Query 010753
Match_columns 502
No_of_seqs 237 out of 506
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 04:10:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010753.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010753hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03086 PRLI-interacting fact 100.0 2E-140 4E-145 1131.4 53.5 498 1-501 1-502 (567)
2 KOG1816 Ubiquitin fusion-degra 100.0 1.2E-63 2.7E-68 492.6 24.3 256 73-359 9-274 (308)
3 PF03152 UFD1: Ubiquitin fusio 100.0 5.4E-59 1.2E-63 439.1 17.2 166 77-260 1-176 (176)
4 COG5140 UFD1 Ubiquitin fusion- 100.0 3.6E-48 7.9E-53 374.6 17.4 160 89-266 43-205 (331)
5 PLN03086 PRLI-interacting fact 99.3 1.2E-09 2.7E-14 119.6 29.5 85 408-496 451-557 (567)
6 KOG2462 C2H2-type Zn-finger pr 99.3 1.6E-12 3.4E-17 129.6 3.1 90 407-500 158-268 (279)
7 KOG2462 C2H2-type Zn-finger pr 99.0 1.3E-10 2.9E-15 116.0 2.4 90 405-496 125-231 (279)
8 KOG3623 Homeobox transcription 98.6 6.7E-09 1.4E-13 114.2 -1.0 83 409-493 209-322 (1007)
9 KOG3576 Ovo and related transc 98.5 2.6E-08 5.7E-13 96.1 0.2 86 405-492 112-224 (267)
10 KOG3623 Homeobox transcription 98.4 2.7E-08 5.9E-13 109.5 -1.9 65 409-493 893-963 (1007)
11 PHA02768 hypothetical protein; 98.4 1.3E-07 2.9E-12 73.7 1.7 40 457-496 6-47 (55)
12 KOG3576 Ovo and related transc 98.1 3.2E-07 6.8E-12 88.8 -1.1 61 433-495 114-188 (267)
13 PHA00733 hypothetical protein 98.0 2E-06 4.3E-11 78.2 1.3 72 407-480 37-124 (128)
14 KOG3608 Zn finger proteins [Ge 97.9 1.5E-06 3.1E-11 89.9 -1.2 88 407-496 204-308 (467)
15 KOG3608 Zn finger proteins [Ge 97.8 6.7E-06 1.5E-10 85.1 1.4 81 410-492 263-364 (467)
16 KOG1074 Transcriptional repres 97.8 1.2E-05 2.6E-10 90.5 2.7 83 407-491 602-720 (958)
17 PHA00732 hypothetical protein 97.6 2.9E-05 6.3E-10 65.1 2.3 38 457-494 2-41 (79)
18 PHA02768 hypothetical protein; 97.6 3.3E-05 7.1E-10 60.5 1.8 41 410-453 5-47 (55)
19 PHA00733 hypothetical protein 97.4 4.4E-05 9.5E-10 69.4 0.8 64 431-496 35-115 (128)
20 KOG3993 Transcription factor ( 97.1 8.7E-05 1.9E-09 78.5 -1.0 73 406-480 263-381 (500)
21 PF13465 zf-H2C2_2: Zinc-finge 96.9 0.00054 1.2E-08 45.5 1.9 24 424-449 1-25 (26)
22 PF13465 zf-H2C2_2: Zinc-finge 96.9 0.00043 9.2E-09 46.0 1.4 23 470-492 1-26 (26)
23 KOG1074 Transcriptional repres 96.7 0.00067 1.5E-08 76.9 1.3 50 407-458 350-402 (958)
24 PHA00616 hypothetical protein 96.0 0.0022 4.7E-08 48.2 0.4 29 457-485 2-33 (44)
25 PF13894 zf-C2H2_4: C2H2-type 96.0 0.0029 6.3E-08 39.6 1.0 23 457-479 1-24 (24)
26 KOG3993 Transcription factor ( 95.9 0.0013 2.9E-08 69.8 -1.3 57 437-496 268-372 (500)
27 PF05605 zf-Di19: Drought indu 95.9 0.0061 1.3E-07 47.1 2.5 51 409-480 1-54 (54)
28 PF00096 zf-C2H2: Zinc finger, 95.7 0.003 6.6E-08 40.0 0.3 21 457-477 1-22 (23)
29 PTZ00266 NIMA-related protein 95.7 0.048 1E-06 64.7 10.1 9 11-19 462-470 (1021)
30 KOG2186 Cell growth-regulating 95.4 0.0068 1.5E-07 60.8 1.3 48 410-459 3-50 (276)
31 PHA00732 hypothetical protein 94.9 0.011 2.5E-07 49.6 1.3 37 410-450 1-39 (79)
32 PHA00616 hypothetical protein 94.9 0.011 2.3E-07 44.6 0.8 31 410-440 1-33 (44)
33 PF02933 CDC48_2: Cell divisio 94.7 0.1 2.2E-06 41.5 6.1 41 216-256 17-58 (64)
34 PF12756 zf-C2H2_2: C2H2 type 94.5 0.017 3.8E-07 48.1 1.5 69 412-480 1-76 (100)
35 PF02176 zf-TRAF: TRAF-type zi 94.4 0.015 3.3E-07 45.1 0.7 47 410-456 9-60 (60)
36 KOG1029 Endocytic adaptor prot 94.3 0.27 5.8E-06 56.2 10.4 25 203-227 695-721 (1118)
37 PF05605 zf-Di19: Drought indu 94.2 0.026 5.7E-07 43.6 1.8 36 457-492 3-43 (54)
38 PF13913 zf-C2HC_2: zinc-finge 93.3 0.045 9.8E-07 36.2 1.3 23 410-432 2-24 (25)
39 KOG1029 Endocytic adaptor prot 93.1 0.52 1.1E-05 54.0 10.0 21 215-235 829-849 (1118)
40 PF13912 zf-C2H2_6: C2H2-type 92.8 0.044 9.5E-07 36.0 0.7 23 457-479 2-25 (27)
41 smart00355 ZnF_C2H2 zinc finge 92.5 0.072 1.6E-06 33.4 1.5 21 457-477 1-22 (26)
42 PF02176 zf-TRAF: TRAF-type zi 92.3 0.047 1E-06 42.3 0.5 47 428-474 1-60 (60)
43 TIGR01243 CDC48 AAA family ATP 91.4 5.8 0.00012 45.8 16.1 136 86-246 11-149 (733)
44 KOG3654 Uncharacterized CH dom 91.3 0.58 1.3E-05 51.3 7.4 44 4-47 406-449 (708)
45 PF13913 zf-C2HC_2: zinc-finge 91.1 0.13 2.9E-06 34.0 1.5 21 457-477 3-23 (25)
46 KOG0163 Myosin class VI heavy 91.1 0.92 2E-05 52.1 8.9 16 422-437 1225-1240(1259)
47 KOG2412 Nuclear-export-signal 91.1 0.77 1.7E-05 50.8 8.2 35 18-52 207-241 (591)
48 PF13912 zf-C2H2_6: C2H2-type 90.9 0.11 2.4E-06 34.0 1.0 21 410-430 1-22 (27)
49 PTZ00121 MAEBL; Provisional 90.8 1.2 2.5E-05 54.3 9.8 22 12-33 1607-1628(2084)
50 COG5189 SFP1 Putative transcri 90.3 0.12 2.6E-06 53.6 1.2 60 433-493 346-411 (423)
51 PRK11029 FtsH protease regulat 89.6 0.73 1.6E-05 48.6 6.3 93 8-100 223-320 (334)
52 KOG1144 Translation initiation 88.4 3 6.5E-05 48.3 10.3 9 70-78 302-310 (1064)
53 KOG0735 AAA+-type ATPase [Post 88.1 5.9 0.00013 45.9 12.3 153 89-262 12-169 (952)
54 PRK00247 putative inner membra 87.4 3.2 6.9E-05 45.3 9.5 36 35-70 349-384 (429)
55 PRK04860 hypothetical protein; 87.2 0.38 8.2E-06 45.6 2.1 36 410-450 119-155 (160)
56 PF00096 zf-C2H2: Zinc finger, 87.0 0.13 2.8E-06 32.4 -0.8 18 437-456 1-19 (23)
57 KOG0163 Myosin class VI heavy 86.7 3.5 7.7E-05 47.5 9.6 13 57-69 992-1004(1259)
58 PRK04860 hypothetical protein; 86.2 0.41 8.9E-06 45.4 1.8 34 457-493 120-156 (160)
59 PF05502 Dynactin_p62: Dynacti 86.1 0.37 7.9E-06 53.2 1.6 44 405-450 21-64 (483)
60 PF09262 PEX-1N: Peroxisome bi 85.9 0.46 9.9E-06 40.1 1.8 74 186-259 1-80 (80)
61 PF06936 Selenoprotein_S: Sele 85.5 3.1 6.8E-05 40.6 7.5 43 39-81 91-136 (190)
62 PRK14890 putative Zn-ribbon RN 85.5 0.74 1.6E-05 36.8 2.6 29 409-447 6-34 (59)
63 COG2888 Predicted Zn-ribbon RN 85.3 0.75 1.6E-05 36.8 2.6 11 410-420 9-19 (61)
64 KOG2002 TPR-containing nuclear 84.7 6.1 0.00013 46.8 10.5 46 7-52 821-867 (1018)
65 KOG2412 Nuclear-export-signal 83.7 5.6 0.00012 44.3 9.2 42 14-55 213-255 (591)
66 KOG3054 Uncharacterized conser 83.5 6.2 0.00013 40.1 8.6 64 9-72 108-179 (299)
67 KOG2231 Predicted E3 ubiquitin 83.2 0.47 1E-05 54.0 0.9 22 458-479 184-206 (669)
68 KOG4661 Hsp27-ERE-TATA-binding 83.0 8.2 0.00018 43.3 10.1 20 196-215 728-747 (940)
69 PF12874 zf-met: Zinc-finger o 83.0 0.51 1.1E-05 30.2 0.6 21 457-477 1-22 (25)
70 PRK04023 DNA polymerase II lar 82.9 0.9 1.9E-05 53.7 3.0 54 405-492 621-675 (1121)
71 PF09538 FYDLN_acid: Protein o 82.1 0.61 1.3E-05 41.5 1.0 15 434-450 24-38 (108)
72 PRK00398 rpoP DNA-directed RNA 82.0 0.89 1.9E-05 34.0 1.7 29 436-466 3-31 (46)
73 PF09986 DUF2225: Uncharacteri 81.2 0.83 1.8E-05 45.1 1.7 11 457-467 49-59 (214)
74 TIGR02098 MJ0042_CXXC MJ0042 f 81.1 1 2.2E-05 32.1 1.7 9 457-465 26-34 (38)
75 TIGR01932 hflC HflC protein. H 80.8 3.2 6.9E-05 43.2 5.9 22 9-30 214-235 (317)
76 PF09723 Zn-ribbon_8: Zinc rib 80.6 1.1 2.4E-05 33.0 1.8 25 437-464 6-34 (42)
77 PF14353 CpXC: CpXC protein 80.4 0.4 8.7E-06 43.1 -0.8 11 411-421 2-12 (128)
78 PF12756 zf-C2H2_2: C2H2 type 80.0 0.66 1.4E-05 38.5 0.5 56 438-496 1-66 (100)
79 PF13909 zf-H2C2_5: C2H2-type 79.9 0.83 1.8E-05 29.2 0.8 24 457-480 1-24 (24)
80 COG2888 Predicted Zn-ribbon RN 79.8 1.2 2.6E-05 35.7 1.8 31 410-445 27-57 (61)
81 PF04696 Pinin_SDK_memA: pinin 79.5 19 0.00042 32.9 9.9 40 10-49 21-60 (131)
82 PF10571 UPF0547: Uncharacteri 79.3 0.95 2.1E-05 30.4 0.9 10 412-421 2-11 (26)
83 PF11875 DUF3395: Domain of un 79.2 36 0.00079 31.9 11.8 20 223-242 126-147 (151)
84 PF07946 DUF1682: Protein of u 78.7 7.4 0.00016 40.7 7.8 10 58-67 306-315 (321)
85 KOG2907 RNA polymerase I trans 78.7 1 2.3E-05 40.3 1.3 13 481-493 102-115 (116)
86 KOG4661 Hsp27-ERE-TATA-binding 78.2 11 0.00023 42.5 8.9 29 22-50 626-654 (940)
87 TIGR02098 MJ0042_CXXC MJ0042 f 77.4 1.3 2.9E-05 31.4 1.3 33 411-448 3-35 (38)
88 PF12171 zf-C2H2_jaz: Zinc-fin 77.2 1.2 2.6E-05 29.4 1.0 21 457-477 2-23 (27)
89 smart00504 Ubox Modified RING 76.9 1.5 3.3E-05 33.9 1.6 24 444-467 19-46 (63)
90 PF13719 zinc_ribbon_5: zinc-r 76.8 1.7 3.7E-05 31.3 1.7 9 412-420 4-12 (37)
91 KOG3054 Uncharacterized conser 76.5 16 0.00034 37.3 8.9 10 75-84 176-185 (299)
92 KOG2072 Translation initiation 76.3 19 0.00041 42.2 10.5 9 8-16 777-785 (988)
93 PF13894 zf-C2H2_4: C2H2-type 76.1 0.62 1.3E-05 28.7 -0.6 18 437-456 1-19 (24)
94 TIGR00570 cdk7 CDK-activating 75.8 24 0.00052 37.0 10.4 55 6-60 116-170 (309)
95 KOG3654 Uncharacterized CH dom 75.4 6.1 0.00013 43.7 6.2 6 340-345 688-693 (708)
96 PRK06266 transcription initiat 75.4 1.2 2.7E-05 42.8 0.9 14 408-421 115-128 (178)
97 COG4530 Uncharacterized protei 75.0 1 2.2E-05 40.3 0.2 33 411-454 10-42 (129)
98 TIGR00373 conserved hypothetic 75.0 1.2 2.7E-05 41.9 0.8 14 408-421 107-120 (158)
99 PRK09510 tolA cell envelope in 75.0 26 0.00057 37.9 10.8 59 161-222 313-372 (387)
100 PF09831 DUF2058: Uncharacteri 74.3 14 0.0003 35.9 7.7 18 151-168 127-144 (177)
101 KOG1144 Translation initiation 73.9 17 0.00038 42.3 9.4 8 353-360 791-798 (1064)
102 TIGR02300 FYDLN_acid conserved 73.7 1.6 3.4E-05 40.1 1.1 29 411-450 10-38 (129)
103 TIGR01933 hflK HflK protein. H 73.4 7.4 0.00016 38.9 6.0 8 92-99 244-251 (261)
104 PRK06231 F0F1 ATP synthase sub 73.4 42 0.0009 33.0 11.0 39 6-44 95-134 (205)
105 PRK09174 F0F1 ATP synthase sub 73.2 38 0.00082 33.3 10.7 26 6-31 100-125 (204)
106 PRK13455 F0F1 ATP synthase sub 73.2 40 0.00087 32.2 10.7 21 9-29 77-97 (184)
107 COG1198 PriA Primosomal protei 73.1 1.3 2.8E-05 51.2 0.5 9 481-489 475-484 (730)
108 KOG4173 Alpha-SNAP protein [In 73.0 0.41 8.8E-06 47.2 -3.0 21 460-480 150-171 (253)
109 smart00834 CxxC_CXXC_SSSS Puta 72.6 2.4 5.3E-05 30.2 1.7 26 437-464 6-34 (41)
110 PRK00464 nrdR transcriptional 72.6 1.8 3.9E-05 40.9 1.2 12 437-450 29-40 (154)
111 KOG3634 Troponin [Cytoskeleton 72.0 8.7 0.00019 40.5 6.1 24 11-34 114-137 (361)
112 KOG1363 Predicted regulator of 71.8 16 0.00034 40.4 8.3 28 14-41 306-335 (460)
113 PRK13730 conjugal transfer pil 71.3 7.5 0.00016 38.5 5.2 138 9-179 30-169 (212)
114 smart00531 TFIIE Transcription 71.2 1.8 3.8E-05 40.2 0.8 39 407-449 96-134 (147)
115 TIGR00595 priA primosomal prot 70.9 1.9 4.2E-05 47.7 1.2 44 411-464 214-261 (505)
116 KOG4709 Uncharacterized conser 70.6 13 0.00029 36.5 6.6 39 34-72 48-86 (217)
117 PF01286 XPA_N: XPA protein N- 70.2 2.8 6E-05 30.0 1.5 25 437-463 4-28 (34)
118 PF06936 Selenoprotein_S: Sele 70.1 47 0.001 32.6 10.4 22 16-37 81-102 (190)
119 PF08209 Sgf11: Sgf11 (transcr 69.9 2.9 6.2E-05 29.7 1.5 25 409-433 3-27 (33)
120 PF09726 Macoilin: Transmembra 69.7 25 0.00055 40.8 9.8 15 7-21 492-506 (697)
121 PRK10884 SH3 domain-containing 69.3 43 0.00093 33.1 10.1 45 35-79 139-183 (206)
122 TIGR02605 CxxC_CxxC_SSSS putat 68.7 3.2 7E-05 31.4 1.7 25 437-463 6-33 (52)
123 PF09538 FYDLN_acid: Protein o 68.7 3 6.4E-05 37.2 1.7 27 437-467 10-37 (108)
124 KOG2072 Translation initiation 68.0 37 0.00079 40.0 10.4 27 10-36 790-816 (988)
125 PRK08476 F0F1 ATP synthase sub 67.8 81 0.0017 29.0 11.0 26 6-31 54-79 (141)
126 PF13717 zinc_ribbon_4: zinc-r 67.8 3.6 7.8E-05 29.5 1.6 8 413-420 5-12 (36)
127 PRK13454 F0F1 ATP synthase sub 67.6 71 0.0015 30.6 11.0 39 5-43 77-116 (181)
128 PHA00626 hypothetical protein 67.3 2.1 4.6E-05 34.0 0.4 31 412-450 2-35 (59)
129 KOG2002 TPR-containing nuclear 67.2 30 0.00065 41.3 9.6 63 11-73 817-881 (1018)
130 PRK14472 F0F1 ATP synthase sub 67.1 77 0.0017 30.0 11.1 35 9-43 68-103 (175)
131 PF13719 zinc_ribbon_5: zinc-r 66.7 3.5 7.6E-05 29.6 1.4 28 437-466 3-35 (37)
132 KOG0297 TNF receptor-associate 66.5 2.6 5.7E-05 45.3 1.1 82 409-493 85-181 (391)
133 PF04151 PPC: Bacterial pre-pe 65.6 39 0.00085 26.8 7.5 68 290-374 2-70 (70)
134 cd00350 rubredoxin_like Rubred 65.5 4.6 0.0001 28.2 1.8 23 437-463 2-24 (33)
135 cd00730 rubredoxin Rubredoxin; 65.5 4 8.6E-05 31.6 1.6 25 437-463 2-41 (50)
136 smart00531 TFIIE Transcription 65.4 4.1 9E-05 37.7 2.0 32 434-467 97-134 (147)
137 TIGR02794 tolA_full TolA prote 65.0 38 0.00083 36.0 9.4 20 173-192 284-303 (346)
138 PF03145 Sina: Seven in absent 65.0 3.1 6.8E-05 40.1 1.2 32 410-441 14-49 (198)
139 PF09237 GAGA: GAGA factor; I 64.7 3.1 6.7E-05 32.6 0.8 23 458-480 26-49 (54)
140 PF09805 Nop25: Nucleolar prot 64.7 23 0.0005 32.7 6.8 13 25-37 30-42 (137)
141 PRK06568 F0F1 ATP synthase sub 64.4 87 0.0019 29.7 10.7 39 5-43 50-89 (154)
142 PRK13460 F0F1 ATP synthase sub 64.4 92 0.002 29.4 11.0 37 8-44 65-102 (173)
143 PRK14475 F0F1 ATP synthase sub 64.3 83 0.0018 29.6 10.7 26 6-31 57-82 (167)
144 PF05191 ADK_lid: Adenylate ki 64.2 4.6 0.0001 29.1 1.6 27 437-465 2-30 (36)
145 PF09986 DUF2225: Uncharacteri 64.2 3.5 7.6E-05 40.7 1.4 43 409-453 4-63 (214)
146 PRK14890 putative Zn-ribbon RN 63.8 4.1 8.9E-05 32.7 1.4 10 410-419 25-34 (59)
147 PRK14559 putative protein seri 63.7 5 0.00011 46.0 2.7 10 412-421 3-12 (645)
148 COG3122 Uncharacterized protei 63.6 68 0.0015 31.4 9.7 21 88-108 163-183 (215)
149 COG1997 RPL43A Ribosomal prote 63.4 3.6 7.8E-05 35.4 1.1 32 434-467 33-64 (89)
150 PRK09510 tolA cell envelope in 63.2 52 0.0011 35.6 10.0 15 200-214 301-315 (387)
151 smart00661 RPOL9 RNA polymeras 62.4 4.6 9.9E-05 30.3 1.4 27 439-467 3-31 (52)
152 PRK14873 primosome assembly pr 61.8 3.5 7.6E-05 47.4 1.0 46 409-465 382-431 (665)
153 PRK07352 F0F1 ATP synthase sub 61.7 1.1E+02 0.0024 28.9 11.0 21 8-28 68-88 (174)
154 PRK05580 primosome assembly pr 61.6 3.9 8.4E-05 47.0 1.3 47 409-465 380-430 (679)
155 PRK14474 F0F1 ATP synthase sub 61.2 84 0.0018 31.8 10.7 13 95-107 159-171 (250)
156 TIGR03321 alt_F1F0_F0_B altern 61.2 95 0.0021 31.1 11.0 37 10-46 56-93 (246)
157 PRK06568 F0F1 ATP synthase sub 61.2 94 0.002 29.4 10.2 32 11-42 43-74 (154)
158 PRK13453 F0F1 ATP synthase sub 60.7 1.2E+02 0.0025 28.8 11.0 40 7-46 66-106 (173)
159 PLN02316 synthase/transferase 60.7 42 0.00092 40.7 9.6 13 217-229 486-498 (1036)
160 CHL00118 atpG ATP synthase CF0 60.5 1.3E+02 0.0027 28.1 11.0 19 9-27 72-90 (156)
161 PF13717 zinc_ribbon_4: zinc-r 60.5 5.5 0.00012 28.5 1.5 28 437-466 3-35 (36)
162 CHL00019 atpF ATP synthase CF0 60.3 1.2E+02 0.0025 29.0 11.0 34 10-43 75-109 (184)
163 COG1198 PriA Primosomal protei 60.0 4.5 9.7E-05 47.0 1.5 46 410-465 435-484 (730)
164 COG4530 Uncharacterized protei 60.0 5.7 0.00012 35.7 1.8 33 437-473 10-43 (129)
165 smart00659 RPOLCX RNA polymera 59.7 5.5 0.00012 29.9 1.4 11 411-421 3-13 (44)
166 PF08790 zf-LYAR: LYAR-type C2 59.5 4.7 0.0001 27.7 0.9 21 437-459 1-21 (28)
167 PF00301 Rubredoxin: Rubredoxi 59.4 6.9 0.00015 29.9 1.9 25 437-463 2-41 (47)
168 COG3064 TolA Membrane protein 58.3 42 0.0009 35.5 7.9 36 161-196 313-348 (387)
169 smart00451 ZnF_U1 U1-like zinc 58.0 6.6 0.00014 26.9 1.5 20 457-476 4-24 (35)
170 KOG2186 Cell growth-regulating 57.9 4 8.7E-05 41.5 0.6 13 444-456 9-21 (276)
171 PF11208 DUF2992: Protein of u 57.8 51 0.0011 30.5 7.7 30 19-48 85-114 (132)
172 PF09845 DUF2072: Zn-ribbon co 57.7 5.7 0.00012 36.7 1.4 15 411-425 2-16 (131)
173 COG1998 RPS31 Ribosomal protei 57.4 4.4 9.5E-05 31.4 0.6 7 457-463 38-44 (51)
174 TIGR02300 FYDLN_acid conserved 57.3 6.5 0.00014 36.1 1.7 27 437-467 10-37 (129)
175 PF14353 CpXC: CpXC protein 56.3 8.6 0.00019 34.5 2.4 39 437-477 2-60 (128)
176 PRK14714 DNA polymerase II lar 56.1 7.5 0.00016 47.4 2.4 58 406-492 663-721 (1337)
177 PHA00626 hypothetical protein 55.7 8.2 0.00018 30.7 1.8 7 438-446 2-8 (59)
178 KOG2357 Uncharacterized conser 55.7 38 0.00083 36.9 7.4 8 48-55 413-420 (440)
179 TIGR02794 tolA_full TolA prote 55.2 75 0.0016 33.8 9.5 11 202-212 262-272 (346)
180 KOG4031 Vesicle coat protein c 54.9 66 0.0014 32.0 8.2 74 10-86 109-187 (216)
181 COG4942 Membrane-bound metallo 54.8 1.1E+02 0.0023 33.7 10.6 10 221-230 352-361 (420)
182 PRK08475 F0F1 ATP synthase sub 54.8 1.7E+02 0.0037 27.6 11.0 18 10-27 73-90 (167)
183 PF14265 DUF4355: Domain of un 54.7 77 0.0017 28.2 8.2 20 44-63 49-68 (125)
184 PRK06266 transcription initiat 54.4 6.4 0.00014 37.9 1.3 31 435-467 116-147 (178)
185 PF05672 MAP7: MAP7 (E-MAP-115 54.0 1E+02 0.0022 29.9 9.2 25 11-35 33-58 (171)
186 COG5189 SFP1 Putative transcri 54.0 7.7 0.00017 40.8 1.8 69 406-476 345-419 (423)
187 PF05837 CENP-H: Centromere pr 53.7 1.3E+02 0.0027 26.6 9.2 75 6-80 13-94 (106)
188 TIGR00100 hypA hydrogenase nic 53.7 7.6 0.00016 34.7 1.6 15 408-422 68-82 (115)
189 PF01780 Ribosomal_L37ae: Ribo 53.7 4.6 0.0001 35.0 0.2 31 435-467 34-64 (90)
190 PF12999 PRKCSH-like: Glucosid 53.5 87 0.0019 30.4 8.8 13 52-64 161-173 (176)
191 PRK14471 F0F1 ATP synthase sub 53.5 1.9E+02 0.0041 26.9 11.1 21 9-29 58-78 (164)
192 PF04641 Rtf2: Rtf2 RING-finge 53.3 9.4 0.0002 38.7 2.4 50 406-467 109-161 (260)
193 TIGR00373 conserved hypothetic 53.2 7.2 0.00016 36.8 1.4 32 434-467 107-139 (158)
194 cd03405 Band_7_HflC Band_7_Hfl 53.0 1.1E+02 0.0024 29.9 9.8 22 9-30 159-180 (242)
195 PRK06569 F0F1 ATP synthase sub 52.7 1.3E+02 0.0029 28.5 9.7 21 18-38 41-61 (155)
196 COG4942 Membrane-bound metallo 52.3 1.2E+02 0.0026 33.2 10.6 9 153-161 340-348 (420)
197 KOG0782 Predicted diacylglycer 52.1 3.8 8.2E-05 45.9 -0.7 43 423-467 239-287 (1004)
198 PRK14473 F0F1 ATP synthase sub 52.0 1.8E+02 0.004 27.0 10.7 36 8-43 57-93 (164)
199 PF14943 MRP-S26: Mitochondria 51.9 1.5E+02 0.0033 28.5 10.1 6 114-119 158-163 (170)
200 PRK14714 DNA polymerase II lar 51.8 9.3 0.0002 46.6 2.3 40 411-466 680-719 (1337)
201 TIGR00280 L37a ribosomal prote 51.7 6.1 0.00013 34.3 0.6 32 434-467 33-64 (91)
202 KOG0341 DEAD-box protein abstr 50.8 44 0.00096 36.5 6.8 65 52-116 91-197 (610)
203 COG0068 HypF Hydrogenase matur 50.3 4.3 9.4E-05 46.6 -0.7 72 404-490 95-183 (750)
204 PTZ00255 60S ribosomal protein 50.3 7.1 0.00015 33.9 0.8 32 434-467 34-65 (90)
205 PF13025 DUF3886: Protein of u 50.0 38 0.00082 28.1 4.9 11 68-78 58-68 (70)
206 PRK14892 putative transcriptio 49.9 8.5 0.00018 33.9 1.2 12 456-467 42-53 (99)
207 PRK03824 hypA hydrogenase nick 49.8 9.8 0.00021 35.0 1.7 15 408-422 68-82 (135)
208 KOG2231 Predicted E3 ubiquitin 49.7 8.3 0.00018 44.3 1.4 46 411-456 183-231 (669)
209 PF02359 CDC48_N: Cell divisio 49.3 16 0.00034 30.7 2.7 69 151-227 14-82 (87)
210 cd03404 Band_7_HflK Band_7_Hfl 49.0 1.1E+02 0.0025 30.4 9.3 22 9-30 183-204 (266)
211 PF03604 DNA_RNApol_7kD: DNA d 48.8 14 0.00031 26.0 2.0 24 437-463 1-24 (32)
212 PF13904 DUF4207: Domain of un 48.6 86 0.0019 32.0 8.4 6 22-27 125-130 (264)
213 COG1996 RPC10 DNA-directed RNA 48.5 10 0.00022 29.3 1.3 26 436-463 6-31 (49)
214 COG3364 Zn-ribbon containing p 48.3 9.7 0.00021 33.8 1.3 15 411-425 3-17 (112)
215 PF03879 Cgr1: Cgr1 family; I 48.1 1.7E+02 0.0037 26.3 9.1 13 12-24 33-45 (108)
216 smart00659 RPOLCX RNA polymera 48.0 13 0.00027 28.0 1.7 25 436-463 2-26 (44)
217 PRK13461 F0F1 ATP synthase sub 47.8 2.3E+02 0.005 26.2 11.0 36 9-44 55-91 (159)
218 PRK03976 rpl37ae 50S ribosomal 47.5 7.7 0.00017 33.6 0.6 32 434-467 34-65 (90)
219 PRK01558 V-type ATP synthase s 47.5 2.6E+02 0.0057 27.2 11.3 23 1-23 1-23 (198)
220 PF04606 Ogr_Delta: Ogr/Delta- 47.4 11 0.00024 28.4 1.4 37 458-494 1-41 (47)
221 PRK01194 V-type ATP synthase s 46.9 1.9E+02 0.0041 27.9 10.1 16 53-68 68-83 (185)
222 KOG0742 AAA+-type ATPase [Post 46.5 1.4E+02 0.003 33.2 9.8 22 147-168 295-316 (630)
223 KOG3232 Vacuolar assembly/sort 46.3 2.2E+02 0.0048 27.8 10.1 64 4-67 20-89 (203)
224 PF13240 zinc_ribbon_2: zinc-r 46.1 9.3 0.0002 24.8 0.7 9 413-421 2-10 (23)
225 PRK07353 F0F1 ATP synthase sub 46.0 2.2E+02 0.0048 25.5 10.7 17 10-26 56-72 (140)
226 COG0777 AccD Acetyl-CoA carbox 45.9 12 0.00026 38.7 1.7 29 437-467 29-58 (294)
227 PF12171 zf-C2H2_jaz: Zinc-fin 45.7 8.4 0.00018 25.3 0.4 19 437-457 2-21 (27)
228 PF11789 zf-Nse: Zinc-finger o 45.5 13 0.00029 29.3 1.6 35 408-444 22-56 (57)
229 PRK00464 nrdR transcriptional 44.6 7.9 0.00017 36.6 0.2 29 437-467 1-39 (154)
230 TIGR00416 sms DNA repair prote 44.5 12 0.00026 41.0 1.6 26 435-467 6-31 (454)
231 PRK11823 DNA repair protein Ra 44.5 12 0.00027 40.8 1.7 23 435-463 6-28 (446)
232 COG0836 {ManC} Mannose-1-phosp 44.3 47 0.001 35.2 5.8 56 174-229 245-301 (333)
233 PRK09974 putative regulator Pr 44.0 82 0.0018 28.4 6.5 60 150-215 15-76 (111)
234 KOG1150 Predicted molecular ch 43.8 1.3E+02 0.0027 30.2 8.2 23 21-43 169-191 (250)
235 PRK05759 F0F1 ATP synthase sub 42.9 2.6E+02 0.0057 25.5 11.0 26 6-31 51-76 (156)
236 COG1997 RPL43A Ribosomal prote 42.9 12 0.00026 32.4 1.0 29 457-492 36-65 (89)
237 PLN02316 synthase/transferase 42.9 59 0.0013 39.5 7.0 10 113-122 389-398 (1036)
238 PRK09521 exosome complex RNA-b 42.9 69 0.0015 30.8 6.4 85 138-228 33-129 (189)
239 PF04795 PAPA-1: PAPA-1-like c 42.5 58 0.0013 27.9 5.2 12 88-99 74-85 (89)
240 PF09756 DDRGK: DDRGK domain; 42.4 8.3 0.00018 37.6 0.0 11 74-84 74-84 (188)
241 CHL00174 accD acetyl-CoA carbo 42.2 13 0.00029 38.7 1.4 32 410-450 38-69 (296)
242 PF15346 ARGLU: Arginine and g 42.0 2.6E+02 0.0056 26.5 9.8 20 12-31 56-75 (149)
243 PF01363 FYVE: FYVE zinc finge 42.0 11 0.00023 30.0 0.6 11 411-421 10-20 (69)
244 PF08996 zf-DNA_Pol: DNA Polym 41.6 13 0.00029 35.8 1.3 68 431-500 13-102 (188)
245 PRK00420 hypothetical protein; 41.5 16 0.00034 32.9 1.6 28 437-467 24-51 (112)
246 TIGR03830 CxxCG_CxxCG_HTH puta 41.1 12 0.00027 32.8 0.9 11 457-467 32-42 (127)
247 PF02359 CDC48_N: Cell divisio 41.0 2E+02 0.0044 24.0 8.2 68 90-181 14-84 (87)
248 PF09845 DUF2072: Zn-ribbon co 40.8 11 0.00024 34.8 0.6 30 436-467 1-31 (131)
249 PF01086 Clathrin_lg_ch: Clath 40.7 45 0.00098 33.2 4.9 76 9-87 114-195 (225)
250 PF05672 MAP7: MAP7 (E-MAP-115 40.7 2.5E+02 0.0055 27.2 9.6 13 55-67 116-128 (171)
251 PF05262 Borrelia_P83: Borreli 40.0 1.6E+02 0.0034 33.1 9.3 7 367-373 463-469 (489)
252 COG1773 Rubredoxin [Energy pro 39.7 20 0.00043 28.4 1.7 26 436-463 3-43 (55)
253 PF07975 C1_4: TFIIH C1-like d 39.5 14 0.00031 28.7 0.9 40 444-487 5-50 (51)
254 PRK04023 DNA polymerase II lar 39.2 19 0.00041 43.2 2.2 37 408-465 636-672 (1121)
255 smart00504 Ubox Modified RING 39.2 22 0.00047 27.3 1.9 49 437-496 2-51 (63)
256 PF03833 PolC_DP2: DNA polymer 39.1 10 0.00022 44.6 0.0 49 405-465 650-701 (900)
257 CHL00174 accD acetyl-CoA carbo 39.1 13 0.00028 38.8 0.8 30 436-467 38-68 (296)
258 KOG2441 mRNA splicing factor/p 39.0 1.4E+02 0.003 32.7 8.3 28 17-44 304-331 (506)
259 COG4372 Uncharacterized protei 39.0 2.5E+02 0.0054 30.8 10.1 34 14-47 87-121 (499)
260 PRK00409 recombination and DNA 38.9 2.2E+02 0.0048 33.6 10.8 14 226-239 665-678 (782)
261 PF02050 FliJ: Flagellar FliJ 38.9 2.3E+02 0.005 23.6 10.2 61 9-69 57-117 (123)
262 PF09332 Mcm10: Mcm10 replicat 38.8 11 0.00025 40.0 0.3 57 405-464 247-311 (344)
263 PF04014 Antitoxin-MazE: Antid 38.5 1.3E+02 0.0028 22.3 6.0 39 151-195 5-43 (47)
264 KOG0320 Predicted E3 ubiquitin 38.4 13 0.00027 36.2 0.6 45 406-464 127-175 (187)
265 PRK12380 hydrogenase nickel in 38.3 19 0.00041 32.1 1.6 15 408-422 68-82 (113)
266 PF04216 FdhE: Protein involve 38.3 13 0.00029 38.0 0.7 70 411-488 173-246 (290)
267 PF01485 IBR: IBR domain; Int 38.3 21 0.00045 27.3 1.7 10 412-421 20-31 (64)
268 COG2956 Predicted N-acetylgluc 38.2 15 0.00032 39.1 1.1 25 433-463 350-375 (389)
269 KOG4403 Cell surface glycoprot 38.0 61 0.0013 35.6 5.6 74 4-82 260-335 (575)
270 TIGR01439 lp_hng_hel_AbrB loop 37.8 1.2E+02 0.0026 21.3 5.6 38 151-194 5-42 (43)
271 PRK05978 hypothetical protein; 37.8 20 0.00042 33.9 1.7 28 438-467 35-63 (148)
272 PF09237 GAGA: GAGA factor; I 37.6 20 0.00043 28.2 1.4 30 407-436 21-52 (54)
273 PF05876 Terminase_GpA: Phage 37.5 14 0.00031 41.5 0.9 32 434-467 198-240 (557)
274 PRK00409 recombination and DNA 37.3 2.6E+02 0.0056 33.1 11.0 9 89-97 638-646 (782)
275 COG3677 Transposase and inacti 37.2 11 0.00025 34.4 0.1 29 437-467 31-64 (129)
276 PF06098 Radial_spoke_3: Radia 37.2 1.8E+02 0.0038 30.5 8.6 15 96-110 224-238 (291)
277 TIGR01554 major_cap_HK97 phage 37.0 2E+02 0.0042 30.5 9.3 39 176-214 179-219 (378)
278 PF01155 HypA: Hydrogenase exp 37.0 14 0.00031 32.8 0.7 14 408-421 68-81 (113)
279 PF06409 NPIP: Nuclear pore co 36.9 1.8E+02 0.0039 29.6 8.3 22 15-36 125-146 (265)
280 COG4741 Predicted secreted end 36.7 2E+02 0.0044 27.6 8.1 34 3-37 22-55 (175)
281 PF05495 zf-CHY: CHY zinc fing 36.6 10 0.00023 31.0 -0.3 51 411-463 11-68 (71)
282 PRK13454 F0F1 ATP synthase sub 36.4 2.3E+02 0.005 27.1 8.9 6 97-102 167-172 (181)
283 TIGR00515 accD acetyl-CoA carb 36.3 16 0.00036 37.8 1.0 32 410-450 26-57 (285)
284 KOG2593 Transcription initiati 36.2 23 0.00051 38.6 2.2 54 410-465 92-162 (436)
285 PRK03681 hypA hydrogenase nick 36.2 21 0.00045 31.9 1.6 15 408-422 68-82 (114)
