeeecccCc-HHHHHHHHHHHhh--CCCCCHHHHHHhhCCcHHHHHHHHHH
Q psy4132 388 YLKTYSSGVK-VLQLKSCED-ASFVEKTYEIVSQ--NVFVTVEQFSRLASVSLVIAKHRLLL 445 (473)
Q Consensus 388 s~~EF~~~~~-vl~~~~~~~-~~~~~~~~~~~~~--~~~ls~~e~a~~~~~s~~~~~~~l~~ 445 (473)
+.+||++.++ .++..+..+ +++++..-++.+. ..+.|.+|+.+.+|.|-.+|++.+..
T Consensus 2 ~k~efL~~L~~~L~~lp~~e~~e~l~~Y~e~f~d~~~~G~sEeeii~~LG~P~~iA~~i~~~ 63 (181)
T PF08006_consen 2 NKNEFLNELEKYLKKLPEEEREEILEYYEEYFDDAGEEGKSEEEIIAELGSPKEIAREILAE 63 (181)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhCCCCHHHHHHHcCCHHHHHHHHHHh
Confidence 4556665554 232222111 3334444444443 34789999999999999999998854
No 309
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=30.59 E-value=76 Score=27.05 Aligned_cols=40 Identities=20% Similarity=0.295 Sum_probs=30.5
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCc-cccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSI-EGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~-~g~~~~~n 466 (473)
.+..|+|+..|+|+... ..=|+.|+|.-.... .|-|+|..
T Consensus 1 m~IgE~A~~~gvs~~TL----RyYE~~GLl~p~r~~~~gyR~Y~~ 41 (133)
T cd04787 1 MKVKELANAAGVTPDTV----RFYTRIGLLRPTRDPVNGYRLYSE 41 (133)
T ss_pred CCHHHHHHHHCcCHHHH----HHHHHCCCCCCCcCCCCCeeeCCH
Confidence 36789999999998755 445899999855444 68999864
No 310
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=30.56 E-value=82 Score=24.70 Aligned_cols=37 Identities=19% Similarity=0.131 Sum_probs=33.4
Q ss_pred CCCCHHHHHHhh-CCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 421 VFVTVEQFSRLA-SVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 421 ~~ls~~e~a~~~-~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
+...+.||.+.. ++|..+-..+|...++.|.|.|...
T Consensus 17 g~~rf~el~~~l~~is~~~L~~~L~~L~~~GLv~r~~~ 54 (90)
T PF01638_consen 17 GPMRFSELQRRLPGISPKVLSQRLKELEEAGLVERRVY 54 (90)
T ss_dssp SSEEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEEEEE
T ss_pred CCCcHHHHHHhcchhHHHHHHHHHHHHHHcchhhcccc
Confidence 789999999999 9999999999999999999998753
No 311
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=30.37 E-value=83 Score=25.41 Aligned_cols=39 Identities=33% Similarity=0.353 Sum_probs=29.5
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
.|..|+|+.+|+|+.. |..=|..|.+.-.....|-|+|.
T Consensus 2 ~~i~eva~~~gvs~~t----LR~ye~~Gll~~~r~~~g~R~Y~ 40 (102)
T cd04775 2 YTIGQMSRKFGVSRST----LLYYESIGLIPSARSEANYRLYS 40 (102)
T ss_pred CCHHHHHHHHCcCHHH----HHHHHHCCCCCCCCCCCCCeeeC
Confidence 5788999999998754 57778899995333445888885
No 312
>PF07900 DUF1670: Protein of unknown function (DUF1670); InterPro: IPR012872 The hypothetical eukaryotic proteins found in this family are of unknown function.
Probab=30.05 E-value=1.2e+02 Score=28.27 Aligned_cols=39 Identities=18% Similarity=0.177 Sum_probs=33.9
Q ss_pred HHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHc-CCcc
Q psy4132 415 EIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETH-GKLC 453 (473)
Q Consensus 415 ~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~-g~l~ 453 (473)
+..++++-+|..|+|-++++|.....+.+..-+++ |.++
T Consensus 98 EAy~QgglLT~~Dla~LL~~S~~TI~~~i~~yq~e~g~vv 137 (220)
T PF07900_consen 98 EAYDQGGLLTQEDLAMLLGISPRTISKDIKEYQKEHGVVV 137 (220)
T ss_pred HHHHcCCcccHHHHHHHHCCCHHHHHHHHHHHHHHcCcee
Confidence 33456788999999999999999999999999977 8776
No 313
>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=30.04 E-value=90 Score=21.26 Aligned_cols=29 Identities=17% Similarity=0.032 Sum_probs=24.7
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHHH
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAET 448 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~~ 448 (473)
..+.|..|+|+.+|+|..-++..+..|..
T Consensus 18 ~~~~t~~eIa~~lg~s~~~V~~~~~~al~ 46 (50)
T PF04545_consen 18 FEGLTLEEIAERLGISRSTVRRILKRALK 46 (50)
T ss_dssp TST-SHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHCCcHHHHHHHHHHHHH
Confidence 57899999999999999999988887764
No 314
>KOG2074|consensus
Probab=30.00 E-value=78 Score=33.18 Aligned_cols=47 Identities=28% Similarity=0.376 Sum_probs=34.7
Q ss_pred CcccCcEEEeeeeeeeee----cCccccccchhhhhHHHhhhhcccccCcccEEEEe
Q psy4132 33 SQFQRGELILTSHRLFWQ----KDITLCLALSYIQNAVEEAKSMFNLTAGRKIILYL 85 (473)
Q Consensus 33 ~~~~~G~l~LTshRii~~----~~~~~~l~l~~v~~~~~~~~~~~~~~~s~ki~~~l 85 (473)
..-++|.+||++-||+|+ +..++.+.+..|....+.. .+++||-+.+
T Consensus 17 ~k~~dg~l~l~~~~i~~~~e~k~~~s~~~~~~~I~~qk~s~------e~k~k~qlql 67 (548)
T KOG2074|consen 17 QKKQDGALYLMAERIAWVPEGKSPFSLKVMFHDIKCQKESP------EGKAKIQLQL 67 (548)
T ss_pred hhccCcceeeeeeEEEeccCCCCCceeEEEEeccCccccCC------cccccHHHHh
Confidence 556899999999999999 4556777788887775544 3556665554
No 315
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=29.95 E-value=1e+02 Score=26.29 Aligned_cols=79 Identities=11% Similarity=0.230 Sum_probs=59.8
Q ss_pred CCCCCeeHHhhhccceeeeecccCcHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC--cc
Q psy4132 382 LPDSPIYLKTYSSGVKVLQLKSCEDASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS--IE 459 (473)
Q Consensus 382 ~~dg~Is~~EF~~~~~vl~~~~~~~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~--~~ 459 (473)
+.+-.|.|.-|-+..+++.-. .-.+++++.+.+..|.-|+|++-+=-+.=..+.|.+.+.-|.+-+.+. --
T Consensus 45 ~~~Ptl~F~Sye~la~vLsp~-------nleLl~~Ia~~~P~Si~ElAe~vgRdv~nvhr~Ls~l~~~GlI~fe~~gq~k 117 (144)
T COG4190 45 DATPTLWFTSYEDLARVLSPR-------NLELLELIAQEEPASINELAELVGRDVKNVHRTLSTLADLGLIFFEEDGQRK 117 (144)
T ss_pred cCCceeccccHHHHHHHhChh-------HHHHHHHHHhcCcccHHHHHHHhCcchHHHHHHHHHHHhcCeEEEecCCccc
Confidence 345677777776666665322 245677888889999999999999999999999999999999997663 22
Q ss_pred c-ccccccc
Q psy4132 460 G-LRFYENK 467 (473)
Q Consensus 460 g-~~~~~n~ 467 (473)
+ ..+|.|+
T Consensus 118 ~P~~~y~~l 126 (144)
T COG4190 118 QPVVWYDEL 126 (144)
T ss_pred Cceeecccc
Confidence 3 4566664
No 316
>PF05517 p25-alpha: p25-alpha ; InterPro: IPR008907 This family encodes a 25 kDa protein that is phosphorylated by a Ser/Thr-Pro kinase []. It has been described as a brain specific protein, but it is found in Tetrahymena thermophila.; PDB: 1WLM_A 1PUL_A 2JRF_A.
Probab=29.90 E-value=1.1e+02 Score=26.95 Aligned_cols=35 Identities=11% Similarity=0.076 Sum_probs=25.7
Q ss_pred CCCHHHHHHHHHHhccCCCCCeeHHhhhccceeee
Q psy4132 366 LLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVLQ 400 (473)
Q Consensus 366 ~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl~ 400 (473)
.++..++.-+|..+-..+...|+|++|..++..+.
T Consensus 37 k~t~tdvDiiF~Kvk~k~~~~I~f~~F~~aL~~lA 71 (154)
T PF05517_consen 37 KLTSTDVDIIFSKVKAKGARKITFEQFLEALAELA 71 (154)
T ss_dssp SS-HHHHHHHHHHHT-SS-SEEEHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHhhcCCCcccCHHHHHHHHHHHH
Confidence 47888899999887666567799999998887443
No 317
>smart00422 HTH_MERR helix_turn_helix, mercury resistance.
Probab=29.38 E-value=97 Score=22.56 Aligned_cols=38 Identities=29% Similarity=0.387 Sum_probs=26.9
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc-CCccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD-QSIEGLRFY 464 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d-~~~~g~~~~ 464 (473)
.|..|+|+.+|+|....+.. ++.|.+.-. ....|-|+|
T Consensus 1 ~s~~eva~~~gvs~~tlr~~----~~~gli~~~~~~~~g~r~y 39 (70)
T smart00422 1 YTIGEVAKLAGVSVRTLRYY----ERIGLLPPPIRTEGGYRLY 39 (70)
T ss_pred CCHHHHHHHHCcCHHHHHHH----HHCCCCCCCccCCCCCEec
Confidence 36789999999987665544 679998743 344566666
No 318
>COG4103 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.91 E-value=1.8e+02 Score=25.24 Aligned_cols=97 Identities=19% Similarity=0.179 Sum_probs=48.0
Q ss_pred HHhHHhcCCCCchhhHhhHHHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhh
Q psy4132 313 FAFRIYDIDNDDDYYQALGNELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTY 392 (473)
Q Consensus 313 ~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF 392 (473)
.+|.+.+. ||.++..|.+.+..++...+. ++++++..++.....-+.-.+++-.|
T Consensus 34 Llf~Vm~A--DG~v~~~E~~a~r~il~~~f~-----------------------i~~~~l~ali~~~e~~~~Ea~d~y~f 88 (148)
T COG4103 34 LLFHVMEA--DGTVSESEREAFRAILKENFG-----------------------IDGEELDALIEAGEEAGYEAIDLYSF 88 (148)
T ss_pred HHHHHHhc--ccCcCHHHHHHHHHHHHHHcC-----------------------CCHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 34555543 344666566666666665442 55555555544443333445666666
Q ss_pred hccce-eeeecccCcHHHHHHHHHHHhhCCCCCHHH------HHHhhCCcH
Q psy4132 393 SSGVK-VLQLKSCEDASFVEKTYEIVSQNVFVTVEQ------FSRLASVSL 436 (473)
Q Consensus 393 ~~~~~-vl~~~~~~~~~~~~~~~~~~~~~~~ls~~e------~a~~~~~s~ 436 (473)
-+.++ -+.... --..+..+.+++-..+.++..| +|.++|++.
T Consensus 89 ts~l~r~Ld~e~--R~eli~~mweIa~ADg~l~e~Ed~vi~RvAeLLgV~~ 137 (148)
T COG4103 89 TSVLKRHLDEEQ--RLELIGLMWEIAYADGELDESEDHVIWRVAELLGVSP 137 (148)
T ss_pred HHHHHHhcCHHH--HHHHHHHHHHHHHccccccHHHHHHHHHHHHHhCCCH
Confidence 55443 111100 1234444445555556565554 555556554
No 319
>cd04789 HTH_Cfa Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator. Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=28.82 E-value=93 Score=25.14 Aligned_cols=40 Identities=23% Similarity=0.381 Sum_probs=30.5
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
.+..|+|+.+|+|+... ..=|..|.+.-.....|-|+|.-
T Consensus 2 ~~i~eva~~~gvs~~tl----R~ye~~Gll~~~r~~~g~R~Y~~ 41 (102)
T cd04789 2 YTISELAEKAGISRSTL----LYYEKLGLITGTRNANGYRLYPD 41 (102)
T ss_pred CCHHHHHHHHCcCHHHH----HHHHHCCCCCCCcCCCCCeeCCH
Confidence 57889999999997654 47788899974334478999863
No 320
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=28.52 E-value=1.7e+02 Score=26.30 Aligned_cols=46 Identities=17% Similarity=0.187 Sum_probs=38.9
Q ss_pred HHHHHHhhCCCC-CHHHHHHhh--CCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 412 KTYEIVSQNVFV-TVEQFSRLA--SVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 412 ~~~~~~~~~~~l-s~~e~a~~~--~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
.+..++.-.++- ++.++|+.+ ++|..=+++.|+..++.|+|-+++.
T Consensus 28 ~ir~l~~l~~~~~d~~~iak~l~p~is~~ev~~sL~~L~~~gli~k~~~ 76 (171)
T PF14394_consen 28 AIRELLPLMPFAPDPEWIAKRLRPKISAEEVRDSLEFLEKLGLIKKDGD 76 (171)
T ss_pred HHHHHhhcCCCCCCHHHHHHHhcCCCCHHHHHHHHHHHHHCCCeEECCC
Confidence 344555545555 999999999 9999999999999999999999986
No 321
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=28.11 E-value=90 Score=26.80 Aligned_cols=39 Identities=26% Similarity=0.367 Sum_probs=30.6
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
+..|+|+..|+|..- |..=++.|.|+-.....|-|||..
T Consensus 2 ~I~e~a~~~gvs~~T----LR~Ye~~GLl~p~r~~~g~R~Y~~ 40 (134)
T cd04779 2 RIGQLAHLAGVSKRT----IDYYTNLGLLTPERSDSNYRYYDE 40 (134)
T ss_pred CHHHHHHHHCcCHHH----HHHHHHCCCCCCccCCCCCeeECH
Confidence 678999999999874 455578899986556669999964
No 322
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=27.99 E-value=1.4e+02 Score=25.86 Aligned_cols=39 Identities=18% Similarity=0.175 Sum_probs=33.0
Q ss_pred cHHHHHHHHHHHhhCCC--CCHHHHHHhhCCcHHHHHHHHH
Q psy4132 406 DASFVEKTYEIVSQNVF--VTVEQFSRLASVSLVIAKHRLL 444 (473)
Q Consensus 406 ~~~~~~~~~~~~~~~~~--ls~~e~a~~~~~s~~~~~~~l~ 444 (473)
++.....+.+++..++. .|..++++..++|+..+...|.
T Consensus 28 ~e~~f~kV~~yLr~~p~~~ati~eV~e~tgVs~~~I~~~Ir 68 (137)
T TIGR03826 28 EEREFEKVYKFLRKHENRQATVSEIVEETGVSEKLILKFIR 68 (137)
T ss_pred HHHHHHHHHHHHHHCCCCCCCHHHHHHHHCcCHHHHHHHHH
Confidence 36777888999998887 9999999999999988776653
No 323
>cd01201 Neurobeachin Neurobeachin Pleckstrin homology-like domain. Neurobeachin Pleckstrin homology-like domain. This domain is found in the large multi-domain eukaryotic protein Nerubeachin, N-terminal to the BEACH domain. This PH-like domain interacts with the BEACH domain in the same manner used by other PH-like domains to bind peptides.
Probab=27.77 E-value=60 Score=26.78 Aligned_cols=48 Identities=21% Similarity=0.398 Sum_probs=32.7
Q ss_pred ccCcEEEeeeeeeeeecC-----------ccc--------cccchhhhhHHHhhhhcccccCcccEEEEee
Q psy4132 35 FQRGELILTSHRLFWQKD-----------ITL--------CLALSYIQNAVEEAKSMFNLTAGRKIILYLS 86 (473)
Q Consensus 35 ~~~G~l~LTshRii~~~~-----------~~~--------~l~l~~v~~~~~~~~~~~~~~~s~ki~~~l~ 86 (473)
...|+|.+||++|.|.++ .++ ..|++.|..+- ...+. .+.--+.+++.
T Consensus 17 vvpG~l~ITt~~lyF~~d~~~~~~~~~~~~vl~~~~~~~~~w~ls~Ir~v~--~RRyl--Lr~~alEiF~~ 83 (108)
T cd01201 17 VVKGTLSITTTEIFFEVDERDSQFKKIDDEVLSYCEELHGKWPFSEIRAIF--SRRYL--LQNTALELFLA 83 (108)
T ss_pred EeccEEEEecCEEEEEECCccccccccCccceeccccccceeeHHHHHHHH--HHhhh--cccceEEEEEe
Confidence 467999999999999921 122 67888888773 22342 34444888875
No 324
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, an
Probab=27.77 E-value=93 Score=25.92 Aligned_cols=40 Identities=15% Similarity=0.172 Sum_probs=30.7
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
++..|+|+..|+|.. .|..=|+.|.|.-.....|-|+|.-
T Consensus 1 m~IgevA~~~gvs~~----tlRyYe~~GLl~p~~~~~gyR~Y~~ 40 (120)
T cd04781 1 LDIAEVARQSGLPAS----TLRYYEEKGLIASIGRRGLRRQYDP 40 (120)
T ss_pred CCHHHHHHHHCcCHH----HHHHHHHCCCCCCCcCCCCceecCH
Confidence 467899999999864 5677788999975444459999963
No 325
>cd04764 HTH_MlrA-like_sg1 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 1). The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen in the N-terminal domains of typical MerR-like proteins.
Probab=27.62 E-value=1e+02 Score=22.39 Aligned_cols=39 Identities=21% Similarity=0.247 Sum_probs=26.6
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
.|..|+|+.+|+|..-. ..-+.+|.+..-.+..|-|+|.
T Consensus 1 ~~i~evA~~~gvs~~tl----R~~~~~g~l~~~~~~~g~R~y~ 39 (67)
T cd04764 1 YTIKEVSEIIGVKPHTL----RYYEKEFNLYIPRTENGRRYYT 39 (67)
T ss_pred CCHHHHHHHHCcCHHHH----HHHHHhcCCCCCCCCCCceeeC
Confidence 36789999999998754 4556665555444556788773
No 326
>PRK05472 redox-sensing transcriptional repressor Rex; Provisional
Probab=27.53 E-value=1e+02 Score=28.54 Aligned_cols=43 Identities=12% Similarity=0.114 Sum_probs=36.6
Q ss_pred HHHHHHHHHhhCC--CCCHHHHHHhhCCcHHHHHHHHHHHHHcCC
Q psy4132 409 FVEKTYEIVSQNV--FVTVEQFSRLASVSLVIAKHRLLLAETHGK 451 (473)
Q Consensus 409 ~~~~~~~~~~~~~--~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~ 451 (473)
...++++++...+ .+|..++|+.+|++....+.-|...+..|.
T Consensus 17 ~~~~il~~l~~~~~~~vs~~~L~~~~~v~~~tirrDl~~l~~~G~ 61 (213)
T PRK05472 17 LYYRYLKELKEEGVERVSSKELAEALGVDSAQIRKDLSYFGEFGK 61 (213)
T ss_pred HHHHHHHHHHHcCCcEEeHHHHHHHhCcCHHHHHHHHHHHHhcCC
Confidence 4456677777888 999999999999999999998999988774
No 327
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=27.51 E-value=1.5e+02 Score=27.48 Aligned_cols=36 Identities=3% Similarity=-0.093 Sum_probs=32.8
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
+..++..++|+.+|+|-.-.+|-|...+..|+|.+-
T Consensus 28 G~~L~e~eLae~lgVSRtpVREAL~~L~~eGlv~~~ 63 (224)
T PRK11534 28 DEKLRMSLLTSRYALGVGPLREALSQLVAERLVTVV 63 (224)
T ss_pred CCcCCHHHHHHHHCCChHHHHHHHHHHHHCCCEEEe
Confidence 357899999999999999999999999999999753
No 328
>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=27.48 E-value=1e+02 Score=25.75 Aligned_cols=44 Identities=9% Similarity=0.079 Sum_probs=39.0
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
.+|+.++.. .+|..|+|..++.|+++++=.+.-..+.|.|..-.