286 PRK06991 ferredoxin; Provision 36.2 1.6E+02 0.0034 30.4 8.0 25 18-42 157-181 (270)
287 cd03403 Band_7_stomatin_like B 36.1 1.7E+02 0.0036 28.0 8.0 10 11-20 153-162 (215)
288 TIGR01206 lysW lysine biosynth 36.1 20 0.00043 28.2 1.2 9 412-420 4-12 (54)
289 PRK06800 fliH flagellar assemb 36.1 3.8E+02 0.0082 26.6 10.0 28 4-32 42-69 (228)
290 COG0488 Uup ATPase components 36.0 1.1E+02 0.0023 34.6 7.3 21 205-229 475-495 (530)
291 PRK14873 primosome assembly pr 36.0 12 0.00026 43.0 0.1 16 437-463 384-399 (665)
292 KOG2689 Predicted ubiquitin re 35.9 1.7E+02 0.0037 30.5 8.1 23 147-169 226-248 (290)
293 KOG4691 Uncharacterized conser 35.9 3E+02 0.0065 27.4 9.4 10 62-71 157-166 (227)
294 PRK08476 F0F1 ATP synthase sub 35.6 2.5E+02 0.0054 25.8 8.6 6 33-38 71-76 (141)
295 cd00065 FYVE FYVE domain; Zinc 35.5 24 0.00051 26.8 1.6 9 413-421 5-13 (57)
296 COG3064 TolA Membrane protein 35.3 2.6E+02 0.0055 29.9 9.4 14 200-213 301-314 (387)
297 PRK09173 F0F1 ATP synthase sub 35.3 3.6E+02 0.0079 24.9 11.1 20 9-28 52-71 (159)
298 PF13550 Phage-tail_3: Putativ 35.2 42 0.00092 30.3 3.5 26 216-241 138-163 (164)
299 PF07754 DUF1610: Domain of un 35.2 26 0.00057 23.2 1.5 6 436-441 16-21 (24)
300 PF09831 DUF2058: Uncharacteri 34.9 1.4E+02 0.0031 29.0 7.1 18 90-107 127-144 (177)
301 cd03407 Band_7_4 A subgroup of 34.8 2.2E+02 0.0048 28.5 8.9 22 9-30 150-171 (262)
302 PRK00564 hypA hydrogenase nick 34.7 23 0.00049 31.8 1.6 15 408-422 69-83 (117)
303 TIGR00515 accD acetyl-CoA carb 34.6 22 0.00048 36.8 1.6 30 436-467 26-56 (285)
304 TIGR00595 priA primosomal prot 34.6 14 0.0003 41.1 0.1 16 437-463 214-229 (505)
305 PF06524 NOA36: NOA36 protein; 34.3 23 0.0005 36.4 1.7 79 405-492 137-221 (314)
306 PRK14474 F0F1 ATP synthase sub 33.9 2.4E+02 0.0053 28.5 9.0 15 32-46 79-93 (250)
307 COG1656 Uncharacterized conser 33.7 26 0.00056 33.6 1.8 37 436-474 97-148 (165)
308 cd01121 Sms Sms (bacterial rad 33.5 21 0.00045 38.2 1.3 22 437-464 1-22 (372)
309 PRK05654 acetyl-CoA carboxylas 33.4 19 0.00041 37.5 0.9 32 410-450 27-58 (292)
310 PRK05580 primosome assembly pr 33.3 14 0.0003 42.5 -0.0 42 437-489 382-430 (679)
311 PF02029 Caldesmon: Caldesmon; 33.3 84 0.0018 35.1 5.9 15 81-95 345-359 (492)
312 PF06637 PV-1: PV-1 protein (P 33.3 4.3E+02 0.0094 28.9 10.8 64 8-71 305-376 (442)
313 PF04564 U-box: U-box domain; 33.1 28 0.00061 28.3 1.7 31 434-467 15-50 (73)
314 COG1188 Ribosome-associated he 33.0 59 0.0013 28.8 3.8 26 216-241 47-72 (100)
315 PF14446 Prok-RING_1: Prokaryo 33.0 32 0.0007 27.2 1.9 44 411-466 6-51 (54)
316 KOG1146 Homeobox protein [Gene 32.8 9.5 0.00021 46.6 -1.5 39 457-495 590-633 (1406)
317 PF07191 zinc-ribbons_6: zinc- 32.8 16 0.00034 30.4 0.2 8 456-463 17-24 (70)
318 PRK09678 DNA-binding transcrip 32.5 23 0.00049 29.5 1.1 38 458-495 3-44 (72)
319 PF03154 Atrophin-1: Atrophin- 32.5 28 0.00062 41.4 2.2 28 9-38 577-604 (982)
320 COG2268 Uncharacterized protei 32.2 2.8E+02 0.006 31.6 9.7 6 70-75 448-453 (548)
321 PRK10780 periplasmic chaperone 32.2 3.1E+02 0.0067 25.7 8.9 23 5-27 41-63 (165)
322 PF12474 PKK: Polo kinase kina 31.9 2.4E+02 0.0051 26.3 7.8 25 3-27 48-72 (142)
323 KOG2272 Focal adhesion protein 31.9 28 0.0006 35.7 1.8 58 408-467 161-232 (332)
324 KOG0742 AAA+-type ATPase [Post 31.8 3.1E+02 0.0068 30.6 9.7 16 340-355 473-488 (630)
325 PRK12380 hydrogenase nickel in 31.6 21 0.00045 31.9 0.8 26 434-463 68-93 (113)
326 KOG2769 Putative u4/u6 small n 31.5 1.5E+02 0.0033 33.2 7.3 40 30-69 345-384 (522)
327 COG3364 Zn-ribbon containing p 31.5 17 0.00037 32.3 0.2 26 436-463 2-27 (112)
328 PRK05654 acetyl-CoA carboxylas 31.5 25 0.00054 36.5 1.5 30 436-467 27-57 (292)
329 TIGR02609 doc_partner putative 31.3 95 0.0021 25.5 4.6 54 153-215 10-65 (74)
330 PRK05978 hypothetical protein; 31.2 21 0.00045 33.7 0.7 29 458-493 35-65 (148)
331 TIGR00100 hypA hydrogenase nic 31.2 20 0.00042 32.1 0.6 26 435-464 69-94 (115)
332 COG1390 NtpE Archaeal/vacuolar 31.1 5.1E+02 0.011 25.3 10.7 17 6-22 5-21 (194)
333 PF07282 OrfB_Zn_ribbon: Putat 31.0 35 0.00075 27.1 1.9 28 412-449 30-57 (69)
334 PF12297 EVC2_like: Ellis van 30.9 2E+02 0.0042 31.7 8.0 39 6-44 205-243 (429)
335 TIGR01932 hflC HflC protein. H 30.8 3E+02 0.0064 28.7 9.3 12 89-100 299-310 (317)
336 PRK13729 conjugal transfer pil 30.6 3E+02 0.0065 30.8 9.5 41 3-44 62-102 (475)
337 PF13904 DUF4207: Domain of un 30.5 4.6E+02 0.0099 26.8 10.3 18 25-42 113-130 (264)
338 PRK03824 hypA hydrogenase nick 30.2 21 0.00045 32.9 0.5 29 434-464 68-115 (135)
339 COG3357 Predicted transcriptio 30.1 22 0.00047 31.1 0.6 20 481-500 58-80 (97)
340 COG4647 AcxC Acetone carboxyla 30.1 28 0.00061 32.3 1.4 19 411-430 71-91 (165)
341 COG1422 Predicted membrane pro 30.0 1.8E+02 0.0039 28.9 6.9 15 35-49 79-93 (201)
342 PF05443 ROS_MUCR: ROS/MUCR tr 30.0 24 0.00053 32.6 1.0 22 457-480 73-94 (132)
343 PF12773 DZR: Double zinc ribb 29.8 40 0.00086 25.1 2.0 14 408-421 10-23 (50)
344 PF05443 ROS_MUCR: ROS/MUCR tr 29.8 23 0.00051 32.7 0.8 25 404-428 66-92 (132)
345 TIGR01144 ATP_synt_b ATP synth 29.5 4.3E+02 0.0092 23.9 11.0 35 9-43 45-80 (147)
346 KOG3756 Pinin (desmosome-assoc 29.1 4.4E+02 0.0094 28.1 9.8 30 10-39 153-182 (340)
347 PF06188 HrpE: HrpE/YscL/FliH 29.0 5.4E+02 0.012 24.9 10.2 15 90-104 131-145 (191)
348 PRK03598 putative efflux pump 29.0 5.7E+02 0.012 26.2 11.0 10 112-121 227-236 (331)
349 PF12848 ABC_tran_2: ABC trans 28.7 3.2E+02 0.0069 22.2 8.2 12 45-56 59-70 (85)
350 PF05300 DUF737: Protein of un 28.2 3.7E+02 0.0081 26.3 8.8 28 9-36 85-112 (187)
351 COG3357 Predicted transcriptio 28.2 31 0.00067 30.1 1.2 25 436-462 58-82 (97)
352 cd05829 Sortase_E Sortase E (S 28.1 79 0.0017 29.1 4.0 25 216-240 71-96 (144)
353 TIGR02473 flagell_FliJ flagell 27.9 4.3E+02 0.0092 23.4 10.5 59 13-71 77-135 (141)
354 PF08271 TF_Zn_Ribbon: TFIIB z 27.7 30 0.00064 25.4 0.9 14 434-449 17-30 (43)
355 PF09332 Mcm10: Mcm10 replicat 27.6 26 0.00056 37.3 0.8 52 436-496 252-320 (344)
356 PF10828 DUF2570: Protein of u 27.6 4.3E+02 0.0092 23.3 11.5 14 93-106 94-107 (110)
357 PF10083 DUF2321: Uncharacteri 27.6 19 0.0004 34.3 -0.2 14 480-493 67-81 (158)
358 PF03938 OmpH: Outer membrane 27.5 2.3E+02 0.0049 25.8 7.0 16 7-22 36-51 (158)
359 PTZ00399 cysteinyl-tRNA-synthe 27.5 88 0.0019 36.1 5.1 10 96-105 622-631 (651)
360 PRK02292 V-type ATP synthase s 27.4 5.4E+02 0.012 24.4 11.0 15 9-23 7-21 (188)
361 PF06637 PV-1: PV-1 protein (P 27.4 4.7E+02 0.01 28.6 9.9 21 11-31 293-313 (442)
362 PRK11637 AmiB activator; Provi 27.4 5.6E+02 0.012 27.6 11.0 10 221-230 360-369 (428)
363 COG1592 Rubrerythrin [Energy p 27.4 39 0.00086 32.4 1.9 22 437-463 135-156 (166)
364 PF07888 CALCOCO1: Calcium bin 27.3 1.7E+02 0.0036 33.3 7.0 40 70-115 454-493 (546)
365 COG2433 Uncharacterized conser 27.3 5.1E+02 0.011 30.0 10.6 33 38-70 468-500 (652)
366 PF11656 DUF3811: YjbD family 27.2 2.2E+02 0.0048 24.6 6.1 71 9-81 10-80 (87)
367 cd06166 Sortase_D_5 Sortase D 27.2 91 0.002 27.8 4.2 30 212-241 59-88 (126)
368 PF12230 PRP21_like_P: Pre-mRN 27.1 21 0.00045 35.3 0.0 19 459-477 171-189 (229)
369 smart00647 IBR In Between Ring 27.1 29 0.00063 26.5 0.8 11 411-421 19-31 (64)
370 KOG0696 Serine/threonine prote 27.0 30 0.00065 38.2 1.2 38 423-463 79-128 (683)
371 PF06210 DUF1003: Protein of u 27.0 3.2E+02 0.007 24.3 7.5 9 51-59 87-95 (108)
372 PF01096 TFIIS_C: Transcriptio 26.9 17 0.00036 26.5 -0.6 7 412-418 2-8 (39)
373 TIGR03752 conj_TIGR03752 integ 26.9 6.2E+02 0.013 28.4 11.1 13 74-86 171-183 (472)
374 PF00430 ATP-synt_B: ATP synth 26.7 4.3E+02 0.0093 23.0 9.8 37 7-43 47-84 (132)
375 PRK09678 DNA-binding transcrip 26.5 37 0.0008 28.3 1.4 39 411-450 2-41 (72)
376 KOG3223 Uncharacterized conser 26.5 1.2E+02 0.0026 30.0 4.9 13 200-212 191-203 (221)
377 PRK05035 electron transport co 26.5 1.7E+02 0.0036 34.2 7.0 10 25-34 460-469 (695)
378 PF09889 DUF2116: Uncharacteri 26.4 37 0.0008 27.2 1.3 13 455-467 2-14 (59)
379 PRK13428 F0F1 ATP synthase sub 26.4 3.2E+02 0.0069 30.1 8.9 11 33-43 76-86 (445)
380 PF09726 Macoilin: Transmembra 26.4 4E+02 0.0088 31.2 10.1 7 6-12 504-510 (697)
381 COG3478 Predicted nucleic-acid 26.3 32 0.00068 28.2 0.9 25 470-494 26-55 (68)
382 PF13248 zf-ribbon_3: zinc-rib 26.3 33 0.00073 22.6 0.9 9 412-420 4-12 (26)
383 PF06098 Radial_spoke_3: Radia 26.2 7E+02 0.015 26.1 10.9 15 50-64 191-205 (291)
384 TIGR00143 hypF [NiFe] hydrogen 26.2 16 0.00034 42.5 -1.2 75 404-490 62-150 (711)
385 PF08782 c-SKI_SMAD_bind: c-SK 26.2 16 0.00036 32.0 -0.8 46 406-457 24-69 (96)
386 TIGR03321 alt_F1F0_F0_B altern 26.1 6.7E+02 0.014 25.0 10.8 9 96-104 160-168 (246)
387 KOG2689 Predicted ubiquitin re 26.0 2.9E+02 0.0063 28.8 7.8 21 38-58 148-168 (290)
388 KOG0978 E3 ubiquitin ligase in 26.0 15 0.00033 42.3 -1.3 15 454-468 676-690 (698)
389 PF15135 UPF0515: Uncharacteri 26.0 49 0.0011 33.9 2.3 63 409-488 111-182 (278)
390 COG2268 Uncharacterized protei 25.9 4.3E+02 0.0094 30.1 9.8 21 47-67 398-418 (548)
391 KOG1044 Actin-binding LIM Zn-f 25.9 16 0.00034 41.3 -1.2 17 437-455 161-177 (670)
392 TIGR00155 pqiA_fam integral me 25.8 41 0.00089 36.5 1.9 33 431-465 8-42 (403)
393 TIGR01461 greB transcription e 25.8 3.2E+02 0.0069 25.7 7.7 42 141-187 103-144 (156)
394 KOG2593 Transcription initiati 25.8 25 0.00055 38.3 0.4 38 407-448 125-163 (436)
395 PRK11788 tetratricopeptide rep 25.7 39 0.00084 34.7 1.7 24 437-467 355-378 (389)
396 COG0777 AccD Acetyl-CoA carbox 25.7 35 0.00076 35.4 1.3 32 410-450 28-59 (294)
397 PRK00564 hypA hydrogenase nick 25.7 28 0.00061 31.2 0.6 27 435-464 70-96 (117)
398 COG1675 TFA1 Transcription ini 25.6 30 0.00065 33.5 0.7 13 408-420 111-123 (176)
399 cd00729 rubredoxin_SM Rubredox 25.5 51 0.0011 23.3 1.7 6 458-463 20-25 (34)
400 PF12037 DUF3523: Domain of un 25.3 7.4E+02 0.016 25.8 10.7 69 4-72 114-193 (276)
401 PF03962 Mnd1: Mnd1 family; I 25.3 4.6E+02 0.0099 25.4 8.9 21 48-68 104-124 (188)
402 COG1655 Uncharacterized protei 25.2 30 0.00065 35.0 0.7 15 434-450 17-31 (267)
403 PRK07720 fliJ flagellar biosyn 24.8 5.3E+02 0.011 23.4 9.3 56 15-70 82-137 (146)
404 PF00717 Peptidase_S24: Peptid 24.4 3.3E+02 0.0071 20.9 7.0 47 182-249 10-57 (70)
405 PRK01885 greB transcription el 24.4 3.8E+02 0.0082 25.3 7.9 44 140-188 104-147 (157)
406 KOG0782 Predicted diacylglycer 24.3 23 0.00049 40.1 -0.3 44 444-494 224-290 (1004)
407 TIGR01147 V_ATP_synt_G vacuola 24.3 4.3E+02 0.0093 23.9 7.8 22 12-33 12-33 (113)
408 COG4372 Uncharacterized protei 24.1 4.8E+02 0.01 28.7 9.3 10 112-121 326-335 (499)
409 PRK13452 atpC F0F1 ATP synthas 24.1 2E+02 0.0043 26.8 5.9 9 71-79 134-142 (145)
410 PF10669 Phage_Gp23: Protein g 24.0 4.8E+02 0.01 23.2 7.7 11 47-57 77-87 (121)
411 PRK03681 hypA hydrogenase nick 23.9 29 0.00064 31.0 0.3 28 434-464 68-95 (114)
412 KOG2963 RNA-binding protein re 23.6 2.1E+02 0.0046 30.8 6.5 6 47-52 344-349 (405)
413 smart00064 FYVE Protein presen 23.5 48 0.001 26.2 1.5 11 411-421 11-21 (68)
414 TIGR01479 GMP_PMI mannose-1-ph 23.5 3.6E+02 0.0078 29.7 8.7 90 174-263 244-336 (468)
415 PF11875 DUF3395: Domain of un 23.5 2.9E+02 0.0062 25.9 6.9 10 112-121 88-97 (151)
416 KOG2880 SMAD6 interacting prot 23.4 4.6E+02 0.0099 28.5 8.9 25 4-28 81-105 (424)
417 PRK11347 antitoxin ChpS; Provi 23.3 3.2E+02 0.007 23.1 6.5 48 154-216 13-60 (83)
418 COG4049 Uncharacterized protei 23.3 18 0.00039 28.9 -1.0 22 433-456 14-36 (65)
419 KOG3231 Predicted assembly/vac 23.2 3.8E+02 0.0081 26.1 7.5 33 10-42 10-42 (208)
420 PRK09335 30S ribosomal protein 23.2 37 0.0008 29.8 0.8 15 408-422 18-32 (95)
421 PLN00186 ribosomal protein S26 23.2 36 0.00079 30.5 0.8 16 407-422 17-32 (109)
422 COG2433 Uncharacterized conser 23.1 6.7E+02 0.015 29.0 10.6 27 49-75 493-519 (652)
423 PF15402 Spc7_N: N-terminus of 23.1 1.1E+02 0.0024 36.7 4.9 20 202-221 335-356 (927)
424 KOG4167 Predicted DNA-binding 23.0 17 0.00036 42.1 -1.7 23 456-478 792-815 (907)
425 PRK00432 30S ribosomal protein 22.9 47 0.001 25.6 1.2 7 412-418 22-28 (50)
426 KOG1044 Actin-binding LIM Zn-f 22.9 23 0.0005 40.0 -0.6 70 408-479 158-243 (670)
427 COG5048 FOG: Zn-finger [Genera 22.9 60 0.0013 33.0 2.4 48 409-456 288-342 (467)
428 PRK15460 cpsB mannose-1-phosph 22.9 2.7E+02 0.0058 31.0 7.6 91 174-264 253-346 (478)
429 PF11822 DUF3342: Domain of un 22.8 48 0.001 35.0 1.7 23 458-480 263-285 (317)
430 TIGR03831 YgiT_finger YgiT-typ 22.7 38 0.00083 24.3 0.7 10 457-466 33-42 (46)
431 PF07321 YscO: Type III secret 22.7 6.6E+02 0.014 23.8 10.4 47 23-69 100-146 (152)
432 KOG2963 RNA-binding protein re 22.4 2.7E+02 0.0059 30.0 7.0 15 23-37 329-343 (405)
433 PF10636 hemP: Hemin uptake pr 22.4 1.7E+02 0.0037 21.6 4.0 22 218-239 9-30 (38)
434 PTZ00172 40S ribosomal protein 22.3 38 0.00083 30.3 0.7 16 407-422 17-32 (108)
435 KOG3816 Cell differentiation r 22.2 32 0.00069 37.2 0.2 51 411-463 440-507 (526)
436 smart00614 ZnF_BED BED zinc fi 21.9 49 0.0011 24.9 1.2 20 457-476 19-44 (50)
437 PRK10930 FtsH protease regulat 21.8 7E+02 0.015 27.4 10.4 8 49-56 294-301 (419)
438 PRK14559 putative protein seri 21.6 61 0.0013 37.4 2.3 41 407-467 12-52 (645)
439 KOG3090 Prohibitin-like protei 21.6 1.3E+02 0.0027 30.7 4.2 41 61-101 230-275 (290)
440 PF12760 Zn_Tnp_IS1595: Transp 21.4 52 0.0011 24.5 1.2 24 437-463 19-44 (46)
441 TIGR00570 cdk7 CDK-activating 21.1 9.6E+02 0.021 25.4 10.7 68 4-71 117-184 (309)
442 KOG0701 dsRNA-specific nucleas 21.1 17 0.00037 45.6 -2.2 157 1-167 1190-1362(1606)
443 COG4416 Com Mu-like prophage p 21.1 29 0.00063 27.5 -0.2 26 435-462 3-30 (60)
444 PF15437 PGBA_C: Plasminogen-b 20.9 5.4E+02 0.012 22.2 7.2 47 14-62 37-83 (86)
445 PF03833 PolC_DP2: DNA polymer 20.9 33 0.00071 40.6 0.0 46 436-496 655-708 (900)
446 COG4888 Uncharacterized Zn rib 20.9 51 0.0011 29.3 1.2 32 433-466 19-56 (104)
447 KOG3268 Predicted E3 ubiquitin 20.8 56 0.0012 31.9 1.6 109 353-470 98-232 (234)
448 PRK00762 hypA hydrogenase nick 20.8 55 0.0012 29.6 1.5 24 437-463 71-99 (124)
449 PF09855 DUF2082: Nucleic-acid 20.6 31 0.00067 28.1 -0.2 33 457-489 1-45 (64)
450 PRK00762 hypA hydrogenase nick 20.6 43 0.00094 30.3 0.8 29 411-445 71-99 (124)
451 PF13025 DUF3886: Protein of u 20.6 2.6E+02 0.0055 23.3 5.1 50 27-78 19-68 (70)
452 KOG1088 Uncharacterized conser 20.5 35 0.00075 31.1 0.1 25 405-429 93-121 (124)
453 PRK11637 AmiB activator; Provi 20.5 9.3E+02 0.02 26.0 11.0 69 4-72 181-250 (428)
454 KOG2505 Ankyrin repeat protein 20.4 2.5E+02 0.0055 31.7 6.5 43 10-52 503-545 (591)
455 cd03401 Band_7_prohibitin Band 20.4 2.7E+02 0.0059 26.1 6.2 43 21-63 152-194 (196)
456 PF10122 Mu-like_Com: Mu-like 20.2 28 0.00061 27.2 -0.5 32 409-448 3-34 (51)
457 cd05828 Sortase_D_4 Sortase D 20.1 1.6E+02 0.0035 26.3 4.3 30 212-241 56-85 (127)
458 PF06476 DUF1090: Protein of u 20.1 3.6E+02 0.0079 24.3 6.5 53 10-62 62-114 (115)
459 PF09788 Tmemb_55A: Transmembr 20.1 59 0.0013 33.3 1.6 26 437-464 158-185 (256)
460 COG4957 Predicted transcriptio 20.0 57 0.0012 30.5 1.4 30 449-480 69-98 (148)
No 1
>PLN03086 PRLI-interacting factor K; Provisional
Probab=100.00 E-value=2e-140 Score=1131.40 Aligned_cols=498 Identities=73% Similarity=1.191 Sum_probs=472.4
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCcEEEEE
Q 010753 1 MDFELRRAREKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQESLLAGGGIVFYH 80 (502)
Q Consensus 1 m~~~l~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 80 (502)
||||||+|++||+|||++|+++||+|+++||++|+||+|||||||++||||||||++||++|+|+|+|++++|+||.|++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 80 (567)
T PLN03086 1 MDFELRRAREKLEREQRERKQRAKLKLERERKAKEEAAKQREAIEAAQRSRRLDAIEAQIKADQQMQESLQAGRGIVFSR 80 (567)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeeccCCCCCCeEEeChhHHHHHHcCCCCCCCceEEEEEecCCCCCCCCCCCccCCCCeEEEEEeeeeeCCCceeccHH
Q 010753 81 TLEALPFQGSGDKIKLPPSCFTELSGQGAFDKGPLHFKLSVLHQEGPSNMEDGEKESNRSTHSGVLEFTADEGFVGLPPH 160 (502)
Q Consensus 81 ~~~~~~~~~~gDKIiLP~SaL~~L~~~~~~~~~Pl~F~l~n~~~~~~~~~~~~~~~~~~~th~GVlEFsA~EG~v~LP~w 160 (502)
.|.++|+.+.||||+||||||++|+++++.++|||+|+|+|.++.+++.+++++ .+++||||||||+|+||+|+||+|
T Consensus 81 ~~~~~~~~~~GdKI~LPpSaL~~L~~~~~~~~~Pm~F~l~~~~~~~~~~~~~~~--~~~~th~GVlEF~A~EG~v~lP~w 158 (567)
T PLN03086 81 IFEAVSFQGNGDKIKLPPSCFTELSDQGAFDKGPLYFRLSVVHQEGSGEMKDTD--SQKTTHSGVLEFTAEEGSVGLPPH 158 (567)
T ss_pred EeeccccCCCCCeEEcCHHHHHHHHhcCCCCCCCeEEEEecccccccccccccc--CCcEEEEEEEEEEcCCCeEEcCHH
Confidence 999999999999999999999999999987899999999998776666665555 478999999999999999999999
Q ss_pred HHHhcCCCCCCCCceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhccCcccccCCEEEEEECCEEEEEEEEEE
Q 010753 161 VWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQHATLSQDDVLTVNYGELAYKLKVLEL 240 (502)
Q Consensus 161 m~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~~stLT~Gd~I~I~~~~~~y~l~V~e~ 240 (502)
||++|++.+..++++|+|++++|||||||||||++.+|+||+|||||||++||||+|||+||+|.|+|+++.|+|+|+++
T Consensus 159 m~~~L~~~~~~~~~~v~v~~~~Lpkgt~vklqP~~~~f~di~npKavLE~~Lr~~stLT~Gd~i~i~~~~~~y~~~V~ev 238 (567)
T PLN03086 159 VWSNLFPSDPPDVPLVEVRYIWLPKGTYAKLQPDGVGFSDLPNHKAVLETALRQHATLSEDDVLVVNYGQLTYKLKVLEL 238 (567)
T ss_pred HHhhcCCCCCCCCCeEEEEEeecCCCCEEEEeeccCCcCCcccHHHHHHHHhhcCccccCCCEEEEecCCEEEEEEEEEE
Confidence 99999987655688999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCceEEEcCceEEeccCCCCCCCccCccccceeecCCccceeeccCceeEEEEEecccccccccCCceeEEEEEeecC
Q 010753 241 KPSSSVSVLETDIEVDIVSPDDMSAGTDQYTLKPLLFGKSESGMVEEGKYVFYKFTIDDDTRKKIVSGEKRAEVRVDSEI 320 (502)
Q Consensus 241 ~P~~aVsIidTDleVD~~~~~~~~~~~~~~~~~~l~i~~~~sg~v~~g~y~~y~l~l~~~~~~~l~~~~~~i~i~l~~~~ 320 (502)
+|++|||||||||+|||+||+++.+++++.+.++|++|+.++|+|.+|.|+||+|++++.+||+++++++.|+++++...
T Consensus 239 ~P~~aVsiieTDi~VDf~~p~~~~~~~~q~~~~~l~~~~~~~g~v~~g~y~~y~~~~~~~~~~~~~~~~~~~~~~i~~~~ 318 (567)
T PLN03086 239 KPASSVSVLETDIEVDIVGPDSVSNEENQHVLKPLEFGKSESGMVEEGNYRYYKFSIDEDTWEKVASGDARVEVKIDAET 318 (567)
T ss_pred cCCCeeEEEeCceEEEeccCCcchhcchhhhcceeecccccccceecccccceeeecccchhhhhccCCceEEEEEeecc
Confidence 99999999999999999999998877888999999999999999999999999999999999999999999999987777
Q ss_pred CCCceeEEEcCCCCCCCcccceeeccCCCCCceEEecCCCCccccceEEEEEeccCCCeeEEEEEEEecCCCCcCccccC
Q 010753 321 DGGDTSIYVSRHPLLFPTRHLHEWSSHDAGSKVVILSSKDKSVDVGTYSIGVYGFKDMTKFQVLVTLEDDSGRKVGQEAT 400 (502)
Q Consensus 321 ~~~d~DlfvS~~~~~~p~~~~h~~ss~d~~sk~i~i~~~~~~l~a~~~~i~v~~~~~~~~~~l~v~~~~~~~~~~g~~~~ 400 (502)
+++|+|||||++|+++|+.++|+|||+++++|+|+|+|+|++|+++.|||+||||+++++|+|+|++++..++..|+++.
T Consensus 319 ~~~~~dlfvS~~~~~~p~~~~h~~ss~~~~~k~l~~~~~~~~l~~~~~~i~v~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 398 (567)
T PLN03086 319 SGGDTDLYVSKHPLVFPTRHQHEWSSHDMGSKVLILKSKDASLSSGTYSIGVYGFKGTTKYQVSVSVQDNNNQKVGEQAS 398 (567)
T ss_pred CCCceEEEEcccccccccccccccccCccccceeEecCCCcccccceEEEEEeccCCceeEEEEEEeecccccccccccC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999988876665454
Q ss_pred CCCcccccCcccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCcccCccCCCccChhhHHHhhhcccc
Q 010753 401 SSSSSIEMDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQRREMEKHMKVFHE 480 (502)
Q Consensus 401 ~~~~~~~~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~~s~l~kH~~i~Ht 480 (502)
++++++.+...|+||+++++.++|.+|++||.||++.||+++||.+|.+.+|++||||++||++|+.+.|++|+++||.
T Consensus 399 -~~~s~~~~~V~C~NC~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~s~LekH~~~~Hk 477 (567)
T PLN03086 399 -SSSSMDVDTVECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQGEMEKHMKVFHE 477 (567)
T ss_pred -ccccCCCCeEECCCCCCccchhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccchHHHHHHHHhcCC
Confidence 3367899999999999999999999999999999999997679999999999999999999999998899999999999
Q ss_pred eeeecCCccccccccc----ccCCC
Q 010753 481 QCSCPCGVVLENAAMV----SYCPL 501 (502)
Q Consensus 481 p~~C~Cg~~f~~~~~~----~~Cp~ 501 (502)
|+.|+||+.|.+..+. .+||.
T Consensus 478 pv~CpCg~~~~R~~L~~H~~thCp~ 502 (567)
T PLN03086 478 PLQCPCGVVLEKEQMVQHQASTCPL 502 (567)
T ss_pred CccCCCCCCcchhHHHhhhhccCCC
Confidence 9999999988776665 56764
No 2
>KOG1816 consensus Ubiquitin fusion-degradation protein [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.2e-63 Score=492.60 Aligned_cols=256 Identities=36% Similarity=0.544 Sum_probs=211.1
Q ss_pred CCcEEEEEEeeecc----------CCCCCCeEEeChhHHHHHHcCCCCCCCceEEEEEecCCCCCCCCCCCccCCCCeEE
Q 010753 73 GGGIVFYHTLEALP----------FQGSGDKIKLPPSCFTELSGQGAFDKGPLHFKLSVLHQEGPSNMEDGEKESNRSTH 142 (502)
Q Consensus 73 ~~g~~~~~~~~~~~----------~~~~gDKIiLP~SaL~~L~~~~~~~~~Pl~F~l~n~~~~~~~~~~~~~~~~~~~th 142 (502)
..|..|.+.|+++| ..+.|||||||||||++|++.++ +|||+|+|+|.+ ..++||
T Consensus 9 ~~g~~f~~~yrcy~~~~l~~~~~s~~~~GgKIilPPSaL~~Ls~lnI--~yPMlFkLtn~~-------------~~r~TH 73 (308)
T KOG1816|consen 9 PRGFQFETSYRCYPVSFLPGPDRSDVNKGGKIILPPSALDRLSSLNI--TYPMLFKLTNVD-------------VDRVTH 73 (308)
T ss_pred cCCcceeeeeEecccccccCccccccccCCeEEeCHHHHHHHHHhcC--CCceEEEEeccc-------------cceeee
Confidence 36888999999987 25799999999999999999888 899999999974 468999
Q ss_pred EEEeeeeeCCCceeccHHHHHhcCCCCCCCCceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhccCcccccCC
Q 010753 143 SGVLEFTADEGFVGLPPHVWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQHATLSQDD 222 (502)
Q Consensus 143 ~GVlEFsA~EG~v~LP~wm~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~~stLT~Gd 222 (502)
||||||+|+||.||||.|||++|+++ ++++|+|++++|||||||||||++.+|+||+|||||||+.||||+|||+||
T Consensus 74 cGVLEF~AeEG~vyLP~WMmq~L~le---~gdlv~i~~v~lpkgtyvKLqP~s~dFLDItNpKAvLE~~LRn~acLT~gD 150 (308)
T KOG1816|consen 74 CGVLEFTAEEGRVYLPYWMMQNLLLE---EGDLVRIRSVTLPKGTYVKLQPHSVDFLDITNPKAVLENALRNYACLTTGD 150 (308)
T ss_pred eeEEEEEecCceEEeehHhhhhccCC---CCCeEEEEEeeccccceeeeccCCCCccccCChHHHHHHHHhhccccccCC
Confidence 99999999999999999999999998 689999999999999999999999999999999999999999999999999
Q ss_pred EEEEEECCEEEEEEEEEEcCCCceEEEcCceEEeccCCCCCCCccCccccceeecCCccceeeccCceeEEEEEeccccc
Q 010753 223 VLTVNYGELAYKLKVLELKPSSSVSVLETDIEVDIVSPDDMSAGTDQYTLKPLLFGKSESGMVEEGKYVFYKFTIDDDTR 302 (502)
Q Consensus 223 ~I~I~~~~~~y~l~V~e~~P~~aVsIidTDleVD~~~~~~~~~~~~~~~~~~l~i~~~~sg~v~~g~y~~y~l~l~~~~~ 302 (502)
+|.|+||++.|+|+|+|++|++||||||||++|||+||++|.++..+ ..+.+..+..++.|.+ |-.|+..+.+ ..
T Consensus 151 vi~i~Yn~k~y~i~V~e~kPa~aVsIiEtD~~VDF~pP~gyke~~~~--~~~~~~~k~~~~~v~~--~ag~~~~~e~-~~ 225 (308)
T KOG1816|consen 151 VILINYNEKTYELKVVETKPANAVSIIETDLNVDFDPPLGYKEPERQ--VAPAEKAKGEAEVVGS--YAGYKNVIEN-KV 225 (308)
T ss_pred EEEEecCCeEEEEEEEEecCCceeEEEEcceeecccCCcCccCcccc--cChhhcccccceeecc--cccccccccc-ce
Confidence 99999999999999999999999999999999999999999865543 4445555555555644 5666555422 23
Q ss_pred ccccCCceeEEEEEeecCCCCceeEEEcCCCCCCCcccceeeccCCCCCceEEecCC
Q 010753 303 KKIVSGEKRAEVRVDSEIDGGDTSIYVSRHPLLFPTRHLHEWSSHDAGSKVVILSSK 359 (502)
Q Consensus 303 ~~l~~~~~~i~i~l~~~~~~~d~DlfvS~~~~~~p~~~~h~~ss~d~~sk~i~i~~~ 359 (502)
.....+..++-.+- ....+ +.+|...+....+.|.++|+...++.....
T Consensus 226 ~~f~gsg~rLdgK~----~~~e~----~~~pv~~~~~~~~~~~~~d~~~G~l~F~~~ 274 (308)
T KOG1816|consen 226 EPFTGSGRRLDGKK----KVEEV----SKHPVKNGDLIQRGVPNHDFKLGKLVFGRN 274 (308)
T ss_pred eeeccccceecccc----ccccc----CCCcccCcccccCCCCccccCCceEEEecC
Confidence 33333334443331 11111 566666555567899999998887777654
No 3
>PF03152 UFD1: Ubiquitin fusion degradation protein UFD1; InterPro: IPR004854 Post-translational ubiquitin-protein conjugates are recognised for degradation by the ubiquitin fusion degradation (UFD) pathway. Several proteins involved in this pathway have been identified []. This family includes UFD1, a 40kDa protein that is essential for vegetative cell viability []. The human UFD1 gene is expressed at high levels during embryogenesis, especially in the eyes and in the inner ear primordia and is thought to be important in the determination of ectoderm-derived structures, including neural crest cells. In addition, this gene is deleted in the CATCH-22 (cardiac defects, abnormal facies, thymic hypoplasia, cleft palate and hypocalcaemia with deletions on chromosome 22) syndrome. This clinical syndrome is associated with a variety of developmental defects, all characterised by microdeletions on 22q11.2. Two such developmental defects are the DiGeorge syndrome OMIM:188400, and the velo-cardio- facial syndrome OMIM:145410. Several of the abnormalities associated with these conditions are thought to be due to defective neural crest cell differentiation []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1ZC1_A 2YUJ_A.