T Consensus 46 ~~Il~lC~~--~~SVAEiAA~L~lPlgVvrVLvsDL~~~G~v~v~~ 89 (114)
T PF05331_consen 46 RAILELCRR--PLSVAEIAARLGLPLGVVRVLVSDLADAGLVRVRA 89 (114)
T ss_pred HHHHHHHCC--CccHHHHHHhhCCCchhhhhhHHHHHhCCCEEEeC
Confidence 667788766 89999999999999999999999999999987544
No 329
>PHA02591 hypothetical protein; Provisional
Probab=27.39 E-value=1.5e+02 Score=22.80 Aligned_cols=25 Identities=28% Similarity=0.179 Sum_probs=22.3
Q ss_pred CCCCHHHHHHhhCCcHHHHHHHHHH
Q psy4132 421 VFVTVEQFSRLASVSLVIAKHRLLL 445 (473)
Q Consensus 421 ~~ls~~e~a~~~~~s~~~~~~~l~~ 445 (473)
.++|.++||+.+|++....+..|..
T Consensus 58 qGlSqeqIA~~LGVsqetVrKYL~~ 82 (83)
T PHA02591 58 KGFTVEKIASLLGVSVRKVRRYLES 82 (83)
T ss_pred cCCCHHHHHHHhCCCHHHHHHHHhc
Confidence 5899999999999999998887764
No 330
>PRK03837 transcriptional regulator NanR; Provisional
Probab=27.31 E-value=1.6e+02 Score=27.44 Aligned_cols=36 Identities=8% Similarity=0.044 Sum_probs=32.6
Q ss_pred CCC-CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 421 VFV-TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 421 ~~l-s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..+ +..++|+.+|+|-...+|-|...+..|+|....
T Consensus 35 ~~Lp~E~~Lae~~gVSRt~VREAL~~L~~eGlv~~~~ 71 (241)
T PRK03837 35 DQLPSERELMAFFGVGRPAVREALQALKRKGLVQISH 71 (241)
T ss_pred CCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEec
Confidence 468 899999999999999999999999999998643
No 331
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=27.20 E-value=97 Score=20.94 Aligned_cols=37 Identities=8% Similarity=0.091 Sum_probs=22.3
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcC
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHG 450 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g 450 (473)
+++.++.. +.|..++|+.+|+|..-...-+..-.+.|
T Consensus 9 ~ii~l~~~--G~s~~~ia~~lgvs~~Tv~~w~kr~~~~G 45 (50)
T PF13384_consen 9 QIIRLLRE--GWSIREIAKRLGVSRSTVYRWIKRYREEG 45 (50)
T ss_dssp -HHHHHHH--T--HHHHHHHHTS-HHHHHHHHT------
T ss_pred HHHHHHHC--CCCHHHHHHHHCcCHHHHHHHHHHccccc
Confidence 34455544 89999999999999999988887766555
No 332
>cd04773 HTH_TioE_rpt2 Second Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD mainly contains the C-terminal or second repeat (rpt2) of these tandem MerR-like domain proteins.
Probab=27.18 E-value=98 Score=25.30 Aligned_cols=39 Identities=26% Similarity=0.372 Sum_probs=29.3
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCc-ccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSI-EGLRFYE 465 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~-~g~~~~~ 465 (473)
+|..|+|+..|+|.... ..-|..|.|.-.... .|-|+|.
T Consensus 1 ~~i~eva~~~gvs~~tl----R~ye~~Gll~p~~~~~~g~R~Y~ 40 (108)
T cd04773 1 MTIGELAHLLGVPPSTL----RHWEKEGLLSPDREPETGYRVYD 40 (108)
T ss_pred CCHHHHHHHHCcCHHHH----HHHHHCCCCCCCcCCCCCceeeC
Confidence 46789999999997654 455889999865544 5788885
No 333
>PF09069 EF-hand_3: EF-hand; InterPro: IPR015154 Like other EF hand domains, this domain forms a helix-loop-helix motif, though since it does not contain the canonical pattern of calcium binding residues found in many EF hand domains, it does not bind calcium ions. The main function of this domain is the provision of specificity in beta-dystroglycan recognition, though in dystrophin it serves an additional role: stabilisation of the WW domain (IPR001202 from INTERPRO), enhancing dystroglycan binding []. ; PDB: 1EG3_A 1EG4_A.
Probab=27.05 E-value=2e+02 Score=22.87 Aligned_cols=58 Identities=12% Similarity=0.225 Sum_probs=32.1
Q ss_pred HHHHHHHHhhCCCCCCCccHHHHhcch-------h-ccC-------CHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 240 RRLGKRFRKLDLDNSGALSIDEFMSLP-------E-LQQ-------NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 240 ~~l~~~F~~~D~d~~G~Is~~el~~l~-------~-~~~-------~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
++++-+|+.+ .|++|.++...|..+. . ++. .+.+...|... ...-.|+-++|+..|..
T Consensus 3 dKyRylFsli-sd~~g~~~~~~l~~lL~d~lqip~~vgE~~aFg~~e~sv~sCF~~~--~~~~~I~~~~Fl~wl~~ 75 (90)
T PF09069_consen 3 DKYRYLFSLI-SDSNGCMDQRKLGLLLHDVLQIPRAVGEGPAFGYIEPSVRSCFQQV--QLSPKITENQFLDWLMS 75 (90)
T ss_dssp HHHHHHHHHH-S-TTS-B-HHHHHHHHHHHHHHHHHTT-GGGGT--HHHHHHHHHHT--TT-S-B-HHHHHHHHHT
T ss_pred HHHHHHHHHH-cCCCCCCcHHHHHHHHHHHHHHHHHhCccccccCcHHHHHHHhccc--CCCCccCHHHHHHHHHh
Confidence 5678888888 7888999988777631 1 111 12244455444 24667888888887754
No 334
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=27.02 E-value=46 Score=26.78 Aligned_cols=48 Identities=6% Similarity=0.048 Sum_probs=37.0
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
+++..+++. ...+++...-+.-..+++..+|+..+++.++.|.+-+++
T Consensus 18 eIi~dIL~~-~~~~~~~~Tri~y~aNlny~~~~~yi~~L~~~Gli~~~~ 65 (95)
T COG3432 18 EIIFDILKA-ISEGGIGITRIIYGANLNYKRAQKYIEMLVEKGLIIKQD 65 (95)
T ss_pred HHHHHHHHH-hcCCCCCceeeeeecCcCHHHHHHHHHHHHhCCCEEecc
Confidence 344444444 256788888888889999999999999999999555544
No 335
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=26.93 E-value=1e+02 Score=26.29 Aligned_cols=40 Identities=20% Similarity=0.417 Sum_probs=30.7
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc-cCCccccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCR-DQSIEGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~-d~~~~g~~~~~n 466 (473)
++..|+|+..|+|+ ..|..=|..|+|+- .....|-|+|.-
T Consensus 1 m~Ige~a~~~gvs~----~tLRyYE~~GLl~p~~r~~~gyR~Y~~ 41 (131)
T cd04786 1 MKIGELAKRSGMAA----SRIRFYEAEGLLSSVERSANGYRDYPP 41 (131)
T ss_pred CCHHHHHHHHCcCH----HHHHHHHHCCCCCCCCcCCCCCeecCH
Confidence 36789999998885 56788899999973 233568999963
No 336
>PF05099 TerB: Tellurite resistance protein TerB; InterPro: IPR007791 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Direct interaction between DnaK and djlA is needed for the induction of the wcaABCDE operon which is involved in the synthesis of a colanic acid polysaccharide capsule. The colanic acid capsule may help the bacterium survive conditions outside the host [, ]; PDB: 2H5N_D 2JXU_A.
Probab=26.92 E-value=42 Score=28.52 Aligned_cols=48 Identities=17% Similarity=0.388 Sum_probs=27.8
Q ss_pred CCCCccHHHHhcchhc-----c-CCHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 253 NSGALSIDEFMSLPEL-----Q-QNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 253 ~~G~Is~~el~~l~~~-----~-~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
-||.|+.+|...+... + .......++..++.......++.+|+..+..
T Consensus 36 aDG~v~~~E~~~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ 89 (140)
T PF05099_consen 36 ADGEVDPEEIEAIRQLLAERFGLSPEEAEELIELADELKQEPIDLEELLRELRD 89 (140)
T ss_dssp TTSS--CHHHHHHHHHHHHCGCGSCHHHHHHHHHHCHHHHHCCHHHHHHHHHCT
T ss_pred cCCCCCHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHhccccHHHHHHHHHH
Confidence 4778888887764221 1 2344566666666554557777788766644
No 337
>KOG0998|consensus
Probab=26.86 E-value=63 Score=36.78 Aligned_cols=64 Identities=22% Similarity=0.337 Sum_probs=44.1
Q ss_pred hHHHHHHHHHHHhhCCCCCCCccHHHHhcch-h-ccCCHHHHHHHHHhcCCCCCcccHHHHHHHHhh
Q psy4132 236 VVDIRRLGKRFRKLDLDNSGALSIDEFMSLP-E-LQQNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQ 300 (473)
Q Consensus 236 ~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~-~-~~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~ 300 (473)
..+...+...|..+.+. +|.++-...+.++ . ........++....|.+.+|.+++.||.-.|+.
T Consensus 125 ~qe~aky~q~f~s~~p~-~g~~sg~~~~pil~~s~Lp~~~l~~iw~l~d~d~~g~Ld~~ef~~am~l 190 (847)
T KOG0998|consen 125 PQEQAKYDQIFRSLSPS-NGLLSGDKAKPILLNSKLPSDVLGRIWELSDIDKDGNLDRDEFAVAMHL 190 (847)
T ss_pred HHHHHHHHHHHhccCCC-CCccccchhhhhhhcCCCChhhhccccccccccccCCCChhhhhhhhhH
Confidence 34455666778887776 7777777666642 2 222334557888889999999999999877753
No 338
>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=26.60 E-value=1.2e+02 Score=21.81 Aligned_cols=36 Identities=17% Similarity=0.268 Sum_probs=29.1
Q ss_pred HHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHH
Q psy4132 412 KTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAE 447 (473)
Q Consensus 412 ~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~ 447 (473)
+++.++-.++.++..++|..+++|....+..|....
T Consensus 9 ~Ll~~L~~~~~~~~~ela~~l~~S~rti~~~i~~L~ 44 (59)
T PF08280_consen 9 KLLELLLKNKWITLKELAKKLNISERTIKNDINELN 44 (59)
T ss_dssp HHHHHHHHHTSBBHHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHHHHHHcCCCCcHHHHHHHHCCCHHHHHHHHHHHH
Confidence 445666568899999999999999999999887765
No 339
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=26.51 E-value=84 Score=22.88 Aligned_cols=39 Identities=28% Similarity=0.432 Sum_probs=28.8
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
|..|+|+.+|+|.. .|..=+..|.|--.....|-|+|..
T Consensus 2 ti~eva~~~gvs~~----tlr~y~~~gll~~~~~~~g~r~y~~ 40 (69)
T PF13411_consen 2 TIKEVAKLLGVSPS----TLRYYEREGLLPPPRDENGYRYYSE 40 (69)
T ss_dssp EHHHHHHHTTTTHH----HHHHHHHTTSSTTBESTTSSEEE-H
T ss_pred cHHHHHHHHCcCHH----HHHHHHHhcCcccccccCceeeccH
Confidence 56799999999865 5556688999776666667788754
No 340
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=26.40 E-value=1.1e+02 Score=28.26 Aligned_cols=45 Identities=13% Similarity=0.137 Sum_probs=38.0
Q ss_pred HHHHHHhhC-CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 412 KTYEIVSQN-VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 412 ~~~~~~~~~-~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
.+++++... .+.|..|||+.+++|..-++..+..++..|.+..+-
T Consensus 166 ~Vl~~~~~g~~g~s~~eIa~~l~iS~~Tv~~~~~~~~~~~~~~~~~ 211 (225)
T PRK10046 166 AVRKLFKEPGVQHTAETVAQALTISRTTARRYLEYCASRHLIIAEI 211 (225)
T ss_pred HHHHHHHcCCCCcCHHHHHHHhCccHHHHHHHHHHHHhCCeEEEEe
Confidence 566666543 378999999999999999999999999999998654
No 341
>cd04772 HTH_TioE_rpt1 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD contains the N-terminal or first repeat (rpt1) of these tandem MerR-like domain proteins.
Probab=26.37 E-value=1.1e+02 Score=24.59 Aligned_cols=39 Identities=18% Similarity=0.248 Sum_probs=29.3
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc-CCccccccccc
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRD-QSIEGLRFYEN 466 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d-~~~~g~~~~~n 466 (473)
+..|+|+.+|+|..-. ..-|..|.|.-. ....|.|+|..
T Consensus 2 ~i~e~A~~~gvs~~tl----R~Ye~~Gll~~~~r~~~g~R~Y~~ 41 (99)
T cd04772 2 RTVDLARAIGLSPQTV----RNYESLGLIPPAERTANGYRIYTD 41 (99)
T ss_pred CHHHHHHHHCcCHHHH----HHHHHcCCCCCCCcCCCCCeecCH
Confidence 6789999999997654 456899999742 34568888863
No 342
>KOG0998|consensus
Probab=25.87 E-value=50 Score=37.62 Aligned_cols=68 Identities=22% Similarity=0.327 Sum_probs=54.9
Q ss_pred chHHHHHHHHHHHhhCCCCCCCccHHHHhcch-hccC-CHHHHHHHHHhcCCCCCcccHHHHHHHHhhcc
Q psy4132 235 MVVDIRRLGKRFRKLDLDNSGALSIDEFMSLP-ELQQ-NPLVQRVIDIFDEDRNGEVDFKEFIQGVSQFS 302 (473)
Q Consensus 235 ~~~~~~~l~~~F~~~D~d~~G~Is~~el~~l~-~~~~-~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~~ 302 (473)
.......+.++|...|.+++|.|+..+...++ ..+. ...+..++...|..+.|.+++++|+-.+....
T Consensus 278 sp~d~~~~~~if~q~d~~~dG~I~s~~~~~~f~~~gl~~~~l~~~w~l~d~~n~~~ls~~ef~~~~~~~~ 347 (847)
T KOG0998|consen 278 SPSDKQKYSKIFSQVDKDNDGSISSNEARNIFLPFGLSKPRLAHVWLLADTQNTGTLSKDEFALAMHLLE 347 (847)
T ss_pred ChHHHHHHHHHHHhccccCCCcccccccccccccCCCChhhhhhhhhhcchhccCcccccccchhhhhhh
Confidence 45566788889999999999999999999853 3332 34577889999999999999999988876553
No 343
>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=25.53 E-value=1.8e+02 Score=22.41 Aligned_cols=49 Identities=12% Similarity=0.074 Sum_probs=28.7
Q ss_pred HHHHHHHHHHhhCCCCCHHHHHHhhC---CcHHHHHHHHHHHHHcCCccccC
Q psy4132 408 SFVEKTYEIVSQNVFVTVEQFSRLAS---VSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 408 ~~~~~~~~~~~~~~~ls~~e~a~~~~---~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..+.+++..-...|.||..+|...+. ++.....+.+...+..|.=+.|.
T Consensus 7 ~~i~~Li~~gK~~G~lT~~eI~~~L~~~~~~~e~id~i~~~L~~~gI~Vvd~ 58 (82)
T PF03979_consen 7 EAIKKLIEKGKKKGYLTYDEINDALPEDDLDPEQIDEIYDTLEDEGIEVVDE 58 (82)
T ss_dssp HHHHHHHHHHHHHSS-BHHHHHHH-S-S---HHHHHHHHHHHHTT----B--
T ss_pred HHHHHHHHHHhhcCcCCHHHHHHHcCccCCCHHHHHHHHHHHHHCCCEEecC
Confidence 34566666667778888888888885 66667777777777788777664
No 344
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=25.51 E-value=1.7e+02 Score=27.61 Aligned_cols=49 Identities=14% Similarity=0.114 Sum_probs=38.3
Q ss_pred HHHHHHHHHHhh-----CCCC-CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 408 SFVEKTYEIVSQ-----NVFV-TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 408 ~~~~~~~~~~~~-----~~~l-s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
.+...+...+.. ...+ |..++|+.+|+|-.-.+|-|...+..|+|.+-.
T Consensus 14 ~v~~~l~~~I~~g~l~pG~~LpsE~eLa~~lgVSRtpVREAL~~L~~eGlv~~~~ 68 (254)
T PRK09464 14 VIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQ 68 (254)
T ss_pred HHHHHHHHHHHcCCCCCCCcCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEec
Confidence 444555444433 3457 899999999999999999999999999998654
No 345
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=25.29 E-value=1.4e+02 Score=24.33 Aligned_cols=40 Identities=15% Similarity=0.211 Sum_probs=32.2
Q ss_pred HHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 413 TYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 413 ~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
.-.+++..+.+|..++|..++++ .+.......+.|+++|+
T Consensus 15 ~d~~~~~~~~~ti~~~AK~L~i~---~~~l~~~Lr~~g~l~~~ 54 (111)
T PF03374_consen 15 YDAFVDSDGLYTIREAAKLLGIG---RNKLFQWLREKGWLYRR 54 (111)
T ss_pred HHHHHcCCCCccHHHHHHHhCCC---HHHHHHHHHhCCceEEC
Confidence 34556667899999999999998 46666777789999996
No 346
>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=25.16 E-value=1.2e+02 Score=24.41 Aligned_cols=39 Identities=13% Similarity=0.141 Sum_probs=29.2
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
.|..++|+..|+|....+.. ++.|.+.-..+..|-|+|.
T Consensus 2 ~~i~eva~~~gVs~~tLR~y----e~~Gli~p~r~~~g~R~Ys 40 (98)
T cd01279 2 YPISVAAELLGIHPQTLRVY----DRLGLVSPARTNGGGRRYS 40 (98)
T ss_pred cCHHHHHHHHCcCHHHHHHH----HHCCCCCCCcCCCCCeeEC
Confidence 47789999999998766644 7799886544455888885
No 347
>KOG1265|consensus
Probab=24.67 E-value=3.3e+02 Score=30.98 Aligned_cols=84 Identities=11% Similarity=0.231 Sum_probs=45.6
Q ss_pred CCCCCceeHHHHHHHHccccccccchHHHHHHHHHHHhh--CCCCCCCccHHHHhc-----c-hhccCCHHHHHHHHHhc
Q psy4132 211 KDRDGKINFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKL--DLDNSGALSIDEFMS-----L-PELQQNPLVQRVIDIFD 282 (473)
Q Consensus 211 ~d~dG~I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~--D~d~~G~Is~~el~~-----l-~~~~~~~~~~~l~~~~D 282 (473)
.+..|+|-...+..++.... ....+..+.... -.+++..|..++|.- + ..+...+.++++|..+.
T Consensus 159 vn~~grip~knI~k~F~~~k-------~~KrVe~al~~~gLp~~k~dsI~~d~f~~e~f~~~l~klcpR~eie~iF~ki~ 231 (1189)
T KOG1265|consen 159 VNFEGRIPVKNIIKTFSADK-------KEKRVEKALEACGLPSGKNDSIEPDDFTLEKFYRLLNKLCPRPEIEEIFRKIS 231 (1189)
T ss_pred ccccccccHHHHHHHhhcCC-------chhHHHHHHHhcCCCCCCcCccChhhccHHHHHHHHHhcCCchhHHHHHHHhc
Confidence 34566777777776665211 112222222221 123334555555443 2 23344567778888877
Q ss_pred CCCCCcccHHHHHHHHhhc
Q psy4132 283 EDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 283 ~d~dG~I~~~EF~~~l~~~ 301 (473)
.++.-.++.++++.++...
T Consensus 232 ~~~kpylT~~ql~dfln~~ 250 (1189)
T KOG1265|consen 232 GKKKPYLTKEQLVDFLNKK 250 (1189)
T ss_pred cCCCccccHHHHHHHHhhh
Confidence 7777777777777777544
No 348
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=24.64 E-value=1.2e+02 Score=25.15 Aligned_cols=39 Identities=18% Similarity=0.350 Sum_probs=29.1
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
.|..|+|+.+|+|+ ..|..=|+.|.|.-.....|-|+|.
T Consensus 1 ~~ige~a~~~gvs~----~tLryYe~~GLi~p~~~~~~yR~Y~ 39 (116)
T cd04769 1 MYIGELAQQTGVTI----KAIRLYEEKGLLPSPKRSGNYRVYD 39 (116)
T ss_pred CCHHHHHHHHCcCH----HHHHHHHHCCCCCCCCCCCCceeeC
Confidence 46789999999986 4677889999996322223888885
No 349
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=24.48 E-value=5.9e+02 Score=25.18 Aligned_cols=125 Identities=14% Similarity=0.015 Sum_probs=76.9
Q ss_pred HHHHHHHhchhhcCCCccchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhccceeeeeccc-CcHHHH
Q psy4132 332 NELIAALIEPLTSAGGTMLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVLQLKSC-EDASFV 410 (473)
Q Consensus 332 ~el~~~L~~~~~~~~g~i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl~~~~~-~~~~~~ 410 (473)
+|+..++...-.--+-.++-......-.|++|+..+...-+..+....+.++++.|+.+-=..++..++.... -+..-.