Probab=100.00 E-value=5.4e-59 Score=439.10 Aligned_cols=166 Identities=43% Similarity=0.719 Sum_probs=137.5
Q ss_pred EEEEEeeecc----------CCCCCCeEEeChhHHHHHHcCCCCCCCceEEEEEecCCCCCCCCCCCccCCCCeEEEEEe
Q 010753 77 VFYHTLEALP----------FQGSGDKIKLPPSCFTELSGQGAFDKGPLHFKLSVLHQEGPSNMEDGEKESNRSTHSGVL 146 (502)
Q Consensus 77 ~~~~~~~~~~----------~~~~gDKIiLP~SaL~~L~~~~~~~~~Pl~F~l~n~~~~~~~~~~~~~~~~~~~th~GVl 146 (502)
+|...|+++| ..++||||+||||||++|.++++ +|||+|+|+|.. ++++||||||
T Consensus 1 ~f~~~~~~~~~~~~~~~~~~~~~~gdKiiLP~s~L~~L~~~~~--~~P~~F~i~n~~-------------~~~~th~GVl 65 (176)
T PF03152_consen 1 KFDQTYRCYPVSFLPGADRPELEYGDKIILPPSALDELSRLNI--PYPMLFEISNPD-------------NGKRTHCGVL 65 (176)
T ss_dssp -EEEEEEEEECCCSSTTS-CCCCCTTEEEE-HHHHHHHHHTT----SS-EEEEEETT-------------TTEEEEEEEE
T ss_pred CccceEEEEeEEeecCCCCcccCCCCeEEcCHHHHHHHHhccC--CCCEEEEEecCC-------------CCcEEEEEEE
Confidence 3677777776 25799999999999999999888 899999999952 5789999999
Q ss_pred eeeeCCCceeccHHHHHhcCCCCCCCCceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhccCcccccCCEEEE
Q 010753 147 EFTADEGFVGLPPHVWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQHATLSQDDVLTV 226 (502)
Q Consensus 147 EFsA~EG~v~LP~wm~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~~stLT~Gd~I~I 226 (502)
||+|+||+|+||+|||++|++. +++.|+|++++|||||||||||++.+|++++|||+|||++||||+|||+||+|.|
T Consensus 66 EFsA~eG~i~lP~wmm~~L~l~---~g~~V~v~~~~LPkgt~vkLqP~~~~F~~i~n~KavLE~~Lr~ystLT~Gd~I~i 142 (176)
T PF03152_consen 66 EFSAEEGTIYLPPWMMQNLGLQ---EGDIVRVEYVSLPKGTFVKLQPQSSDFLDISNPKAVLERALRNYSTLTKGDTISI 142 (176)
T ss_dssp EE--CTTEEEE-CHHHHHHT-----TTEEEEEEEEE----SEEEEEESCHHHHCSS-HHHHHHHHHCC-SEEETTSEEEE
T ss_pred EeEcCCCeEEeCccHHhhcCCC---CCCEEEEEEeECCCCCEEEEeECCCccccccchHHHHHhhcccCceeecCCEEEE
Confidence 9999999999999999999998 6889999999999999999999999999999999999999999999999999999
Q ss_pred EECCEEEEEEEEEEcCCCceEEEcCceEEeccCC
Q 010753 227 NYGELAYKLKVLELKPSSSVSVLETDIEVDIVSP 260 (502)
Q Consensus 227 ~~~~~~y~l~V~e~~P~~aVsIidTDleVD~~~~ 260 (502)
+|+++.|+|+|++++|++|||||||||+|||+||
T Consensus 143 ~~~~~~y~l~V~e~kP~~aV~IidTDl~vDf~~P 176 (176)
T PF03152_consen 143 EYNNKTYELDVVEVKPENAVSIIDTDLEVDFEPP 176 (176)
T ss_dssp ECTTEEEEEEEEEECSSSCEE-SSS-SEEEE---
T ss_pred EeCCEEEEEEEEEEcCCCEEEEEeCceEEEecCC
Confidence 9999999999999999999999999999999987
No 4
>COG5140 UFD1 Ubiquitin fusion-degradation protein [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.6e-48 Score=374.63 Aligned_cols=160 Identities=34% Similarity=0.569 Sum_probs=153.5
Q ss_pred CCCCeEEeChhHHHHHHcCCCCCCCceEEEEEecCCCCCCCCCCCccCCCCeEEEEEeeeeeCCCceeccHHHHHhcCCC
Q 010753 89 GSGDKIKLPPSCFTELSGQGAFDKGPLHFKLSVLHQEGPSNMEDGEKESNRSTHSGVLEFTADEGFVGLPPHVWRNLFPS 168 (502)
Q Consensus 89 ~~gDKIiLP~SaL~~L~~~~~~~~~Pl~F~l~n~~~~~~~~~~~~~~~~~~~th~GVlEFsA~EG~v~LP~wm~~~L~~~ 168 (502)
+.|+|||||||||..|++.++ .|||+|+|++.+ ..++||||||||+|+||.||||.|||+.|+++
T Consensus 43 NfGGKvilPpSaL~kLs~lni--~yPmlF~~s~~~-------------~~~~THgGVLEFiaEEGrVylP~WMm~tLs~e 107 (331)
T COG5140 43 NFGGKVILPPSALVKLSSLNI--QYPMLFEISHSD-------------GIYRTHGGVLEFIAEEGRVYLPSWMMQTLSME 107 (331)
T ss_pred CcCceEEcCHHHHHHHHhhcc--CCceEEEEeccc-------------ceeEecccEEEEeecCCcEeehHHHHHhccCC
Confidence 799999999999999999998 899999999953 47899999999999999999999999999998
Q ss_pred CCCCCceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhccCcccccCCEEEEEECCEEEEEEEEEEcCC---Cc
Q 010753 169 DTPNNSFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQHATLSQDDVLTVNYGELAYKLKVLELKPS---SS 245 (502)
Q Consensus 169 ~~~~~~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~~stLT~Gd~I~I~~~~~~y~l~V~e~~P~---~a 245 (502)
+++.|+|+|..+|.|+||||+|++.+|+||+||||+||+.||||+|||+||+|.|.||++.|.++|.+++|+ ++
T Consensus 108 ---pgdlv~~~~td~plG~fVKL~PqSVdFLdI~dpkavLEn~LRNfstLt~~D~iei~ynd~v~~Ik~~~v~pe~S~~~ 184 (331)
T COG5140 108 ---PGDLVVLRYTDFPLGKFVKLIPQSVDFLDIEDPKAVLENCLRNFSTLTEGDEIEIQYNDEVGSIKFTVVHPEPSANA 184 (331)
T ss_pred ---CCcEEEEEeccccccceEEecccccceEeccChHHHHHHHHhhccccccCCEEEEEECCeeeEEEEEEeccCCCcce
Confidence 789999999999999999999999999999999999999999999999999999999999999999999997 59
Q ss_pred eEEEcCceEEeccCCCCCCCc
Q 010753 246 VSVLETDIEVDIVSPDDMSAG 266 (502)
Q Consensus 246 VsIidTDleVD~~~~~~~~~~ 266 (502)
||||||||.|||.||.+|.+.
T Consensus 185 i~vveTDLvvDF~pPiGy~e~ 205 (331)
T COG5140 185 IYVVETDLVVDFLPPIGYKEK 205 (331)
T ss_pred EEEEecceeeeccCCccccch
Confidence 999999999999999998743
No 5
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.33 E-value=1.2e-09 Score=119.58 Aligned_cols=85 Identities=26% Similarity=0.577 Sum_probs=72.5
Q ss_pred cCcccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCc---------ccCccCCCccC-----------
Q 010753 408 MDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDH---------VHCDKCGQGLQ----------- 467 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H---------~hC~~Cgk~f~----------- 467 (502)
.+.+.|+.|++.|+...|..|...|. .++.|+ ||+.|.+..|..| +.|+.|++.|.
T Consensus 451 ~~H~~C~~Cgk~f~~s~LekH~~~~H-kpv~Cp---Cg~~~~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~ 526 (567)
T PLN03086 451 KNHVHCEKCGQAFQQGEMEKHMKVFH-EPLQCP---CGVVLEKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDR 526 (567)
T ss_pred ccCccCCCCCCccchHHHHHHHHhcC-CCccCC---CCCCcchhHHHhhhhccCCCCceeCCCCCCccccCccccchhhh
Confidence 45578999999999999999999774 899998 9998877888888 56999998885
Q ss_pred hhhHHHhhhcccc-eeeec-CCccccccccc
Q 010753 468 RREMEKHMKVFHE-QCSCP-CGVVLENAAMV 496 (502)
Q Consensus 468 ~s~l~kH~~i~Ht-p~~C~-Cg~~f~~~~~~ 496 (502)
.+.|..|..++.. ++.|. ||+.|..+.|-
T Consensus 527 ~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlrdm~ 557 (567)
T PLN03086 527 LRGMSEHESICGSRTAPCDSCGRSVMLKEMD 557 (567)
T ss_pred hhhHHHHHHhcCCcceEccccCCeeeehhHH
Confidence 2479999998544 99999 99999988875
No 6
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.27 E-value=1.6e-12 Score=129.65 Aligned_cols=90 Identities=26% Similarity=0.634 Sum_probs=77.1
Q ss_pred ccCcccccccCccccc-chHHhHhhhccCceeeccccccCccccc-----ccccCc-----ccCccCCCccC-hhhHHHh
Q 010753 407 EMDTVQCKNCKRFIPS-RSIVLHEAYCSRHSVACQHAGCGMVLRT-----EEARDH-----VHCDKCGQGLQ-RREMEKH 474 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~~-~~l~lHe~~C~rn~~~C~~~~Cgk~F~k-----~~l~~H-----~hC~~Cgk~f~-~s~l~kH 474 (502)
+...++|++|+|.+-+ .-|.+|.+.+. -+++|+. |||.|.+ ..+..| |.|++|+|+|. +++|.-|
T Consensus 158 s~ka~~C~~C~K~YvSmpALkMHirTH~-l~c~C~i--CGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAH 234 (279)
T KOG2462|consen 158 SKKAFSCKYCGKVYVSMPALKMHIRTHT-LPCECGI--CGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAH 234 (279)
T ss_pred ccccccCCCCCceeeehHHHhhHhhccC-CCccccc--ccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHH
Confidence 4678999999999964 88999998332 5789998 9999997 555555 88999999999 9999999
Q ss_pred hhcccc---eeeec-CCccccccccc-----ccCC
Q 010753 475 MKVFHE---QCSCP-CGVVLENAAMV-----SYCP 500 (502)
Q Consensus 475 ~~i~Ht---p~~C~-Cg~~f~~~~~~-----~~Cp 500 (502)
|++ |+ +|+|. |+|+|.+.+.+ +-|.
T Consensus 235 mQT-HS~~K~~qC~~C~KsFsl~SyLnKH~ES~C~ 268 (279)
T KOG2462|consen 235 MQT-HSDVKKHQCPRCGKSFALKSYLNKHSESACL 268 (279)
T ss_pred HHh-hcCCccccCcchhhHHHHHHHHHHhhhhccc
Confidence 999 54 99999 99999999988 6664
No 7
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.00 E-value=1.3e-10 Score=115.99 Aligned_cols=90 Identities=21% Similarity=0.557 Sum_probs=78.5
Q ss_pred ccccCcccccccCcccc-cchHHhHhh-hc---cCceeeccccccCccccc-ccccCc-------ccCccCCCccC-hhh
Q 010753 405 SIEMDTVQCKNCKRFIP-SRSIVLHEA-YC---SRHSVACQHAGCGMVLRT-EEARDH-------VHCDKCGQGLQ-RRE 470 (502)
Q Consensus 405 ~~~~~~~~C~nC~k~~~-~~~l~lHe~-~C---~rn~~~C~~~~Cgk~F~k-~~l~~H-------~hC~~Cgk~f~-~s~ 470 (502)
.....-++|..|||... ..+|..|.- || .++-+.|+. |||+|.+ ..|+-| ..|..|||+|. .=-
T Consensus 125 ~~~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~--C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWL 202 (279)
T KOG2462|consen 125 AAKHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKY--CGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWL 202 (279)
T ss_pred cccCCceeccccccccccccccchhhcccccccccccccCCC--CCceeeehHHHhhHhhccCCCcccccccccccchHH
Confidence 34567899999999997 599999998 77 477899999 9999999 888888 46999999999 888
Q ss_pred HHHhhhcccc--eeeec-CCccccccccc
Q 010753 471 MEKHMKVFHE--QCSCP-CGVVLENAAMV 496 (502)
Q Consensus 471 l~kH~~i~Ht--p~~C~-Cg~~f~~~~~~ 496 (502)
|+-|.|.|.+ ||.|+ |+|+|..++-+
T Consensus 203 LQGHiRTHTGEKPF~C~hC~kAFADRSNL 231 (279)
T KOG2462|consen 203 LQGHIRTHTGEKPFSCPHCGKAFADRSNL 231 (279)
T ss_pred hhcccccccCCCCccCCcccchhcchHHH
Confidence 9999999443 99999 99999988765
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.59 E-value=6.7e-09 Score=114.24 Aligned_cols=83 Identities=19% Similarity=0.594 Sum_probs=70.5
Q ss_pred CcccccccCccccc-chHHhHhhhccCc---eeeccccccCccccc-ccccCc----------------------ccCcc
Q 010753 409 DTVQCKNCKRFIPS-RSIVLHEAYCSRH---SVACQHAGCGMVLRT-EEARDH----------------------VHCDK 461 (502)
Q Consensus 409 ~~~~C~nC~k~~~~-~~l~lHe~~C~rn---~~~C~~~~Cgk~F~k-~~l~~H----------------------~hC~~ 461 (502)
-..+|..|.+...+ ..|.-|..+-.++ |+-|+. |...|-. ..|++| |+|++
T Consensus 209 qlltcpycdrgykrltslkeHikyrhekne~nfsC~l--CsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtE 286 (1007)
T KOG3623|consen 209 QLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCML--CSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTE 286 (1007)
T ss_pred hhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchh--hhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccc
Confidence 35689999999975 7788888755444 499999 9999987 777777 78999
Q ss_pred CCCccC-hhhHHHhhhcccc--eeeec-CCcccccc
Q 010753 462 CGQGLQ-RREMEKHMKVFHE--QCSCP-CGVVLENA 493 (502)
Q Consensus 462 Cgk~f~-~s~l~kH~~i~Ht--p~~C~-Cg~~f~~~ 493 (502)
|||+|. +..|+.|.|||-+ ||.|+ |+|.|+.+
T Consensus 287 CgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHS 322 (1007)
T KOG3623|consen 287 CGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHS 322 (1007)
T ss_pred cchhhhhHHHHHhhheeecCCCCcCCcccccccccC
Confidence 999999 9999999999444 99999 99999874
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.48 E-value=2.6e-08 Score=96.10 Aligned_cols=86 Identities=24% Similarity=0.530 Sum_probs=72.1
Q ss_pred ccccCcccccccCcccc-cchHHhHhh-hccCceeeccccccCccccc-ccccCc---------ccCccCCCccC-hhhH
Q 010753 405 SIEMDTVQCKNCKRFIP-SRSIVLHEA-YCSRHSVACQHAGCGMVLRT-EEARDH---------VHCDKCGQGLQ-RREM 471 (502)
Q Consensus 405 ~~~~~~~~C~nC~k~~~-~~~l~lHe~-~C~rn~~~C~~~~Cgk~F~k-~~l~~H---------~hC~~Cgk~f~-~s~l 471 (502)
+.+.|.+.|.-|+|.|. .+-|..|.. |..-+.|.|.- |||.|.. -+|++| |.|..|+|+|. +-+|
T Consensus 112 ssd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~--cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsl 189 (267)
T KOG3576|consen 112 SSDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTF--CGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSL 189 (267)
T ss_pred CCCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhh--ccCcccchhhhhhhhccccCccccchhhhhHHHHhhccH
Confidence 44678899999999998 588888888 66778899998 9999998 888888 78999999999 8899
Q ss_pred HHhhhcccc-------------eeeec-CCccccc
Q 010753 472 EKHMKVFHE-------------QCSCP-CGVVLEN 492 (502)
Q Consensus 472 ~kH~~i~Ht-------------p~~C~-Cg~~f~~ 492 (502)
+.|.+--|+ -|.|. ||.+-..
T Consensus 190 eshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~ 224 (267)
T KOG3576|consen 190 ESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSER 224 (267)
T ss_pred HHHHHHHcCchHHHHHHHhhhheeeecccCCCCCC
Confidence 999664364 68899 9986544
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.41 E-value=2.7e-08 Score=109.53 Aligned_cols=65 Identities=14% Similarity=0.451 Sum_probs=43.4
Q ss_pred CcccccccCccccc-chHHhHhh-hccCceeeccccccCcccccccccCcccCccCCCccC-hhhHHHhhhcccc--eee
Q 010753 409 DTVQCKNCKRFIPS-RSIVLHEA-YCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQ-RREMEKHMKVFHE--QCS 483 (502)
Q Consensus 409 ~~~~C~nC~k~~~~-~~l~lHe~-~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~-~s~l~kH~~i~Ht--p~~ 483 (502)
..|.|..|.|.|-+ ++|..|.= |.|.+|| .|.+|.|+|. +..|..|+|.|-+ ||+
T Consensus 893 gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPy--------------------qC~iCkKAFKHKHHLtEHkRLHSGEKPfQ 952 (1007)
T KOG3623|consen 893 GMYACDQCDKAFQKQSSLARHKYEHSGQRPY--------------------QCIICKKAFKHKHHLTEHKRLHSGEKPFQ 952 (1007)
T ss_pred ccchHHHHHHHHHhhHHHHHhhhhhcCCCCc--------------------ccchhhHhhhhhhhhhhhhhhccCCCcch
Confidence 34555555555543 55555553 5555554 4556778888 8889999998443 999
Q ss_pred ec-CCcccccc
Q 010753 484 CP-CGVVLENA 493 (502)
Q Consensus 484 C~-Cg~~f~~~ 493 (502)
|+ |+|.|+.+
T Consensus 953 CdKClKRFSHS 963 (1007)
T KOG3623|consen 953 CDKCLKRFSHS 963 (1007)
T ss_pred hhhhhhhcccc
Confidence 98 99988763
No 11
>PHA02768 hypothetical protein; Provisional
Probab=98.38 E-value=1.3e-07 Score=73.75 Aligned_cols=40 Identities=18% Similarity=0.373 Sum_probs=35.5
Q ss_pred ccCccCCCccC-hhhHHHhhhcccceeeec-CCccccccccc
Q 010753 457 VHCDKCGQGLQ-RREMEKHMKVFHEQCSCP-CGVVLENAAMV 496 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~i~Htp~~C~-Cg~~f~~~~~~ 496 (502)
|.|+.||+.|. .++|..|+++|+.|++|. |++.|.+.+.+
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcCCcccCCcccceeccccee
Confidence 68999999999 999999999955599999 99999987654
No 12
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.14 E-value=3.2e-07 Score=88.75 Aligned_cols=61 Identities=20% Similarity=0.557 Sum_probs=50.6
Q ss_pred cCceeeccccccCccccc-ccccCc---------ccCccCCCccC-hhhHHHhhhcccc--eeeec-CCcccccccc
Q 010753 433 SRHSVACQHAGCGMVLRT-EEARDH---------VHCDKCGQGLQ-RREMEKHMKVFHE--QCSCP-CGVVLENAAM 495 (502)
Q Consensus 433 ~rn~~~C~~~~Cgk~F~k-~~l~~H---------~hC~~Cgk~f~-~s~l~kH~~i~Ht--p~~C~-Cg~~f~~~~~ 495 (502)
..+.+.|.. |||.|.- .-|.+| +-|..|||+|. .-.|++|+++|.+ ||+|. |+|+|+++-.
T Consensus 114 d~d~ftCrv--CgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcs 188 (267)
T KOG3576|consen 114 DQDSFTCRV--CGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCS 188 (267)
T ss_pred CCCeeeeeh--hhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhcc
Confidence 456699998 9999986 555555 45899999999 9999999999443 99999 9999998643
No 13
>PHA00733 hypothetical protein
Probab=98.00 E-value=2e-06 Score=78.18 Aligned_cols=72 Identities=17% Similarity=0.242 Sum_probs=57.6
Q ss_pred ccCcccccccCccccc-------chHHhHhhhccCceeeccccccCccccc-ccccCc-------ccCccCCCccC-hhh
Q 010753 407 EMDTVQCKNCKRFIPS-------RSIVLHEAYCSRHSVACQHAGCGMVLRT-EEARDH-------VHCDKCGQGLQ-RRE 470 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~~-------~~l~lHe~~C~rn~~~C~~~~Cgk~F~k-~~l~~H-------~hC~~Cgk~f~-~s~ 470 (502)
..+.+.|..|++.|.. .+|..|..+..+++|.|+. ||+.|.. ..|..| +.|+.|+++|. ..+
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~--Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPL--CLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCC--CCCcCCCHHHHHHHHhcCCcCccCCCCCCccCCHHH
Confidence 3567889999999952 3466665666789999998 9999998 666555 57999999999 899
Q ss_pred HHHhhhcccc
Q 010753 471 MEKHMKVFHE 480 (502)
Q Consensus 471 l~kH~~i~Ht 480 (502)
|..|+.-.|.
T Consensus 115 L~~H~~~~h~ 124 (128)
T PHA00733 115 TLDHVCKKHN 124 (128)
T ss_pred HHHHHHHhcC
Confidence 9999887775
No 14
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=97.92 E-value=1.5e-06 Score=89.87 Aligned_cols=88 Identities=17% Similarity=0.397 Sum_probs=69.8
Q ss_pred ccCcccccccCcccc-cchHHhHhh-hc--cCceeeccccccCccccc-ccccCc-------ccCccCCCccC-hhhHHH
Q 010753 407 EMDTVQCKNCKRFIP-SRSIVLHEA-YC--SRHSVACQHAGCGMVLRT-EEARDH-------VHCDKCGQGLQ-RREMEK 473 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~-~~~l~lHe~-~C--~rn~~~C~~~~Cgk~F~k-~~l~~H-------~hC~~Cgk~f~-~s~l~k 473 (502)
+++-..|..||..|. +.+|.-|-+ -. ..|+|.|.+ |-|.|.. .-|..| |.|+.|..+-+ .++|..
T Consensus 204 ~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~--C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~ 281 (467)
T KOG3608|consen 204 NEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQ--CFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTT 281 (467)
T ss_pred CCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHH--HHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHH
Confidence 466778999999997 577888875 22 456799998 9999987 444433 78999987777 999999
Q ss_pred hhhcccc---eeeec-CCccccccccc
Q 010753 474 HMKVFHE---QCSCP-CGVVLENAAMV 496 (502)
Q Consensus 474 H~~i~Ht---p~~C~-Cg~~f~~~~~~ 496 (502)
|++.-|. |++|+ |++.|.+.+.+
T Consensus 282 H~r~rHs~dkpfKCd~Cd~~c~~esdL 308 (467)
T KOG3608|consen 282 HIRYRHSKDKPFKCDECDTRCVRESDL 308 (467)
T ss_pred HHHhhhccCCCccccchhhhhccHHHH
Confidence 9998886 99999 99988877655
No 15
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=97.81 E-value=6.7e-06 Score=85.08 Aligned_cols=81 Identities=19% Similarity=0.478 Sum_probs=56.4
Q ss_pred cccccccCcccc-cchHHhHhh--hccCceeeccccccCccccc-ccccCc--------ccCcc--CCCccC-hhhHHHh
Q 010753 410 TVQCKNCKRFIP-SRSIVLHEA--YCSRHSVACQHAGCGMVLRT-EEARDH--------VHCDK--CGQGLQ-RREMEKH 474 (502)
Q Consensus 410 ~~~C~nC~k~~~-~~~l~lHe~--~C~rn~~~C~~~~Cgk~F~k-~~l~~H--------~hC~~--Cgk~f~-~s~l~kH 474 (502)
.|+|+-|.-.-+ .+.|..|.+ |..-+|++|.. |.+.|.+ ++|.+| |.|++ |-.+|. ..++.+|
T Consensus 263 ~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~--Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H 340 (467)
T KOG3608|consen 263 CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDE--CDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRH 340 (467)
T ss_pred cccccccccCCCChHHHHHHHHhhhccCCCccccc--hhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHH
Confidence 344444444443 245556665 55677888887 8888888 788777 56877 876666 7888888
Q ss_pred hhcccc-----eeeec-CCccccc
Q 010753 475 MKVFHE-----QCSCP-CGVVLEN 492 (502)
Q Consensus 475 ~~i~Ht-----p~~C~-Cg~~f~~ 492 (502)
++.+|. +|+|- |++.|..
T Consensus 341 ~~evhEg~np~~Y~CH~Cdr~ft~ 364 (467)
T KOG3608|consen 341 FLEVHEGNNPILYACHCCDRFFTS 364 (467)
T ss_pred HHHhccCCCCCceeeecchhhhcc
Confidence 887774 88888 8887765
No 16
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=97.77 E-value=1.2e-05 Score=90.53 Aligned_cols=83 Identities=19% Similarity=0.518 Sum_probs=72.8
Q ss_pred ccCcccccccCcccc-cchHHhHhh-hccCceeeccccccCccccc-ccccCc-------------ccCc---cCCCccC
Q 010753 407 EMDTVQCKNCKRFIP-SRSIVLHEA-YCSRHSVACQHAGCGMVLRT-EEARDH-------------VHCD---KCGQGLQ 467 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~-~~~l~lHe~-~C~rn~~~C~~~~Cgk~F~k-~~l~~H-------------~hC~---~Cgk~f~ 467 (502)
..|+-+|--|.|... ++.|.||.+ |.|++||+|.. ||..|.. .+|+.| +.|+ .|-+.|.
T Consensus 602 ~TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKi--CgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kft 679 (958)
T KOG1074|consen 602 RTDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKI--CGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFT 679 (958)
T ss_pred cCCccceeeeeecccchhhhhhhhhcccCcCcccccc--ccchhccccchhhcccccccCccccccccCCchhhhccccc
Confidence 467889999999998 699999999 99999999998 9999998 999999 4599 9999998
Q ss_pred -hhhHHHhhhcccc---------------eeeec-CCcccc
Q 010753 468 -RREMEKHMKVFHE---------------QCSCP-CGVVLE 491 (502)
Q Consensus 468 -~s~l~kH~~i~Ht---------------p~~C~-Cg~~f~ 491 (502)
.-.|..|.++|-. ..+|. |.+.|.
T Consensus 680 n~V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~ 720 (958)
T KOG1074|consen 680 NAVTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFS 720 (958)
T ss_pred ccccccceEEeecCCCCCCCcccccccchhcccchhhhccc
Confidence 8999999999541 35699 998884
No 17
>PHA00732 hypothetical protein
Probab=97.62 E-value=2.9e-05 Score=65.08 Aligned_cols=38 Identities=21% Similarity=0.487 Sum_probs=32.7
Q ss_pred ccCccCCCccC-hhhHHHhhhcccceeeec-CCccccccc
Q 010753 457 VHCDKCGQGLQ-RREMEKHMKVFHEQCSCP-CGVVLENAA 494 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~i~Htp~~C~-Cg~~f~~~~ 494 (502)
+.|+.||+.|. .++|..|++.+|+++.|+ ||+.|.+..
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~~l~ 41 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHTLTKCPVCNKSYRRLN 41 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccCCCccCCCCCEeCChh
Confidence 57899999998 999999998668889999 999998644
No 18
>PHA02768 hypothetical protein; Provisional
Probab=97.57 E-value=3.3e-05 Score=60.49 Aligned_cols=41 Identities=15% Similarity=0.286 Sum_probs=34.8
Q ss_pred cccccccCcccc-cchHHhHhhhccCceeeccccccCccccc-ccc
Q 010753 410 TVQCKNCKRFIP-SRSIVLHEAYCSRHSVACQHAGCGMVLRT-EEA 453 (502)
Q Consensus 410 ~~~C~nC~k~~~-~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k-~~l 453 (502)
-|.|+.|||.|. .++|..|++.+. ++++|.. ||++|.+ ++|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~-k~~kc~~--C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN-TNLKLSN--CKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC-CcccCCc--ccceeccccee
Confidence 478999999998 599999999443 7999998 9999987 554
No 19
>PHA00733 hypothetical protein
Probab=97.42 E-value=4.4e-05 Score=69.44 Aligned_cols=64 Identities=13% Similarity=0.287 Sum_probs=50.5
Q ss_pred hccCceeeccccccCccccc-ccccCc--------------ccCccCCCccC-hhhHHHhhhcccceeeec-CCcccccc
Q 010753 431 YCSRHSVACQHAGCGMVLRT-EEARDH--------------VHCDKCGQGLQ-RREMEKHMKVFHEQCSCP-CGVVLENA 493 (502)
Q Consensus 431 ~C~rn~~~C~~~~Cgk~F~k-~~l~~H--------------~hC~~Cgk~f~-~s~l~kH~~i~Htp~~C~-Cg~~f~~~ 493 (502)
--..+.+.|.. |++.|.. ..|.+| |.|+.||+.|. .++|..|++++-.++.|. |++.|.+.
T Consensus 35 ~~~~~~~~~~~--~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~ 112 (128)
T PHA00733 35 TPEQKRLIRAV--VKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNT 112 (128)
T ss_pred ChhhhhHHHHH--HhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCCCccCCH
Confidence 33466799998 9999986 333332 78999999999 999999999732389999 99999886
Q ss_pred ccc
Q 010753 494 AMV 496 (502)
Q Consensus 494 ~~~ 496 (502)
.-+
T Consensus 113 ~sL 115 (128)
T PHA00733 113 DST 115 (128)
T ss_pred HHH
Confidence 543
No 20
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.10 E-value=8.7e-05 Score=78.51 Aligned_cols=73 Identities=19% Similarity=0.419 Sum_probs=53.2
Q ss_pred cccCcccccccCccccc-chHHhHhhhc-cCceeeccccccCccccc-ccccCc--cc----------------------
Q 010753 406 IEMDTVQCKNCKRFIPS-RSIVLHEAYC-SRHSVACQHAGCGMVLRT-EEARDH--VH---------------------- 458 (502)
Q Consensus 406 ~~~~~~~C~nC~k~~~~-~~l~lHe~~C-~rn~~~C~~~~Cgk~F~k-~~l~~H--~h---------------------- 458 (502)
...+.|.|.-|+--|.- -.|..|.=-| -+--|+|++ |+|||.= .+|..| ||
T Consensus 263 n~iGdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPE--C~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~ra 340 (500)
T KOG3993|consen 263 NVIGDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPE--CDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRA 340 (500)
T ss_pred ccHHHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCc--ccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhh
Confidence 35678999999987753 4555554322 233499999 9999997 677666 44
Q ss_pred ------------------CccCCCccC-hhhHHHhhhcccc
Q 010753 459 ------------------CDKCGQGLQ-RREMEKHMKVFHE 480 (502)
Q Consensus 459 ------------------C~~Cgk~f~-~s~l~kH~~i~Ht 480 (502)
|.+|||.|. ...|.||+..||.
T Consensus 341 e~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 341 EVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred hhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 888888888 7888888777664
No 21
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=96.92 E-value=0.00054 Score=45.51 Aligned_cols=24 Identities=17% Similarity=0.378 Sum_probs=21.6
Q ss_pred hHHhHhh-hccCceeeccccccCcccc
Q 010753 424 SIVLHEA-YCSRHSVACQHAGCGMVLR 449 (502)
Q Consensus 424 ~l~lHe~-~C~rn~~~C~~~~Cgk~F~ 449 (502)
+|..|++ |.++++|.|+. |++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~--C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPY--CGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESS--SSEEES
T ss_pred CHHHHhhhcCCCCCCCCCC--CcCeeC
Confidence 4788998 88999999999 999996
No 22
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=96.91 E-value=0.00043 Score=46.00 Aligned_cols=23 Identities=30% Similarity=0.847 Sum_probs=19.3
Q ss_pred hHHHhhhcccc--eeeec-CCccccc
Q 010753 470 EMEKHMKVFHE--QCSCP-CGVVLEN 492 (502)
Q Consensus 470 ~l~kH~~i~Ht--p~~C~-Cg~~f~~ 492 (502)
+|.+|+++|.. ||.|+ |+++|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 58999999443 99999 9999964
No 23
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=96.65 E-value=0.00067 Score=76.88 Aligned_cols=50 Identities=18% Similarity=0.426 Sum_probs=44.1
Q ss_pred ccCcccccccCccccc-chHHhHhh-hccCceeeccccccCccccc-ccccCccc
Q 010753 407 EMDTVQCKNCKRFIPS-RSIVLHEA-YCSRHSVACQHAGCGMVLRT-EEARDHVH 458 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~~-~~l~lHe~-~C~rn~~~C~~~~Cgk~F~k-~~l~~H~h 458 (502)
......|.-|.|.|.. +.|++|.+ |++++||+|+. ||..|.. ..|+.||+
T Consensus 350 ~~~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnv--CG~~FSTkGNLKvH~~ 402 (958)
T KOG1074|consen 350 PFFKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNV--CGNRFSTKGNLKVHFQ 402 (958)
T ss_pred ccccchhhhhHhhcCchhhhhhhhhccCCCCCeeecc--cccccccccceeeeee
Confidence 3456789999999975 99999999 99999999998 9999997 88888853
No 24
>PHA00616 hypothetical protein
Probab=95.99 E-value=0.0022 Score=48.19 Aligned_cols=29 Identities=21% Similarity=0.552 Sum_probs=25.5
Q ss_pred ccCccCCCccC-hhhHHHhhhcccc--eeeec
Q 010753 457 VHCDKCGQGLQ-RREMEKHMKVFHE--QCSCP 485 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~i~Ht--p~~C~ 485 (502)
+.|+.||+.|. +++|.+|++.+|. |++|+
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 57889999999 9999999999886 88875
No 25
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=95.98 E-value=0.0029 Score=39.62 Aligned_cols=23 Identities=30% Similarity=0.915 Sum_probs=18.7
Q ss_pred ccCccCCCccC-hhhHHHhhhccc
Q 010753 457 VHCDKCGQGLQ-RREMEKHMKVFH 479 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~i~H 479 (502)
|.|+.|++.|. ...|..|++.+|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 67999999999 999999999866
No 26
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=95.93 E-value=0.0013 Score=69.83 Aligned_cols=57 Identities=23% Similarity=0.521 Sum_probs=50.4
Q ss_pred eeccccccCccccc-ccccCc---------ccCccCCCccC-hhhHHHhhhcccc-----------e-------------
Q 010753 437 VACQHAGCGMVLRT-EEARDH---------VHCDKCGQGLQ-RREMEKHMKVFHE-----------Q------------- 481 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k-~~l~~H---------~hC~~Cgk~f~-~s~l~kH~~i~Ht-----------p------------- 481 (502)
|+|.- |...|-- -.|.+| |.|++|+|.|. ..+|.-|.|. |. |
T Consensus 268 yiCqL--CK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRW-HKPR~eaa~a~~~P~k~~~~~rae~~e 344 (500)
T KOG3993|consen 268 YICQL--CKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRW-HKPRPEAAKAGSPPPKQAVETRAEVQE 344 (500)
T ss_pred HHHHH--HHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcc-cCCchhhhhcCCCChhhhhhhhhhhhh
Confidence 89998 9999987 678888 88999999999 9999999887 53 2
Q ss_pred ------------eeec-CCccccccccc
Q 010753 482 ------------CSCP-CGVVLENAAMV 496 (502)
Q Consensus 482 ------------~~C~-Cg~~f~~~~~~ 496 (502)
|.|. |+|.|++..++
T Consensus 345 a~rsg~dss~gi~~C~~C~KkFrRqAYL 372 (500)
T KOG3993|consen 345 AERSGDDSSSGIFSCHTCGKKFRRQAYL 372 (500)
T ss_pred ccccCCcccCceeecHHhhhhhHHHHHH
Confidence 6799 99999998877
No 27
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=95.86 E-value=0.0061 Score=47.12 Aligned_cols=51 Identities=24% Similarity=0.484 Sum_probs=36.5
Q ss_pred CcccccccCcccccchHHhHhh--hcc-CceeeccccccCcccccccccCcccCccCCCccChhhHHHhhhcccc
Q 010753 409 DTVQCKNCKRFIPSRSIVLHEA--YCS-RHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQRREMEKHMKVFHE 480 (502)
Q Consensus 409 ~~~~C~nC~k~~~~~~l~lHe~--~C~-rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~~s~l~kH~~i~Ht 480 (502)
+.|.|+.|++.|....|..|-. |.. .++++||. |...+ ..+|..|+.++|.
T Consensus 1 ~~f~CP~C~~~~~~~~L~~H~~~~H~~~~~~v~CPi--------------------C~~~~-~~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 1 DSFTCPYCGKGFSESSLVEHCEDEHRSESKNVVCPI--------------------CSSRV-TDNLIRHLNSQHR 54 (54)
T ss_pred CCcCCCCCCCccCHHHHHHHHHhHCcCCCCCccCCC--------------------chhhh-hhHHHHHHHHhcC
Confidence 4688999999888899999975 554 35676664 43333 3488888887763
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=95.74 E-value=0.003 Score=40.01 Aligned_cols=21 Identities=24% Similarity=0.817 Sum_probs=18.4
Q ss_pred ccCccCCCccC-hhhHHHhhhc
Q 010753 457 VHCDKCGQGLQ-RREMEKHMKV 477 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~i 477 (502)
|.|+.|++.|. ++.|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 56889999999 9999999987
No 29
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=95.72 E-value=0.048 Score=64.69 Aligned_cols=9 Identities=56% Similarity=1.084 Sum_probs=3.4
Q ss_pred HHHHHHHHH
Q 010753 11 KLEKEQKER 19 (502)
Q Consensus 11 k~~~e~~~r 19 (502)
++++|.++|
T Consensus 462 r~e~e~~er 470 (1021)
T PTZ00266 462 RLEREERER 470 (1021)
T ss_pred HHHHHHHHH
Confidence 333333333
No 30
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=95.36 E-value=0.0068 Score=60.79 Aligned_cols=48 Identities=19% Similarity=0.545 Sum_probs=45.6
Q ss_pred cccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCcccC
Q 010753 410 TVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHC 459 (502)
Q Consensus 410 ~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC 459 (502)
.++|.+||-.+++..+-.|.-.|.--.|.|-. ||++|-+.+..+|..|
T Consensus 3 ~FtCnvCgEsvKKp~vekH~srCrn~~fSCID--C~k~F~~~sYknH~kC 50 (276)
T KOG2186|consen 3 FFTCNVCGESVKKPQVEKHMSRCRNAYFSCID--CGKTFERVSYKNHTKC 50 (276)
T ss_pred EEehhhhhhhccccchHHHHHhccCCeeEEee--cccccccchhhhhhhh
Confidence 47899999999999999999999889999999 9999999999999999
No 31
>PHA00732 hypothetical protein
Probab=94.94 E-value=0.011 Score=49.58 Aligned_cols=37 Identities=16% Similarity=0.290 Sum_probs=29.2
Q ss_pred cccccccCcccc-cchHHhHhh-hccCceeeccccccCccccc
Q 010753 410 TVQCKNCKRFIP-SRSIVLHEA-YCSRHSVACQHAGCGMVLRT 450 (502)
Q Consensus 410 ~~~C~nC~k~~~-~~~l~lHe~-~C~rn~~~C~~~~Cgk~F~k 450 (502)
++.|..|++.|. ..+|..|.+ +.. ++.|+. ||+.|.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~--~~~C~~--CgKsF~~ 39 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT--LTKCPV--CNKSYRR 39 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC--CCccCC--CCCEeCC
Confidence 468999999997 489999986 332 358998 9998874
No 32
>PHA00616 hypothetical protein
Probab=94.86 E-value=0.011 Score=44.56 Aligned_cols=31 Identities=13% Similarity=0.353 Sum_probs=27.8
Q ss_pred cccccccCcccc-cchHHhHhh-hccCceeecc
Q 010753 410 TVQCKNCKRFIP-SRSIVLHEA-YCSRHSVACQ 440 (502)
Q Consensus 410 ~~~C~nC~k~~~-~~~l~lHe~-~C~rn~~~C~ 440 (502)
+++|..||+.|. +..|..|.+ |++++++.|.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 579999999998 599999998 9999999886
No 33
>PF02933 CDC48_2: Cell division protein 48 (CDC48), domain 2; InterPro: IPR004201 This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C terminus. The VAT-N domain found in AAA ATPases (IPR003959 from INTERPRO) is a substrate 185-residue recognition domain [].; GO: 0005524 ATP binding; PDB: 1QDN_B 1QCS_A 1CR5_C 3QQ8_A 3HU2_A 3HU1_E 3HU3_A 3QWZ_A 3TIW_B 3QQ7_A ....
Probab=94.65 E-value=0.1 Score=41.51 Aligned_cols=41 Identities=27% Similarity=0.447 Sum_probs=33.6
Q ss_pred cccccCCEEEEEECCEEEEEEEEEEcCCCceEEEc-CceEEe
Q 010753 216 ATLSQDDVLTVNYGELAYKLKVLELKPSSSVSVLE-TDIEVD 256 (502)
Q Consensus 216 stLT~Gd~I~I~~~~~~y~l~V~e~~P~~aVsIid-TDleVD 256 (502)
--+++||+|.|.+.+..+.|.|.+++|.+.|-|-+ |.+++-
T Consensus 17 ~pv~~Gd~i~~~~~~~~~~~~V~~~~P~~~v~it~~T~i~i~ 58 (64)
T PF02933_consen 17 RPVTKGDTIVFPFFGQALPFKVVSTEPSGPVIITEDTEIEIK 58 (64)
T ss_dssp EEEETT-EEEEEETTEEEEEEEEEECSSSEEEEETTSEEEES
T ss_pred CCccCCCEEEEEeCCcEEEEEEEEEEcCCCEEECCCcEEEEc
Confidence 68999999999999999999999999998665543 446654
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=94.54 E-value=0.017 Score=48.12 Aligned_cols=69 Identities=19% Similarity=0.407 Sum_probs=21.4
Q ss_pred cccccCccccc-chHHhHhhhccCceeecccc--ccCccccc--ccccCcccCccCCCccC-hhhHHHhhhcc-cc
Q 010753 412 QCKNCKRFIPS-RSIVLHEAYCSRHSVACQHA--GCGMVLRT--EEARDHVHCDKCGQGLQ-RREMEKHMKVF-HE 480 (502)
Q Consensus 412 ~C~nC~k~~~~-~~l~lHe~~C~rn~~~C~~~--~Cgk~F~k--~~l~~H~hC~~Cgk~f~-~s~l~kH~~i~-Ht 480 (502)
+|.-|+..|+. ..|..|..-...-.+..... ....+... ..+..+|.|..|++.|. ...|..|++.. |.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~~H~ 76 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSKHHK 76 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTTTT
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCccCC
Confidence 69999999985 78888876222222211110 01122221 33445699999999999 99999999953 53
No 35
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=94.38 E-value=0.015 Score=45.13 Aligned_cols=47 Identities=30% Similarity=0.689 Sum_probs=27.5
Q ss_pred cccccc--cCcccccchHHhHhh-hccCceeeccc--cccCcccccccccCc
Q 010753 410 TVQCKN--CKRFIPSRSIVLHEA-YCSRHSVACQH--AGCGMVLRTEEARDH 456 (502)
Q Consensus 410 ~~~C~n--C~k~~~~~~l~lHe~-~C~rn~~~C~~--~~Cgk~F~k~~l~~H 456 (502)
...|+| |...|++..|..|.. .|...++.|+. .||+..+.+.++.+|
T Consensus 9 ~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 9 PVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp EEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred EeeCCCCCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence 467877 666677888888887 77777777765 446666655555444
No 36
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=94.34 E-value=0.27 Score=56.25 Aligned_cols=25 Identities=20% Similarity=0.352 Sum_probs=17.2
Q ss_pred ChHHHHHHHhccC--cccccCCEEEEE
Q 010753 203 NQKAVLETSLRQH--ATLSQDDVLTVN 227 (502)
Q Consensus 203 n~KavLE~~LR~~--stLT~Gd~I~I~ 227 (502)
+.+|+.+-.-|++ .|.-.||+|.|.
T Consensus 695 kyrAly~FeaRs~dEisf~pGDII~V~ 721 (1118)
T KOG1029|consen 695 KYRALYPFEARSHDEISFEPGDIIIVF 721 (1118)
T ss_pred EEeeecccccCCcccccccCCCEEEEe
Confidence 4566666667776 577778888774
No 37
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=94.24 E-value=0.026 Score=43.59 Aligned_cols=36 Identities=25% Similarity=0.712 Sum_probs=30.5
Q ss_pred ccCccCCCccChhhHHHhhhcccc----eeeec-CCccccc
Q 010753 457 VHCDKCGQGLQRREMEKHMKVFHE----QCSCP-CGVVLEN 492 (502)
Q Consensus 457 ~hC~~Cgk~f~~s~l~kH~~i~Ht----p~~C~-Cg~~f~~ 492 (502)
|.||.||+.|...+|..|....|. .+.|+ |...+..
T Consensus 3 f~CP~C~~~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~~ 43 (54)
T PF05605_consen 3 FTCPYCGKGFSESSLVEHCEDEHRSESKNVVCPICSSRVTD 43 (54)
T ss_pred cCCCCCCCccCHHHHHHHHHhHCcCCCCCccCCCchhhhhh
Confidence 679999998888899999888885 78899 9986654
No 38
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.29 E-value=0.045 Score=36.17 Aligned_cols=23 Identities=30% Similarity=0.589 Sum_probs=20.5
Q ss_pred cccccccCcccccchHHhHhhhc
Q 010753 410 TVQCKNCKRFIPSRSIVLHEAYC 432 (502)
Q Consensus 410 ~~~C~nC~k~~~~~~l~lHe~~C 432 (502)
..+|..||+.|....|..|+..|
T Consensus 2 l~~C~~CgR~F~~~~l~~H~~~C 24 (25)
T PF13913_consen 2 LVPCPICGRKFNPDRLEKHEKIC 24 (25)
T ss_pred CCcCCCCCCEECHHHHHHHHHhc
Confidence 46799999999999999999876
No 39
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=93.11 E-value=0.52 Score=54.00 Aligned_cols=21 Identities=19% Similarity=0.223 Sum_probs=13.4
Q ss_pred CcccccCCEEEEEECCEEEEE
Q 010753 215 HATLSQDDVLTVNYGELAYKL 235 (502)
Q Consensus 215 ~stLT~Gd~I~I~~~~~~y~l 235 (502)
+-..++||+|+|--....++|
T Consensus 829 dLsFskgd~I~VlekqemwW~ 849 (1118)
T KOG1029|consen 829 DLSFSKGDTITVLEKQEMWWF 849 (1118)
T ss_pred cccccCCCeeeeehhccceec
Confidence 456788999988544334444
No 40
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=92.80 E-value=0.044 Score=35.99 Aligned_cols=23 Identities=22% Similarity=0.660 Sum_probs=18.2
Q ss_pred ccCccCCCccC-hhhHHHhhhccc
Q 010753 457 VHCDKCGQGLQ-RREMEKHMKVFH 479 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~i~H 479 (502)
+.|+.|++.|. ...|..|++.||
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCccCCccCChhHHHHHhHHhc
Confidence 45778888888 888888888755
No 41
>smart00355 ZnF_C2H2 zinc finger.
Probab=92.54 E-value=0.072 Score=33.37 Aligned_cols=21 Identities=24% Similarity=0.825 Sum_probs=18.5
Q ss_pred ccCccCCCccC-hhhHHHhhhc
Q 010753 457 VHCDKCGQGLQ-RREMEKHMKV 477 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~i 477 (502)
+.|+.|+++|. .++|..|+++
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHH
Confidence 46899999999 9999999986
No 42
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=92.32 E-value=0.047 Score=42.34 Aligned_cols=47 Identities=32% Similarity=0.735 Sum_probs=33.6
Q ss_pred HhhhccCceeeccccccCcccccccccCc---------ccCcc----CCCccChhhHHHh
Q 010753 428 HEAYCSRHSVACQHAGCGMVLRTEEARDH---------VHCDK----CGQGLQRREMEKH 474 (502)
Q Consensus 428 He~~C~rn~~~C~~~~Cgk~F~k~~l~~H---------~hC~~----Cgk~f~~s~l~kH 474 (502)
|+..|...++.|+.++|...+.+.++..| ..|+. |+..+....|..|
T Consensus 1 H~~~C~~~~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 1 HEEECPFRPVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp HHTTSTTSEEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred CcccCCCCEeeCCCCCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence 78889999999998545577999999998 46888 8877778888877
No 43
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=91.35 E-value=5.8 Score=45.83 Aligned_cols=136 Identities=15% Similarity=0.107 Sum_probs=91.2
Q ss_pred cCCCCCCeEEeChhHHHHHHcCCCCCCCceEEEEEecCCCCCCCCCCCccCCCCeEEEEEee-ee--eCCCceeccHHHH
Q 010753 86 PFQGSGDKIKLPPSCFTELSGQGAFDKGPLHFKLSVLHQEGPSNMEDGEKESNRSTHSGVLE-FT--ADEGFVGLPPHVW 162 (502)
Q Consensus 86 ~~~~~gDKIiLP~SaL~~L~~~~~~~~~Pl~F~l~n~~~~~~~~~~~~~~~~~~~th~GVlE-Fs--A~EG~v~LP~wm~ 162 (502)
+.....+.+-|.|+++.+|- .. ++- +-+|.. .++.+.+-|.. +. .+.|.|.+...+.
T Consensus 11 ~~~~~~~~~~~~~~~~~~~~---~~-~~~-~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (733)
T TIGR01243 11 PRDVGRGIVRIDRQTAARLG---VE-PGD-FVEIEK---------------GDRSVVAIVWPLRPDDEGRGIIRMDGYLR 70 (733)
T ss_pred ccCCCCCeEeeCHHHHHhcC---CC-CCC-EEEEec---------------CCCceeEEEEecCccccCCCEEeecHHHH
Confidence 34445678889999999882 21 111 222331 13345555553 22 2459999999999
Q ss_pred HhcCCCCCCCCceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhccCcccccCCEEEEEECCEEEEEEEEEEcC
Q 010753 163 RNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQHATLSQDDVLTVNYGELAYKLKVLELKP 242 (502)
Q Consensus 163 ~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~~stLT~Gd~I~I~~~~~~y~l~V~e~~P 242 (502)
.++++. .++.|+|+.+.+|.+..|.+.|... ...-.+...++-..|.+ ..|++||.|.+.+.+..+.|.|....|
T Consensus 71 ~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~g~~~~~~~~~~~~~~~v~~~~p 145 (733)
T TIGR01243 71 ANAGVT---IGDTVTVERAEVKEAKKVVLAPTQP-IRFGRDFVDYVKEFLLG-KPISKGETVIVPVLEGALPFVVVSTQP 145 (733)
T ss_pred hhcCCC---CCCeEEEeecCCCccceEeeccccc-cccccchHHHHHHHHcC-CCCCCCCEEEecccCcceeEEEEecCC
Confidence 999987 5789999988999999999999532 11112222333333332 579999999999877678889999999
Q ss_pred CCce
Q 010753 243 SSSV 246 (502)
Q Consensus 243 ~~aV 246 (502)
...+
T Consensus 146 ~~~~ 149 (733)
T TIGR01243 146 AGFV 149 (733)
T ss_pred CCcE
Confidence 6544
No 44
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=91.32 E-value=0.58 Score=51.30 Aligned_cols=44 Identities=41% Similarity=0.598 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 4 ELRRAREKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAA 47 (502)
Q Consensus 4 ~l~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~ 47 (502)
|-|++.+.|+.|-+.+++.||+|.|.||..||+...+||-|.|+
T Consensus 406 ear~rkqqleae~e~kreearrkaeeer~~keee~arrefirqe 449 (708)
T KOG3654|consen 406 EARRRKQQLEAEKEQKREEARRKAEEERAPKEEEVARREFIRQE 449 (708)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHhhhcchhhhhhHHHHHHHH
Confidence 34555666677777777777777777777666666666666553
No 45
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=91.13 E-value=0.13 Score=33.96 Aligned_cols=21 Identities=38% Similarity=0.814 Sum_probs=18.7
Q ss_pred ccCccCCCccChhhHHHhhhc
Q 010753 457 VHCDKCGQGLQRREMEKHMKV 477 (502)
Q Consensus 457 ~hC~~Cgk~f~~s~l~kH~~i 477 (502)
..|+.||..|..+.|.+|+++
T Consensus 3 ~~C~~CgR~F~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKFNPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEECHHHHHHHHHh
Confidence 369999999999999999887
No 46
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=91.13 E-value=0.92 Score=52.06 Aligned_cols=16 Identities=0% Similarity=-0.197 Sum_probs=7.3
Q ss_pred cchHHhHhhhccCcee
Q 010753 422 SRSIVLHEAYCSRHSV 437 (502)
Q Consensus 422 ~~~l~lHe~~C~rn~~ 437 (502)
..-+-.|.-+||.++|
T Consensus 1225 ~~eFe~~W~r~Ggk~~ 1240 (1259)
T KOG0163|consen 1225 EHEFEREWERNGGKAY 1240 (1259)
T ss_pred hHHHHHHHHHhCcHHh
Confidence 3344445545554443
No 47
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=91.11 E-value=0.77 Score=50.84 Aligned_cols=35 Identities=34% Similarity=0.553 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 010753 18 ERKERARLKLEREKKAKEEAKKQREAIEAAQRSRR 52 (502)
Q Consensus 18 ~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r 52 (502)
+|.++-|.+++++.+++.||+++|.+.+++.|+++
T Consensus 207 q~~eqi~~~~~~~e~kr~Eaerk~~~~qEe~Rqk~ 241 (591)
T KOG2412|consen 207 QRKEQIRERKERSEEKREEAERKRRAHQEELRQKE 241 (591)
T ss_pred HHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH
Confidence 34444444444444444444433333333333333
No 48
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=90.87 E-value=0.11 Score=34.01 Aligned_cols=21 Identities=19% Similarity=0.553 Sum_probs=16.2
Q ss_pred cccccccCccccc-chHHhHhh
Q 010753 410 TVQCKNCKRFIPS-RSIVLHEA 430 (502)
Q Consensus 410 ~~~C~nC~k~~~~-~~l~lHe~ 430 (502)
+++|..|++.|.. ..|..|.+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKR 22 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHC
T ss_pred CCCCCccCCccCChhHHHHHhH
Confidence 3678888888874 78888876
No 49
>PTZ00121 MAEBL; Provisional
Probab=90.84 E-value=1.2 Score=54.34 Aligned_cols=22 Identities=36% Similarity=0.545 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010753 12 LEKEQKERKERARLKLEREKKA 33 (502)
Q Consensus 12 ~~~e~~~r~~~~~~~~~~e~~~ 33 (502)
.+.||.++++.+|.|+|..+++
T Consensus 1607 ~kae~~kk~ee~~kk~E~~kk~ 1628 (2084)
T PTZ00121 1607 MKAEEAKKAEEAKIKAEELKKA 1628 (2084)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3666777766666555554444
No 50
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=90.29 E-value=0.12 Score=53.64 Aligned_cols=60 Identities=20% Similarity=0.404 Sum_probs=40.3
Q ss_pred cCceeeccccccCccccc-ccccCcccCccCCCcc-ChhhHHHhhhccc---ceeeec-CCcccccc
Q 010753 433 SRHSVACQHAGCGMVLRT-EEARDHVHCDKCGQGL-QRREMEKHMKVFH---EQCSCP-CGVVLENA 493 (502)
Q Consensus 433 ~rn~~~C~~~~Cgk~F~k-~~l~~H~hC~~Cgk~f-~~s~l~kH~~i~H---tp~~C~-Cg~~f~~~ 493 (502)
.++||+||..||.|.+.. ..|+-|-.=.+|..-. ..-+=.+| .+|- .||.|. |+|...+.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~-~~F~~~~KPYrCevC~KRYKNl 411 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKM-NIFSAKDKPYRCEVCDKRYKNL 411 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCcccc-ccccccCCceeccccchhhccC
Confidence 369999999999999997 8888773333333222 22233444 3343 399999 99987764
No 51
>PRK11029 FtsH protease regulator HflC; Provisional
Probab=89.62 E-value=0.73 Score=48.57 Aligned_cols=93 Identities=18% Similarity=0.247 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH-HHHHhhHHHHHHHHHHHHHHHHHHHcCCc-EEEEEEeee
Q 010753 8 AREKLEKEQKERKERARLKLEREKK-AKEEAKKQREAIEA-AQRSRRLDAIDAQLKADQEMQESLLAGGG-IVFYHTLEA 84 (502)
Q Consensus 8 ~~~k~~~e~~~r~~~~~~~~~~e~~-~~~~a~~~~~~~~~-~~~~~r~~~~~~~~~~~~~~~~~~~~~~g-~~~~~~~~~ 84 (502)
-.++...||++++.+.|...+++.. .+.+|.++...+.+ +.++.++-+++++.++-+...+.+...-. ..|...|.+
T Consensus 223 i~~~~~Aere~~a~~~~aege~~a~~~~a~A~~e~~~~~AeA~~~a~i~~aegeA~a~~~~~~a~~~~p~~~~~~~~lea 302 (334)
T PRK11029 223 IYNRMRAEREAVARRHRSQGQEEAEKLRATADYEVTRTLAEAERQGRIMRGEGDAEAAKLFADAFSQDPDFYAFIRSLRA 302 (334)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 3456667777776666666666643 23334333333222 33444444445554444444455443322 224444554
Q ss_pred ccC--CCCCCeEEeChhH
Q 010753 85 LPF--QGSGDKIKLPPSC 100 (502)
Q Consensus 85 ~~~--~~~gDKIiLP~Sa 100 (502)
+-. .+.+++++||++.
T Consensus 303 ~~~~~~~~~~~~vl~~~~ 320 (334)
T PRK11029 303 YENSFSGNQDVMVLSPDS 320 (334)
T ss_pred HHHHhcCCCcEEEECCCh
Confidence 432 3345679999984
No 52
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=88.44 E-value=3 Score=48.28 Aligned_cols=9 Identities=44% Similarity=0.918 Sum_probs=4.1
Q ss_pred HHcCCcEEE
Q 010753 70 LLAGGGIVF 78 (502)
Q Consensus 70 ~~~~~g~~~ 78 (502)
+..|+|+.-
T Consensus 302 l~sg~~~~v 310 (1064)
T KOG1144|consen 302 LASGGGLPV 310 (1064)
T ss_pred HhcCCCCCC
Confidence 345544443
No 53
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=88.11 E-value=5.9 Score=45.89 Aligned_cols=153 Identities=16% Similarity=0.123 Sum_probs=110.1
Q ss_pred CCCCeEEeChhHHHHHHcCCCCCCCceEEEEEecCCCCCCCCCCCccCCCCeEEEEEeeee-eCCCceeccHHHHHhcCC
Q 010753 89 GSGDKIKLPPSCFTELSGQGAFDKGPLHFKLSVLHQEGPSNMEDGEKESNRSTHSGVLEFT-ADEGFVGLPPHVWRNLFP 167 (502)
Q Consensus 89 ~~gDKIiLP~SaL~~L~~~~~~~~~Pl~F~l~n~~~~~~~~~~~~~~~~~~~th~GVlEFs-A~EG~v~LP~wm~~~L~~ 167 (502)
...--|.||...+..|..... .+|+.--... + + ..+.-+.| -|+ ..|+.|.+-+-....|++
T Consensus 12 ~r~cfv~lP~ql~~ai~~~~~--~~av~~v~~~--~----------~-~~~s~~~g--~~s~~se~~ieIn~~~A~~l~L 74 (952)
T KOG0735|consen 12 LRSCFVNLPEQLLEAISEPVQ--NYAVQAVVSK--N----------P-IKKSWVFG--HGSGSSENVIEINRVYAHTLGL 74 (952)
T ss_pred chhhhhccHHHHHHHHhcccc--CceeEEEEcC--C----------C-hhheeecc--cCCCCccceEEeehhhHhhccC
Confidence 345568899999999976432 2344322221 1 0 12344444 343 456778888889999998
Q ss_pred CCCCCCceEEEEEE-ecCCcceEEEeeccCCCCCCCChHH-HHHHHhc-cCcccccCCEEEEEEC-CEEEEEEEEEEcCC
Q 010753 168 SDTPNNSFVEVRYV-RLPKGTYAKLQPEGIGFAELPNQKA-VLETSLR-QHATLSQDDVLTVNYG-ELAYKLKVLELKPS 243 (502)
Q Consensus 168 ~~~~~~~~V~v~~~-~LPkGt~vkLqP~~~~f~di~n~Ka-vLE~~LR-~~stLT~Gd~I~I~~~-~~~y~l~V~e~~P~ 243 (502)
. ++..|.+... ..++++-|.+.|.+++=|+|-+--| -||..|- ++--+|. ....|++. +..-.|.|+.+.|.
T Consensus 75 ~---e~~~V~l~~~~~v~~~~~V~VeP~TsdDWEIiElnA~~~e~~lL~Q~RIv~~-~~f~iwl~~~t~i~fqv~rl~Ps 150 (952)
T KOG0735|consen 75 A---ENQEVKLSIIDHVHEATQVEVEPVTSDDWEIIELNAEWLEENLLVQTRIVTP-EIFIIWLPSGTVIQFQVDRLIPS 150 (952)
T ss_pred C---CCCeEEEEEcCCccceeEEEEeeccCccHHHHHhhHHHHhhhhhhheeeccc-ceeEEEEcCccEEEEEEeeeecc
Confidence 8 4667777655 8999999999999987667655444 5666664 6778888 78888887 56778999999999
Q ss_pred CceEEEcCceEEeccCCCC
Q 010753 244 SSVSVLETDIEVDIVSPDD 262 (502)
Q Consensus 244 ~aVsIidTDleVD~~~~~~ 262 (502)
-.+.=++++-+|=+.|-..
T Consensus 151 ~~~gRl~~~Tev~VaPK~~ 169 (952)
T KOG0735|consen 151 MLYGRLLRGTEVLVAPKPN 169 (952)
T ss_pred cceeeecCCceEEEecCcc
Confidence 9888899999998888644
No 54
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=87.37 E-value=3.2 Score=45.28 Aligned_cols=36 Identities=25% Similarity=0.213 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 010753 35 EEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQESL 70 (502)
Q Consensus 35 ~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~ 70 (502)
+.++++||+..+..+++|-+++++.++++++..+..
T Consensus 349 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 384 (429)
T PRK00247 349 EIAQKRRAAEREINREARQERAAAMARARARRAAVK 384 (429)
T ss_pred HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHh
Confidence 444556666666666667666666666655554443
No 55
>PRK04860 hypothetical protein; Provisional
Probab=87.23 E-value=0.38 Score=45.64 Aligned_cols=36 Identities=22% Similarity=0.516 Sum_probs=31.2
Q ss_pred cccccccCcccccchHHhHhh-hccCceeeccccccCccccc
Q 010753 410 TVQCKNCKRFIPSRSIVLHEA-YCSRHSVACQHAGCGMVLRT 450 (502)
Q Consensus 410 ~~~C~nC~k~~~~~~l~lHe~-~C~rn~~~C~~~~Cgk~F~k 450 (502)
.|.|. |++ -..++..|.+ +.++++|.|.. |++.|..
T Consensus 119 ~Y~C~-C~~--~~~~~rrH~ri~~g~~~YrC~~--C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE--HQLTVRRHNRVVRGEAVYRCRR--CGETLVF 155 (160)
T ss_pred EEEcC-CCC--eeCHHHHHHHHhcCCccEECCC--CCceeEE
Confidence 69998 998 5688889987 77899999999 9999865
No 56
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=86.99 E-value=0.13 Score=32.42 Aligned_cols=18 Identities=22% Similarity=0.647 Sum_probs=12.3
Q ss_pred eeccccccCccccc-ccccCc
Q 010753 437 VACQHAGCGMVLRT-EEARDH 456 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k-~~l~~H 456 (502)
|+|+. ||++|.. ..|.+|
T Consensus 1 y~C~~--C~~~f~~~~~l~~H 19 (23)
T PF00096_consen 1 YKCPI--CGKSFSSKSNLKRH 19 (23)
T ss_dssp EEETT--TTEEESSHHHHHHH
T ss_pred CCCCC--CCCccCCHHHHHHH
Confidence 56776 7777776 666655
No 57
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=86.73 E-value=3.5 Score=47.55 Aligned_cols=13 Identities=23% Similarity=0.238 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHH
Q 010753 57 DAQLKADQEMQES 69 (502)
Q Consensus 57 ~~~~~~~~~~~~~ 69 (502)
++++++++|.+++
T Consensus 992 e~eee~k~q~~~E 1004 (1259)
T KOG0163|consen 992 EAEEEAKRQNQLE 1004 (1259)
T ss_pred HHHHHHHHHhHHH
Confidence 3444445555433
No 58
>PRK04860 hypothetical protein; Provisional
Probab=86.21 E-value=0.41 Score=45.40 Aligned_cols=34 Identities=24% Similarity=0.606 Sum_probs=27.3
Q ss_pred ccCccCCCccChhhHHHhhhcccc--eeeec-CCcccccc
Q 010753 457 VHCDKCGQGLQRREMEKHMKVFHE--QCSCP-CGVVLENA 493 (502)
Q Consensus 457 ~hC~~Cgk~f~~s~l~kH~~i~Ht--p~~C~-Cg~~f~~~ 493 (502)
|.|. |++ -..++.+|++++.+ +|.|. |+..|...
T Consensus 120 Y~C~-C~~--~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 120 YRCK-CQE--HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEcC-CCC--eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 7897 875 57789999999533 89999 99988653
No 59
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=86.08 E-value=0.37 Score=53.16 Aligned_cols=44 Identities=32% Similarity=0.523 Sum_probs=40.2
Q ss_pred ccccCcccccccCcccccchHHhHhhhccCceeeccccccCccccc
Q 010753 405 SIEMDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRT 450 (502)
Q Consensus 405 ~~~~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k 450 (502)
..+.+.|-|+||.-.+|+.....-.+.|.||.|.||. |+-....
T Consensus 21 ~~Ei~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~CP~--C~~~L~~ 64 (483)
T PF05502_consen 21 SEEIDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPI--CFSPLSV 64 (483)
T ss_pred ccccceeECccccccCChhhheeccceeccccccCCC--CCCccee
Confidence 4578899999999999999998999999999999999 9988876
No 60
>PF09262 PEX-1N: Peroxisome biogenesis factor 1, N-terminal ; InterPro: IPR015342 This domain adopts a double psi beta-barrel fold, similar in structure to the Cdc48 N-terminal domain. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation []. ; GO: 0005524 ATP binding, 0007031 peroxisome organization, 0005777 peroxisome; PDB: 1WLF_A.
Probab=85.93 E-value=0.46 Score=40.12 Aligned_cols=74 Identities=26% Similarity=0.267 Sum_probs=44.7
Q ss_pred cceEEEeeccCCCCCC-CChHHHHHHHhc-cCcccccCCEEEEEE-CCEEEEEEEEEEcCCCc---eEEEcCceEEeccC
Q 010753 186 GTYAKLQPEGIGFAEL-PNQKAVLETSLR-QHATLSQDDVLTVNY-GELAYKLKVLELKPSSS---VSVLETDIEVDIVS 259 (502)
Q Consensus 186 Gt~vkLqP~~~~f~di-~n~KavLE~~LR-~~stLT~Gd~I~I~~-~~~~y~l~V~e~~P~~a---VsIidTDleVD~~~ 259 (502)
++.|-+.|++.+=|+| +..-..||..|- +--.++.|.++.|+. ++..-+|+|..+.|.+. ...+..|-||=+.|
T Consensus 1 A~~V~veP~T~dDWEIlEl~A~~lE~~lL~QiRvv~~~~~~~v~v~~~~~i~~~V~~i~p~~~~~~~~~L~~~TEv~VaP 80 (80)
T PF09262_consen 1 AKSVEVEPLTSDDWEILELHAEFLEDQLLSQIRVVFPGQVFPVWVSQNTVIKFKVVSIEPSSSAEGCARLSPDTEVIVAP 80 (80)
T ss_dssp -SEEEEEESSHHHHHHHHHS-SSHHHHHHHH--EE-TT-EEEEESSSS-EEEEEEEEEES--S---SEE--TT-EEEE--
T ss_pred CcEEEEEcCCccHHHHHHHhHHHHHHHHHHhheeecCCCEEEEEEcCCeEEEEEEEEccCCCCceeEEEeCCCcEEEECC
Confidence 4567888887532222 122234777775 578999999999998 57889999999999876 78888888887654
No 61
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=85.51 E-value=3.1 Score=40.60 Aligned_cols=43 Identities=12% Similarity=0.121 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHH---HHHHcCCcEEEEEE
Q 010753 39 KQREAIEAAQRSRRLDAIDAQLKADQEMQ---ESLLAGGGIVFYHT 81 (502)
Q Consensus 39 ~~~~~~~~~~~~~r~~~~~~~~~~~~~~~---~~~~~~~g~~~~~~ 81 (502)
+.+|+.++....-+-++.+++|+.+|+.. |.|..|.+..-+..
T Consensus 91 RmQEE~dakA~~~kEKq~q~EEEKRrqkie~we~~q~Gks~k~~~~ 136 (190)
T PF06936_consen 91 RMQEELDAKAEEYKEKQKQEEEEKRRQKIEMWESMQEGKSYKGSKK 136 (190)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccC
Confidence 44455555444444444455555554444 44666666553333
No 62
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=85.50 E-value=0.74 Score=36.78 Aligned_cols=29 Identities=28% Similarity=0.633 Sum_probs=16.4
Q ss_pred CcccccccCcccccchHHhHhhhccCceeeccccccCcc
Q 010753 409 DTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMV 447 (502)
Q Consensus 409 ~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~ 447 (502)
....|.-||..+.-..- -=.|.||. ||+.
T Consensus 6 ~~~~CtSCg~~i~~~~~--------~~~F~CPn--CG~~ 34 (59)
T PRK14890 6 EPPKCTSCGIEIAPREK--------AVKFLCPN--CGEV 34 (59)
T ss_pred cCccccCCCCcccCCCc--------cCEeeCCC--CCCe
Confidence 34468888877642110 01267777 7766
No 63
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=85.35 E-value=0.75 Score=36.84 Aligned_cols=11 Identities=36% Similarity=0.742 Sum_probs=7.9
Q ss_pred cccccccCccc
Q 010753 410 TVQCKNCKRFI 420 (502)
Q Consensus 410 ~~~C~nC~k~~ 420 (502)
.-.|.-||..+
T Consensus 9 ~~~CtSCg~~i 19 (61)
T COG2888 9 PPVCTSCGREI 19 (61)
T ss_pred CceeccCCCEe
Confidence 45688888777
No 64
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=84.71 E-value=6.1 Score=46.76 Aligned_cols=46 Identities=30% Similarity=0.404 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhh
Q 010753 7 RAREKLEKEQKERKERARLKLEREKKAKEEA-KKQREAIEAAQRSRR 52 (502)
Q Consensus 7 ~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a-~~~~~~~~~~~~~~r 52 (502)
+|..+..+.|++-.+.-+.|+++++.+..++ ++++++.+++++.||
T Consensus 821 ~a~~~~~~Aq~e~e~er~~kq~~~~~a~~~~~~ee~~r~~eee~~~r 867 (1018)
T KOG2002|consen 821 QALEHVAQAQEEDEEERRAKQEKEEEALIEKELEEARRKEEEEKARR 867 (1018)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444433333355666665554444 233333444444444
No 65
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=83.72 E-value=5.6 Score=44.32 Aligned_cols=42 Identities=36% Similarity=0.547 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhHHH
Q 010753 14 KEQKERKERARLKLEREKKAKEEAKKQREAIEAAQR-SRRLDA 55 (502)
Q Consensus 14 ~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~-~~r~~~ 55 (502)
++++++.++.|.-.|+-|++.+|+.+|.+..++..+ +.++.+
T Consensus 213 ~~~~~~~e~kr~Eaerk~~~~qEe~Rqk~d~~~~~~eqekiR~ 255 (591)
T KOG2412|consen 213 RERKERSEEKREEAERKRRAHQEELRQKEDEEAELQEQEKIRA 255 (591)
T ss_pred HHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 344444444444444444444455444444444333 434333
No 66
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.50 E-value=6.2 Score=40.07 Aligned_cols=64 Identities=28% Similarity=0.380 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH----HHH-HHHHHH-HHHHHHHhhHHHHH--HHHHHHHHHHHHHHc
Q 010753 9 REKLEKEQKERKERARLKLEREKKAK----EEA-KKQREA-IEAAQRSRRLDAID--AQLKADQEMQESLLA 72 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e~~~~----~~a-~~~~~~-~~~~~~~~r~~~~~--~~~~~~~~~~~~~~~ 72 (502)
+.||+..|.+|++|.---.+||.+++ ++| +|+.|+ +.++..+++-++.+ .++++++.++|-+..
T Consensus 108 ~aKleakqerr~qRe~E~~eREeRk~ke~~eE~erKkdEeR~~eEae~k~ee~~RkakEE~arkeheEylkm 179 (299)
T KOG3054|consen 108 EAKLEAKQERRAQREAEEAEREERKRKEDYEEAERKKDEERLAEEAELKEEEKERKAKEEEARKEHEEYLKM 179 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566566666665555555554332 233 233333 34444444333333 233344444554443
No 67
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.23 E-value=0.47 Score=53.97 Aligned_cols=22 Identities=23% Similarity=0.560 Sum_probs=11.7
Q ss_pred cCccCCCccC-hhhHHHhhhccc
Q 010753 458 HCDKCGQGLQ-RREMEKHMKVFH 479 (502)
Q Consensus 458 hC~~Cgk~f~-~s~l~kH~~i~H 479 (502)
+|..|.+-|- ...|.+|++..|
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h 206 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDH 206 (669)
T ss_pred cchhhhhhhccHHHHHHhhccce
Confidence 4555554444 555555555444
No 68
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=83.05 E-value=8.2 Score=43.35 Aligned_cols=20 Identities=20% Similarity=0.164 Sum_probs=12.1
Q ss_pred CCCCCCCChHHHHHHHhccC
Q 010753 196 IGFAELPNQKAVLETSLRQH 215 (502)
Q Consensus 196 ~~f~di~n~KavLE~~LR~~ 215 (502)
.+||--.--++||+++-..|
T Consensus 728 DaYwpe~kr~a~~drY~sdf 747 (940)
T KOG4661|consen 728 DAYWPESKRKAVLDRYSSDF 747 (940)
T ss_pred cccCchhhhhhHhhhhhccc
Confidence 45666666677777654444
No 69
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=82.98 E-value=0.51 Score=30.24 Aligned_cols=21 Identities=19% Similarity=0.700 Sum_probs=18.0
Q ss_pred ccCccCCCccC-hhhHHHhhhc
Q 010753 457 VHCDKCGQGLQ-RREMEKHMKV 477 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~i 477 (502)
|.|+.|++.|. ...+..|++-
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 67899999998 8899999875
No 70
>PRK04023 DNA polymerase II large subunit; Validated
Probab=82.92 E-value=0.9 Score=53.68 Aligned_cols=54 Identities=22% Similarity=0.631 Sum_probs=34.7
Q ss_pred ccccCcccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCcccCccCCCccChhhHHHhhhcccceeee
Q 010753 405 SIEMDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQRREMEKHMKVFHEQCSC 484 (502)
Q Consensus 405 ~~~~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~~s~l~kH~~i~Htp~~C 484 (502)
+++.....|+.||+.. .-+.||. ||.. -...|.|+.||.... ++.|
T Consensus 621 eVEVg~RfCpsCG~~t--------------~~frCP~--CG~~-----Te~i~fCP~CG~~~~-------------~y~C 666 (1121)
T PRK04023 621 EVEIGRRKCPSCGKET--------------FYRRCPF--CGTH-----TEPVYRCPRCGIEVE-------------EDEC 666 (1121)
T ss_pred eecccCccCCCCCCcC--------------CcccCCC--CCCC-----CCcceeCccccCcCC-------------CCcC
Confidence 4566788999999973 2257887 8865 234467888853221 4668
Q ss_pred c-CCccccc
Q 010753 485 P-CGVVLEN 492 (502)
Q Consensus 485 ~-Cg~~f~~ 492 (502)
+ ||....-
T Consensus 667 PKCG~El~~ 675 (1121)
T PRK04023 667 EKCGREPTP 675 (1121)
T ss_pred CCCCCCCCc
Confidence 7 8765443
No 71
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=82.10 E-value=0.61 Score=41.52 Aligned_cols=15 Identities=20% Similarity=0.786 Sum_probs=8.6
Q ss_pred CceeeccccccCccccc
Q 010753 434 RHSVACQHAGCGMVLRT 450 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k 450 (502)
++|++||. ||..|.-
T Consensus 24 k~PivCP~--CG~~~~~ 38 (108)
T PF09538_consen 24 KDPIVCPK--CGTEFPP 38 (108)
T ss_pred CCCccCCC--CCCccCc
Confidence 45566665 6665543
No 72
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=81.95 E-value=0.89 Score=33.96 Aligned_cols=29 Identities=28% Similarity=0.674 Sum_probs=17.7
Q ss_pred eeeccccccCcccccccccCcccCccCCCcc
Q 010753 436 SVACQHAGCGMVLRTEEARDHVHCDKCGQGL 466 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f 466 (502)
.|+|+. ||..|.-.....-++|+.||..+
T Consensus 3 ~y~C~~--CG~~~~~~~~~~~~~Cp~CG~~~ 31 (46)
T PRK00398 3 EYKCAR--CGREVELDEYGTGVRCPYCGYRI 31 (46)
T ss_pred EEECCC--CCCEEEECCCCCceECCCCCCeE
Confidence 467776 77777653333356777777443
No 73
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=81.22 E-value=0.83 Score=45.08 Aligned_cols=11 Identities=27% Similarity=0.604 Sum_probs=8.2
Q ss_pred ccCccCCCccC
Q 010753 457 VHCDKCGQGLQ 467 (502)
Q Consensus 457 ~hC~~Cgk~f~ 467 (502)
|.||+||-+|.
T Consensus 49 ~vCP~CgyA~~ 59 (214)
T PF09986_consen 49 WVCPHCGYAAF 59 (214)
T ss_pred EECCCCCCccc
Confidence 67889986654
No 74
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=81.10 E-value=1 Score=32.07 Aligned_cols=9 Identities=56% Similarity=1.287 Sum_probs=4.1
Q ss_pred ccCccCCCc
Q 010753 457 VHCDKCGQG 465 (502)
Q Consensus 457 ~hC~~Cgk~ 465 (502)
..|+.||..
T Consensus 26 v~C~~C~~~ 34 (38)
T TIGR02098 26 VRCGKCGHV 34 (38)
T ss_pred EECCCCCCE
Confidence 345555433
No 75
>TIGR01932 hflC HflC protein. HflK and HflC are paralogs encoded by tandem genes in Proteobacteria, spirochetes, and some other bacterial lineages. The HflKC complex is anchored in the membrane and exposed to the periplasm. The complex is not active as a protease, but rather binds to and appears to modulate the ATP-dependent protease FtsH. The overall function of HflKC is not fully described.//Regulation of FtsH protease appears to be negative (PubMed:8947034, PubMed:96367)
Probab=80.80 E-value=3.2 Score=43.21 Aligned_cols=22 Identities=14% Similarity=0.200 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLERE 30 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e 30 (502)
.+|...||++++.+.|...+++
T Consensus 214 ~~~~~aere~~a~~~r~ege~~ 235 (317)
T TIGR01932 214 YNRMRSEREQIARMHRSQGEEK 235 (317)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666655555444433
No 76
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=80.65 E-value=1.1 Score=33.02 Aligned_cols=25 Identities=36% Similarity=0.918 Sum_probs=17.0
Q ss_pred eeccccccCccccc----ccccCcccCccCCC
Q 010753 437 VACQHAGCGMVLRT----EEARDHVHCDKCGQ 464 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k----~~l~~H~hC~~Cgk 464 (502)
|.|+. ||..|-. ++ .....|+.||.
T Consensus 6 y~C~~--Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEE--CGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EEeCC--CCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 77887 8877765 33 34477888874
No 77
>PF14353 CpXC: CpXC protein
Probab=80.35 E-value=0.4 Score=43.08 Aligned_cols=11 Identities=18% Similarity=0.691 Sum_probs=6.5
Q ss_pred ccccccCcccc
Q 010753 411 VQCKNCKRFIP 421 (502)
Q Consensus 411 ~~C~nC~k~~~ 421 (502)
..|++|++.|.