T Consensus 184 ~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~V~~~~~I~~~ia~~aL~~L~Vd~~GLd~~D~ 263 (332)
T COG2255 184 EELEEIVKRSAKILGIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQVKGDGDIDRDIADKALKMLDVDELGLDEIDR 263 (332)
T ss_pred HHHHHHHHHHHHHhCCCCChHHHHHHHHhccCCcHHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHhCcccccccHHHH
Confidence 4555555543332334566666677778888876666666666767777788999988655455544432221 112222
Q ss_pred HHHHHHHhh--CCCCCHHHHHHhhCCcHHHHHHHHH-HHHHcCCccccC
Q psy4132 411 EKTYEIVSQ--NVFVTVEQFSRLASVSLVIAKHRLL-LAETHGKLCRDQ 456 (473)
Q Consensus 411 ~~~~~~~~~--~~~ls~~e~a~~~~~s~~~~~~~l~-~~~~~g~l~~d~ 456 (473)
+.+..++++ .+.+..+-+|...+-...-..+.++ +....|+|.|--
T Consensus 264 k~L~~li~~f~GgPVGl~tia~~lge~~~TiEdv~EPyLiq~gfi~RTp 312 (332)
T COG2255 264 KYLRALIEQFGGGPVGLDTIAAALGEDRDTIEDVIEPYLIQQGFIQRTP 312 (332)
T ss_pred HHHHHHHHHhCCCCccHHHHHHHhcCchhHHHHHHhHHHHHhchhhhCC
Confidence 223333333 3789999999999888777666665 455788888754
No 350
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 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 are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; 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: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=24.33 E-value=1.1e+02 Score=21.07 Aligned_cols=28 Identities=18% Similarity=0.125 Sum_probs=21.2
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHH
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAE 447 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~ 447 (473)
-.+.|..|+|+.+|+|..-+...+..|-
T Consensus 24 ~~g~s~~eIa~~l~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 24 FQGMSYAEIAEILGISESTVKRRLRRAR 51 (54)
T ss_dssp TS---HHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHCcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 4789999999999999999999887764
No 351
>PRK13824 replication initiation protein RepC; Provisional
Probab=24.33 E-value=94 Score=32.09 Aligned_cols=40 Identities=20% Similarity=0.217 Sum_probs=35.6
Q ss_pred CHHHHHHh-hCCcHHHHHHHHHHHHHcCCccccCCcccccc
Q psy4132 424 TVEQFSRL-ASVSLVIAKHRLLLAETHGKLCRDQSIEGLRF 463 (473)
Q Consensus 424 s~~e~a~~-~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~ 463 (473)
|-..++.. .|+|..-.+..|...++.|+|.|.||..|-||
T Consensus 84 SN~~La~r~~Gms~~tlrRhla~LveaGLI~rrDSpNGKRy 124 (404)
T PRK13824 84 SNAQLSLRAHGMAGATLRRHLAALVEAGLIIRRDSPNGKRY 124 (404)
T ss_pred hHHHHHHHHcCCCHHHHHHHHHHHHHCCCeEeecCCCCccc
Confidence 44567765 58999999999999999999999999999998
No 352
>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=24.23 E-value=1.9e+02 Score=19.33 Aligned_cols=32 Identities=16% Similarity=0.209 Sum_probs=21.0
Q ss_pred HHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHH
Q psy4132 410 VEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRL 443 (473)
Q Consensus 410 ~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l 443 (473)
++.+.+++.. +.|..+||+.+|+|..-.-..|
T Consensus 11 ~~~i~~l~~~--G~si~~IA~~~gvsr~TvyR~l 42 (45)
T PF02796_consen 11 IEEIKELYAE--GMSIAEIAKQFGVSRSTVYRYL 42 (45)
T ss_dssp HHHHHHHHHT--T--HHHHHHHTTS-HHHHHHHH
T ss_pred HHHHHHHHHC--CCCHHHHHHHHCcCHHHHHHHH
Confidence 5667777654 3999999999999987654443
No 353
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=23.95 E-value=1.8e+02 Score=26.94 Aligned_cols=36 Identities=11% Similarity=0.114 Sum_probs=32.8
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
+..++..++|+.+|+|-.-.+|-|...+..|+|..-
T Consensus 32 G~~L~e~~La~~lgVSRtpVREAL~~L~~eGLV~~~ 67 (221)
T PRK11414 32 GARLITKNLAEQLGMSITPVREALLRLVSVNALSVA 67 (221)
T ss_pred CCccCHHHHHHHHCCCchhHHHHHHHHHHCCCEEec
Confidence 357899999999999999999999999999999754
No 354
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=23.90 E-value=1.3e+02 Score=24.75 Aligned_cols=38 Identities=18% Similarity=0.248 Sum_probs=27.7
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc-CCcccccccc
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRD-QSIEGLRFYE 465 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d-~~~~g~~~~~ 465 (473)
|..|+|+.+|+|+...+ .=|..|.+.-- .+..|-|+|.
T Consensus 2 ~i~e~a~~~gvs~~tlr----~ye~~gll~~~~r~~~gyR~Y~ 40 (113)
T cd01109 2 TIKEVAEKTGLSADTLR----YYEKEGLLPPVKRDENGIRDFT 40 (113)
T ss_pred CHHHHHHHHCcCHHHHH----HHHHCCCCCCCCcCCCCCccCC
Confidence 67899999999976554 55788999432 2346888885
No 355
>PF12029 DUF3516: Domain of unknown function (DUF3516); InterPro: IPR021904 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is typically between 460 to 473 amino acids in length. This domain is found associated with PF00270 from PFAM, PF00271 from PFAM.
Probab=23.81 E-value=2.2e+02 Score=29.55 Aligned_cols=108 Identities=14% Similarity=0.111 Sum_probs=63.6
Q ss_pred eeHHHHHHHHccccccccchHHHHHHHHHHHhhCCCC----CCCccHHHHhcchhccCCHHHHHHHHHhcCCCCCcccHH
Q psy4132 217 INFQEFCSIVGNTDIHKKMVVDIRRLGKRFRKLDLDN----SGALSIDEFMSLPELQQNPLVQRVIDIFDEDRNGEVDFK 292 (473)
Q Consensus 217 I~f~EF~~~~~~~~~~~~~~~~~~~l~~~F~~~D~d~----~G~Is~~el~~l~~~~~~~~~~~l~~~~D~d~dG~I~~~ 292 (473)
|+|+|=+..+..... ...-.+.|..+|..|-..+ +-.|++ ...+..|++. ..+|.
T Consensus 198 veYeERMe~Leevty---PkPL~e~L~~af~~y~~~hPWv~~~~l~P-----------KSVvRdM~E~-------amtF~ 256 (461)
T PF12029_consen 198 VEYEERMERLEEVTY---PKPLAELLEAAFETYRRGHPWVGDFELSP-----------KSVVRDMYER-------AMTFS 256 (461)
T ss_pred CCHHHHHHHHhhCCC---CCchHHHHHHHHHHHHhcCCcccCCCCCc-----------chHHHHHHHh-------hCCHH
Confidence 889988777653221 1223345566666654322 111222 2345666643 47888
Q ss_pred HHHHHHhhcccCCCcHHHHHHHhHHhcCCCCchhhHhhHHHHHHHHhchhhcC
Q psy4132 293 EFIQGVSQFSVKGDRESKLKFAFRIYDIDNDDDYYQALGNELIAALIEPLTSA 345 (473)
Q Consensus 293 EF~~~l~~~~~~~~~~e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~~~~~~ 345 (473)
+|+..+..-...+..-.-+..+|+.+...--..+-++++.++..+|..+....
T Consensus 257 dyV~~YgLaRSEGvlLRYLsDAyraL~qtVP~~~rteel~dii~WLgelVRqV 309 (461)
T PF12029_consen 257 DYVSRYGLARSEGVLLRYLSDAYRALRQTVPEDARTEELEDIIEWLGELVRQV 309 (461)
T ss_pred HHHHHhCcchhhhHHHHHHHHHHHHHhhhCChhhcCchHHHHHHHHHHHHHhc
Confidence 99888765544555555667777777543333455567788888888776544
No 356
>PF08222 HTH_CodY: CodY helix-turn-helix domain; InterPro: IPR013198 This family consists of the C-terminal helix-turn-helix domain found in several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; PDB: 2B0L_C.
Probab=23.62 E-value=87 Score=22.61 Aligned_cols=40 Identities=13% Similarity=0.182 Sum_probs=30.5
Q ss_pred CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc-ccCCccc
Q psy4132 421 VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLC-RDQSIEG 460 (473)
Q Consensus 421 ~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~-~d~~~~g 460 (473)
+.+++..||...|++-.+.-.-|...|..|.+- |.-+.-|
T Consensus 3 g~lvas~iAd~~GiTRSvIVNALRKleSaGvIesrSlGmKG 43 (61)
T PF08222_consen 3 GRLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKG 43 (61)
T ss_dssp EEE-HHHHHHHHT--HHHHHHHHHHHHHTTSEEEEETTSS-
T ss_pred ceehHHHHHHHhCccHHHHHHHHHHHHhcCceeecccCCCc
Confidence 457899999999999999999999999999986 4444445
No 357
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=23.61 E-value=1.1e+02 Score=26.88 Aligned_cols=44 Identities=16% Similarity=0.251 Sum_probs=34.5
Q ss_pred hCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 419 QNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 419 ~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
....++..|+|+.+|+|+ ..|..=|..|+|+-.....|.|+|..
T Consensus 8 ~~~~~~IgevAk~~gvs~----~TlRyYE~~GLi~~~r~~~g~R~Y~~ 51 (154)
T PRK15002 8 IKALLTPGEVAKRSGVAV----SALHFYESKGLITSIRNSGNQRRYKR 51 (154)
T ss_pred hcccccHHHHHHHHCcCH----HHHHHHHHCCCCCCccCCCCCEEECH
Confidence 345789999999999986 46778899999985445567888853
No 358
>PF05517 p25-alpha: p25-alpha ; InterPro: IPR008907 This family encodes a 25 kDa protein that is phosphorylated by a Ser/Thr-Pro kinase []. It has been described as a brain specific protein, but it is found in Tetrahymena thermophila.; PDB: 1WLM_A 1PUL_A 2JRF_A.