T Consensus 2 itCP~C~~~~~ 12 (128)
T PF14353_consen 2 ITCPHCGHEFE 12 (128)
T ss_pred cCCCCCCCeeE
Confidence 35666666663
No 78
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=80.03 E-value=0.66 Score=38.49 Aligned_cols=56 Identities=14% Similarity=0.383 Sum_probs=12.4
Q ss_pred eccccccCccccc-ccccCcc------cCccCCCccC-hhhHHHhhhcc-cceeeec-CCccccccccc
Q 010753 438 ACQHAGCGMVLRT-EEARDHV------HCDKCGQGLQ-RREMEKHMKVF-HEQCSCP-CGVVLENAAMV 496 (502)
Q Consensus 438 ~C~~~~Cgk~F~k-~~l~~H~------hC~~Cgk~f~-~s~l~kH~~i~-Htp~~C~-Cg~~f~~~~~~ 496 (502)
.|.. |+..|.. ..+..|. ..+.. ..+. ...+..+.+.- +.++.|. |++.|.....+
T Consensus 1 ~C~~--C~~~f~~~~~l~~H~~~~H~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l 66 (100)
T PF12756_consen 1 QCLF--CDESFSSVDDLLQHMKKKHGFDIPDQ-KYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREAL 66 (100)
T ss_dssp ---------------------------------------------------SSEEBSSSS-EESSHHHH
T ss_pred Cccc--cccccccccccccccccccccccccc-cccccccccccccccccCCCCCCCccCCCCcCHHHH
Confidence 3777 9999988 7777772 22222 1222 34444443321 2369999 99999876544
No 79
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=79.90 E-value=0.83 Score=29.17 Aligned_cols=24 Identities=21% Similarity=0.638 Sum_probs=16.3
Q ss_pred ccCccCCCccChhhHHHhhhcccc
Q 010753 457 VHCDKCGQGLQRREMEKHMKVFHE 480 (502)
Q Consensus 457 ~hC~~Cgk~f~~s~l~kH~~i~Ht 480 (502)
|.|+.|+-....+.|.+|++++|+
T Consensus 1 y~C~~C~y~t~~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTSKSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EESHHHHHHHHHHHHS
T ss_pred CCCCCCCCcCCHHHHHHHHHhhCc
Confidence 468889622227899999998774
No 80
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=79.77 E-value=1.2 Score=35.66 Aligned_cols=31 Identities=23% Similarity=0.472 Sum_probs=18.6
Q ss_pred cccccccCcccccchHHhHhhhccCceeeccccccC
Q 010753 410 TVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCG 445 (502)
Q Consensus 410 ~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cg 445 (502)
.+.|.|||...-.+--.-- -.-|+|+||. ||
T Consensus 27 ~F~CPnCGe~~I~Rc~~CR---k~g~~Y~Cp~--CG 57 (61)
T COG2888 27 KFPCPNCGEVEIYRCAKCR---KLGNPYRCPK--CG 57 (61)
T ss_pred EeeCCCCCceeeehhhhHH---HcCCceECCC--cC
Confidence 5789999965432211111 1367888887 87
No 81
>PF04696 Pinin_SDK_memA: pinin/SDK/memA/ protein conserved region; InterPro: IPR006786 This conserved region is located adjacent and C-terminal to a N-terminal pinin/SKD domain IPR006787 from INTERPRO. Members of this family have very varied localisations within the eukaryotic cell. Pinin is known to localise at the desmosomes and is implicated in anchoring intermediate filaments to the desmosomal plaque []. SDK2/3 is a dynamically localised nuclear protein thought to be involved in modulation of alternative pre-mRNA splicing []. MemA is a tumour marker preferentially expressed in human melanoma cell lines. A common feature of the members of this family is that they may all participate in regulating protein-protein interactions [].
Probab=79.50 E-value=19 Score=32.91 Aligned_cols=40 Identities=28% Similarity=0.537 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 10 EKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQR 49 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~ 49 (502)
+|-..|..+..+++.++.+-|++..+.++.+++++++..+
T Consensus 21 ~kf~~e~~k~~~~~~rR~eie~rleek~~~e~e~l~~~~~ 60 (131)
T PF04696_consen 21 QKFKKEEEKKTEQQKRRAEIEKRLEEKLKEEKEELRKERR 60 (131)
T ss_pred HHHHHhHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555556778888888888887777777777777666
No 82
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=79.25 E-value=0.95 Score=30.38 Aligned_cols=10 Identities=30% Similarity=0.946 Sum_probs=6.4
Q ss_pred cccccCcccc
Q 010753 412 QCKNCKRFIP 421 (502)
Q Consensus 412 ~C~nC~k~~~ 421 (502)
.|++|++.|+
T Consensus 2 ~CP~C~~~V~ 11 (26)
T PF10571_consen 2 TCPECGAEVP 11 (26)
T ss_pred cCCCCcCCch
Confidence 4667776664
No 83
>PF11875 DUF3395: Domain of unknown function (DUF3395); InterPro: IPR024586 Chaperone DnaJ was originally characterised from Escherichia coli as a 41 kDa heat shock protein. DnaJ has a modular structure consisting of a J-domain, a proximal G/F-domain, and a distal zinc finger domain, followed by less conserved C-terminal sequences. Since then, a large number of DnaJ-related proteins containing a J-domain have been characterised from a variety of different organisms. In the genome of Arabidopsis thaliana a total of 89 J-domain proteins have been identified []. This entry represents a C-terminal domain found in some eukaryotic DnaJ-like proteins, including member 11 from the subfamily C1 and protein DnaJ 13 from Arabidopsis. This domain is typically between 147 to 176 amino acids in length.
Probab=79.19 E-value=36 Score=31.91 Aligned_cols=20 Identities=20% Similarity=0.262 Sum_probs=11.4
Q ss_pred EEEEE--ECCEEEEEEEEEEcC
Q 010753 223 VLTVN--YGELAYKLKVLELKP 242 (502)
Q Consensus 223 ~I~I~--~~~~~y~l~V~e~~P 242 (502)
.+.|. |.|..|...|.+-.|
T Consensus 126 ~L~V~Y~f~g~~h~v~v~D~e~ 147 (151)
T PF11875_consen 126 QLRVRYRFRGKLHEVTVDDREP 147 (151)
T ss_pred EEEEEEEECCEEEEEEECCCCc
Confidence 34444 347777777666443
No 84
>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function. One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.
Probab=78.70 E-value=7.4 Score=40.66 Aligned_cols=10 Identities=20% Similarity=0.222 Sum_probs=4.0
Q ss_pred HHHHHHHHHH
Q 010753 58 AQLKADQEMQ 67 (502)
Q Consensus 58 ~~~~~~~~~~ 67 (502)
+|.|.++++.
T Consensus 306 eQrK~eeKe~ 315 (321)
T PF07946_consen 306 EQRKYEEKER 315 (321)
T ss_pred HHHHHHHHHH
Confidence 3344444433
No 85
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=78.66 E-value=1 Score=40.32 Aligned_cols=13 Identities=23% Similarity=0.708 Sum_probs=11.1
Q ss_pred eeeec-CCcccccc
Q 010753 481 QCSCP-CGVVLENA 493 (502)
Q Consensus 481 p~~C~-Cg~~f~~~ 493 (502)
-|+|+ |++.|+..
T Consensus 102 FYTC~kC~~k~~e~ 115 (116)
T KOG2907|consen 102 FYTCPKCKYKFTEN 115 (116)
T ss_pred EEEcCccceeeecc
Confidence 89999 99998754
No 86
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=78.23 E-value=11 Score=42.53 Aligned_cols=29 Identities=31% Similarity=0.550 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 22 RARLKLEREKKAKEEAKKQREAIEAAQRS 50 (502)
Q Consensus 22 ~~~~~~~~e~~~~~~a~~~~~~~~~~~~~ 50 (502)
+.|-+.++||..+-+|+-.||++|..+++
T Consensus 626 r~RirE~rerEqR~~a~~ERee~eRl~~e 654 (940)
T KOG4661|consen 626 RQRIREEREREQRRKAAVEREELERLKAE 654 (940)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444455555555444443
No 87
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=77.36 E-value=1.3 Score=31.44 Aligned_cols=33 Identities=33% Similarity=0.606 Sum_probs=14.7
Q ss_pred ccccccCcccccchHHhHhhhccCceeeccccccCccc
Q 010753 411 VQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVL 448 (502)
Q Consensus 411 ~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F 448 (502)
+.|++|+..|.-..-.+... ...+.|+. ||..|
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~---~~~v~C~~--C~~~~ 35 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGAN---GGKVRCGK--CGHVW 35 (38)
T ss_pred EECCCCCCEEEeCHHHcCCC---CCEEECCC--CCCEE
Confidence 34666666554222222222 12355665 66555
No 88
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=77.25 E-value=1.2 Score=29.38 Aligned_cols=21 Identities=29% Similarity=0.721 Sum_probs=15.4
Q ss_pred ccCccCCCccC-hhhHHHhhhc
Q 010753 457 VHCDKCGQGLQ-RREMEKHMKV 477 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~i 477 (502)
|.|+.|++.|. ...+..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 56778887787 7777777763
No 89
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=76.88 E-value=1.5 Score=33.90 Aligned_cols=24 Identities=21% Similarity=0.112 Sum_probs=12.9
Q ss_pred cCccccc----ccccCcccCccCCCccC
Q 010753 444 CGMVLRT----EEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 444 Cgk~F~k----~~l~~H~hC~~Cgk~f~ 467 (502)
||.+|.+ ..+.++..|+.|++.+.
T Consensus 19 ~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 19 SGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 6666665 22233445666666554
No 90
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=76.76 E-value=1.7 Score=31.26 Aligned_cols=9 Identities=33% Similarity=0.936 Sum_probs=4.5
Q ss_pred cccccCccc
Q 010753 412 QCKNCKRFI 420 (502)
Q Consensus 412 ~C~nC~k~~ 420 (502)
+|+||+..|
T Consensus 4 ~CP~C~~~f 12 (37)
T PF13719_consen 4 TCPNCQTRF 12 (37)
T ss_pred ECCCCCceE
Confidence 355555444
No 91
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.46 E-value=16 Score=37.28 Aligned_cols=10 Identities=0% Similarity=-0.041 Sum_probs=4.7
Q ss_pred cEEEEEEeee
Q 010753 75 GIVFYHTLEA 84 (502)
Q Consensus 75 g~~~~~~~~~ 84 (502)
=+.|...|.+
T Consensus 176 ylkmKaaFsV 185 (299)
T KOG3054|consen 176 YLKMKAAFSV 185 (299)
T ss_pred HHHHHhheee
Confidence 3445555543
No 92
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=76.30 E-value=19 Score=42.20 Aligned_cols=9 Identities=33% Similarity=0.486 Sum_probs=3.7
Q ss_pred HHHHHHHHH
Q 010753 8 AREKLEKEQ 16 (502)
Q Consensus 8 ~~~k~~~e~ 16 (502)
..++|++|.
T Consensus 777 ~ea~leaer 785 (988)
T KOG2072|consen 777 FEARLEAER 785 (988)
T ss_pred HHHHHHHHH
Confidence 334444433
No 93
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=76.14 E-value=0.62 Score=28.75 Aligned_cols=18 Identities=39% Similarity=0.872 Sum_probs=11.0
Q ss_pred eeccccccCccccc-ccccCc
Q 010753 437 VACQHAGCGMVLRT-EEARDH 456 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k-~~l~~H 456 (502)
|.|+. ||+.|.. .+|..|
T Consensus 1 ~~C~~--C~~~~~~~~~l~~H 19 (24)
T PF13894_consen 1 FQCPI--CGKSFRSKSELRQH 19 (24)
T ss_dssp EE-SS--TS-EESSHHHHHHH
T ss_pred CCCcC--CCCcCCcHHHHHHH
Confidence 56777 7777777 666655
No 94
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=75.79 E-value=24 Score=37.05 Aligned_cols=55 Identities=24% Similarity=0.291 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Q 010753 6 RRAREKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQL 60 (502)
Q Consensus 6 ~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~ 60 (502)
....+||++=+++.++.-.....++....+.-+.++++.+++.++||+.+.++++
T Consensus 116 ~~te~~l~~y~~~n~~~I~~n~~~~~~e~~~~~~~~~~E~~~~~~rr~~~~~~e~ 170 (309)
T TIGR00570 116 ENTKKKIETYQKENKDVIQKNKEKSTREQEELEEALEFEKEEEEQRRLLLQKEEE 170 (309)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555444444333333333233344455555556666666654443
No 95
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=75.44 E-value=6.1 Score=43.73 Aligned_cols=6 Identities=50% Similarity=1.309 Sum_probs=2.7
Q ss_pred cceeec
Q 010753 340 HLHEWS 345 (502)
Q Consensus 340 ~~h~~s 345 (502)
+.|.|-
T Consensus 688 ~~hLwq 693 (708)
T KOG3654|consen 688 HYHLWQ 693 (708)
T ss_pred hhhhhc
Confidence 344443
No 96
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=75.44 E-value=1.2 Score=42.79 Aligned_cols=14 Identities=21% Similarity=0.297 Sum_probs=7.8
Q ss_pred cCcccccccCcccc
Q 010753 408 MDTVQCKNCKRFIP 421 (502)
Q Consensus 408 ~~~~~C~nC~k~~~ 421 (502)
...|.|++|++-|+
T Consensus 115 ~~~Y~Cp~C~~ryt 128 (178)
T PRK06266 115 NMFFFCPNCHIRFT 128 (178)
T ss_pred CCEEECCCCCcEEe
Confidence 34556666665554
No 97
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=75.05 E-value=1 Score=40.34 Aligned_cols=33 Identities=6% Similarity=-0.089 Sum_probs=22.8
Q ss_pred ccccccCcccccchHHhHhhhccCceeeccccccCccccccccc
Q 010753 411 VQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEAR 454 (502)
Q Consensus 411 ~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~ 454 (502)
..|++||+.|-- .+ |.|++||. |||.|+.+.|+
T Consensus 10 ridPetg~KFYD------LN---rdPiVsPy--tG~s~P~s~fe 42 (129)
T COG4530 10 RIDPETGKKFYD------LN---RDPIVSPY--TGKSYPRSYFE 42 (129)
T ss_pred ccCccccchhhc------cC---CCccccCc--ccccchHHHHH
Confidence 358888887721 12 77888887 88888765554
No 98
>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=75.03 E-value=1.2 Score=41.87 Aligned_cols=14 Identities=14% Similarity=-0.052 Sum_probs=6.9
Q ss_pred cCcccccccCcccc
Q 010753 408 MDTVQCKNCKRFIP 421 (502)
Q Consensus 408 ~~~~~C~nC~k~~~ 421 (502)
...|.|++|+.-|+
T Consensus 107 ~~~Y~Cp~c~~r~t 120 (158)
T TIGR00373 107 NMFFICPNMCVRFT 120 (158)
T ss_pred CCeEECCCCCcEee
Confidence 34455555554444
No 99
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=75.02 E-value=26 Score=37.87 Aligned_cols=59 Identities=15% Similarity=0.269 Sum_probs=31.2
Q ss_pred HHHhcCCCCCCCCceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhc-cCcccccCC
Q 010753 161 VWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLR-QHATLSQDD 222 (502)
Q Consensus 161 m~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR-~~stLT~Gd 222 (502)
|..++.......+..++|+..-.|.|+-+.++..+ | |..-=++++....+ .|.+..-++
T Consensus 313 Iqr~~~~~~~~~gktc~VrI~LapDG~V~sV~~sS-G--d~aldrAA~~Aar~a~lP~pP~~~ 372 (387)
T PRK09510 313 IQSKFYDASSYAGKTCTLRIKLAPDGTLLDIKKEG-G--DPALCQAALAAAKTAKIPKPPSQE 372 (387)
T ss_pred HHHhccCCccccCceEEEEEEEcCCCcEEeeeeCC-C--CHHHHHHHHHHHHcCCCCCCCchH
Confidence 34444333222456788888888999888776432 1 22222556665222 255444444
No 100
>PF09831 DUF2058: Uncharacterized protein conserved in bacteria (DUF2058); InterPro: IPR018636 This family, found in various prokaryotic proteins, has no known function.
Probab=74.33 E-value=14 Score=35.86 Aligned_cols=18 Identities=17% Similarity=0.338 Sum_probs=12.0
Q ss_pred CCCceeccHHHHHhcCCC
Q 010753 151 DEGFVGLPPHVWRNLFPS 168 (502)
Q Consensus 151 ~EG~v~LP~wm~~~L~~~ 168 (502)
++|+..||.-+.+...-.
T Consensus 127 ~~~y~lVP~~vAeKI~~r 144 (177)
T PF09831_consen 127 EGGYELVPAEVAEKIAER 144 (177)
T ss_pred CCEEEEeeHHHHHHHHHh
Confidence 456777777777776544
No 101
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=73.90 E-value=17 Score=42.34 Aligned_cols=8 Identities=13% Similarity=0.634 Sum_probs=3.4
Q ss_pred eEEecCCC
Q 010753 353 VVILSSKD 360 (502)
Q Consensus 353 ~i~i~~~~ 360 (502)
.+++.|.|
T Consensus 791 l~VvgpeD 798 (1064)
T KOG1144|consen 791 LLVVGPED 798 (1064)
T ss_pred eEEeCCcc
Confidence 34444443
No 102
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=73.73 E-value=1.6 Score=40.06 Aligned_cols=29 Identities=14% Similarity=0.074 Sum_probs=15.3
Q ss_pred ccccccCcccccchHHhHhhhccCceeeccccccCccccc
Q 010753 411 VQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRT 450 (502)
Q Consensus 411 ~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k 450 (502)
..|.+||+.|= - . .+.|++||. ||.+|..
T Consensus 10 r~Cp~cg~kFY----D--L---nk~p~vcP~--cg~~~~~ 38 (129)
T TIGR02300 10 RICPNTGSKFY----D--L---NRRPAVSPY--TGEQFPP 38 (129)
T ss_pred ccCCCcCcccc----c--c---CCCCccCCC--cCCccCc
Confidence 34666666551 1 1 145666666 6666543
No 103
>TIGR01933 hflK HflK protein. HflK and HflC are paralogs encoded by tandem genes in Proteobacteria, spirochetes, and some other bacterial lineages. The HflKC complex is anchored in the membrane and exposed to the periplasm. The complex is not active as a protease, but rather binds to and appears to modulate the ATP-dependent protease FtsH. The overall function of HflKC is not fully described.//Regulation of FtsH by HflKC appears to be negative (PubMed:8947034,PubMed:96367)
Probab=73.42 E-value=7.4 Score=38.87 Aligned_cols=8 Identities=0% Similarity=-0.234 Sum_probs=3.9
Q ss_pred CeEEeChh
Q 010753 92 DKIKLPPS 99 (502)
Q Consensus 92 DKIiLP~S 99 (502)
..|+|+++
T Consensus 244 ~~~~~~~~ 251 (261)
T TIGR01933 244 KVLLDDKK 251 (261)
T ss_pred eEEEECCC
Confidence 34566543
No 104
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=73.41 E-value=42 Score=32.96 Aligned_cols=39 Identities=21% Similarity=0.270 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Q 010753 6 RRAREKLEKEQKERKERARLKLEREK-KAKEEAKKQREAI 44 (502)
Q Consensus 6 ~~~~~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~~ 44 (502)
+..++++..+-+++.+.||.++..-. .++++|.+.++.+
T Consensus 95 ~~eA~~~l~e~e~~L~~A~~eA~~Ii~~A~~eAe~~~e~i 134 (205)
T PRK06231 95 KQQAQQLLENAKQRHENALAQAKEIIDQANYEALQLKSEL 134 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555566666666665554444 3444444444443
No 105
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=73.25 E-value=38 Score=33.33 Aligned_cols=26 Identities=12% Similarity=0.110 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 6 RRAREKLEKEQKERKERARLKLEREK 31 (502)
Q Consensus 6 ~~~~~k~~~e~~~r~~~~~~~~~~e~ 31 (502)
+.-++++..+.++....||.+...-.
T Consensus 100 k~eAe~~~~~ye~~L~~Ar~eA~~Ii 125 (204)
T PRK09174 100 KQEADAAVAAYEQELAQARAKAHSIA 125 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555443
No 106
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=73.20 E-value=40 Score=32.17 Aligned_cols=21 Identities=10% Similarity=0.218 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLER 29 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~ 29 (502)
++++..+.+++...||.+.+.
T Consensus 77 A~~~l~e~e~~L~~A~~ea~~ 97 (184)
T PRK13455 77 AQTLLASYERKQREVQEQADR 97 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444433
No 107
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=73.12 E-value=1.3 Score=51.22 Aligned_cols=9 Identities=56% Similarity=1.254 Sum_probs=7.0
Q ss_pred eeeec-CCcc
Q 010753 481 QCSCP-CGVV 489 (502)
Q Consensus 481 p~~C~-Cg~~ 489 (502)
|..|+ ||-.
T Consensus 475 p~~Cp~Cgs~ 484 (730)
T COG1198 475 PQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCC
Confidence 88888 8854
No 108
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.05 E-value=0.41 Score=47.17 Aligned_cols=21 Identities=24% Similarity=0.608 Sum_probs=10.8
Q ss_pred ccCCCccC-hhhHHHhhhcccc
Q 010753 460 DKCGQGLQ-RREMEKHMKVFHE 480 (502)
Q Consensus 460 ~~Cgk~f~-~s~l~kH~~i~Ht 480 (502)
+.|+..|. ....+.|+-+.|.
T Consensus 150 EgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 150 EGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HhhhhhhhhhhhhhhHHHHhcc
Confidence 45555555 4445555555444
No 109
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=72.63 E-value=2.4 Score=30.22 Aligned_cols=26 Identities=23% Similarity=0.759 Sum_probs=14.7
Q ss_pred eeccccccCccccc-ccc--cCcccCccCCC
Q 010753 437 VACQHAGCGMVLRT-EEA--RDHVHCDKCGQ 464 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k-~~l--~~H~hC~~Cgk 464 (502)
|+|++ ||+.|.. ... ..-..|+.||.
T Consensus 6 y~C~~--Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCED--CGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred EEcCC--CCCEEEEEEecCCCCCCCCCCCCC
Confidence 66776 7776654 111 23356777764
No 110
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=72.58 E-value=1.8 Score=40.89 Aligned_cols=12 Identities=33% Similarity=0.725 Sum_probs=5.9
Q ss_pred eeccccccCccccc
Q 010753 437 VACQHAGCGMVLRT 450 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k 450 (502)
+.|+. ||+.|..
T Consensus 29 ~~c~~--c~~~f~~ 40 (154)
T PRK00464 29 RECLA--CGKRFTT 40 (154)
T ss_pred eeccc--cCCcceE
Confidence 44554 5555544
No 111
>KOG3634 consensus Troponin [Cytoskeleton]
Probab=72.05 E-value=8.7 Score=40.49 Aligned_cols=24 Identities=29% Similarity=0.448 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 11 KLEKEQKERKERARLKLEREKKAK 34 (502)
Q Consensus 11 k~~~e~~~r~~~~~~~~~~e~~~~ 34 (502)
+++|++.++.-.+|++...+|+.+
T Consensus 114 ~~eR~~eE~e~~~rkr~~e~RR~~ 137 (361)
T KOG3634|consen 114 KLEREEEEEELAERKRRIEERRRE 137 (361)
T ss_pred HHHhhhcHHHHHHHHhhHHhhhhc
Confidence 344455554444555554444443
No 112
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=71.77 E-value=16 Score=40.41 Aligned_cols=28 Identities=43% Similarity=0.493 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHH--HHHHHHHHHHHHH
Q 010753 14 KEQKERKERARLKLE--REKKAKEEAKKQR 41 (502)
Q Consensus 14 ~e~~~r~~~~~~~~~--~e~~~~~~a~~~~ 41 (502)
++|++|++|+.++.| .|.++-.+|.+++
T Consensus 306 ~~~~er~~r~~~~~eQd~eyq~sle~Dr~r 335 (460)
T KOG1363|consen 306 SEQDEREARLALEQEQDDEYQASLEADRVR 335 (460)
T ss_pred cchhHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 445555555555555 4555555555555
No 113
>PRK13730 conjugal transfer pilus assembly protein TrbC; Provisional
Probab=71.34 E-value=7.5 Score=38.52 Aligned_cols=138 Identities=16% Similarity=0.228 Sum_probs=78.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCcEEEEEEeeeccCC
Q 010753 9 REKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQESLLAGGGIVFYHTLEALPFQ 88 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 88 (502)
...|-|+|+++.+++|.+-+++=++-.|+.-++--+.+.-+ +=+|.+-++ |++...-..+.|+.+..+|+
T Consensus 30 ~r~~l~~qe~~s~~l~~~~~~~~~~~~~~~~~~npl~~~d~-~~lD~l~~~----q~~a~~~~~~~g~~vFVSfS----- 99 (212)
T PRK13730 30 NRQFLKQQENLSRQLREKPDHQLKAWAEKQVLENPLQRSDN-HFLDELVRK----QQASQDGKPRQGALYFVSFS----- 99 (212)
T ss_pred HHHHHHHHHHHHHHHHcCCChHHHHHHHHhhhcCCCCchhH-HHHHHHHHH----HHHhhccCCCCceEEEEEcC-----
Confidence 45688999999999888866665544443333333333222 245554332 33333335667888877775
Q ss_pred CCCCeEEeChhHHHHHHcCCCCCCCceEEEEEecCCCCCCCCCCCccCCCCeEEEEEeeeeeC--CCceeccHHHHHhcC
Q 010753 89 GSGDKIKLPPSCFTELSGQGAFDKGPLHFKLSVLHQEGPSNMEDGEKESNRSTHSGVLEFTAD--EGFVGLPPHVWRNLF 166 (502)
Q Consensus 89 ~~gDKIiLP~SaL~~L~~~~~~~~~Pl~F~l~n~~~~~~~~~~~~~~~~~~~th~GVlEFsA~--EG~v~LP~wm~~~L~ 166 (502)
+|.+.|.+|+....-...|++||=-..+ ++ +.|---|.+-..+ .+-+.+-|-+++..+
T Consensus 100 -------MP~~sLk~Ll~qa~~~G~p~VlRG~~~n-----sf--------k~Ta~~v~~L~~~~~~~gv~IDP~lF~~F~ 159 (212)
T PRK13730 100 -------IPEEGLKRMLGETRHYGIPATLRGMVNN-----DL--------KTTAEAVLSLVKDGATDGVQIDPTLFSQYG 159 (212)
T ss_pred -------CCHHHHHHHHHHHHHhCCcEEEeCCCCC-----CH--------HHHHHHHHHHhccCCCCceeECHHHHHhcC
Confidence 9999999999864322579988843321 11 1122222222212 123556666788888
Q ss_pred CCCCCCCceEEEE
Q 010753 167 PSDTPNNSFVEVR 179 (502)
Q Consensus 167 ~~~~~~~~~V~v~ 179 (502)
+.. .+.+.|.
T Consensus 160 I~~---VPafVv~ 169 (212)
T PRK13730 160 IRS---VPALVVF 169 (212)
T ss_pred Ccc---ccEEEEE
Confidence 873 4555553
No 114
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=71.22 E-value=1.8 Score=40.20 Aligned_cols=39 Identities=18% Similarity=0.317 Sum_probs=21.3
Q ss_pred ccCcccccccCcccccchHHhHhhhccCceeeccccccCcccc
Q 010753 407 EMDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLR 449 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~ 449 (502)
+...|.|++|++.|........... ...+.||. ||....
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~d~--~~~f~Cp~--Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLLDM--DGTFTCPR--CGEELE 134 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhcCC--CCcEECCC--CCCEEE
Confidence 4557778888877763222111111 23377776 776653
No 115
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=70.90 E-value=1.9 Score=47.68 Aligned_cols=44 Identities=23% Similarity=0.646 Sum_probs=32.1
Q ss_pred ccccccCcccc----cchHHhHhhhccCceeeccccccCcccccccccCcccCccCCC
Q 010753 411 VQCKNCKRFIP----SRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQ 464 (502)
Q Consensus 411 ~~C~nC~k~~~----~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk 464 (502)
..|..||..+. ...|..|.. +|...|.. ||....- .|.|+.||.
T Consensus 214 ~~C~~Cg~~~~C~~C~~~l~~h~~---~~~l~Ch~--Cg~~~~~-----~~~Cp~C~s 261 (505)
T TIGR00595 214 LLCRSCGYILCCPNCDVSLTYHKK---EGKLRCHY--CGYQEPI-----PKTCPQCGS 261 (505)
T ss_pred eEhhhCcCccCCCCCCCceEEecC---CCeEEcCC--CcCcCCC-----CCCCCCCCC
Confidence 46888887774 366777876 77889998 9965432 378999974
No 116
>KOG4709 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.60 E-value=13 Score=36.49 Aligned_cols=39 Identities=23% Similarity=0.307 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHc
Q 010753 34 KEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQESLLA 72 (502)
Q Consensus 34 ~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~ 72 (502)
.++..++++.|+++-|.+||+..+....+..+|.|+++.
T Consensus 48 veRrK~Aqeqikeq~ReerielRk~~rqerkr~LeErl~ 86 (217)
T KOG4709|consen 48 VERRKAAQEQIKEQLREERIELRKERRQERKRMLEERLE 86 (217)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344456778889999999998888777777777776543
No 117
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=70.19 E-value=2.8 Score=30.02 Aligned_cols=25 Identities=16% Similarity=0.421 Sum_probs=14.7
Q ss_pred eeccccccCcccccccccCcccCccCC
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
-.|-+ ||+.|.-+.|-+|+.|+.|.
T Consensus 4 ~~C~e--C~~~f~dSyL~~~F~~~VCD 28 (34)
T PF01286_consen 4 PKCDE--CGKPFMDSYLLNNFDLPVCD 28 (34)
T ss_dssp EE-TT--T--EES-SSCCCCTS-S--T
T ss_pred chHhH--hCCHHHHHHHHHhCCccccc
Confidence 36888 99999999999998766664
No 118
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=70.13 E-value=47 Score=32.57 Aligned_cols=22 Identities=36% Similarity=0.475 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010753 16 QKERKERARLKLEREKKAKEEA 37 (502)
Q Consensus 16 ~~~r~~~~~~~~~~e~~~~~~a 37 (502)
+++++++||+|++.|-.++.+.
T Consensus 81 rqEa~eaAR~RmQEE~dakA~~ 102 (190)
T PF06936_consen 81 RQEAMEAARRRMQEELDAKAEE 102 (190)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4456677777777777665443
No 119
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=69.90 E-value=2.9 Score=29.72 Aligned_cols=25 Identities=28% Similarity=0.569 Sum_probs=20.2
Q ss_pred CcccccccCcccccchHHhHhhhcc
Q 010753 409 DTVQCKNCKRFIPSRSIVLHEAYCS 433 (502)
Q Consensus 409 ~~~~C~nC~k~~~~~~l~lHe~~C~ 433 (502)
..+.|.||++.|....+.-|.--|.
T Consensus 3 ~~~~C~nC~R~v~a~RfA~HLekCm 27 (33)
T PF08209_consen 3 PYVECPNCGRPVAASRFAPHLEKCM 27 (33)
T ss_dssp -EEE-TTTSSEEEGGGHHHHHHHHT
T ss_pred CeEECCCCcCCcchhhhHHHHHHHH
Confidence 4578999999999999999987673
No 120
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=69.70 E-value=25 Score=40.79 Aligned_cols=15 Identities=20% Similarity=0.530 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHH
Q 010753 7 RAREKLEKEQKERKE 21 (502)
Q Consensus 7 ~~~~k~~~e~~~r~~ 21 (502)
....||..|+++|..
T Consensus 492 ~LEkrL~eE~~~R~~ 506 (697)
T PF09726_consen 492 QLEKRLAEERRQRAS 506 (697)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344556666655543
No 121
>PRK10884 SH3 domain-containing protein; Provisional
Probab=69.25 E-value=43 Score=33.10 Aligned_cols=45 Identities=20% Similarity=0.271 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCcEEEE
Q 010753 35 EEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQESLLAGGGIVFY 79 (502)
Q Consensus 35 ~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~g~~~~ 79 (502)
++-++-+++++..+.+.+.-.++-....+..+-+++..|+|+-+-
T Consensus 139 ~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~~~~wf~~Gg~v~~~ 183 (206)
T PRK10884 139 EENQKLKNQLIVAQKKVDAANLQLDDKQRTIIMQWFMYGGGVAGI 183 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHchHHHHH
Confidence 333444444444444433222233333344455778888887543
No 122
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=68.73 E-value=3.2 Score=31.40 Aligned_cols=25 Identities=24% Similarity=0.739 Sum_probs=12.1
Q ss_pred eeccccccCccccc-ccc--cCcccCccCC
Q 010753 437 VACQHAGCGMVLRT-EEA--RDHVHCDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k-~~l--~~H~hC~~Cg 463 (502)
|+|++ ||..|-. ... .....|+.||
T Consensus 6 y~C~~--Cg~~fe~~~~~~~~~~~~CP~Cg 33 (52)
T TIGR02605 6 YRCTA--CGHRFEVLQKMSDDPLATCPECG 33 (52)
T ss_pred EEeCC--CCCEeEEEEecCCCCCCCCCCCC
Confidence 55665 6665543 111 1224566665
No 123
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=68.65 E-value=3 Score=37.22 Aligned_cols=27 Identities=30% Similarity=0.771 Sum_probs=16.3
Q ss_pred eeccccccCccccccccc-CcccCccCCCccC
Q 010753 437 VACQHAGCGMVLRTEEAR-DHVHCDKCGQGLQ 467 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~-~H~hC~~Cgk~f~ 467 (502)
..|+. ||+.|=- |. +..+|+.||..|.
T Consensus 10 R~Cp~--CG~kFYD--Lnk~PivCP~CG~~~~ 37 (108)
T PF09538_consen 10 RTCPS--CGAKFYD--LNKDPIVCPKCGTEFP 37 (108)
T ss_pred ccCCC--Ccchhcc--CCCCCccCCCCCCccC
Confidence 46776 7777733 21 3356777777666
No 124
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=68.01 E-value=37 Score=40.00 Aligned_cols=27 Identities=30% Similarity=0.415 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 10 EKLEKEQKERKERARLKLEREKKAKEE 36 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~~~~e~~~~~~ 36 (502)
++-+++-.+|+...-+++|.|+..|+|
T Consensus 790 erk~~R~eerk~~~~re~EEEr~Rr~E 816 (988)
T KOG2072|consen 790 ERKRARIEERKQAYYREIEEERARREE 816 (988)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444566666544433
No 125
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=67.83 E-value=81 Score=29.01 Aligned_cols=26 Identities=15% Similarity=0.174 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 6 RRAREKLEKEQKERKERARLKLEREK 31 (502)
Q Consensus 6 ~~~~~k~~~e~~~r~~~~~~~~~~e~ 31 (502)
+..++.++.+.++....||.+.++.+
T Consensus 54 ~~ea~~~~~e~e~~l~~Ar~eA~~~~ 79 (141)
T PRK08476 54 SSDVSEIEHEIETILKNAREEANKIR 79 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455666666666666666666555
No 126
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=67.82 E-value=3.6 Score=29.49 Aligned_cols=8 Identities=38% Similarity=0.961 Sum_probs=3.6
Q ss_pred ccccCccc
Q 010753 413 CKNCKRFI 420 (502)
Q Consensus 413 C~nC~k~~ 420 (502)
|++|+..|
T Consensus 5 Cp~C~~~y 12 (36)
T PF13717_consen 5 CPNCQAKY 12 (36)
T ss_pred CCCCCCEE
Confidence 44444444
No 127
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=67.64 E-value=71 Score=30.63 Aligned_cols=39 Identities=18% Similarity=0.241 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 010753 5 LRRAREKLEKEQKERKERARLKLEREK-KAKEEAKKQREA 43 (502)
Q Consensus 5 l~~~~~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~ 43 (502)
++..++++..+.+++...+|.+...-. .+++++.+..++
T Consensus 77 ~~~eA~~~~~eye~~L~~Ar~EA~~ii~~A~~ea~~~~~~ 116 (181)
T PRK13454 77 LKQKAVEAEKAYNKALADARAEAQRIVAETRAEIQAELDV 116 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555666666666666665555544 344444444433
No 128
>PHA00626 hypothetical protein
Probab=67.29 E-value=2.1 Score=33.96 Aligned_cols=31 Identities=19% Similarity=0.388 Sum_probs=18.8
Q ss_pred cccccCcc-cccchHHhHhhhc--cCceeeccccccCccccc
Q 010753 412 QCKNCKRF-IPSRSIVLHEAYC--SRHSVACQHAGCGMVLRT 450 (502)
Q Consensus 412 ~C~nC~k~-~~~~~l~lHe~~C--~rn~~~C~~~~Cgk~F~k 450 (502)
.|++||.. |.+. ..| .++.|+|+. ||-.|.+
T Consensus 2 ~CP~CGS~~Ivrc------g~cr~~snrYkCkd--CGY~ft~ 35 (59)
T PHA00626 2 SCPKCGSGNIAKE------KTMRGWSDDYVCCD--CGYNDSK 35 (59)
T ss_pred CCCCCCCceeeee------ceecccCcceEcCC--CCCeech
Confidence 48888872 4321 123 146788887 8877776
No 129
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=67.22 E-value=30 Score=41.30 Aligned_cols=63 Identities=19% Similarity=0.153 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHH-HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcC
Q 010753 11 KLEKEQKERKERARLKLEREKKAKE-EAK-KQREAIEAAQRSRRLDAIDAQLKADQEMQESLLAG 73 (502)
Q Consensus 11 k~~~e~~~r~~~~~~~~~~e~~~~~-~a~-~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~ 73 (502)
-|-.++..+..+|+..-|+||.+|. ++. ..++...+++|+|+-++...+++-+.|++|.+..+
T Consensus 817 ~ll~~a~~~~~~Aq~e~e~er~~kq~~~~~a~~~~~~ee~~r~~eee~~~r~~l~~qr~e~~e~t 881 (1018)
T KOG2002|consen 817 DLLKQALEHVAQAQEEDEEERRAKQEKEEEALIEKELEEARRKEEEEKARREKLEKQREEYRERT 881 (1018)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556677777777777777774433 222 22223334455555555555555555555554433
No 130
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=67.14 E-value=77 Score=29.97 Aligned_cols=35 Identities=23% Similarity=0.279 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLEREK-KAKEEAKKQREA 43 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~ 43 (502)
++++..+.+++.+.||.++..-. .++++|.+.+++
T Consensus 68 A~~~~~e~e~~L~~a~~ea~~ii~~A~~~a~~~~~~ 103 (175)
T PRK14472 68 AEAILRKNRELLAKADAEADKIIREGKEYAEKLRAE 103 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444555555554444433 334444333333
No 131
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=66.74 E-value=3.5 Score=29.62 Aligned_cols=28 Identities=29% Similarity=0.819 Sum_probs=14.1
Q ss_pred eeccccccCccccc--ccc---cCcccCccCCCcc
Q 010753 437 VACQHAGCGMVLRT--EEA---RDHVHCDKCGQGL 466 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k--~~l---~~H~hC~~Cgk~f 466 (502)
+.||. |+..|.- +.+ .....|+.|+..|
T Consensus 3 i~CP~--C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPN--CQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCC--CCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 45666 6666654 212 2235566665443
No 132
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=66.53 E-value=2.6 Score=45.29 Aligned_cols=82 Identities=22% Similarity=0.523 Sum_probs=54.8
Q ss_pred Cccccc----ccCcccccchHHhHhhhccCceeeccccccCcccccccccCc---------ccCccCCCccChhhHHHhh
Q 010753 409 DTVQCK----NCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDH---------VHCDKCGQGLQRREMEKHM 475 (502)
Q Consensus 409 ~~~~C~----nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H---------~hC~~Cgk~f~~s~l~kH~ 475 (502)
-+..|. -|.....-.++.-|..-| ++.+|++. ||..+.+.++..| -.|..|+..+.-..+..|.
T Consensus 85 l~i~c~~~~~GC~~~~~l~~~~~Hl~~c--~~~~C~~~-C~~~~~~~d~~~hl~~~C~~~~~~c~~~~~~~~~~~~~~h~ 161 (391)
T KOG0297|consen 85 LPIRCIFASRGCRADLELEALQGHLSTC--DPLKCPHR-CGVQVPRDDLEDHLEAECPRRSLKCSLCQSDSILILLEAHE 161 (391)
T ss_pred cccccccCCCCccccccHHHHHhHhccC--CcccCccc-cccccchHHHHHHHhcccccccccchhhcCccchhhhhhcC
Confidence 345563 477777778888888878 78888874 8888887777777 2467776666666667775
Q ss_pred hcccceeeec--CCcccccc
Q 010753 476 KVFHEQCSCP--CGVVLENA 493 (502)
Q Consensus 476 ~i~Htp~~C~--Cg~~f~~~ 493 (502)
..-..++.|. |++.-...
T Consensus 162 ~~~~~~~~c~~k~~~~~l~~ 181 (391)
T KOG0297|consen 162 ENPQAEVSCELKCGKQKLKR 181 (391)
T ss_pred CCCCccccccccchhhhhhh
Confidence 5322266776 76544433
No 133
>PF04151 PPC: Bacterial pre-peptidase C-terminal domain; InterPro: IPR007280 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. This domain is normally found at the C terminus of secreted archaeal and bacterial peptidases, the majority of which belong to MEROPS peptidase families M4 (vibriolysin, IPR001570 from INTERPRO), M9A amd M9B (microbial collangenase, IPR002169 from INTERPRO), M28 (aminopeptidase Ap1, IPR007484 from INTERPRO) and S8 (subtilisin family peptidases, IPR000209 from INTERPRO).; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 4DY5_B 4DXZ_A 4DY3_B 3JQW_A 3JQX_C 1NQJ_B 1NQD_A 2O8O_A 1WMF_A 1WME_A ....
Probab=65.55 E-value=39 Score=26.79 Aligned_cols=68 Identities=25% Similarity=0.438 Sum_probs=35.2
Q ss_pred eeEEEEEecccccccccCCceeEEEEEeecCCCCceeEEEcCCCCCCCcccceeeccCCCCC-ceEEecCCCCccccceE
Q 010753 290 YVFYKFTIDDDTRKKIVSGEKRAEVRVDSEIDGGDTSIYVSRHPLLFPTRHLHEWSSHDAGS-KVVILSSKDKSVDVGTY 368 (502)
Q Consensus 290 y~~y~l~l~~~~~~~l~~~~~~i~i~l~~~~~~~d~DlfvS~~~~~~p~~~~h~~ss~d~~s-k~i~i~~~~~~l~a~~~ 368 (502)
.-.|+|.+.. +.. +.|.+ ....+|+||++-...- +....+..++...++ ..|.+.. +.+++|
T Consensus 2 ~D~y~f~v~a--------g~~-l~i~l--~~~~~d~dl~l~~~~g--~~~~~~d~~~~~~~~~~~i~~~~----~~~GtY 64 (70)
T PF04151_consen 2 VDYYSFTVPA--------GGT-LTIDL--SGGSGDADLYLYDSNG--NSLASYDDSSQSGGNDESITFTA----PAAGTY 64 (70)
T ss_dssp EEEEEEEEST--------TEE-EEEEE--CETTSSEEEEEEETTS--SSCEECCCCTCETTSEEEEEEEE----SSSEEE
T ss_pred cEEEEEEEcC--------CCE-EEEEE--cCCCCCeEEEEEcCCC--CchhhheecCCCCCCccEEEEEc----CCCEEE
Confidence 3468888653 222 55554 2234488888885442 233344443221222 3444432 247899
Q ss_pred EEEEec
Q 010753 369 SIGVYG 374 (502)
Q Consensus 369 ~i~v~~ 374 (502)
+|.|+|
T Consensus 65 yi~V~~ 70 (70)
T PF04151_consen 65 YIRVYG 70 (70)
T ss_dssp EEEEE-
T ss_pred EEEEEC
Confidence 999875
No 134
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=65.53 E-value=4.6 Score=28.20 Aligned_cols=23 Identities=30% Similarity=0.769 Sum_probs=15.1
Q ss_pred eeccccccCcccccccccCcccCccCC
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
|+|+. ||.++.-. ...|.|+.||
T Consensus 2 ~~C~~--CGy~y~~~--~~~~~CP~Cg 24 (33)
T cd00350 2 YVCPV--CGYIYDGE--EAPWVCPVCG 24 (33)
T ss_pred EECCC--CCCEECCC--cCCCcCcCCC
Confidence 57777 87766432 2557888886
No 135
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=65.45 E-value=4 Score=31.55 Aligned_cols=25 Identities=32% Similarity=0.832 Sum_probs=19.8
Q ss_pred eeccccccCccccc---------------ccccCcccCccCC
Q 010753 437 VACQHAGCGMVLRT---------------EEARDHVHCDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k---------------~~l~~H~hC~~Cg 463 (502)
|+|.. ||-+|.- .+|-..|.|+.||
T Consensus 2 y~C~~--CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~ 41 (50)
T cd00730 2 YECRI--CGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCG 41 (50)
T ss_pred cCCCC--CCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCC
Confidence 68887 9999874 2366679999997
No 136
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=65.43 E-value=4.1 Score=37.73 Aligned_cols=32 Identities=22% Similarity=0.591 Sum_probs=23.8
Q ss_pred CceeeccccccCccccc-c-----cccCcccCccCCCccC
Q 010753 434 RHSVACQHAGCGMVLRT-E-----EARDHVHCDKCGQGLQ 467 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k-~-----~l~~H~hC~~Cgk~f~ 467 (502)
..-|.||. ||+.|.- . +...++.|+.||....
T Consensus 97 ~~~Y~Cp~--C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 97 NAYYKCPN--CQSKYTFLEANQLLDMDGTFTCPRCGEELE 134 (147)
T ss_pred CcEEECcC--CCCEeeHHHHHHhcCCCCcEECCCCCCEEE
Confidence 44599999 9999986 2 2234499999997654
No 137
>TIGR02794 tolA_full TolA protein. TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB.
Probab=65.04 E-value=38 Score=36.00 Aligned_cols=20 Identities=20% Similarity=0.285 Sum_probs=14.2
Q ss_pred CceEEEEEEecCCcceEEEe
Q 010753 173 NSFVEVRYVRLPKGTYAKLQ 192 (502)
Q Consensus 173 ~~~V~v~~~~LPkGt~vkLq 192 (502)
+..|+|+..-.|.|+-+.+.
T Consensus 284 g~~v~V~I~L~pdG~V~~I~ 303 (346)
T TIGR02794 284 GKTCRLRIRLAPDGTLLSVT 303 (346)
T ss_pred CCEEEEEEEECCCCCEEeec
Confidence 34677777788888877744
No 138
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=65.02 E-value=3.1 Score=40.07 Aligned_cols=32 Identities=28% Similarity=0.594 Sum_probs=22.3
Q ss_pred cccccc----cCcccccchHHhHhhhccCceeeccc
Q 010753 410 TVQCKN----CKRFIPSRSIVLHEAYCSRHSVACQH 441 (502)
Q Consensus 410 ~~~C~n----C~k~~~~~~l~lHe~~C~rn~~~C~~ 441 (502)
.+.|+| |...|+-..+..||..|.=+||.||.
T Consensus 14 ~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~CP~ 49 (198)
T PF03145_consen 14 KFPCKNAKYGCTETFPYSEKREHEEECPFRPCSCPF 49 (198)
T ss_dssp -EE-CCGGGT---EE-GGGHHHHHHT-TTSEEE-SS
T ss_pred eecCCCCCCCCcccccccChhhHhccCCCcCCcCCC
Confidence 467998 99999999999999999999999997
No 139
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=64.74 E-value=3.1 Score=32.57 Aligned_cols=23 Identities=26% Similarity=0.733 Sum_probs=16.9
Q ss_pred cCccCCCccC-hhhHHHhhhcccc
Q 010753 458 HCDKCGQGLQ-RREMEKHMKVFHE 480 (502)
Q Consensus 458 hC~~Cgk~f~-~s~l~kH~~i~Ht 480 (502)
.|+.|+..+. ..+|..|+.+.|.
T Consensus 26 tCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 26 TCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp E-TTT--EESSHHHHHHHHHHHTT
T ss_pred CCCcchhhccchhhHHHHHHHHhc
Confidence 5888887777 8899999998885
No 140
>PF09805 Nop25: Nucleolar protein 12 (25kDa); InterPro: IPR019186 Nop12 is a novel nucleolar protein required for pre-large subunit rRNA processing and in yeast normal rates of cell growth at low temperatures [].
Probab=64.73 E-value=23 Score=32.69 Aligned_cols=13 Identities=54% Similarity=0.608 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHH
Q 010753 25 LKLEREKKAKEEA 37 (502)
Q Consensus 25 ~~~~~e~~~~~~a 37 (502)
+|.+|-++|++.|
T Consensus 30 RK~~Rrk~Aqe~~ 42 (137)
T PF09805_consen 30 RKKQRRKKAQEQA 42 (137)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444444
No 141
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=64.43 E-value=87 Score=29.65 Aligned_cols=39 Identities=13% Similarity=0.130 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Q 010753 5 LRRAREKLEKEQKERKERARLKLERE-KKAKEEAKKQREA 43 (502)
Q Consensus 5 l~~~~~k~~~e~~~r~~~~~~~~~~e-~~~~~~a~~~~~~ 43 (502)
++..+++|..+.++....||.+.+.- ..++++|.+..++
T Consensus 50 ~r~eA~~l~~e~e~~L~~Ar~EA~~Ii~~A~~~a~~~~~e 89 (154)
T PRK06568 50 LKEDAALLFEQTNAQIKKLETLRSQMIEESNEVTKKIIQE 89 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445566666666555555544332 2344444444333
No 142
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=64.39 E-value=92 Score=29.43 Aligned_cols=37 Identities=24% Similarity=0.246 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Q 010753 8 AREKLEKEQKERKERARLKLEREK-KAKEEAKKQREAI 44 (502)
Q Consensus 8 ~~~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~~ 44 (502)
.++++..+.+++...|+.++..-. .++++|.+.++++
T Consensus 65 eA~~~~~e~e~~l~~a~~ea~~ii~~A~~ea~~~~~~~ 102 (173)
T PRK13460 65 EAEALLKDYEARLNSAKDEANAIVAEAKSDALKLKNKL 102 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444333 4444444444443
No 143
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=64.34 E-value=83 Score=29.60 Aligned_cols=26 Identities=19% Similarity=0.185 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 6 RRAREKLEKEQKERKERARLKLEREK 31 (502)
Q Consensus 6 ~~~~~k~~~e~~~r~~~~~~~~~~e~ 31 (502)
+..++++..+.+++.+.||.+...-.
T Consensus 57 k~eAe~~~~~~e~~L~~A~~ea~~Ii 82 (167)
T PRK14475 57 REEAQALLADVKAEREEAERQAAAML 82 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555444433
No 144
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=64.20 E-value=4.6 Score=29.06 Aligned_cols=27 Identities=26% Similarity=0.710 Sum_probs=19.6
Q ss_pred eeccccccCccccc--ccccCcccCccCCCc
Q 010753 437 VACQHAGCGMVLRT--EEARDHVHCDKCGQG 465 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k--~~l~~H~hC~~Cgk~ 465 (502)
..|+. ||++|.. .-++....|+.||..
T Consensus 2 r~C~~--Cg~~Yh~~~~pP~~~~~Cd~cg~~ 30 (36)
T PF05191_consen 2 RICPK--CGRIYHIEFNPPKVEGVCDNCGGE 30 (36)
T ss_dssp EEETT--TTEEEETTTB--SSTTBCTTTTEB
T ss_pred cCcCC--CCCccccccCCCCCCCccCCCCCe
Confidence 46888 9999987 445677889999853
No 145
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=64.16 E-value=3.5 Score=40.68 Aligned_cols=43 Identities=21% Similarity=0.587 Sum_probs=28.6
Q ss_pred CcccccccCccccc-----chHHh---Hhhhc----cCce-----eeccccccCcccccccc
Q 010753 409 DTVQCKNCKRFIPS-----RSIVL---HEAYC----SRHS-----VACQHAGCGMVLRTEEA 453 (502)
Q Consensus 409 ~~~~C~nC~k~~~~-----~~l~l---He~~C----~rn~-----~~C~~~~Cgk~F~k~~l 453 (502)
+...|+.|++.|.. +.+.+ +.=+| +-|| .+||+ ||-+|...++
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~--CgyA~~~~~F 63 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPH--CGYAAFEEDF 63 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCC--CCCccccccc
Confidence 56789999999962 22221 11144 4566 79999 9999986443
No 146
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=63.79 E-value=4.1 Score=32.66 Aligned_cols=10 Identities=30% Similarity=0.806 Sum_probs=5.9
Q ss_pred cccccccCcc
Q 010753 410 TVQCKNCKRF 419 (502)
Q Consensus 410 ~~~C~nC~k~ 419 (502)
.|.|.|||+.
T Consensus 25 ~F~CPnCG~~ 34 (59)
T PRK14890 25 KFLCPNCGEV 34 (59)
T ss_pred EeeCCCCCCe
Confidence 4556666665
No 147
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=63.75 E-value=5 Score=45.98 Aligned_cols=10 Identities=30% Similarity=0.680 Sum_probs=5.6
Q ss_pred cccccCcccc
Q 010753 412 QCKNCKRFIP 421 (502)
Q Consensus 412 ~C~nC~k~~~ 421 (502)
.|++||...+
T Consensus 3 ~Cp~Cg~~n~ 12 (645)
T PRK14559 3 ICPQCQFENP 12 (645)
T ss_pred cCCCCCCcCC
Confidence 4666665543
No 148
>COG3122 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.60 E-value=68 Score=31.42 Aligned_cols=21 Identities=14% Similarity=0.210 Sum_probs=17.2
Q ss_pred CCCCCeEEeChhHHHHHHcCC
Q 010753 88 QGSGDKIKLPPSCFTELSGQG 108 (502)
Q Consensus 88 ~~~gDKIiLP~SaL~~L~~~~ 108 (502)
+..|--.|.|.|+++.+....
T Consensus 163 ~~egrY~ivpa~~a~kI~~rd 183 (215)
T COG3122 163 NLEGRYAIVPASVADKIAQRD 183 (215)
T ss_pred cCcceEEEecHHHHHHHHHhc
Confidence 478888999999999997643
No 149
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=63.44 E-value=3.6 Score=35.44 Aligned_cols=32 Identities=28% Similarity=0.577 Sum_probs=20.5
Q ss_pred CceeeccccccCcccccccccCcccCccCCCccC
Q 010753 434 RHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~ 467 (502)
+..|.||. ||+.-.+..-.--|.|..||..|.
T Consensus 33 ~~~~~Cp~--C~~~~VkR~a~GIW~C~kCg~~fA 64 (89)
T COG1997 33 RAKHVCPF--CGRTTVKRIATGIWKCRKCGAKFA 64 (89)
T ss_pred hcCCcCCC--CCCcceeeeccCeEEcCCCCCeec
Confidence 45577887 887633333344488888887764
No 150
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=63.22 E-value=52 Score=35.65 Aligned_cols=15 Identities=0% Similarity=0.302 Sum_probs=10.7
Q ss_pred CCCChHHHHHHHhcc
Q 010753 200 ELPNQKAVLETSLRQ 214 (502)
Q Consensus 200 di~n~KavLE~~LR~ 214 (502)
++.++.+.+-..+++
T Consensus 301 ev~~Y~a~Ira~Iqr 315 (387)
T PRK09510 301 DIDQYAGQIKSAIQS 315 (387)
T ss_pred chhhHHHHHHHHHHH
Confidence 567788877777763
No 151
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=62.43 E-value=4.6 Score=30.34 Aligned_cols=27 Identities=33% Similarity=0.796 Sum_probs=15.7
Q ss_pred ccccccCccccccccc--CcccCccCCCccC
Q 010753 439 CQHAGCGMVLRTEEAR--DHVHCDKCGQGLQ 467 (502)
Q Consensus 439 C~~~~Cgk~F~k~~l~--~H~hC~~Cgk~f~ 467 (502)
||. ||......++. ++|.|+.||-.+.
T Consensus 3 Cp~--Cg~~l~~~~~~~~~~~vC~~Cg~~~~ 31 (52)
T smart00661 3 CPK--CGNMLIPKEGKEKRRFVCRKCGYEEP 31 (52)
T ss_pred CCC--CCCccccccCCCCCEEECCcCCCeEE
Confidence 666 77766554443 2577777764443
No 152
>PRK14873 primosome assembly protein PriA; Provisional
Probab=61.80 E-value=3.5 Score=47.37 Aligned_cols=46 Identities=22% Similarity=0.595 Sum_probs=34.4
Q ss_pred CcccccccCcccc----cchHHhHhhhccCceeeccccccCcccccccccCcccCccCCCc
Q 010753 409 DTVQCKNCKRFIP----SRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQG 465 (502)
Q Consensus 409 ~~~~C~nC~k~~~----~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~ 465 (502)
....|.+||..+. ...|..|.. .+...|.. ||..- ..|.|+.||..
T Consensus 382 p~l~C~~Cg~~~~C~~C~~~L~~h~~---~~~l~Ch~--CG~~~------~p~~Cp~Cgs~ 431 (665)
T PRK14873 382 PSLACARCRTPARCRHCTGPLGLPSA---GGTPRCRW--CGRAA------PDWRCPRCGSD 431 (665)
T ss_pred CeeEhhhCcCeeECCCCCCceeEecC---CCeeECCC--CcCCC------cCccCCCCcCC
Confidence 3568999999885 367888875 67788998 99521 25899999843
No 153
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=61.73 E-value=1.1e+02 Score=28.89 Aligned_cols=21 Identities=14% Similarity=0.175 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 010753 8 AREKLEKEQKERKERARLKLE 28 (502)
Q Consensus 8 ~~~k~~~e~~~r~~~~~~~~~ 28 (502)
.++++..+-+++.+.||.+++
T Consensus 68 ea~~~~~~~~~~L~~a~~ea~ 88 (174)
T PRK07352 68 QAAQALAEAQQKLAQAQQEAE 88 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444433
No 154
>PRK05580 primosome assembly protein PriA; Validated
Probab=61.57 E-value=3.9 Score=46.99 Aligned_cols=47 Identities=26% Similarity=0.670 Sum_probs=34.5
Q ss_pred CcccccccCcccc----cchHHhHhhhccCceeeccccccCcccccccccCcccCccCCCc
Q 010753 409 DTVQCKNCKRFIP----SRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQG 465 (502)
Q Consensus 409 ~~~~C~nC~k~~~----~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~ 465 (502)
....|..||..+. ...|..|.. .+...|.. ||...... |.|+.||..
T Consensus 380 ~~~~C~~Cg~~~~C~~C~~~l~~h~~---~~~l~Ch~--Cg~~~~~~-----~~Cp~Cg~~ 430 (679)
T PRK05580 380 PFLLCRDCGWVAECPHCDASLTLHRF---QRRLRCHH--CGYQEPIP-----KACPECGST 430 (679)
T ss_pred CceEhhhCcCccCCCCCCCceeEECC---CCeEECCC--CcCCCCCC-----CCCCCCcCC
Confidence 3578999998874 367777775 77788998 99654332 689999754
No 155
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=61.22 E-value=84 Score=31.78 Aligned_cols=13 Identities=15% Similarity=0.133 Sum_probs=8.6
Q ss_pred EeChhHHHHHHcC
Q 010753 95 KLPPSCFTELSGQ 107 (502)
Q Consensus 95 iLP~SaL~~L~~~ 107 (502)
-||+.....|.+.
T Consensus 159 ~l~~~~r~~l~~~ 171 (250)
T PRK14474 159 HLSEAERQALANS 171 (250)
T ss_pred ccCHHHHHHHHhh
Confidence 4777777777543
No 156
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=61.22 E-value=95 Score=31.09 Aligned_cols=37 Identities=32% Similarity=0.355 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q 010753 10 EKLEKEQKERKERARLKLEREK-KAKEEAKKQREAIEA 46 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~~~~ 46 (502)
+++..+.+++.+.|+.++..-. .++.+|.+.++++.+
T Consensus 56 ~~~~~e~e~~l~~a~~ea~~i~~~A~~eA~~~~~~i~~ 93 (246)
T TIGR03321 56 EQERREYEEKNEELDQQREVLLTKAKEEAQAERQRLLD 93 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444333333 344444444444333
No 157
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=61.19 E-value=94 Score=29.43 Aligned_cols=32 Identities=19% Similarity=0.178 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 11 KLEKEQKERKERARLKLEREKKAKEEAKKQRE 42 (502)
Q Consensus 11 k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~ 42 (502)
.|+.-.+.|.+.+.++.+.|+..++....+++
T Consensus 43 ~Ld~Ae~~r~eA~~l~~e~e~~L~~Ar~EA~~ 74 (154)
T PRK06568 43 KVLKAEKLKEDAALLFEQTNAQIKKLETLRSQ 74 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555555544333333333
No 158
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=60.69 E-value=1.2e+02 Score=28.79 Aligned_cols=40 Identities=28% Similarity=0.372 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q 010753 7 RAREKLEKEQKERKERARLKLEREK-KAKEEAKKQREAIEA 46 (502)
Q Consensus 7 ~~~~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~~~~ 46 (502)
..++++..+.+++...||.++..-. .++++|.+.++++.+
T Consensus 66 ~eA~~~~~e~e~~l~~a~~ea~~ii~~a~~~a~~~~~~~~~ 106 (173)
T PRK13453 66 LNAQKLEEENKQKLKETQEEVQKILEDAKVQARQQQEQIIH 106 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555555444 444555555555433
No 159
>PLN02316 synthase/transferase
Probab=60.67 E-value=42 Score=40.72 Aligned_cols=13 Identities=23% Similarity=0.378 Sum_probs=11.0
Q ss_pred ccccCCEEEEEEC
Q 010753 217 TLSQDDVLTVNYG 229 (502)
Q Consensus 217 tLT~Gd~I~I~~~ 229 (502)
+...|++|.|.||
T Consensus 486 ~~~aG~~v~v~Yn 498 (1036)
T PLN02316 486 EVQAGTTVTVLYN 498 (1036)
T ss_pred CCCCCCEEEEEEC
Confidence 6778899999887
No 160
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=60.54 E-value=1.3e+02 Score=28.05 Aligned_cols=19 Identities=21% Similarity=0.312 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKL 27 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~ 27 (502)
++++..|-+++...||.+.
T Consensus 72 a~~~~~e~e~~L~~A~~ea 90 (156)
T CHL00118 72 ANELTKQYEQELSKARKEA 90 (156)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444333
No 161
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=60.48 E-value=5.5 Score=28.52 Aligned_cols=28 Identities=29% Similarity=0.765 Sum_probs=14.4
Q ss_pred eeccccccCccccc--ccccCc---ccCccCCCcc
Q 010753 437 VACQHAGCGMVLRT--EEARDH---VHCDKCGQGL 466 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k--~~l~~H---~hC~~Cgk~f 466 (502)
+.||. |+..|.- +.+... ..|+.||..|
T Consensus 3 i~Cp~--C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPN--CQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCC--CCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 45666 6666664 212222 4566665544
No 162
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=60.31 E-value=1.2e+02 Score=29.03 Aligned_cols=34 Identities=15% Similarity=0.264 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 010753 10 EKLEKEQKERKERARLKLEREK-KAKEEAKKQREA 43 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~ 43 (502)
+++..+.++..+.||.++..-. .++++|.+.++.
T Consensus 75 ~~~~~e~e~~L~~A~~ea~~ii~~A~~~ae~~~~~ 109 (184)
T CHL00019 75 IEKLEKARARLRQAELEADEIRVNGYSEIEREKEN 109 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444444443333322 333334333333
No 163
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=60.03 E-value=4.5 Score=46.96 Aligned_cols=46 Identities=24% Similarity=0.655 Sum_probs=34.2
Q ss_pred cccccccCcccc----cchHHhHhhhccCceeeccccccCcccccccccCcccCccCCCc
Q 010753 410 TVQCKNCKRFIP----SRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQG 465 (502)
Q Consensus 410 ~~~C~nC~k~~~----~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~ 465 (502)
...|..||..+. ...|..|+. +|-..|-+ ||..-... .+|+.||..
T Consensus 435 ~l~C~~Cg~v~~Cp~Cd~~lt~H~~---~~~L~CH~--Cg~~~~~p-----~~Cp~Cgs~ 484 (730)
T COG1198 435 LLLCRDCGYIAECPNCDSPLTLHKA---TGQLRCHY--CGYQEPIP-----QSCPECGSE 484 (730)
T ss_pred eeecccCCCcccCCCCCcceEEecC---CCeeEeCC--CCCCCCCC-----CCCCCCCCC
Confidence 567888888773 477889988 68899999 99652222 589999843
No 164
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=60.00 E-value=5.7 Score=35.70 Aligned_cols=33 Identities=12% Similarity=0.140 Sum_probs=21.9
Q ss_pred eeccccccCcccccccccCc-ccCccCCCccChhhHHH
Q 010753 437 VACQHAGCGMVLRTEEARDH-VHCDKCGQGLQRREMEK 473 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H-~hC~~Cgk~f~~s~l~k 473 (502)
-.||. ||+.|- .|.+. ..|+.||++|+.+.++.
T Consensus 10 ridPe--tg~KFY--DLNrdPiVsPytG~s~P~s~fe~ 43 (129)
T COG4530 10 RIDPE--TGKKFY--DLNRDPIVSPYTGKSYPRSYFEE 43 (129)
T ss_pred ccCcc--ccchhh--ccCCCccccCcccccchHHHHHh
Confidence 46887 888773 33332 67888888887655543
No 165
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=59.65 E-value=5.5 Score=29.92 Aligned_cols=11 Identities=27% Similarity=0.492 Sum_probs=5.8
Q ss_pred ccccccCcccc
Q 010753 411 VQCKNCKRFIP 421 (502)
Q Consensus 411 ~~C~nC~k~~~ 421 (502)
|.|.+||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 45555555543
No 166
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=59.46 E-value=4.7 Score=27.68 Aligned_cols=21 Identities=19% Similarity=0.645 Sum_probs=13.8
Q ss_pred eeccccccCcccccccccCcccC
Q 010753 437 VACQHAGCGMVLRTEEARDHVHC 459 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC 459 (502)
+.|-. |++.|...+.+.|..|
T Consensus 1 ~sCiD--C~~~F~~~~y~~Ht~C 21 (28)
T PF08790_consen 1 FSCID--CSKDFDGDSYKSHTSC 21 (28)
T ss_dssp EEETT--TTEEEEGGGTTT----
T ss_pred Ceeec--CCCCcCcCCcCCCCcc
Confidence 45777 9999977888888877
No 167
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=59.41 E-value=6.9 Score=29.87 Aligned_cols=25 Identities=32% Similarity=0.755 Sum_probs=16.4
Q ss_pred eeccccccCccccc--c-------------cccCcccCccCC
Q 010753 437 VACQHAGCGMVLRT--E-------------EARDHVHCDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k--~-------------~l~~H~hC~~Cg 463 (502)
|.|+. ||-++.- . +|-..|.|+.|+
T Consensus 2 y~C~~--CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~ 41 (47)
T PF00301_consen 2 YQCPV--CGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCG 41 (47)
T ss_dssp EEETT--TSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTS
T ss_pred cCCCC--CCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCC
Confidence 78888 9988874 2 345559999997
No 168
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=58.33 E-value=42 Score=35.49 Aligned_cols=36 Identities=22% Similarity=0.376 Sum_probs=24.8
Q ss_pred HHHhcCCCCCCCCceEEEEEEecCCcceEEEeeccC
Q 010753 161 VWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEGI 196 (502)
Q Consensus 161 m~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~~ 196 (502)
|..+|.-.++--|..-+|+..-+|.||..-++|.+.
T Consensus 313 Iq~rfl~~~sf~gK~C~l~ikL~pdGtl~~~~~~~G 348 (387)
T COG3064 313 IQSRFLDADSFAGKTCRLRIKLAPDGTLLDIKPEGG 348 (387)
T ss_pred HHHHHhcccccCCceeEEEEEEcCCcceeeccccCC
Confidence 344443333334567778888899999999998864
No 169
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=58.03 E-value=6.6 Score=26.86 Aligned_cols=20 Identities=25% Similarity=0.569 Sum_probs=16.0
Q ss_pred ccCccCCCccC-hhhHHHhhh
Q 010753 457 VHCDKCGQGLQ-RREMEKHMK 476 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~ 476 (502)
|.|+.|++.|. ...+..|.+
T Consensus 4 ~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 4 FYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred eEccccCCccCCHHHHHHHHC
Confidence 56888988888 778888865
No 170
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=57.92 E-value=4 Score=41.49 Aligned_cols=13 Identities=23% Similarity=0.716 Sum_probs=4.8
Q ss_pred cCcccccccccCc
Q 010753 444 CGMVLRTEEARDH 456 (502)
Q Consensus 444 Cgk~F~k~~l~~H 456 (502)
||....++.+.+|
T Consensus 9 CgEsvKKp~vekH 21 (276)
T KOG2186|consen 9 CGESVKKPQVEKH 21 (276)
T ss_pred hhhhccccchHHH
Confidence 3333333333333
No 171
>PF11208 DUF2992: Protein of unknown function (DUF2992); InterPro: IPR016787 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=57.85 E-value=51 Score=30.50 Aligned_cols=30 Identities=40% Similarity=0.587 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 19 RKERARLKLEREKKAKEEAKKQREAIEAAQ 48 (502)
Q Consensus 19 r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~ 48 (502)
-+.+.-++++.|.++++.....++..|+..
T Consensus 85 TkAQ~ALk~q~E~~K~~rk~~~k~~re~~k 114 (132)
T PF11208_consen 85 TKAQQALKLQREQRKKERKKRSKEQREAEK 114 (132)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566788888877777766655544433
No 172
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=57.68 E-value=5.7 Score=36.66 Aligned_cols=15 Identities=33% Similarity=0.631 Sum_probs=8.6
Q ss_pred ccccccCcccccchH
Q 010753 411 VQCKNCKRFIPSRSI 425 (502)
Q Consensus 411 ~~C~nC~k~~~~~~l 425 (502)
++|.+||+.|+..+.
T Consensus 2 H~Ct~Cg~~f~dgs~ 16 (131)
T PF09845_consen 2 HQCTKCGRVFEDGSK 16 (131)
T ss_pred cccCcCCCCcCCCcH
Confidence 456666666664443
No 173
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=57.36 E-value=4.4 Score=31.42 Aligned_cols=7 Identities=57% Similarity=1.403 Sum_probs=3.9
Q ss_pred ccCccCC
Q 010753 457 VHCDKCG 463 (502)
Q Consensus 457 ~hC~~Cg 463 (502)
|+|..||
T Consensus 38 ~~CGkCg 44 (51)
T COG1998 38 WACGKCG 44 (51)
T ss_pred eEecccc
Confidence 5555554
No 174
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=57.32 E-value=6.5 Score=36.13 Aligned_cols=27 Identities=11% Similarity=0.182 Sum_probs=17.6
Q ss_pred eeccccccCccccccccc-CcccCccCCCccC
Q 010753 437 VACQHAGCGMVLRTEEAR-DHVHCDKCGQGLQ 467 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~-~H~hC~~Cgk~f~ 467 (502)
..||. ||+.|-- |. .-.+|+.||..|.
T Consensus 10 r~Cp~--cg~kFYD--Lnk~p~vcP~cg~~~~ 37 (129)
T TIGR02300 10 RICPN--TGSKFYD--LNRRPAVSPYTGEQFP 37 (129)
T ss_pred ccCCC--cCccccc--cCCCCccCCCcCCccC
Confidence 46777 8877733 21 3367888877776
No 175
>PF14353 CpXC: CpXC protein
Probab=56.25 E-value=8.6 Score=34.47 Aligned_cols=39 Identities=23% Similarity=0.564 Sum_probs=25.2
Q ss_pred eeccccccCcccccccc-----cCc--------------ccCccCCCccC-hhhHHHhhhc
Q 010753 437 VACQHAGCGMVLRTEEA-----RDH--------------VHCDKCGQGLQ-RREMEKHMKV 477 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l-----~~H--------------~hC~~Cgk~f~-~s~l~kH~~i 477 (502)
+.||. ||..|...-| ... +.|++||..|. ...+.-|+.-
T Consensus 2 itCP~--C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D~~ 60 (128)
T PF14353_consen 2 ITCPH--CGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHDPE 60 (128)
T ss_pred cCCCC--CCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEcCC
Confidence 46888 8888876222 111 67999988877 5555555544
No 176
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=56.13 E-value=7.5 Score=47.37 Aligned_cols=58 Identities=26% Similarity=0.623 Sum_probs=37.1
Q ss_pred cccCcccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCcccCccCCCccChhhHHHhhhcccceeeec
Q 010753 406 IEMDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQRREMEKHMKVFHEQCSCP 485 (502)
Q Consensus 406 ~~~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~~s~l~kH~~i~Htp~~C~ 485 (502)
++.....|++||...+. ..|+. ||... ..+++|+.||....... ++...|+
T Consensus 663 VEV~~rkCPkCG~~t~~--------------~fCP~--CGs~t-----e~vy~CPsCGaev~~de--------s~a~~CP 713 (1337)
T PRK14714 663 VEVGRRRCPSCGTETYE--------------NRCPD--CGTHT-----EPVYVCPDCGAEVPPDE--------SGRVECP 713 (1337)
T ss_pred EEEEEEECCCCCCcccc--------------ccCcc--cCCcC-----CCceeCccCCCccCCCc--------cccccCC
Confidence 34456899999985422 16888 99764 34689999986544211 1244699
Q ss_pred -CCccccc
Q 010753 486 -CGVVLEN 492 (502)
Q Consensus 486 -Cg~~f~~ 492 (502)
||.....
T Consensus 714 ~CGtplv~ 721 (1337)
T PRK14714 714 RCDVELTP 721 (1337)
T ss_pred CCCCcccc
Confidence 9964443
No 177
>PHA00626 hypothetical protein
Probab=55.75 E-value=8.2 Score=30.74 Aligned_cols=7 Identities=43% Similarity=1.412 Sum_probs=4.1
Q ss_pred eccccccCc
Q 010753 438 ACQHAGCGM 446 (502)
Q Consensus 438 ~C~~~~Cgk 446 (502)
.||. ||.
T Consensus 2 ~CP~--CGS 8 (59)
T PHA00626 2 SCPK--CGS 8 (59)
T ss_pred CCCC--CCC
Confidence 3666 665
No 178
>KOG2357 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.69 E-value=38 Score=36.85 Aligned_cols=8 Identities=38% Similarity=0.709 Sum_probs=3.2
Q ss_pred HHHhhHHH
Q 010753 48 QRSRRLDA 55 (502)
Q Consensus 48 ~~~~r~~~ 55 (502)
.++||+++
T Consensus 413 Ek~rr~Ea 420 (440)
T KOG2357|consen 413 EKQRRKEA 420 (440)
T ss_pred HHHHHHHH
Confidence 34444433
No 179
>TIGR02794 tolA_full TolA protein. TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB.
Probab=55.20 E-value=75 Score=33.84 Aligned_cols=11 Identities=9% Similarity=0.362 Sum_probs=4.1
Q ss_pred CChHHHHHHHh
Q 010753 202 PNQKAVLETSL 212 (502)
Q Consensus 202 ~n~KavLE~~L 212 (502)
..|.+.+-..+
T Consensus 262 ~~Y~a~I~~~I 272 (346)
T TIGR02794 262 DKYAAIIQQAI 272 (346)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 180
>KOG4031 consensus Vesicle coat protein clathrin, light chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.94 E-value=66 Score=32.04 Aligned_cols=74 Identities=24% Similarity=0.270 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH--HHhhHHHHHHHHHHHHHHH--HHHHcCCcEEEEEEeee
Q 010753 10 EKLEKEQKERKERARLKLEREKKAKEEA-KKQREAIEAAQ--RSRRLDAIDAQLKADQEMQ--ESLLAGGGIVFYHTLEA 84 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~~~~e~~~~~~a-~~~~~~~~~~~--~~~r~~~~~~~~~~~~~~~--~~~~~~~g~~~~~~~~~ 84 (502)
-||+.||++|-+. |=+.+++.|++- .+++.+|+.=- +..+++.--+.-+++++++ +.-..+.|-.|.+.+..
T Consensus 109 RkWkeeQ~~rl~e---kD~~sek~k~ElrekAkKelddwy~~~~ek~~k~~~~nk~eee~~~~e~~~~~~gTeWErv~kL 185 (216)
T KOG4031|consen 109 RKWKEEQMKRLQE---KDEASEKLKEELREKAKKELDDWYDQQNEKLEKTKANNKAEEEALVKENEEFSPGTEWERVAKL 185 (216)
T ss_pred HHHHHHHHHHHHH---hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhcccCCCchHHHHHHH
Confidence 4788888777654 334444444444 35555554321 1122222112223333333 33446677889887765
Q ss_pred cc
Q 010753 85 LP 86 (502)
Q Consensus 85 ~~ 86 (502)
.-
T Consensus 186 ~D 187 (216)
T KOG4031|consen 186 CD 187 (216)
T ss_pred Hc
Confidence 53
No 181
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=54.83 E-value=1.1e+02 Score=33.71 Aligned_cols=10 Identities=20% Similarity=0.278 Sum_probs=5.3
Q ss_pred CCEEEEEECC
Q 010753 221 DDVLTVNYGE 230 (502)
Q Consensus 221 Gd~I~I~~~~ 230 (502)
|-+|.|+|++
T Consensus 352 G~vvIldhG~ 361 (420)
T COG4942 352 GLVVILDHGG 361 (420)
T ss_pred ceEEEEEcCC
Confidence 4446666653
No 182
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=54.76 E-value=1.7e+02 Score=27.63 Aligned_cols=18 Identities=17% Similarity=0.246 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 010753 10 EKLEKEQKERKERARLKL 27 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~~ 27 (502)
+++..+-++....||.+.
T Consensus 73 ~~~~~e~e~~L~~Ar~eA 90 (167)
T PRK08475 73 KEKKEDALKKLEEAKEKA 90 (167)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333334444444444333
No 183
>PF14265 DUF4355: Domain of unknown function (DUF4355)
Probab=54.71 E-value=77 Score=28.19 Aligned_cols=20 Identities=20% Similarity=0.360 Sum_probs=10.2
Q ss_pred HHHHHHHhhHHHHHHHHHHH
Q 010753 44 IEAAQRSRRLDAIDAQLKAD 63 (502)
Q Consensus 44 ~~~~~~~~r~~~~~~~~~~~ 63 (502)
.+...+++.|+.++++....