Probab=23.51 E-value=1.6e+02 Score=25.87 Aligned_cols=57 Identities=12% Similarity=0.299 Sum_probs=35.9
Q ss_pred HHHhhCCCCCCCccHHHHhcchh-c------cCCHHHHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 245 RFRKLDLDNSGALSIDEFMSLPE-L------QQNPLVQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 245 ~F~~~D~d~~G~Is~~el~~l~~-~------~~~~~~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
.|..|-..+...++...|..+.. . .....++-+|..+-..+...|+|++|..+|..+
T Consensus 7 ~f~~fG~~~~~~m~~~~F~Kl~kD~~i~d~k~t~tdvDiiF~Kvk~k~~~~I~f~~F~~aL~~l 70 (154)
T PF05517_consen 7 AFASFGKKNGTEMDSKNFAKLCKDCGIIDKKLTSTDVDIIFSKVKAKGARKITFEQFLEALAEL 70 (154)
T ss_dssp HHHCSSTSTSSEEEHHHHHHHHHHTSS--SSS-HHHHHHHHHHHT-SS-SEEEHHHHHHHHHHH
T ss_pred HHHHhcCCccccccHHHHHHHHHHcCCCCCCCchHHHHHHHHHhhcCCCcccCHHHHHHHHHHH
Confidence 33334445555677777777421 1 112247888988877777789999999988655
No 359
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=23.42 E-value=1.2e+02 Score=25.42 Aligned_cols=40 Identities=18% Similarity=0.367 Sum_probs=30.5
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc-cCCccccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCR-DQSIEGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~-d~~~~g~~~~~n 466 (473)
++..|+|+.+|+|+ ..|..=|+.|.|.- ..+..|-|+|.-
T Consensus 1 m~IgevA~~~gvs~----~tLRyYe~~GLl~p~~r~~~gyR~Y~~ 41 (127)
T cd04784 1 MKIGELAKKTGCSV----ETIRYYEKEGLLPAPARSANNYRLYDE 41 (127)
T ss_pred CCHHHHHHHHCcCH----HHHHHHHHCCCCCCCCcCCCCCeecCH
Confidence 36789999999986 46778899999972 233578999863
No 360
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=23.22 E-value=2.1e+02 Score=27.10 Aligned_cols=36 Identities=17% Similarity=0.090 Sum_probs=32.3
Q ss_pred CCC-CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 421 VFV-TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 421 ~~l-s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..+ +..++|+.+|+|-.-.+|-|...+..|+|.+..
T Consensus 24 ~~LpsE~eLae~~gVSRtpVREAL~~Le~~GlV~~~~ 60 (253)
T PRK10421 24 MKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRR 60 (253)
T ss_pred CcCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEeC
Confidence 468 688999999999999999999999999997543
No 361
>COG5562 Phage envelope protein [General function prediction only]
Probab=23.14 E-value=45 Score=28.48 Aligned_cols=28 Identities=14% Similarity=0.381 Sum_probs=21.9
Q ss_pred HHHHHHHhcCCCCCcccHHHHHHHHhhc
Q psy4132 274 VQRVIDIFDEDRNGEVDFKEFIQGVSQF 301 (473)
Q Consensus 274 ~~~l~~~~D~d~dG~I~~~EF~~~l~~~ 301 (473)
...+......+..|..+|+||+..+...
T Consensus 74 ~~~i~~al~~~qsGqttF~ef~~~la~A 101 (137)
T COG5562 74 TTLIKTALRRHQSGQTTFEEFCSALAEA 101 (137)
T ss_pred HHHHHHHHHHHhcCCccHHHHHHHHHhC
Confidence 3456666777889999999999988643
No 362
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=23.08 E-value=1.3e+02 Score=25.44 Aligned_cols=40 Identities=20% Similarity=0.311 Sum_probs=30.2
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc-ccCCccccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLC-RDQSIEGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~-~d~~~~g~~~~~n 466 (473)
+|..|+|+.+|+|+. .|..=|+.|.|. -.....|-|+|..
T Consensus 1 m~I~e~a~~~gvs~~----tlRyYe~~GLl~~~~r~~~g~R~Y~~ 41 (127)
T cd01108 1 MNIGEAAKLTGLSAK----MIRYYEEIGLIPPPSRSDNGYRVYNQ 41 (127)
T ss_pred CCHHHHHHHHCcCHH----HHHHHHHCCCCCCCCcCCCCceecCH
Confidence 367899999998865 566778899997 2334578999864
No 363
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=22.98 E-value=2.1e+02 Score=26.98 Aligned_cols=37 Identities=11% Similarity=0.078 Sum_probs=33.0
Q ss_pred CCCC-CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 420 NVFV-TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 420 ~~~l-s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
...+ +..++|+.+|+|-.-.+|-|...+..|+|.+-.
T Consensus 28 G~~LPsE~eLa~~~gVSRtpVREAL~~L~~eGlV~~~~ 65 (251)
T PRK09990 28 GQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQ 65 (251)
T ss_pred CCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeC
Confidence 3568 889999999999999999999999999997544
No 364
>KOG2165|consensus
Probab=22.96 E-value=1.5e+02 Score=32.61 Aligned_cols=46 Identities=15% Similarity=0.193 Sum_probs=39.9
Q ss_pred HHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 411 EKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 411 ~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
+.+.-+.+.....|.+|++..+|+|+.+.+.+|..-..+|.||-..
T Consensus 605 A~iI~~Fqek~twt~eelse~l~ip~~~lrrrL~fWi~~GvL~e~~ 650 (765)
T KOG2165|consen 605 AAIINLFQEKNTWTLEELSESLGIPVPALRRRLSFWIQKGVLREEP 650 (765)
T ss_pred HHHHHHhcCcccccHHHHHHHhCCCHHHHHHHHHHHHHcCeeecCC
Confidence 4455566677789999999999999999999999999999999544
No 365
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=22.92 E-value=1.4e+02 Score=24.62 Aligned_cols=40 Identities=25% Similarity=0.392 Sum_probs=30.2
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~n 466 (473)
++..|+|+.+|+|+.. |..=|..|+|.-.-...|-|+|.-
T Consensus 1 m~i~eva~~~gvs~~t----lR~Ye~~GLl~p~r~~~g~R~Y~~ 40 (112)
T cd01282 1 MRIGELAARTGVSVRS----LRYYEEQGLLVPERSANGYRDYDE 40 (112)
T ss_pred CCHHHHHHHHCCCHHH----HHHHHHCCCCCCCcCCCCCeecCH
Confidence 3678999999999764 566688899985445568999863
No 366
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=22.73 E-value=2.1e+02 Score=26.69 Aligned_cols=36 Identities=17% Similarity=0.171 Sum_probs=32.7
Q ss_pred CCC-CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 421 VFV-TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 421 ~~l-s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
..+ |..++|+.+|+|-.-.+|-|...+..|+|.+-.
T Consensus 29 ~~LPsE~eLae~~gVSRt~VReAL~~L~~eGlv~~~~ 65 (239)
T PRK04984 29 SILPAERELSELIGVTRTTLREVLQRLARDGWLTIQH 65 (239)
T ss_pred CcCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeC
Confidence 468 788999999999999999999999999998654
No 367
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=22.71 E-value=2.4e+02 Score=24.70 Aligned_cols=40 Identities=15% Similarity=0.084 Sum_probs=34.6
Q ss_pred CCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCccc
Q psy4132 421 VFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEG 460 (473)
Q Consensus 421 ~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g 460 (473)
..+|..++|+..++|.......|......|+|.---+..|
T Consensus 23 ~~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~rG~~G 62 (153)
T PRK11920 23 KLSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNG 62 (153)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeecCCCC
Confidence 4589999999999999999999999999999875555444
No 368
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=22.64 E-value=1.4e+02 Score=24.34 Aligned_cols=38 Identities=26% Similarity=0.454 Sum_probs=29.3
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC--Ccccccccc
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ--SIEGLRFYE 465 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~--~~~g~~~~~ 465 (473)
+..|+|+.+|+|+. .|..=|+.|.|.-.. ...|-|+|.
T Consensus 2 ~i~eva~~~gis~~----tlR~ye~~GLi~p~~~~~~ngyR~Y~ 41 (108)
T cd01107 2 TIGEFAKLSNLSIK----ALRYYDKIGLLKPAYVDPDTGYRYYS 41 (108)
T ss_pred CHHHHHHHHCcCHH----HHHHHHHcCCCCCCcCCCCCCccccC
Confidence 67899999999865 566778889997543 346889985
No 369
>COG1733 Predicted transcriptional regulators [Transcription]
Probab=22.64 E-value=1.9e+02 Score=24.29 Aligned_cols=38 Identities=18% Similarity=0.060 Sum_probs=34.7
Q ss_pred CCCCHHHHHHhhC-CcHHHHHHHHHHHHHcCCccccCCc
Q psy4132 421 VFVTVEQFSRLAS-VSLVIAKHRLLLAETHGKLCRDQSI 458 (473)
Q Consensus 421 ~~ls~~e~a~~~~-~s~~~~~~~l~~~~~~g~l~~d~~~ 458 (473)
+..-+.||.+..+ +|..+-.++|...|+.|.+.|..-.
T Consensus 35 g~~RF~eL~r~i~~Is~k~Ls~~Lk~Le~~Glv~R~~~~ 73 (120)
T COG1733 35 GPKRFNELRRSIGGISPKMLSRRLKELEEDGLVERVVYP 73 (120)
T ss_pred CCCcHHHHHHHccccCHHHHHHHHHHHHHCCCEEeeecC
Confidence 7788999999998 9999999999999999999998743
No 370
>PF02022 Integrase_Zn: Integrase Zinc binding domain The structure of the N-terminal zinc binding domain.; InterPro: IPR003308 Retroviral integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains: an N-terminal zinc binding domain, a central catalytic core and a C-terminal DNA-binding domain [, ]. Often found as part of the POL polyprotein.; GO: 0008270 zinc ion binding; PDB: 1E0E_A 3F9K_F 1E27_C 1K6Y_B 1WJD_A 1WJB_A 1WJF_A 1WJE_B 3HPG_B 3HPH_C ....
Probab=22.56 E-value=91 Score=20.73 Aligned_cols=25 Identities=8% Similarity=0.093 Sum_probs=18.7
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHH
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAE 447 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~ 447 (473)
.++..+...|++|..+|++.+..|.