T Consensus 49 ~e~~~~~~el~~~~~e~~~~ 68 (125)
T PF14265_consen 49 EELEELEKELEELEAELARR 68 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444555566655554433
No 184
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=54.36 E-value=6.4 Score=37.89 Aligned_cols=31 Identities=23% Similarity=0.544 Sum_probs=25.3
Q ss_pred ceeeccccccCccccc-ccccCcccCccCCCccC
Q 010753 435 HSVACQHAGCGMVLRT-EEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 435 n~~~C~~~~Cgk~F~k-~~l~~H~hC~~Cgk~f~ 467 (502)
.-|.||. ||..|.- ..+..-|+|+.||...-
T Consensus 116 ~~Y~Cp~--C~~rytf~eA~~~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 116 MFFFCPN--CHIRFTFDEAMEYGFRCPQCGEMLE 147 (178)
T ss_pred CEEECCC--CCcEEeHHHHhhcCCcCCCCCCCCe
Confidence 3499998 9999998 55666799999996654
No 185
>PF05672 MAP7: MAP7 (E-MAP-115) family; InterPro: IPR008604 The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115 kDa epithelial MAP (E-MAP-115) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin []. The binding of this microtubule associated protein is nucleotide independent [].
Probab=54.02 E-value=1e+02 Score=29.85 Aligned_cols=25 Identities=52% Similarity=0.834 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHH
Q 010753 11 KLEKEQKERKERARL-KLEREKKAKE 35 (502)
Q Consensus 11 k~~~e~~~r~~~~~~-~~~~e~~~~~ 35 (502)
.|.|+|+++-++.|+ +.+.+|..++
T Consensus 33 RlAReQkErEE~ER~ekEE~er~~re 58 (171)
T PF05672_consen 33 RLAREQKEREEQERLEKEEQERRKRE 58 (171)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 466666666666554 3344444433
No 186
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=54.01 E-value=7.7 Score=40.80 Aligned_cols=69 Identities=10% Similarity=0.214 Sum_probs=36.2
Q ss_pred cccCccccc--ccCcccc-cchHHhHhh--hccCceeeccccccCcccccccccCcccCccCCCccC-hhhHHHhhh
Q 010753 406 IEMDTVQCK--NCKRFIP-SRSIVLHEA--YCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQ-RREMEKHMK 476 (502)
Q Consensus 406 ~~~~~~~C~--nC~k~~~-~~~l~lHe~--~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~-~s~l~kH~~ 476 (502)
++.++|.|. +|.|.+. ..-|.-|.. ||..+...=|...=-..| +.-..-|.|+.|+|-|. ...|+-|.+
T Consensus 345 ~d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F--~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 345 KDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIF--SAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred ecCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccc--cccCCceeccccchhhccCccceeccc
Confidence 356899997 6999997 466777776 543322111110001111 00011256777776666 555665543
No 187
>PF05837 CENP-H: Centromere protein H (CENP-H); InterPro: IPR008426 Chromosome segregation in eukaryotes requires the kinetochore, a multi-protein structure that assembles on centromeric DNA, and which acts to link chromosomes to spindle microtubules. Kinetochore structure and composition is highly conserved among vertebrates. The inner kinetochore is essential for kinetochore assembly, and is involved in chromosome segregation via regulation of the spindle. Inner kinetochore components include the multi-subunit CENP-H/I complex, which may function, in part, in directing centromere protein A (CENP-A) deposition to centromeres, where CENP-A is a centromere-specific histone H3 variant required for the organisation of centromeric chromatin during interphase. The CENP-H/I complex contains three functional classes of proteins [, ]: CENP-H class (includes CENP-H, -I, -K, -L) CENP-M class (includes CENP-M) CENP-O class (includes CENP-O, -P, -Q, -R, -50) CENP-H is required for the localisation of CENP-C, but not CENP-A, to the centromere. However, it may be involved in the incorporation of newly synthesised CENP-A into centromeres via its interaction with the CENP-A/CENP-HI complex. CENP-H contains a coiled-coil structure and a nuclear localisation signal. CENP-H is specifically and constitutively localised in kinetochores throughout the cell cycle, and may play a role in kinetochore organisation and function throughout the cell cycle []. Studies show that CENP-H may be associated with certain human cancers [, ]. This entry also includes Kinetochore protein Fta3 which is a subunit of the Sim4 complex. This complex is required for loading the DASH complex onto the kinetochore via interaction with dad1. Fta2, Fta3 and Fta4 associate with the central core and inner repeat region of the centromere [].; GO: 0043515 kinetochore binding, 0007059 chromosome segregation, 0051301 cell division, 0000777 condensed chromosome kinetochore, 0005634 nucleus
Probab=53.74 E-value=1.3e+02 Score=26.56 Aligned_cols=75 Identities=27% Similarity=0.371 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH-------HHcCCcEEE
Q 010753 6 RRAREKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQES-------LLAGGGIVF 78 (502)
Q Consensus 6 ~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~-------~~~~~g~~~ 78 (502)
+.-.++|...+++|.+--++-.+.-....+.+.+.....+-..-...|+.+++..++.+++=.. ++.|-||.|
T Consensus 13 ~~l~~~L~~v~~~~l~l~~~n~el~~el~~l~~~~~~~~~~~~~~~~l~~~~~~lk~~r~~~~v~k~v~q~lI~gSgVdW 92 (106)
T PF05837_consen 13 RSLQEKLSDVEKKRLRLKRRNQELAQELLELAEKQKSQREDEELSEKLEKLEKELKKSRQRWRVMKNVFQALIVGSGVDW 92 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 3344555555555544444333333333223322222222123334677777777777776544 457899999
Q ss_pred EE
Q 010753 79 YH 80 (502)
Q Consensus 79 ~~ 80 (502)
-.
T Consensus 93 a~ 94 (106)
T PF05837_consen 93 AE 94 (106)
T ss_pred cc
Confidence 53
No 188
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=53.74 E-value=7.6 Score=34.72 Aligned_cols=15 Identities=13% Similarity=0.516 Sum_probs=10.1
Q ss_pred cCcccccccCccccc
Q 010753 408 MDTVQCKNCKRFIPS 422 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~ 422 (502)
+-...|.+|++.|+.
T Consensus 68 p~~~~C~~Cg~~~~~ 82 (115)
T TIGR00100 68 PVECECEDCSEEVSP 82 (115)
T ss_pred CcEEEcccCCCEEec
Confidence 345678888877754
No 189
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=53.73 E-value=4.6 Score=34.99 Aligned_cols=31 Identities=26% Similarity=0.590 Sum_probs=21.6
Q ss_pred ceeeccccccCcccccccccCcccCccCCCccC
Q 010753 435 HSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 435 n~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~ 467 (502)
..|.||. ||+.=.+..-.--|+|..|++.|.
T Consensus 34 ~ky~Cp~--Cgk~~vkR~a~GIW~C~~C~~~~A 64 (90)
T PF01780_consen 34 AKYTCPF--CGKTSVKRVATGIWKCKKCGKKFA 64 (90)
T ss_dssp S-BEESS--SSSSEEEEEETTEEEETTTTEEEE
T ss_pred CCCcCCC--CCCceeEEeeeEEeecCCCCCEEe
Confidence 4588998 998765533333399999998774
No 190
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=53.53 E-value=87 Score=30.43 Aligned_cols=13 Identities=15% Similarity=0.618 Sum_probs=5.8
Q ss_pred hHHHHHHHHHHHH
Q 010753 52 RLDAIDAQLKADQ 64 (502)
Q Consensus 52 r~~~~~~~~~~~~ 64 (502)
+|++++.+.++.+
T Consensus 161 ~l~~l~~ei~~~~ 173 (176)
T PF12999_consen 161 KLEELEKEIQAAK 173 (176)
T ss_pred HHHHHHHHHHHHh
Confidence 4444544444433
No 191
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=53.46 E-value=1.9e+02 Score=26.89 Aligned_cols=21 Identities=14% Similarity=0.246 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLER 29 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~ 29 (502)
++++..+-+++...||.+.+.
T Consensus 58 a~~~~~e~e~~l~~A~~ea~~ 78 (164)
T PRK14471 58 MQNLQADNERLLKEARAERDA 78 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444333
No 192
>PF04641 Rtf2: Rtf2 RING-finger
Probab=53.33 E-value=9.4 Score=38.65 Aligned_cols=50 Identities=18% Similarity=0.419 Sum_probs=35.6
Q ss_pred cccCcccccccCcccccchHHhHhhhccCceeeccccccCccccc---ccccCcccCccCCCccC
Q 010753 406 IEMDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRT---EEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 406 ~~~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k---~~l~~H~hC~~Cgk~f~ 467 (502)
.....|.|+-+++.|.. ...|++-. .||-||.. .++...+.|+.||+.|.
T Consensus 109 ~~~~~~~CPvt~~~~~~-----------~~~fv~l~-~cG~V~s~~alke~k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNG-----------KHKFVYLR-PCGCVFSEKALKELKKSKKCPVCGKPFT 161 (260)
T ss_pred cCCceeECCCCCcccCC-----------ceeEEEEc-CCCCEeeHHHHHhhcccccccccCCccc
Confidence 45678999999988732 22233322 29999997 56654688999999987
No 193
>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=53.17 E-value=7.2 Score=36.76 Aligned_cols=32 Identities=19% Similarity=0.391 Sum_probs=25.9
Q ss_pred CceeeccccccCccccc-ccccCcccCccCCCccC
Q 010753 434 RHSVACQHAGCGMVLRT-EEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k-~~l~~H~hC~~Cgk~f~ 467 (502)
..-|.||. |+..|.. ..+..-|+|+.||...-
T Consensus 107 ~~~Y~Cp~--c~~r~tf~eA~~~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 107 NMFFICPN--MCVRFTFNEAMELNFTCPRCGAMLD 139 (158)
T ss_pred CCeEECCC--CCcEeeHHHHHHcCCcCCCCCCEee
Confidence 44499998 9999998 66666799999996654
No 194
>cd03405 Band_7_HflC Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma membranes lack cholesterol and are unlikely to have lipid raft domains. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Escherichia coli HflC is an integral membrane protein which may localize to the plasma membrane. HflC associates with another band 7 family member (HflK) to form an HflKC complex. HflKC interacts with FtsH in a large complex termed the FtsH holo-enzyme. FtsH is an AAA ATP-dependent protease which exerts progressive proteolysis against membrane-embedded and soluble substrate proteins. HflKC can modulate the activity of FtsH. HflKC plays a role in the decision between lysogenic and lytic cycle growth during la
Probab=52.97 E-value=1.1e+02 Score=29.87 Aligned_cols=22 Identities=18% Similarity=0.214 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLERE 30 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e 30 (502)
.+|.+.||++++.+.+...+++
T Consensus 159 ~~~~~ae~~~~a~~~~ae~~~~ 180 (242)
T cd03405 159 YRRMRAERERIAAEFRAEGEEE 180 (242)
T ss_pred HHHHHHHHHHHHHHHHhhhHHH
Confidence 4566677766665544444433
No 195
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=52.66 E-value=1.3e+02 Score=28.53 Aligned_cols=21 Identities=10% Similarity=0.172 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 010753 18 ERKERARLKLEREKKAKEEAK 38 (502)
Q Consensus 18 ~r~~~~~~~~~~e~~~~~~a~ 38 (502)
+|+++-...++.-.++|++|+
T Consensus 41 ~R~~~I~~~L~~Ae~~k~eAe 61 (155)
T PRK06569 41 NRQTNIQDNITQADTLTIEVE 61 (155)
T ss_pred HHHHHHHhHHHHHHHHHHHHH
Confidence 333333333333333333333
No 196
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=52.32 E-value=1.2e+02 Score=33.25 Aligned_cols=9 Identities=22% Similarity=0.154 Sum_probs=3.9
Q ss_pred CceeccHHH
Q 010753 153 GFVGLPPHV 161 (502)
Q Consensus 153 G~v~LP~wm 161 (502)
|+|++-.|+
T Consensus 340 G~VvyA~~l 348 (420)
T COG4942 340 GRVVYADWL 348 (420)
T ss_pred ceEEechhh
Confidence 444444443
No 197
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=52.10 E-value=3.8 Score=45.91 Aligned_cols=43 Identities=21% Similarity=0.386 Sum_probs=31.6
Q ss_pred chHHhHhh-hccCceeeccccccCccccc-ccccCc----ccCccCCCccC
Q 010753 423 RSIVLHEA-YCSRHSVACQHAGCGMVLRT-EEARDH----VHCDKCGQGLQ 467 (502)
Q Consensus 423 ~~l~lHe~-~C~rn~~~C~~~~Cgk~F~k-~~l~~H----~hC~~Cgk~f~ 467 (502)
.+|+.|.- |-.|.--+|.+ |||.|++ -.+... ..|.-|.++|-
T Consensus 239 ~~fvrHHWVHrrRqeGkC~~--CgKgFQQKf~FhsKEivAisCSWCKqayH 287 (1004)
T KOG0782|consen 239 SGFVRHHWVHRRRQEGKCNT--CGKGFQQKFFFHSKEIVAISCSWCKQAYH 287 (1004)
T ss_pred ccchHHhHhhHhhhccccch--hhhhhhhheeeccccEEEEEehHHHHHhh
Confidence 46777765 66778889999 9999987 333222 57999988886
No 198
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=52.01 E-value=1.8e+02 Score=27.00 Aligned_cols=36 Identities=17% Similarity=0.236 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 010753 8 AREKLEKEQKERKERARLKLEREK-KAKEEAKKQREA 43 (502)
Q Consensus 8 ~~~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~ 43 (502)
.++++..+.+++...||.+...-. .++++|.+.+++
T Consensus 57 ea~~~~~e~e~~l~~A~~ea~~ii~~A~~~a~~~~~~ 93 (164)
T PRK14473 57 QLANAKRDYEAELAKARQEAAKIVAQAQERARAQEAE 93 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555555544444333 333444333333
No 199
>PF14943 MRP-S26: Mitochondrial ribosome subunit S26
Probab=51.87 E-value=1.5e+02 Score=28.51 Aligned_cols=6 Identities=17% Similarity=0.550 Sum_probs=2.4
Q ss_pred ceEEEE
Q 010753 114 PLHFKL 119 (502)
Q Consensus 114 Pl~F~l 119 (502)
..-|-|
T Consensus 158 ~YNfaI 163 (170)
T PF14943_consen 158 DYNFAI 163 (170)
T ss_pred ccceee
Confidence 333444
No 200
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=51.76 E-value=9.3 Score=46.63 Aligned_cols=40 Identities=25% Similarity=0.708 Sum_probs=28.1
Q ss_pred ccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCcccCccCCCcc
Q 010753 411 VQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQGL 466 (502)
Q Consensus 411 ~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f 466 (502)
..|++||... ...|.|+. ||......+-. -..|+.||...
T Consensus 680 ~fCP~CGs~t-------------e~vy~CPs--CGaev~~des~-a~~CP~CGtpl 719 (1337)
T PRK14714 680 NRCPDCGTHT-------------EPVYVCPD--CGAEVPPDESG-RVECPRCDVEL 719 (1337)
T ss_pred ccCcccCCcC-------------CCceeCcc--CCCccCCCccc-cccCCCCCCcc
Confidence 4899999863 33689998 99977652211 34799998443
No 201
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=51.70 E-value=6.1 Score=34.33 Aligned_cols=32 Identities=22% Similarity=0.548 Sum_probs=21.6
Q ss_pred CceeeccccccCcccccccccCcccCccCCCccC
Q 010753 434 RHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~ 467 (502)
...|.||. ||+.=.+..-.--|+|..|++.|.
T Consensus 33 ~a~y~Cpf--Cgk~~vkR~a~GIW~C~~C~~~~A 64 (91)
T TIGR00280 33 KAKYVCPF--CGKKTVKRGSTGIWTCRKCGAKFA 64 (91)
T ss_pred hcCccCCC--CCCCceEEEeeEEEEcCCCCCEEe
Confidence 34588998 986543333333499999998875
No 202
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=50.76 E-value=44 Score=36.51 Aligned_cols=65 Identities=28% Similarity=0.509 Sum_probs=44.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHcC----------CcEEEEEEeee--ccC--------------------CCCCCeE-----
Q 010753 52 RLDAIDAQLKADQEMQESLLAG----------GGIVFYHTLEA--LPF--------------------QGSGDKI----- 94 (502)
Q Consensus 52 r~~~~~~~~~~~~~~~~~~~~~----------~g~~~~~~~~~--~~~--------------------~~~gDKI----- 94 (502)
++.|-+.|++++..+.|.+..| +|+.|...+.- .|+ .-+||-|
T Consensus 91 k~sa~Ekql~eEee~me~v~~~k~LmsV~ElakGi~Y~ePi~T~WkPP~hir~mS~e~~e~vRk~~~I~veGd~ipPPIk 170 (610)
T KOG0341|consen 91 KISASEKQLMEEEEIMESVADGKALMSVAELAKGITYEEPIKTAWKPPRHIRKMSEEQRELVRKQLHILVEGDDIPPPIK 170 (610)
T ss_pred hcchHHHHHHHHHHHHHHHhcCccceeHHHHhCCCcccCcchhccCCcHHHHHhhHHHHHHHHHhheEEeeCCCCCCchh
Confidence 5667777778877777776654 67777766532 232 1266654
Q ss_pred -----EeChhHHHHHHcCCCCCCCceE
Q 010753 95 -----KLPPSCFTELSGQGAFDKGPLH 116 (502)
Q Consensus 95 -----iLP~SaL~~L~~~~~~~~~Pl~ 116 (502)
.+|.++|.-|...++..|.|+.
T Consensus 171 sF~eMKFP~~~L~~lk~KGI~~PTpIQ 197 (610)
T KOG0341|consen 171 SFKEMKFPKPLLRGLKKKGIVHPTPIQ 197 (610)
T ss_pred hhhhccCCHHHHHHHHhcCCCCCCcee
Confidence 5788999999999885555543
No 203
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=50.29 E-value=4.3 Score=46.61 Aligned_cols=72 Identities=28% Similarity=0.602 Sum_probs=48.2
Q ss_pred cccccCcccccccCcccc--c-chHHhHhhhccCce-eeccccccCccccc-ccc---------cCcccCccCCCccC-h
Q 010753 404 SSIEMDTVQCKNCKRFIP--S-RSIVLHEAYCSRHS-VACQHAGCGMVLRT-EEA---------RDHVHCDKCGQGLQ-R 468 (502)
Q Consensus 404 ~~~~~~~~~C~nC~k~~~--~-~~l~lHe~~C~rn~-~~C~~~~Cgk~F~k-~~l---------~~H~hC~~Cgk~f~-~ 468 (502)
+.+.+|.-.|+.|.+-+- + +.+ +-| ..|.+ ||=.|.- ..+ ..--.|+.|.+.|. .
T Consensus 95 ~~I~pD~a~C~~Cl~Ei~dp~~rrY--------~YPF~~CT~--CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP 164 (750)
T COG0068 95 TQIPPDAATCEDCLEEIFDPNSRRY--------LYPFINCTN--CGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDP 164 (750)
T ss_pred cccCCchhhhHHHHHHhcCCCCcce--------eccccccCC--CCcceeeeccCCCCcccCccccCcCCHHHHHHhcCc
Confidence 356788889999998873 1 111 122 46999 9999985 222 22246999977676 3
Q ss_pred hhHHHhhhcccc-eeeec-CCccc
Q 010753 469 REMEKHMKVFHE-QCSCP-CGVVL 490 (502)
Q Consensus 469 s~l~kH~~i~Ht-p~~C~-Cg~~f 490 (502)
. +|-||. |.-|+ ||-..
T Consensus 165 ~-----nRRfHAQp~aCp~CGP~~ 183 (750)
T COG0068 165 L-----NRRFHAQPIACPKCGPHL 183 (750)
T ss_pred c-----ccccccccccCcccCCCe
Confidence 3 355675 99999 99543
No 204
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=50.27 E-value=7.1 Score=33.86 Aligned_cols=32 Identities=19% Similarity=0.428 Sum_probs=21.4
Q ss_pred CceeeccccccCcccccccccCcccCccCCCccC
Q 010753 434 RHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~ 467 (502)
...|.||. ||+.=.+..-.--|+|..|++.|.
T Consensus 34 ~a~y~Cpf--Cgk~~vkR~a~GIW~C~~C~~~~A 65 (90)
T PTZ00255 34 HAKYFCPF--CGKHAVKRQAVGIWRCKGCKKTVA 65 (90)
T ss_pred hCCccCCC--CCCCceeeeeeEEEEcCCCCCEEe
Confidence 44588998 986533333334499999988775
No 205
>PF13025 DUF3886: Protein of unknown function (DUF3886)
Probab=49.99 E-value=38 Score=28.15 Aligned_cols=11 Identities=27% Similarity=0.419 Sum_probs=4.8
Q ss_pred HHHHcCCcEEE
Q 010753 68 ESLLAGGGIVF 78 (502)
Q Consensus 68 ~~~~~~~g~~~ 78 (502)
|+++..-.+.|
T Consensus 58 eELL~eS~ldW 68 (70)
T PF13025_consen 58 EELLNESELDW 68 (70)
T ss_pred HHHHhcccCCC
Confidence 34444444444
No 206
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=49.91 E-value=8.5 Score=33.88 Aligned_cols=12 Identities=25% Similarity=0.720 Sum_probs=5.7
Q ss_pred cccCccCCCccC
Q 010753 456 HVHCDKCGQGLQ 467 (502)
Q Consensus 456 H~hC~~Cgk~f~ 467 (502)
|..|+.||..|+
T Consensus 42 h~~C~~CG~y~~ 53 (99)
T PRK14892 42 IITCGNCGLYTE 53 (99)
T ss_pred eEECCCCCCccC
Confidence 444555554444
No 207
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=49.79 E-value=9.8 Score=35.00 Aligned_cols=15 Identities=20% Similarity=0.496 Sum_probs=10.2
Q ss_pred cCcccccccCccccc
Q 010753 408 MDTVQCKNCKRFIPS 422 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~ 422 (502)
+..+.|.+||+.|+.
T Consensus 68 p~~~~C~~CG~~~~~ 82 (135)
T PRK03824 68 EAVLKCRNCGNEWSL 82 (135)
T ss_pred ceEEECCCCCCEEec
Confidence 355778888877753
No 208
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.70 E-value=8.3 Score=44.25 Aligned_cols=46 Identities=15% Similarity=0.329 Sum_probs=22.4
Q ss_pred ccccccCcccc-cchHHhHhhhccCceeecc-ccccCccccc-ccccCc
Q 010753 411 VQCKNCKRFIP-SRSIVLHEAYCSRHSVACQ-HAGCGMVLRT-EEARDH 456 (502)
Q Consensus 411 ~~C~nC~k~~~-~~~l~lHe~~C~rn~~~C~-~~~Cgk~F~k-~~l~~H 456 (502)
..|..|...|- ...|..|.++-.+-...|+ .+||+..|.. .+|+.|
T Consensus 183 p~C~~C~~~fld~~el~rH~~~~h~~chfC~~~~~~neyy~~~~dLe~H 231 (669)
T KOG2231|consen 183 PLCKFCHERFLDDDELYRHLRFDHEFCHFCDYKTGQNEYYNDYDDLEEH 231 (669)
T ss_pred ccchhhhhhhccHHHHHHhhccceeheeecCcccccchhcccchHHHHH
Confidence 45666665554 3555555554444444443 2234455554 445443
No 209
>PF02359 CDC48_N: Cell division protein 48 (CDC48), N-terminal domain; InterPro: IPR003338 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The VAT protein of the archaebacterium Thermoplasma acidophilum, like all other members of the Cdc48/p97 family of AAA ATPases, has two ATPase domains and a 185-residue amino-terminal substrate-recognition domain, VAT-N. VAT shows activity in protein folding and unfolding and thus shares the common function of these ATPases in disassembly and/or degradation of protein complexes. VAT-N is composed of two equally sized subdomains. The amino-terminal subdomain VAT-Nn forms a double-psi beta-barrel whose pseudo-twofold symmetry is mirrored by an internal sequence repeat of 42 residues. The carboxy-terminal subdomain VAT-Nc forms a novel six-stranded beta-clam fold []. Together, VAT-Nn and VAT-Nc form a kidney-shaped structure, in close agreement with results from electron microscopy. VAT-Nn is related to numerous proteins including prokaryotic transcription factors, metabolic enzymes, the protease cofactors UFD1 and PrlF, and aspartic proteinases. ; GO: 0005524 ATP binding; PDB: 1CZ4_A 1CZ5_A 3CF3_C 3CF1_A 3CF2_A 1S3S_D 1E32_A 1R7R_A 2PJH_B 1CR5_B ....
Probab=49.27 E-value=16 Score=30.69 Aligned_cols=69 Identities=22% Similarity=0.129 Sum_probs=45.5
Q ss_pred CCCceeccHHHHHhcCCCCCCCCceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhccCcccccCCEEEEE
Q 010753 151 DEGFVGLPPHVWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQHATLSQDDVLTVN 227 (502)
Q Consensus 151 ~EG~v~LP~wm~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~~stLT~Gd~I~I~ 227 (502)
..|.++|++-.|+.|++. .++.|.|.. -+-|.+.+.|....- .+.=.--|-...|...-+..||.|.|.
T Consensus 14 ~~n~v~v~~~~m~~l~l~---~gd~v~i~g---~~~tv~~v~~~~~~~--~~~g~I~l~~~~R~n~~v~igd~V~V~ 82 (87)
T PF02359_consen 14 GTNCVRVSPEDMEELGLF---PGDVVLISG---KRKTVAFVFPDRPDD--SPPGVIRLSGIQRKNAGVSIGDRVTVR 82 (87)
T ss_dssp CTTEEEEEHHHHHCTTT----TTEEEEEET---TTEEEEEEEEECCST--TCTTEEEE-HHHHHHCT--TTSEEEEE
T ss_pred CCCEEEEcHHHHHHcCCC---CccEEEEeC---CceEEEEEEECCCCC--CCCCEEEECHHHHhhCCcCCCCEEEEE
Confidence 458999999999999998 578887764 222667776664321 111112355677888899999999997
No 210
>cd03404 Band_7_HflK Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma membranes lack cholesterol and are unlikely to have lipid raft domains. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Escherichia coli HflK is an integral membrane protein which may localize to the plasma membrane. HflK associates with another band 7 family member (HflC) to form an HflKC complex. HflKC interacts with FtsH in a large complex termed the FtsH holo-enzyme. FtsH is an AAA ATP-dependent protease which exerts progressive proteolysis against membrane-embedded and soluble substrate proteins. HflKC can modulate the activity of FtsH. HflKC plays a role in the decision between lysogenic and lytic cycle growth during la
Probab=48.99 E-value=1.1e+02 Score=30.43 Aligned_cols=22 Identities=5% Similarity=-0.044 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLERE 30 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e 30 (502)
..|...+|++++.+++.+.+++
T Consensus 183 ~~~~~A~q~~~~~~~eae~~a~ 204 (266)
T cd03404 183 DDVNKARQDRERLINEAEAYAN 204 (266)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566665544444444443
No 211
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=48.76 E-value=14 Score=25.96 Aligned_cols=24 Identities=29% Similarity=0.868 Sum_probs=11.7
Q ss_pred eeccccccCcccccccccCcccCccCC
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
|+|.. ||..+.-.. ..-..|+.||
T Consensus 1 Y~C~~--Cg~~~~~~~-~~~irC~~CG 24 (32)
T PF03604_consen 1 YICGE--CGAEVELKP-GDPIRCPECG 24 (32)
T ss_dssp EBESS--SSSSE-BST-SSTSSBSSSS
T ss_pred CCCCc--CCCeeEcCC-CCcEECCcCC
Confidence 45665 666665311 1225666665
No 212
>PF13904 DUF4207: Domain of unknown function (DUF4207)
Probab=48.59 E-value=86 Score=31.98 Aligned_cols=6 Identities=33% Similarity=0.540 Sum_probs=2.2
Q ss_pred HHHHHH
Q 010753 22 RARLKL 27 (502)
Q Consensus 22 ~~~~~~ 27 (502)
+.|+++
T Consensus 125 e~Rk~l 130 (264)
T PF13904_consen 125 EERKRL 130 (264)
T ss_pred HHHHHH
Confidence 333333
No 213
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=48.48 E-value=10 Score=29.31 Aligned_cols=26 Identities=23% Similarity=0.756 Sum_probs=13.7
Q ss_pred eeeccccccCcccccccccCcccCccCC
Q 010753 436 SVACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
-|+|.. ||+-|..-.-..-..|++||
T Consensus 6 ~Y~C~~--Cg~~~~~~~~~~~irCp~Cg 31 (49)
T COG1996 6 EYKCAR--CGREVELDQETRGIRCPYCG 31 (49)
T ss_pred EEEhhh--cCCeeehhhccCceeCCCCC
Confidence 366665 66666322222335666665
No 214
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=48.27 E-value=9.7 Score=33.82 Aligned_cols=15 Identities=27% Similarity=0.507 Sum_probs=8.9
Q ss_pred ccccccCcccccchH
Q 010753 411 VQCKNCKRFIPSRSI 425 (502)
Q Consensus 411 ~~C~nC~k~~~~~~l 425 (502)
++|.+||+.|+.-..
T Consensus 3 H~CtrCG~vf~~g~~ 17 (112)
T COG3364 3 HQCTRCGEVFDDGSE 17 (112)
T ss_pred ceecccccccccccH
Confidence 466666666665333
No 215
>PF03879 Cgr1: Cgr1 family; InterPro: IPR005579 Cgr1 is involved in nucleolar integrity and is required for processing pre-rRNA for the 60S ribosome subunit. In Saccharomyces cerevisiae, this protein is conserved and contributes to compartmentalisation of nucleolar constituents []. Cgr1 is a small hydrophilic protein and members of this family are coiled-coil proteins []. Its primary role appears to be in ribosome biogenesis [, ]. Expression of CGR1 is also associated with a cessation of yeast cell growth, which is a prerequisite for germination in this organism [].
Probab=48.09 E-value=1.7e+02 Score=26.28 Aligned_cols=13 Identities=31% Similarity=0.281 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHH
Q 010753 12 LEKEQKERKERAR 24 (502)
Q Consensus 12 ~~~e~~~r~~~~~ 24 (502)
|+..+++|.+.+.
T Consensus 33 wekr~~~R~~~~~ 45 (108)
T PF03879_consen 33 WEKRMEKRLELKA 45 (108)
T ss_pred HHHHHHHHHHHHH
Confidence 4444444444433
No 216
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=48.04 E-value=13 Score=28.01 Aligned_cols=25 Identities=32% Similarity=0.809 Sum_probs=16.1
Q ss_pred eeeccccccCcccccccccCcccCccCC
Q 010753 436 SVACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
.|+|.. ||..|... ...-..|++||
T Consensus 2 ~Y~C~~--Cg~~~~~~-~~~~irC~~CG 26 (44)
T smart00659 2 IYICGE--CGRENEIK-SKDVVRCRECG 26 (44)
T ss_pred EEECCC--CCCEeecC-CCCceECCCCC
Confidence 377887 88777653 22336777776
No 217
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=47.82 E-value=2.3e+02 Score=26.20 Aligned_cols=36 Identities=17% Similarity=0.172 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLEREK-KAKEEAKKQREAI 44 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~~ 44 (502)
++++..+.+++...|+.+...-+ .++++|.+.++.+
T Consensus 55 A~~~~~e~~~~l~~a~~ea~~ii~~a~~~a~~~~~~i 91 (159)
T PRK13461 55 ARELKLKNERELKNAKEEGKKIVEEYKSKAENVYEEI 91 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444455555555554444333 3344454444443
No 218
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=47.48 E-value=7.7 Score=33.63 Aligned_cols=32 Identities=25% Similarity=0.516 Sum_probs=21.4
Q ss_pred CceeeccccccCcccccccccCcccCccCCCccC
Q 010753 434 RHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~ 467 (502)
...|.||. ||+.=.+..-.--|+|..|++.|.
T Consensus 34 ~a~y~Cpf--Cgk~~vkR~a~GIW~C~~C~~~~A 65 (90)
T PRK03976 34 RAKHVCPV--CGRPKVKRVGTGIWECRKCGAKFA 65 (90)
T ss_pred hcCccCCC--CCCCceEEEEEEEEEcCCCCCEEe
Confidence 34488998 976544433333489999988775
No 219
>PRK01558 V-type ATP synthase subunit E; Provisional
Probab=47.46 E-value=2.6e+02 Score=27.15 Aligned_cols=23 Identities=35% Similarity=0.551 Sum_probs=16.6
Q ss_pred CchHHHHHHHHHHHHHHHHHHHH
Q 010753 1 MDFELRRAREKLEKEQKERKERA 23 (502)
Q Consensus 1 m~~~l~~~~~k~~~e~~~r~~~~ 23 (502)
|+++|..--+|+.++--+.+++.
T Consensus 1 m~~~~~~l~dki~~~~~eeA~~e 23 (198)
T PRK01558 1 MQFEVKDLINKIKKDGLEEAERL 23 (198)
T ss_pred CchHHHHHHHHHHHHHHHHHHHH
Confidence 88888888888877765554443
No 220
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=47.45 E-value=11 Score=28.37 Aligned_cols=37 Identities=22% Similarity=0.521 Sum_probs=23.9
Q ss_pred cCccCCCccC-hhhHHHhhhcccceeeec---CCccccccc
Q 010753 458 HCDKCGQGLQ-RREMEKHMKVFHEQCSCP---CGVVLENAA 494 (502)
Q Consensus 458 hC~~Cgk~f~-~s~l~kH~~i~Htp~~C~---Cg~~f~~~~ 494 (502)
.||+||.... +.+...|..+-..-++|. ||.+|....
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~~~~Y~qC~N~~Cg~tfv~~~ 41 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLTRELYCQCTNPECGHTFVANL 41 (47)
T ss_pred CcCCCCCeeEEEEchhhCcceEEEEEEECCCcCCCEEEEEE
Confidence 4788875444 666666655433477785 888886544
No 221
>PRK01194 V-type ATP synthase subunit E; Provisional
Probab=46.88 E-value=1.9e+02 Score=27.86 Aligned_cols=16 Identities=13% Similarity=0.256 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 010753 53 LDAIDAQLKADQEMQE 68 (502)
Q Consensus 53 ~~~~~~~~~~~~~~~~ 68 (502)
|++.+..++|+|.+-+
T Consensus 68 Le~R~~~L~aree~I~ 83 (185)
T PRK01194 68 IEARSIKREKRREILK 83 (185)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4444444445444443
No 222
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=46.52 E-value=1.4e+02 Score=33.21 Aligned_cols=22 Identities=23% Similarity=0.104 Sum_probs=16.5
Q ss_pred eeeeCCCceeccHHHHHhcCCC
Q 010753 147 EFTADEGFVGLPPHVWRNLFPS 168 (502)
Q Consensus 147 EFsA~EG~v~LP~wm~~~L~~~ 168 (502)
-+|+-||+-+.=.+|-..||-.
T Consensus 295 vYTtkeg~~V~w~yi~r~LGqP 316 (630)
T KOG0742|consen 295 VYTTKEGTLVTWRYIERRLGQP 316 (630)
T ss_pred heeccccchhHHHHHHHHcCCc
Confidence 3678888888888888888643
No 223
>KOG3232 consensus Vacuolar assembly/sorting protein DID2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.29 E-value=2.2e+02 Score=27.82 Aligned_cols=64 Identities=30% Similarity=0.472 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHH-HHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 010753 4 ELRRAREKLEKEQKERKERARLKLER-----EKKAKEEA-KKQREAIEAAQRSRRLDAIDAQLKADQEMQ 67 (502)
Q Consensus 4 ~l~~~~~k~~~e~~~r~~~~~~~~~~-----e~~~~~~a-~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~ 67 (502)
+|-+-+.|-++|.|..+.++++-|++ -|--.+-| +++.|+..=...+-|+|+..++..-.-.|-
T Consensus 20 ~L~r~a~kceKeEK~Ek~K~kkAi~kgN~dvArIyAeNAIRkkne~~n~LrlssRvDAVaaRvqTavtmr 89 (203)
T KOG3232|consen 20 QLQRQAKKCEKEEKAEKAKLKKAIQKGNMDVARIYAENAIRKKNEAVNYLRLSSRVDAVAARVQTAVTMR 89 (203)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566677777888777777777776 23233444 466666766677889999887765554444
No 224
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=46.08 E-value=9.3 Score=24.82 Aligned_cols=9 Identities=44% Similarity=0.892 Sum_probs=4.5
Q ss_pred ccccCcccc
Q 010753 413 CKNCKRFIP 421 (502)
Q Consensus 413 C~nC~k~~~ 421 (502)
|++||+.++
T Consensus 2 Cp~CG~~~~ 10 (23)
T PF13240_consen 2 CPNCGAEIE 10 (23)
T ss_pred CcccCCCCC
Confidence 455555443
No 225
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=46.01 E-value=2.2e+02 Score=25.51 Aligned_cols=17 Identities=35% Similarity=0.444 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 010753 10 EKLEKEQKERKERARLK 26 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~ 26 (502)
+++..+-+++.+.||.+
T Consensus 56 ~~~~~~~e~~L~~a~~e 72 (140)
T PRK07353 56 EKLEAQYEQQLASARKQ 72 (140)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333334444444333
No 226
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=45.86 E-value=12 Score=38.68 Aligned_cols=29 Identities=31% Similarity=0.788 Sum_probs=21.7
Q ss_pred eeccccccCcccccccccCc-ccCccCCCccC
Q 010753 437 VACQHAGCGMVLRTEEARDH-VHCDKCGQGLQ 467 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H-~hC~~Cgk~f~ 467 (502)
.+||. ||++.-+++|..+ |.|+.|+--|.
T Consensus 29 ~KCp~--c~~~~y~~eL~~n~~vcp~c~~h~r 58 (294)
T COG0777 29 TKCPS--CGEMLYRKELESNLKVCPKCGHHMR 58 (294)
T ss_pred eECCC--ccceeeHHHHHhhhhcccccCcccc
Confidence 68888 8888877777665 77888875454
No 227
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=45.69 E-value=8.4 Score=25.30 Aligned_cols=19 Identities=16% Similarity=0.606 Sum_probs=14.4
Q ss_pred eeccccccCccccc-ccccCcc
Q 010753 437 VACQHAGCGMVLRT-EEARDHV 457 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k-~~l~~H~ 457 (502)
|.|.. |++.|.. ..|.+|+
T Consensus 2 ~~C~~--C~k~f~~~~~~~~H~ 21 (27)
T PF12171_consen 2 FYCDA--CDKYFSSENQLKQHM 21 (27)
T ss_dssp CBBTT--TTBBBSSHHHHHCCT
T ss_pred CCccc--CCCCcCCHHHHHHHH
Confidence 56777 8888887 7777774
No 228
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=45.47 E-value=13 Score=29.27 Aligned_cols=35 Identities=29% Similarity=0.479 Sum_probs=18.3
Q ss_pred cCcccccccCcccccchHHhHhhhccCceeecccccc
Q 010753 408 MDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGC 444 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~C 444 (502)
.+++....|++.|.+..+.-+-. ..+...||..||
T Consensus 22 ~~PV~s~~C~H~fek~aI~~~i~--~~~~~~CPv~GC 56 (57)
T PF11789_consen 22 EDPVKSKKCGHTFEKEAILQYIQ--RNGSKRCPVAGC 56 (57)
T ss_dssp SSEEEESSS--EEEHHHHHHHCT--TTS-EE-SCCC-
T ss_pred hCCcCcCCCCCeecHHHHHHHHH--hcCCCCCCCCCC
Confidence 46666777777777665555552 244577777666
No 229
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=44.55 E-value=7.9 Score=36.61 Aligned_cols=29 Identities=28% Similarity=0.652 Sum_probs=19.6
Q ss_pred eeccccccCccccc-------c---cccCcccCccCCCccC
Q 010753 437 VACQHAGCGMVLRT-------E---EARDHVHCDKCGQGLQ 467 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k-------~---~l~~H~hC~~Cgk~f~ 467 (502)
.+||. ||..+.. + ...++++|+.||..|.