T Consensus 10 ~n~~~L~~~f~ip~~vAk~IV~~C~ 34 (40)
T PF02022_consen 10 SNAKALRHKFGIPRLVAKQIVNQCP 34 (40)
T ss_dssp H-HHHHHHHHT--HHHHHHHHHHSC
T ss_pred cCHHHHHHHHccCHHHHHHHHHHCH
Confidence 4567889999999999999998763
No 371
>TIGR02404 trehalos_R_Bsub trehalose operon repressor, B. subtilis-type. This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from E. coli.
Probab=22.50 E-value=1.1e+02 Score=28.63 Aligned_cols=33 Identities=15% Similarity=0.086 Sum_probs=31.3
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
|..|+|..+|+|-...++-|...+.+|+|.|-.
T Consensus 26 sE~eLa~~~gVSR~TVR~Al~~L~~eGli~r~~ 58 (233)
T TIGR02404 26 SEHELMDQYGASRETVRKALNLLTEAGYIQKIQ 58 (233)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeC
Confidence 788999999999999999999999999999865
No 372
>TIGR03338 phnR_burk phosphonate utilization associated transcriptional regulator. This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Polaromonas, Burkholderia, Ralstonia and Verminephrobacter.
Probab=22.41 E-value=2e+02 Score=26.29 Aligned_cols=37 Identities=11% Similarity=0.056 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
...++..++|+.+|+|-.-.+|-|...+..|+|..-.
T Consensus 32 G~~L~e~~La~~lgVSRtpVReAL~~L~~eGlv~~~~ 68 (212)
T TIGR03338 32 GAKLNESDIAARLGVSRGPVREAFRALEEAGLVRNEK 68 (212)
T ss_pred CCEecHHHHHHHhCCChHHHHHHHHHHHHCCCEEEec
Confidence 3568999999999999999999999999999997543
No 373
>cd00592 HTH_MerR-like Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators. Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=22.31 E-value=1.4e+02 Score=23.63 Aligned_cols=39 Identities=28% Similarity=0.422 Sum_probs=27.9
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCCcccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQSIEGLRFYE 465 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~~~g~~~~~ 465 (473)
.|..|+|+..|++....+.. +..|.|.-.....|-|+|.
T Consensus 1 ~~~~eva~~~gi~~~tlr~~----~~~Gll~~~~~~~g~r~y~ 39 (100)
T cd00592 1 YTIGEVAKLLGVSVRTLRYY----EEKGLLPPERSENGYRLYS 39 (100)
T ss_pred CCHHHHHHHHCcCHHHHHHH----HHCCCcCCCcCCCCCcccC
Confidence 36789999999997766644 6789987544445766663
No 374
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=22.25 E-value=1.5e+02 Score=23.64 Aligned_cols=38 Identities=24% Similarity=0.435 Sum_probs=28.2
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc-CCcccccccc
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRD-QSIEGLRFYE 465 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d-~~~~g~~~~~ 465 (473)
|..|+|+.+|+|.. .|..-|..|.|.-. .+..|-|+|.
T Consensus 2 ~i~eva~~~gvs~~----tlR~ye~~Gll~p~~~~~~gyR~Y~ 40 (97)
T cd04782 2 TTGEFAKLCGISKQ----TLFHYDKIGLFKPEIVKENGYRYYT 40 (97)
T ss_pred CHHHHHHHHCcCHH----HHHHHHHCCCCCCCccCCCCCccCC
Confidence 67899999999875 45566889999643 2346888885
No 375
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=21.78 E-value=2.2e+02 Score=24.80 Aligned_cols=33 Identities=12% Similarity=0.037 Sum_probs=30.8
Q ss_pred CCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc
Q psy4132 422 FVTVEQFSRLASVSLVIAKHRLLLAETHGKLCR 454 (473)
Q Consensus 422 ~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~ 454 (473)
.+|..+||+..++|.......+......|+|--
T Consensus 25 ~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S 57 (150)
T COG1959 25 PVSSAEIAERQGISPSYLEKILSKLRKAGLVKS 57 (150)
T ss_pred cccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEe
Confidence 688999999999999999999999999999863
No 376
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=21.75 E-value=1.3e+02 Score=25.88 Aligned_cols=40 Identities=23% Similarity=0.401 Sum_probs=30.4
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc-CCccccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD-QSIEGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d-~~~~g~~~~~n 466 (473)
.+..|+|+..|+|+.. |..=|+.|+|.-. .+..|-|+|..
T Consensus 2 ~~I~e~a~~~gvs~~t----lR~Ye~~GLl~p~~r~~~gyR~Y~~ 42 (140)
T PRK09514 2 YRIGELAKLAEVTPDT----LRFYEKQGLMDPEVRTEGGYRLYTE 42 (140)
T ss_pred CcHHHHHHHHCcCHHH----HHHHHHCCCCCCcccCCCCCeeeCH
Confidence 4778999999998754 5566899999743 34668999963
No 377
>TIGR03337 phnR transcriptional regulator protein. This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Salmonella, Vibrio Aeromonas hydrophila, Hahella chejuensis and Psychromonas ingrahamii.
Probab=21.65 E-value=1e+02 Score=28.60 Aligned_cols=34 Identities=15% Similarity=0.227 Sum_probs=31.7
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
|..++|+.+++|-...++.|..++.+|.|.|-.+
T Consensus 27 sE~eLa~~~~Vsr~Tvr~Al~~L~~eGli~~~~g 60 (231)
T TIGR03337 27 SERDLGERFNTTRVTIREALQQLEAEGLIYREDR 60 (231)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCCeEEEeCC
Confidence 7889999999999999999999999999998664
No 378
>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU. Members of this protein family are the S-adenosylmethionine-depenedent C-20 methyltransferase BchU, part of the pathway of bacteriochlorophyll c production in photosynthetic green sulfur bacteria. The position modified by this enzyme represents the difference between bacteriochlorophylls c and d; strains lacking this protein can only produced bacteriochlorophyll d.
Probab=21.47 E-value=1.5e+02 Score=29.04 Aligned_cols=42 Identities=2% Similarity=-0.112 Sum_probs=36.5
Q ss_pred HHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 414 YEIVSQNVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 414 ~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
++.+.. +..|++|+|+..++........|..+...|.|-+++
T Consensus 16 fd~L~~-gp~t~~eLA~~~~~~~~~~~~lL~~L~~lgll~~~~ 57 (306)
T TIGR02716 16 FSHMAE-GPKDLATLAADTGSVPPRLEMLLETLRQMRVINLED 57 (306)
T ss_pred HHHHhc-CCCCHHHHHHHcCCChHHHHHHHHHHHhCCCeEecC
Confidence 445543 789999999999999999999999999999998765
No 379
>PF13518 HTH_28: Helix-turn-helix domain
Probab=20.84 E-value=2.7e+02 Score=18.62 Aligned_cols=29 Identities=14% Similarity=0.064 Sum_probs=25.7
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCC
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGK 451 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~ 451 (473)
.|..++|+.+++|..-...-+..-++.|.
T Consensus 13 ~s~~~~a~~~gis~~tv~~w~~~y~~~G~ 41 (52)
T PF13518_consen 13 ESVREIAREFGISRSTVYRWIKRYREGGI 41 (52)
T ss_pred CCHHHHHHHHCCCHhHHHHHHHHHHhcCH
Confidence 49999999999999999998888887773
No 380
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=20.82 E-value=1.4e+02 Score=25.95 Aligned_cols=41 Identities=22% Similarity=0.362 Sum_probs=31.9
Q ss_pred CCCHHHHHHhhCCcHHHHHHHHHHHHHcCCccc-cCCccccccccc
Q psy4132 422 FVTVEQFSRLASVSLVIAKHRLLLAETHGKLCR-DQSIEGLRFYEN 466 (473)
Q Consensus 422 ~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~-d~~~~g~~~~~n 466 (473)
..|..|+|+..|+|+. .|..=|..|+|+- ..+..|-|+|..
T Consensus 7 ~~~IgevAk~~Gvs~~----TLRyYE~~GLl~p~~r~~~gyR~Y~~ 48 (144)
T PRK13752 7 NLTIGVFAKAAGVNVE----TIRFYQRKGLLPEPDKPYGSIRRYGE 48 (144)
T ss_pred cccHHHHHHHHCcCHH----HHHHHHHCCCCCCCccCCCCCeecCH
Confidence 4789999999998865 5677789999972 334578999964
No 381
>PF09824 ArsR: ArsR transcriptional regulator; InterPro: IPR014517 Members of this family of archaeal proteins are conserved transcriptional regulators belonging to the ArsR family.
Probab=20.79 E-value=2.2e+02 Score=25.08 Aligned_cols=69 Identities=16% Similarity=0.093 Sum_probs=44.2
Q ss_pred HHHHHhccCCCCCeeHHhhhccceeeeecccCcHHHHHHHHHHHhhCCCCCHHHHHHhhCCcHHHHHHHHHH
Q psy4132 374 NSCLALDKLPDSPIYLKTYSSGVKVLQLKSCEDASFVEKTYEIVSQNVFVTVEQFSRLASVSLVIAKHRLLL 445 (473)
Q Consensus 374 ~~~~~~D~~~dg~Is~~EF~~~~~vl~~~~~~~~~~~~~~~~~~~~~~~ls~~e~a~~~~~s~~~~~~~l~~ 445 (473)
..+..+-. +-+.+++++..-+.+.-.....-..+.+.+.+.+.. |..|..++++.+|+|..+.+....-
T Consensus 76 tsYs~vqa--NFqcs~~DLsdii~i~f~~deel~~~~e~i~~~v~~-Gn~Sl~~lsr~l~~sp~firglAKR 144 (160)
T PF09824_consen 76 TSYSKVQA--NFQCSMEDLSDIIYIAFMSDEELRDYVEKIEKEVEA-GNTSLSDLSRKLGISPVFIRGLAKR 144 (160)
T ss_pred hhHhheee--eeEeeHHHHHHHHheeecCHHHHHHHHHHHHHHHHc-CCCcHHHHHHHhCCCHHHHHHHHHh
Confidence 33444433 346677777665554333221114556666666655 8999999999999999988876543
No 382
>PRK10079 phosphonate metabolism transcriptional regulator PhnF; Provisional
Probab=20.60 E-value=1.2e+02 Score=28.46 Aligned_cols=33 Identities=15% Similarity=0.069 Sum_probs=31.0
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
|..++|+.+|+|-..+++-|...+.+|+|.|-.
T Consensus 37 sE~eLa~~~~VSR~TVR~Al~~L~~eGli~r~~ 69 (241)
T PRK10079 37 AEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQ 69 (241)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEec
Confidence 678899999999999999999999999999866
No 383
>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=20.59 E-value=1.2e+02 Score=28.22 Aligned_cols=33 Identities=15% Similarity=0.103 Sum_probs=31.2
Q ss_pred CHHHHHHhhCCcHHHHHHHHHHHHHcCCccccC
Q psy4132 424 TVEQFSRLASVSLVIAKHRLLLAETHGKLCRDQ 456 (473)
Q Consensus 424 s~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d~ 456 (473)
|..|+|+.+++|-...++-|..++.+|+|.|-.
T Consensus 34 sE~eLa~~~~VSR~TvR~Al~~L~~eGli~r~~ 66 (238)
T TIGR02325 34 AEMQLAERFGVNRHTVRRAIAALVERGLLRAEQ 66 (238)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEec
Confidence 778999999999999999999999999999865
No 384
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=20.45 E-value=1.7e+02 Score=27.27 Aligned_cols=36 Identities=17% Similarity=0.112 Sum_probs=33.9
Q ss_pred CCCCCHHHHHHhhCCcHHHHHHHHHHHHHcCCcccc
Q psy4132 420 NVFVTVEQFSRLASVSLVIAKHRLLLAETHGKLCRD 455 (473)
Q Consensus 420 ~~~ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~~d 455 (473)
...++..++|..+|+|-.-.+|-|...+..|+|++.
T Consensus 37 G~~l~e~~La~~~gvSrtPVReAL~rL~~eGlv~~~ 72 (230)
T COG1802 37 GERLSEEELAEELGVSRTPVREALRRLEAEGLVEIE 72 (230)
T ss_pred CCCccHHHHHHHhCCCCccHHHHHHHHHHCCCeEec
Confidence 457999999999999999999999999999999976
No 385
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=20.38 E-value=1.6e+02 Score=24.83 Aligned_cols=40 Identities=18% Similarity=0.292 Sum_probs=29.9
Q ss_pred CCHHHHHHhhCCcHHHHHHHHHHHHHcCCcc-ccCCccccccccc
Q psy4132 423 VTVEQFSRLASVSLVIAKHRLLLAETHGKLC-RDQSIEGLRFYEN 466 (473)
Q Consensus 423 ls~~e~a~~~~~s~~~~~~~l~~~~~~g~l~-~d~~~~g~~~~~n 466 (473)
++..|+|+..|+|+. .|..=|..|.|. -..+..|.|+|.-
T Consensus 1 m~I~e~a~~~gvs~~----tlR~Ye~~GLl~~~~r~~~gyR~Y~~ 41 (127)
T TIGR02047 1 MKIGELAQKTGVSVE----TIRFYEKQGLLPPPARTDNNYRVYTV 41 (127)
T ss_pred CcHHHHHHHHCcCHH----HHHHHHHCCCCCCCCcCCCCCCcCCH
Confidence 367899999998875 566778999995 2234568999963
No 386
>KOG4403|consensus
Probab=20.36 E-value=1.2e+02 Score=31.10 Aligned_cols=78 Identities=9% Similarity=0.099 Sum_probs=0.0
Q ss_pred CCCCcccHHHHHHHHhhcccCCCcH---HHHHHHhHHhcCCCCchhhHhhHHHHHHHHhc----------hhhcCCCccc
Q psy4132 284 DRNGEVDFKEFIQGVSQFSVKGDRE---SKLKFAFRIYDIDNDDDYYQALGNELIAALIE----------PLTSAGGTML 350 (473)
Q Consensus 284 d~dG~I~~~EF~~~l~~~~~~~~~~---e~l~~~F~~~D~d~dg~~~~~e~~el~~~L~~----------~~~~~~g~i~ 350 (473)
.|+...+-.|||......+...... +.++.+-+..|.|.+|++..+|.++++.-=.. .+...+..|+
T Consensus 40 agds~at~nefc~~~~~~c~s~~dklg~EAir~iHrqmDDD~nG~Id~~ESdeFlrEdmky~~~~~kr~~~fH~dD~~It 119 (575)
T KOG4403|consen 40 AGDSRATRNEFCEVDAPECKSEQDKLGYEAIRDIHRQMDDDHNGSIDVEESDEFLREDMKYRDSTRKRSEKFHGDDKHIT 119 (575)
T ss_pred cCCchhhhccchhcCCchhhcccchhhHHHHHHHHHhcccccCCCcccccchHHHHHHhhcccchhhhhhhccCCcccee
Q ss_pred hhHHHHHHHhh
Q psy4132 351 LTDAYCRINRA 361 (473)
Q Consensus 351 l~d~~~~~~~~ 361 (473)
..|+|.+|.+.
T Consensus 120 VedLWeaW~~S 130 (575)
T KOG4403|consen 120 VEDLWEAWKES 130 (575)
T ss_pred HHHHHHHHHhh
No 387
>PF00404 Dockerin_1: Dockerin type I repeat; InterPro: IPR018242 Gram-positive, thermophilic anaerobes such as Clostridium thermocellum or Clostridium cellulolyticum secretes a highly active and thermostable cellulase complex (cellulosome) responsible for the degradation of crystalline cellulose [, ]. The cellulosome contains at least 30 polypeptides, the majority of the enzymes are endoglucanases (3.2.1.4 from EC), but there are also some xylanases (3.2.1.8 from EC), beta-glucosidases (3.2.1.21 from EC) and endo-beta-1,3-1,4-glucanases (3.2.1.73 from EC). Complete sequence data for many of these enzymes has been obtained. A majority of these proteins contain a highly conserved type I dockerin domain of about 65 to 70 residues, which is generally (but not always) located in the C terminus. The dockerin domain is the binding partner of the cohesin domain (see IPR002102 from INTERPRO). The cohesin-dockerin interaction is the crucial interaction for complex formation in the cellulosome []. The dockerin domain contains a tandem repeat of two calcium-binding loop-helix motifs (distinct from EF-hand Ca-binding motifs). These motifs are about 24 amino acids in length. This entry represents these repeated Ca-binding motifs.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3P0D_J 1OHZ_B 2CCL_B 1DAV_A 1DAQ_A 2VN5_B 2VN6_B.
Probab=20.32 E-value=89 Score=17.64 Aligned_cols=14 Identities=29% Similarity=0.574 Sum_probs=6.8
Q ss_pred cCCCCCceeHHHHH
Q psy4132 210 NKDRDGKINFQEFC 223 (473)
Q Consensus 210 D~d~dG~I~f~EF~ 223 (473)
|.|+||.|+--++.
T Consensus 1 DvN~DG~vna~D~~ 14 (21)
T PF00404_consen 1 DVNGDGKVNAIDLA 14 (21)
T ss_dssp -TTSSSSSSHHHHH
T ss_pred CCCCCCcCCHHHHH
Confidence 34555555555543
No 388
>PF09106 SelB-wing_2: Elongation factor SelB, winged helix ; InterPro: IPR015190 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 2". 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: 2V9V_A 1LVA_A 2PLY_A 2UWM_A.
Probab=20.32 E-value=1.3e+02 Score=21.42 Aligned_cols=37 Identities=11% Similarity=0.015 Sum_probs=30.9
Q ss_pred CCCCHHHHHHhh---CCcHHHHHHHHHHHHHcCCccccCC
Q psy4132 421 VFVTVEQFSRLA---SVSLVIAKHRLLLAETHGKLCRDQS 457 (473)
Q Consensus 421 ~~ls~~e~a~~~---~~s~~~~~~~l~~~~~~g~l~~d~~ 457 (473)
.|++-+++...+ +.+..+....|+.++++|.|..++.
T Consensus 16 ~G~~keeLrsrl~~~~l~~k~~~~ll~~l~~~g~l~~~g~ 55 (59)
T PF09106_consen 16 PGMPKEELRSRLFKPRLPPKLFNALLEALVAEGRLKVEGD 55 (59)
T ss_dssp S-EEHHHHHHHCST-TS-HCCHHHHHHHHHHTTSEEEESS
T ss_pred cCcCHHHHHHHHhhccCCHHHHHHHHHHHHHCCCeeeECC
Confidence 589999999766 7899999999999999999988764
No 389
>KOG1265|consensus
Probab=20.15 E-value=3.9e+02 Score=30.40 Aligned_cols=94 Identities=12% Similarity=0.078 Sum_probs=55.9
Q ss_pred cchhHHHHHHHhhhCCCCCCHHHHHHHHHHhccCCCCCeeHHhhhccceeeeeccc--------CcHHHHHHHHHHHh--
Q psy4132 349 MLLTDAYCRINRARGLELLSPEDLLNSCLALDKLPDSPIYLKTYSSGVKVLQLKSC--------EDASFVEKTYEIVS-- 418 (473)
Q Consensus 349 i~l~d~~~~~~~~~g~~~ls~~ei~~~~~~~D~~~dg~Is~~EF~~~~~vl~~~~~--------~~~~~~~~~~~~~~-- 418 (473)
.++..++..+++.++ -.+++++|..+-.++...+|.+++...+.--|.... -+..-+..|.+-.+
T Consensus 205 f~~e~f~~~l~klcp-----R~eie~iF~ki~~~~kpylT~~ql~dfln~~QrDpRLNeilfp~~~~~r~~~liekyEp~ 279 (1189)
T KOG1265|consen 205 FTLEKFYRLLNKLCP-----RPEIEEIFRKISGKKKPYLTKEQLVDFLNKKQRDPRLNEILFPPADPRRIQSLIEKYEPN 279 (1189)
T ss_pred ccHHHHHHHHHhcCC-----chhHHHHHHHhccCCCccccHHHHHHHHhhhccCcchhhhhcCCCCHHHHHHHHHHcCCc
Confidence 466677777777654 356888898888887778888888777652222111 11222222322222
Q ss_pred ----hCCCCCHHHHHHhhCC--cHHHHHHHHHHHH
Q psy4132 419 ----QNVFVTVEQFSRLASV--SLVIAKHRLLLAE 447 (473)
Q Consensus 419 ----~~~~ls~~e~a~~~~~--s~~~~~~~l~~~~ 447 (473)
..|.+|.+-|.+-+.- -..++.+.|+...
T Consensus 280 ~~~a~~gqms~dgf~ryl~gdEn~i~a~~~l~l~~ 314 (1189)
T KOG1265|consen 280 SDNAEKGQMSTDGFVRYLMGDENAIVALDKLDLVT 314 (1189)
T ss_pred hhhhhccccchhhhHHHhhCCccccccHHHHHhhh
Confidence 1367788888777754 4455666666544
Done!