T Consensus 1 m~cp~--c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f~ 39 (154)
T PRK00464 1 MRCPF--CGHPDTRVIDSRPAEDGNAIRRRRECLACGKRFT 39 (154)
T ss_pred CcCCC--CCCCCCEeEeccccCCCCceeeeeeccccCCcce
Confidence 36888 8876632 1 1345688999988887
No 230
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=44.54 E-value=12 Score=41.03 Aligned_cols=26 Identities=27% Similarity=0.626 Sum_probs=18.8
Q ss_pred ceeeccccccCcccccccccCcccCccCCCccC
Q 010753 435 HSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 435 n~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~ 467 (502)
-.|.|.+ ||-.+. +.||+|+.|+ +.+
T Consensus 6 ~~y~C~~--Cg~~~~----~~~g~Cp~C~-~w~ 31 (454)
T TIGR00416 6 SKFVCQH--CGADSP----KWQGKCPACH-AWN 31 (454)
T ss_pred CeEECCc--CCCCCc----cccEECcCCC-Ccc
Confidence 3589998 996553 4569999996 444
No 231
>PRK11823 DNA repair protein RadA; Provisional
Probab=44.45 E-value=12 Score=40.76 Aligned_cols=23 Identities=30% Similarity=0.723 Sum_probs=17.2
Q ss_pred ceeeccccccCcccccccccCcccCccCC
Q 010753 435 HSVACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 435 n~~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
-.|.|.+ ||-.+. +.||+|+.|+
T Consensus 6 ~~y~C~~--Cg~~~~----~~~g~Cp~C~ 28 (446)
T PRK11823 6 TAYVCQE--CGAESP----KWLGRCPECG 28 (446)
T ss_pred CeEECCc--CCCCCc----ccCeeCcCCC
Confidence 3488998 986553 4569999996
No 232
>COG0836 {ManC} Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=44.29 E-value=47 Score=35.21 Aligned_cols=56 Identities=20% Similarity=0.389 Sum_probs=48.7
Q ss_pred ceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhcc-CcccccCCEEEEEEC
Q 010753 174 SFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQ-HATLSQDDVLTVNYG 229 (502)
Q Consensus 174 ~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~-~stLT~Gd~I~I~~~ 229 (502)
+.+.|.|.-+.|..-+..-|.+.++.|+-+|.|+.|-.-+. .--...||++.+.-.
T Consensus 245 p~iSIDYAiMEkt~~~aVVp~~f~WsDlGsW~Al~~~~~~d~~gNv~~gd~~~~dt~ 301 (333)
T COG0836 245 PAISIDYAIMEKTSKAAVVPADFGWSDLGSWHALWEVLDKDENGNVCEGDVVTIDTE 301 (333)
T ss_pred cccchhHHHHhhhcceEEEecCCCcccccCHHHHHHHhhcCCCCCEEecceEEeccC
Confidence 46778899999999999999999999999999999887775 367789999888754
No 233
>PRK09974 putative regulator PrlF; Provisional
Probab=43.96 E-value=82 Score=28.40 Aligned_cols=60 Identities=17% Similarity=0.162 Sum_probs=41.6
Q ss_pred eCCCceeccHHHHHhcCCCCCCCCceEEEEEEecCCcceEEEeeccCCCCCC--CChHHHHHHHhccC
Q 010753 150 ADEGFVGLPPHVWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEGIGFAEL--PNQKAVLETSLRQH 215 (502)
Q Consensus 150 A~EG~v~LP~wm~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~~~f~di--~n~KavLE~~LR~~ 215 (502)
...|+|-+|.-+.+.||+. +|+.|.+ ...+ +-.|.+.|....--|. ..+-.+||+-++++
T Consensus 15 TsKGQvTIPk~IR~~Lgl~---~GdkI~f--~i~~-dG~V~i~~~~~~~~Dp~ig~FL~fLa~Di~~~ 76 (111)
T PRK09974 15 TDRGQTTVPAPVRKALKLK---KRDSIHY--EILP-GGQVFICRLGDEEEDPVLGAFLDFLAADIQNN 76 (111)
T ss_pred ecCCCEeccHHHHHHcCCC---CCCEEEE--EEeC-CCEEEEEECCCCCCCchHHHHHHHHHHHHHhC
Confidence 3568999999999999998 6777655 3344 4557777776544332 34567788877664
No 234
>KOG1150 consensus Predicted molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=43.77 E-value=1.3e+02 Score=30.23 Aligned_cols=23 Identities=48% Similarity=0.560 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 010753 21 ERARLKLEREKKAKEEAKKQREA 43 (502)
Q Consensus 21 ~~~~~~~~~e~~~~~~a~~~~~~ 43 (502)
+.+|+|.++|.++-++..++||+
T Consensus 169 e~erkRk~~e~r~~~eRkr~re~ 191 (250)
T KOG1150|consen 169 ELERKRKELEARANEERKRQREE 191 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHH
Confidence 34444444444444444444433
No 235
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=42.91 E-value=2.6e+02 Score=25.48 Aligned_cols=26 Identities=12% Similarity=0.089 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 6 RRAREKLEKEQKERKERARLKLEREK 31 (502)
Q Consensus 6 ~~~~~k~~~e~~~r~~~~~~~~~~e~ 31 (502)
+..++++..+.+++.+.|+.++..-+
T Consensus 51 ~~~a~~~~~e~~~~l~~a~~ea~~i~ 76 (156)
T PRK05759 51 KKELELAQAKYEAQLAEARAEAAEII 76 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555555444433
No 236
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=42.91 E-value=12 Score=32.36 Aligned_cols=29 Identities=21% Similarity=0.561 Sum_probs=22.5
Q ss_pred ccCccCCCccChhhHHHhhhcccceeeec-CCccccc
Q 010753 457 VHCDKCGQGLQRREMEKHMKVFHEQCSCP-CGVVLEN 492 (502)
Q Consensus 457 ~hC~~Cgk~f~~s~l~kH~~i~Htp~~C~-Cg~~f~~ 492 (502)
+.|+.|++ ..|.++-..-+.|. ||..|.-
T Consensus 36 ~~Cp~C~~-------~~VkR~a~GIW~C~kCg~~fAG 65 (89)
T COG1997 36 HVCPFCGR-------TTVKRIATGIWKCRKCGAKFAG 65 (89)
T ss_pred CcCCCCCC-------cceeeeccCeEEcCCCCCeecc
Confidence 67999973 26677755699999 9998864
No 237
>PLN02316 synthase/transferase
Probab=42.88 E-value=59 Score=39.54 Aligned_cols=10 Identities=10% Similarity=-0.134 Sum_probs=5.6
Q ss_pred CceEEEEEec
Q 010753 113 GPLHFKLSVL 122 (502)
Q Consensus 113 ~Pl~F~l~n~ 122 (502)
+-|=|-+++.
T Consensus 389 ~~mDfVFsdg 398 (1036)
T PLN02316 389 LVLDWVFADG 398 (1036)
T ss_pred eEEEEEEecC
Confidence 4555666653
No 238
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=42.87 E-value=69 Score=30.79 Aligned_cols=85 Identities=7% Similarity=0.074 Sum_probs=50.8
Q ss_pred CCeEEEEEeeeeeCCCceeccHHHHHhcCCCCCCCCceEEEEEE-ecCCcceEEEee-------cc---CCCCCCCChHH
Q 010753 138 NRSTHSGVLEFTADEGFVGLPPHVWRNLFPSDTPNNSFVEVRYV-RLPKGTYAKLQP-------EG---IGFAELPNQKA 206 (502)
Q Consensus 138 ~~~th~GVlEFsA~EG~v~LP~wm~~~L~~~~~~~~~~V~v~~~-~LPkGt~vkLqP-------~~---~~f~di~n~Ka 206 (502)
-..+.+|+++...+...|.|-+|.-...... .|+.|.-+.+ -.++|-+|.|-. .. .+|..+++...
T Consensus 33 i~as~~G~~~id~~~~~Isv~P~~~~~~~~~---~GdiV~GkV~~i~~~g~~V~I~~~~~~~~~l~~~~~G~l~~s~i~~ 109 (189)
T PRK09521 33 VYASVVGKVFIDDINRKISVIPFKKTPPLLK---KGDIVYGRVVDVKEQRALVRIVSIEGSERELATSKLAYIHISQVSD 109 (189)
T ss_pred EEEEeeEEEEEcCCCCEEEEecCcCCCCCCC---CCCEEEEEEEEEcCCeEEEEEEEecccccccCCCceeeEEhhHcCh
Confidence 5688899999987777888877763222222 4566655554 467888888742 22 23333332211
Q ss_pred HHHHHhcc-CcccccCCEEEEEE
Q 010753 207 VLETSLRQ-HATLSQDDVLTVNY 228 (502)
Q Consensus 207 vLE~~LR~-~stLT~Gd~I~I~~ 228 (502)
....+ ...+..||+|.+..
T Consensus 110 ---~~~~~~~~~~~~GD~V~akV 129 (189)
T PRK09521 110 ---GYVESLTDAFKIGDIVRAKV 129 (189)
T ss_pred ---hhhhhHHhccCCCCEEEEEE
Confidence 12223 35689999998764
No 239
>PF04795 PAPA-1: PAPA-1-like conserved region; InterPro: IPR006880 This is a group of proteins with a conserved C-terminal region which is found in PAPA-1, a PAP-1 binding protein, Q9C086 from SWISSPROT.
Probab=42.51 E-value=58 Score=27.93 Aligned_cols=12 Identities=17% Similarity=0.628 Sum_probs=9.3
Q ss_pred CCCCCeEEeChh
Q 010753 88 QGSGDKIKLPPS 99 (502)
Q Consensus 88 ~~~gDKIiLP~S 99 (502)
...|..|.+|..
T Consensus 74 ~~~G~~vs~P~~ 85 (89)
T PF04795_consen 74 NKNGSRVSVPEE 85 (89)
T ss_pred CCCceEEEecCC
Confidence 357888888876
No 240
>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=42.36 E-value=8.3 Score=37.64 Aligned_cols=11 Identities=0% Similarity=-0.148 Sum_probs=0.0
Q ss_pred CcEEEEEEeee
Q 010753 74 GGIVFYHTLEA 84 (502)
Q Consensus 74 ~g~~~~~~~~~ 84 (502)
.-..|-..|.+
T Consensus 74 Ey~k~K~~f~v 84 (188)
T PF09756_consen 74 EYEKWKSAFSV 84 (188)
T ss_dssp -----------
T ss_pred HHHHHHHhccc
Confidence 44556666643
No 241
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=42.21 E-value=13 Score=38.71 Aligned_cols=32 Identities=28% Similarity=0.614 Sum_probs=22.9
Q ss_pred cccccccCcccccchHHhHhhhccCceeeccccccCccccc
Q 010753 410 TVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRT 450 (502)
Q Consensus 410 ~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k 450 (502)
-.+|++|++.+-...| .+|.++||+ ||.-|+-
T Consensus 38 w~kc~~C~~~~~~~~l-------~~~~~vcp~--c~~h~rl 69 (296)
T CHL00174 38 WVQCENCYGLNYKKFL-------KSKMNICEQ--CGYHLKM 69 (296)
T ss_pred eeECCCccchhhHHHH-------HHcCCCCCC--CCCCcCC
Confidence 4679999987754333 256688998 9988874
No 242
>PF15346 ARGLU: Arginine and glutamate-rich 1
Probab=42.03 E-value=2.6e+02 Score=26.55 Aligned_cols=20 Identities=50% Similarity=0.619 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010753 12 LEKEQKERKERARLKLEREK 31 (502)
Q Consensus 12 ~~~e~~~r~~~~~~~~~~e~ 31 (502)
|+++...-...+|+|.+.+|
T Consensus 56 le~ek~~~l~e~r~keEeer 75 (149)
T PF15346_consen 56 LEREKEEALEEARRKEEEER 75 (149)
T ss_pred HHHHHHHHHHHHHhhhHHHH
Confidence 33333333334444444333
No 243
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=42.01 E-value=11 Score=30.03 Aligned_cols=11 Identities=18% Similarity=0.552 Sum_probs=4.7
Q ss_pred ccccccCcccc
Q 010753 411 VQCKNCKRFIP 421 (502)
Q Consensus 411 ~~C~nC~k~~~ 421 (502)
..|..|++.|.
T Consensus 10 ~~C~~C~~~F~ 20 (69)
T PF01363_consen 10 SNCMICGKKFS 20 (69)
T ss_dssp SB-TTT--B-B
T ss_pred CcCcCcCCcCC
Confidence 45888888883
No 244
>PF08996 zf-DNA_Pol: DNA Polymerase alpha zinc finger; InterPro: IPR015088 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The DNA Polymerase alpha zinc finger domain adopts an alpha-helix-like structure, followed by three turns, all of which involve proline. The resulting motif is a helix-turn-helix motif, in contrast to other zinc finger domains, which show anti-parallel sheet and helix conformation. Zinc binding occurs due to the presence of four cysteine residues positioned to bind the metal centre in a tetrahedral coordination geometry. The function of this domain is uncertain: it has been proposed that the zinc finger motif may be an essential part of the DNA binding domain []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0001882 nucleoside binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3FLO_D 1N5G_A 1K0P_A 1K18_A.
Probab=41.60 E-value=13 Score=35.83 Aligned_cols=68 Identities=19% Similarity=0.506 Sum_probs=32.3
Q ss_pred hccCceeeccccccCccccc-cccc--------CcccCccCCCccC----hhhHHHhhhccc-----ceeeec---CCcc
Q 010753 431 YCSRHSVACQHAGCGMVLRT-EEAR--------DHVHCDKCGQGLQ----RREMEKHMKVFH-----EQCSCP---CGVV 489 (502)
Q Consensus 431 ~C~rn~~~C~~~~Cgk~F~k-~~l~--------~H~hC~~Cgk~f~----~s~l~kH~~i~H-----tp~~C~---Cg~~ 489 (502)
.|.+-.+.|+. ||..|.- +-.. .-+.|+.|+..+. ...|....+-|. +-..|+ |+..
T Consensus 13 ~c~~l~~~C~~--C~~~~~f~g~~~~~~~~~~~~~~~C~~C~~~~~~~~l~Nql~l~iR~~i~~YY~gwl~Cdd~~C~~~ 90 (188)
T PF08996_consen 13 DCEPLKLTCPS--CGTEFEFPGVFEEDGDDVSPSGLQCPNCSTPLSPASLVNQLELQIREHISRYYEGWLVCDDPTCGNR 90 (188)
T ss_dssp T---EEEE-TT--T--EEEE-SSS--SSEEEETTEEEETTT--B--HHHHHHHHHHHHHHHHHHHHH--CCCCTCCCHHC
T ss_pred CCCceEeECCC--CCCCccccccccCCccccccCcCcCCCCCCcCCHHHHHHHHHHHHHHHHHHHHHhCceeCcccccCc
Confidence 56677788887 8887764 1111 1278999987776 334443333322 277896 9876
Q ss_pred ccccccc-ccCC
Q 010753 490 LENAAMV-SYCP 500 (502)
Q Consensus 490 f~~~~~~-~~Cp 500 (502)
-++-++. .-||
T Consensus 91 TR~~~~~~~rC~ 102 (188)
T PF08996_consen 91 TRQLSLYGKRCP 102 (188)
T ss_dssp CCSTTSTTTCST
T ss_pred ccccccCCCCCC
Confidence 5555544 4477
No 245
>PRK00420 hypothetical protein; Validated
Probab=41.51 E-value=16 Score=32.92 Aligned_cols=28 Identities=25% Similarity=0.426 Sum_probs=12.8
Q ss_pred eeccccccCcccccccccCcccCccCCCccC
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~ 467 (502)
..||. ||-.|-+- -..+.-|+.||+...
T Consensus 24 ~~CP~--Cg~pLf~l-k~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 24 KHCPV--CGLPLFEL-KDGEVVCPVHGKVYI 51 (112)
T ss_pred CCCCC--CCCcceec-CCCceECCCCCCeee
Confidence 34565 66444331 122345666665433
No 246
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=41.13 E-value=12 Score=32.82 Aligned_cols=11 Identities=36% Similarity=0.818 Sum_probs=8.2
Q ss_pred ccCccCCCccC
Q 010753 457 VHCDKCGQGLQ 467 (502)
Q Consensus 457 ~hC~~Cgk~f~ 467 (502)
|+|+.||..|-
T Consensus 32 ~~C~~CGe~~~ 42 (127)
T TIGR03830 32 WYCPACGEELL 42 (127)
T ss_pred eECCCCCCEEE
Confidence 77888877765
No 247
>PF02359 CDC48_N: Cell division protein 48 (CDC48), N-terminal domain; InterPro: IPR003338 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The VAT protein of the archaebacterium Thermoplasma acidophilum, like all other members of the Cdc48/p97 family of AAA ATPases, has two ATPase domains and a 185-residue amino-terminal substrate-recognition domain, VAT-N. VAT shows activity in protein folding and unfolding and thus shares the common function of these ATPases in disassembly and/or degradation of protein complexes. VAT-N is composed of two equally sized subdomains. The amino-terminal subdomain VAT-Nn forms a double-psi beta-barrel whose pseudo-twofold symmetry is mirrored by an internal sequence repeat of 42 residues. The carboxy-terminal subdomain VAT-Nc forms a novel six-stranded beta-clam fold []. Together, VAT-Nn and VAT-Nc form a kidney-shaped structure, in close agreement with results from electron microscopy. VAT-Nn is related to numerous proteins including prokaryotic transcription factors, metabolic enzymes, the protease cofactors UFD1 and PrlF, and aspartic proteinases. ; GO: 0005524 ATP binding; PDB: 1CZ4_A 1CZ5_A 3CF3_C 3CF1_A 3CF2_A 1S3S_D 1E32_A 1R7R_A 2PJH_B 1CR5_B ....
Probab=41.00 E-value=2e+02 Score=23.96 Aligned_cols=68 Identities=22% Similarity=0.116 Sum_probs=46.1
Q ss_pred CCCeEEeChhHHHHHHcCCCCCCCceEEEEEecCCCCCCCCCCCccCCCCeEEEEEeeeee---CCCceeccHHHHHhcC
Q 010753 90 SGDKIKLPPSCFTELSGQGAFDKGPLHFKLSVLHQEGPSNMEDGEKESNRSTHSGVLEFTA---DEGFVGLPPHVWRNLF 166 (502)
Q Consensus 90 ~gDKIiLP~SaL~~L~~~~~~~~~Pl~F~l~n~~~~~~~~~~~~~~~~~~~th~GVlEFsA---~EG~v~LP~wm~~~L~ 166 (502)
..+-+.|.|..+++| ++ ..--+-.|.. ++.|+|=|.--.. +.|.|.|..-+.++|+
T Consensus 14 ~~n~v~v~~~~m~~l---~l--~~gd~v~i~g----------------~~~tv~~v~~~~~~~~~~g~I~l~~~~R~n~~ 72 (87)
T PF02359_consen 14 GTNCVRVSPEDMEEL---GL--FPGDVVLISG----------------KRKTVAFVFPDRPDDSPPGVIRLSGIQRKNAG 72 (87)
T ss_dssp CTTEEEEEHHHHHCT---TT---TTEEEEEET----------------TTEEEEEEEEECCSTTCTTEEEE-HHHHHHCT
T ss_pred CCCEEEEcHHHHHHc---CC--CCccEEEEeC----------------CceEEEEEEECCCCCCCCCEEEECHHHHhhCC
Confidence 567899999999977 33 2334445553 3458887775543 4799999999999999
Q ss_pred CCCCCCCceEEEEEE
Q 010753 167 PSDTPNNSFVEVRYV 181 (502)
Q Consensus 167 ~~~~~~~~~V~v~~~ 181 (502)
+. -++.|.|+-+
T Consensus 73 v~---igd~V~V~~~ 84 (87)
T PF02359_consen 73 VS---IGDRVTVRPY 84 (87)
T ss_dssp -----TTSEEEEEEE
T ss_pred cC---CCCEEEEEEC
Confidence 86 4678887653
No 248
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=40.76 E-value=11 Score=34.78 Aligned_cols=30 Identities=27% Similarity=0.647 Sum_probs=20.7
Q ss_pred eeeccccccCcccccccccCcccCccCC-CccC
Q 010753 436 SVACQHAGCGMVLRTEEARDHVHCDKCG-QGLQ 467 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k~~l~~H~hC~~Cg-k~f~ 467 (502)
|++|.. ||++|...+..---=|+.|| +-|.
T Consensus 1 PH~Ct~--Cg~~f~dgs~eil~GCP~CGg~kF~ 31 (131)
T PF09845_consen 1 PHQCTK--CGRVFEDGSKEILSGCPECGGNKFQ 31 (131)
T ss_pred CcccCc--CCCCcCCCcHHHHccCcccCCcceE
Confidence 578998 99999984332223699997 3354
No 249
>PF01086 Clathrin_lg_ch: Clathrin light chain; InterPro: IPR000996 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents clathrin light chains, which are more divergent in sequence than the heavy chains []. In higher eukaryotes, two genes encode distinct but related light chains, each of which can yield two separate forms via alternative splicing. In yeast there is a single light chain whose sequence is only distantly related to that of higher eukaryotes. Clathrin light chains have a conserved acidic N-terminal domain, a central coiled-coil domain and a conserved C-terminal domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030130 clathrin coat of trans-Golgi network vesicle, 0030132 clathrin coat of coated pit; PDB: 3LVG_E 3LVH_D.
Probab=40.72 E-value=45 Score=33.21 Aligned_cols=76 Identities=17% Similarity=0.253 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH--HHHHhhHHHHHHHHHH-HHHHHHHHH--cCCcEEEEEEe
Q 010753 9 REKLEKEQKERKERARLKLEREKKAKEEA-KKQREAIEA--AQRSRRLDAIDAQLKA-DQEMQESLL--AGGGIVFYHTL 82 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e~~~~~~a-~~~~~~~~~--~~~~~r~~~~~~~~~~-~~~~~~~~~--~~~g~~~~~~~ 82 (502)
-.+|+++|.+|- ..|-+.|+++|++- .++++.|+. .+|..+++...++-++ +..+.+.+. ...|-.|.+..
T Consensus 114 ireWre~~~~~i---~ekD~~e~~kk~e~~~~A~k~lddfY~~~~~k~e~~k~~nr~~ee~fl~~~~~~~~~~t~WerV~ 190 (225)
T PF01086_consen 114 IREWREERDKRI---EEKDAEEEEKKEEIKEKAKKELDDFYENRNEKKEKNKKQNREEEEEFLAKREEFLQPGTEWERVA 190 (225)
T ss_dssp HHHHHHHHTTTS---THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-------------------------
T ss_pred HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccCCCCCcHHHHH
Confidence 345666555543 33334444444433 244444543 2344444443333222 222222222 45788999988
Q ss_pred eeccC
Q 010753 83 EALPF 87 (502)
Q Consensus 83 ~~~~~ 87 (502)
..+-.
T Consensus 191 ~Lid~ 195 (225)
T PF01086_consen 191 KLIDF 195 (225)
T ss_dssp -----
T ss_pred HHhCC
Confidence 87643
No 250
>PF05672 MAP7: MAP7 (E-MAP-115) family; InterPro: IPR008604 The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115 kDa epithelial MAP (E-MAP-115) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin []. The binding of this microtubule associated protein is nucleotide independent [].
Probab=40.68 E-value=2.5e+02 Score=27.21 Aligned_cols=13 Identities=15% Similarity=0.261 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHH
Q 010753 55 AIDAQLKADQEMQ 67 (502)
Q Consensus 55 ~~~~~~~~~~~~~ 67 (502)
.+.|+++|+++.+
T Consensus 116 e~ka~EeAek~r~ 128 (171)
T PF05672_consen 116 EAKAREEAEKQRK 128 (171)
T ss_pred HHHHHHHHHHHHH
Confidence 3344444444433
No 251
>PF05262 Borrelia_P83: Borrelia P83/100 protein; InterPro: IPR007926 This family consists of several Borrelia P83/P100 antigen proteins.
Probab=39.97 E-value=1.6e+02 Score=33.08 Aligned_cols=7 Identities=14% Similarity=0.705 Sum_probs=2.7
Q ss_pred eEEEEEe
Q 010753 367 TYSIGVY 373 (502)
Q Consensus 367 ~~~i~v~ 373 (502)
.|+||-|
T Consensus 463 ~~~L~rF 469 (489)
T PF05262_consen 463 KWYLGRF 469 (489)
T ss_pred eEEEeec
Confidence 3444333
No 252
>COG1773 Rubredoxin [Energy production and conversion]
Probab=39.68 E-value=20 Score=28.41 Aligned_cols=26 Identities=35% Similarity=0.797 Sum_probs=18.0
Q ss_pred eeeccccccCccccc---------------ccccCcccCccCC
Q 010753 436 SVACQHAGCGMVLRT---------------EEARDHVHCDKCG 463 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k---------------~~l~~H~hC~~Cg 463 (502)
.|+|.. ||-+|.- .++-.+|.|+.||
T Consensus 3 ~~~C~~--CG~vYd~e~Gdp~~gi~pgT~fedlPd~w~CP~Cg 43 (55)
T COG1773 3 RWRCSV--CGYVYDPEKGDPRCGIAPGTPFEDLPDDWVCPECG 43 (55)
T ss_pred ceEecC--CceEeccccCCccCCCCCCCchhhCCCccCCCCCC
Confidence 467776 7777752 3455569999997
No 253
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=39.52 E-value=14 Score=28.72 Aligned_cols=40 Identities=23% Similarity=0.577 Sum_probs=16.6
Q ss_pred cCcccccccc----cCcccCccCCCccC-hhhHHHhhhcccceeeec-CC
Q 010753 444 CGMVLRTEEA----RDHVHCDKCGQGLQ-RREMEKHMKVFHEQCSCP-CG 487 (502)
Q Consensus 444 Cgk~F~k~~l----~~H~hC~~Cgk~f~-~s~l~kH~~i~Htp~~C~-Cg 487 (502)
|.+.|..... ...|.|+.|++.|- .=..-.|..+ |. |+ |.
T Consensus 5 C~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~L-H~---CPGC~ 50 (51)
T PF07975_consen 5 CQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETL-HN---CPGCE 50 (51)
T ss_dssp TTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS--S---SSTT-
T ss_pred CCCCCCCcccccccCCeEECCCCCCccccCcChhhhccc-cC---CcCCC
Confidence 5555555211 23366666666665 4456666666 33 66 63
No 254
>PRK04023 DNA polymerase II large subunit; Validated
Probab=39.22 E-value=19 Score=43.18 Aligned_cols=37 Identities=24% Similarity=0.675 Sum_probs=27.0
Q ss_pred cCcccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCcccCccCCCc
Q 010753 408 MDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQG 465 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~ 465 (502)
.-.+.|.+||.. ....+.|+. ||+.... +.|+.||..
T Consensus 636 t~~frCP~CG~~-------------Te~i~fCP~--CG~~~~~------y~CPKCG~E 672 (1121)
T PRK04023 636 TFYRRCPFCGTH-------------TEPVYRCPR--CGIEVEE------DECEKCGRE 672 (1121)
T ss_pred CCcccCCCCCCC-------------CCcceeCcc--ccCcCCC------CcCCCCCCC
Confidence 356899999986 255688998 9865432 679999843
No 255
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=39.19 E-value=22 Score=27.29 Aligned_cols=49 Identities=22% Similarity=0.332 Sum_probs=34.1
Q ss_pred eeccccccCcccccccccCcccCccCCCccChhhHHHhhhcccceeeec-CCccccccccc
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCGQGLQRREMEKHMKVFHEQCSCP-CGVVLENAAMV 496 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~~s~l~kH~~i~Htp~~C~-Cg~~f~~~~~~ 496 (502)
+.|+. |++.+..+ ...-||..|.+..+.++.+- ...|+ |+..+....++
T Consensus 2 ~~Cpi--~~~~~~~P------v~~~~G~v~~~~~i~~~~~~---~~~cP~~~~~~~~~~l~ 51 (63)
T smart00504 2 FLCPI--SLEVMKDP------VILPSGQTYERRAIEKWLLS---HGTDPVTGQPLTHEDLI 51 (63)
T ss_pred cCCcC--CCCcCCCC------EECCCCCEEeHHHHHHHHHH---CCCCCCCcCCCChhhce
Confidence 46887 88887553 23467778888888888765 34799 99888665543
No 256
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=39.12 E-value=10 Score=44.59 Aligned_cols=49 Identities=24% Similarity=0.731 Sum_probs=0.0
Q ss_pred ccccCcccccccCcccccchHHhHhhhccCc---eeeccccccCcccccccccCcccCccCCCc
Q 010753 405 SIEMDTVQCKNCKRFIPSRSIVLHEAYCSRH---SVACQHAGCGMVLRTEEARDHVHCDKCGQG 465 (502)
Q Consensus 405 ~~~~~~~~C~nC~k~~~~~~l~lHe~~C~rn---~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~ 465 (502)
..+.....|++||+. ++...=-.|+.+ .|.|+. ||...... +|+.||..
T Consensus 650 ~vei~~r~Cp~Cg~~----t~~~~Cp~CG~~T~~~~~Cp~--C~~~~~~~------~C~~C~~~ 701 (900)
T PF03833_consen 650 EVEIGRRRCPKCGKE----TFYNRCPECGSHTEPVYVCPD--CGIEVEED------ECPKCGRE 701 (900)
T ss_dssp ----------------------------------------------------------------
T ss_pred EEeeecccCcccCCc----chhhcCcccCCccccceeccc--cccccCcc------cccccccc
Confidence 345667899999984 222222234443 356665 66544322 56666533
No 257
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=39.06 E-value=13 Score=38.75 Aligned_cols=30 Identities=23% Similarity=0.503 Sum_probs=24.6
Q ss_pred eeeccccccCcccccccccC-cccCccCCCccC
Q 010753 436 SVACQHAGCGMVLRTEEARD-HVHCDKCGQGLQ 467 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k~~l~~-H~hC~~Cgk~f~ 467 (502)
-.+||. |++.+-+.+|+. .+.|++||--|.
T Consensus 38 w~kc~~--C~~~~~~~~l~~~~~vcp~c~~h~r 68 (296)
T CHL00174 38 WVQCEN--CYGLNYKKFLKSKMNICEQCGYHLK 68 (296)
T ss_pred eeECCC--ccchhhHHHHHHcCCCCCCCCCCcC
Confidence 378998 999999988844 578999987676
No 258
>KOG2441 consensus mRNA splicing factor/probable chromatin binding snw family nuclear protein [RNA processing and modification; Chromatin structure and dynamics]
Probab=39.00 E-value=1.4e+02 Score=32.68 Aligned_cols=28 Identities=43% Similarity=0.439 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 17 KERKERARLKLEREKKAKEEAKKQREAI 44 (502)
Q Consensus 17 ~~r~~~~~~~~~~e~~~~~~a~~~~~~~ 44 (502)
-+|+-..+.|.++|.+.++-|+|+|++.
T Consensus 304 ~~r~ma~kek~~kE~kL~elAQkAR~~r 331 (506)
T KOG2441|consen 304 LERKMAEKEKEEKEQKLRELAQKAREER 331 (506)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3445555667788888888888888753
No 259
>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]
Probab=38.97 E-value=2.5e+02 Score=30.76 Aligned_cols=34 Identities=24% Similarity=0.315 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Q 010753 14 KEQKERKERARLKLEREK-KAKEEAKKQREAIEAA 47 (502)
Q Consensus 14 ~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~~~~~ 47 (502)
|++=+-.+.++..+|.|| +++.|+.+.|++.+++
T Consensus 87 rtel~~a~~~k~~~e~er~~~~~El~~~r~e~~~v 121 (499)
T COG4372 87 RTELGTAQGEKRAAETEREAARSELQKARQEREAV 121 (499)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444555555555 3444444444444443
No 260
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=38.94 E-value=2.2e+02 Score=33.63 Aligned_cols=14 Identities=21% Similarity=0.354 Sum_probs=5.2
Q ss_pred EEECCEEEEEEEEE
Q 010753 226 VNYGELAYKLKVLE 239 (502)
Q Consensus 226 I~~~~~~y~l~V~e 239 (502)
|..|+....+.+.+
T Consensus 665 V~~g~~k~~v~~~~ 678 (782)
T PRK00409 665 VQAGIMKMKVPLSD 678 (782)
T ss_pred EEECCEEEEEeHHH
Confidence 33333333333333
No 261
>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.
Probab=38.92 E-value=2.3e+02 Score=23.64 Aligned_cols=61 Identities=20% Similarity=0.340 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQES 69 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~ 69 (502)
-+..-.+++...+.++..++.-+..=.+|...++.++...-.++....+++.+++|.+..+
T Consensus 57 l~~~i~~~~~~~~~~~~~~~~~r~~l~~a~~~~k~~e~L~e~~~~~~~~~~~r~Eq~~lDE 117 (123)
T PF02050_consen 57 LEQAIQQQQQELERLEQEVEQAREELQEARRERKKLEKLKERRREEYQQEEERREQKELDE 117 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444556666667777777776666666667777777665555555555555555555443
No 262
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=38.81 E-value=11 Score=39.99 Aligned_cols=57 Identities=25% Similarity=0.503 Sum_probs=25.0
Q ss_pred ccccCcccccccCccccc-------chHHhHhhhccCceeeccccccCccccc-ccccCcccCccCCC
Q 010753 405 SIEMDTVQCKNCKRFIPS-------RSIVLHEAYCSRHSVACQHAGCGMVLRT-EEARDHVHCDKCGQ 464 (502)
Q Consensus 405 ~~~~~~~~C~nC~k~~~~-------~~l~lHe~~C~rn~~~C~~~~Cgk~F~k-~~l~~H~hC~~Cgk 464 (502)
++..+-+.|..|..+.-+ ....+|..-...+-|+|++ ||+.... .-+- .-||..||.
T Consensus 247 e~k~kav~C~~C~yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~--C~~Rt~sl~r~P-~~~C~~Cg~ 311 (344)
T PF09332_consen 247 EVKCKAVTCKQCKYTAFKPSDRCKEEGHPLKWHDAVKRFFKCKD--CGNRTISLERLP-KKHCSNCGS 311 (344)
T ss_dssp --EEEEEEETTT--EESS--HHHHHTT--EEEEEEE-EEEE-T---TS-EEEESSSS---S--TTT-S
T ss_pred EEEEEEEEcCCCCCcccCcchhHHhcCCceEEeeeeeeeEECCC--CCCeeeecccCC-CCCCCcCCc
Confidence 455677889999865532 1222222233566688887 8887654 2221 157888873
No 263
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=38.49 E-value=1.3e+02 Score=22.26 Aligned_cols=39 Identities=21% Similarity=0.272 Sum_probs=29.3
Q ss_pred CCCceeccHHHHHhcCCCCCCCCceEEEEEEecCCcceEEEeecc
Q 010753 151 DEGFVGLPPHVWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEG 195 (502)
Q Consensus 151 ~EG~v~LP~wm~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~ 195 (502)
..+.|.||.-+++.|++. +|+.|.+.+. ..| -+.|.|..
T Consensus 5 ~s~~v~iPk~~~~~l~l~---~Gd~v~i~~~--~~g-~i~i~p~~ 43 (47)
T PF04014_consen 5 NSGQVTIPKEIREKLGLK---PGDEVEIEVE--GDG-KIVIRPVK 43 (47)
T ss_dssp TCSEEEE-HHHHHHTTSS---TTTEEEEEEE--TTS-EEEEEEST
T ss_pred CCceEECCHHHHHHcCCC---CCCEEEEEEe--CCC-EEEEEECC
Confidence 347899999999999998 6788888664 333 77787764
No 264
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.35 E-value=13 Score=36.19 Aligned_cols=45 Identities=18% Similarity=0.495 Sum_probs=30.2
Q ss_pred cccCcccccccCcccccchHHhHhhhccCceeeccccccCccccc----ccccCcccCccCCC
Q 010753 406 IEMDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRT----EEARDHVHCDKCGQ 464 (502)
Q Consensus 406 ~~~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k----~~l~~H~hC~~Cgk 464 (502)
..+..|.|.+|.-.+.+.-- .=.+ ||.+|-+ ..+++-..|+.|+|
T Consensus 127 ~~~~~~~CPiCl~~~sek~~------------vsTk--CGHvFC~~Cik~alk~~~~CP~C~k 175 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKVP------------VSTK--CGHVFCSQCIKDALKNTNKCPTCRK 175 (187)
T ss_pred ccccccCCCceecchhhccc------------cccc--cchhHHHHHHHHHHHhCCCCCCccc
Confidence 34566999999988854221 2233 9988876 45566677888875
No 265
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=38.30 E-value=19 Score=32.13 Aligned_cols=15 Identities=13% Similarity=0.421 Sum_probs=10.0
Q ss_pred cCcccccccCccccc
Q 010753 408 MDTVQCKNCKRFIPS 422 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~ 422 (502)
+-...|.+||+.|+.
T Consensus 68 p~~~~C~~Cg~~~~~ 82 (113)
T PRK12380 68 PAQAWCWDCSQVVEI 82 (113)
T ss_pred CcEEEcccCCCEEec
Confidence 345678888877754
No 266
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=38.28 E-value=13 Score=38.04 Aligned_cols=70 Identities=19% Similarity=0.276 Sum_probs=27.7
Q ss_pred ccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCc-ccCccCCCccC--hhhHHHhhhcccceeeec-C
Q 010753 411 VQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDH-VHCDKCGQGLQ--RREMEKHMKVFHEQCSCP-C 486 (502)
Q Consensus 411 ~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H-~hC~~Cgk~f~--~s~l~kH~~i~Htp~~C~-C 486 (502)
-.|+-||..=.-..+.--+. -|++...|+. ||-. |.-. ..|+.||..-. -..+.....-.+.-+.|. |
T Consensus 173 g~CPvCGs~P~~s~l~~~~~-~G~R~L~Cs~--C~t~-----W~~~R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C 244 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGER-EGKRYLHCSL--CGTE-----WRFVRIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESC 244 (290)
T ss_dssp SS-TTT---EEEEEEE-------EEEEEETT--T--E-----EE--TTS-TTT---SS-EEE--------SEEEEEETTT
T ss_pred CcCCCCCCcCceEEEecCCC-CccEEEEcCC--CCCe-----eeecCCCCcCCCCCCCcceeeEecCCCCcEEEEECCcc
Confidence 47999997643333333322 3567778888 9832 2111 46999986544 222222222223367899 9
Q ss_pred Cc
Q 010753 487 GV 488 (502)
Q Consensus 487 g~ 488 (502)
+-
T Consensus 245 ~~ 246 (290)
T PF04216_consen 245 GS 246 (290)
T ss_dssp TE
T ss_pred cc
Confidence 83
No 267
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=38.27 E-value=21 Score=27.34 Aligned_cols=10 Identities=40% Similarity=0.913 Sum_probs=2.4
Q ss_pred cccc--cCcccc
Q 010753 412 QCKN--CKRFIP 421 (502)
Q Consensus 412 ~C~n--C~k~~~ 421 (502)
-|.+ |+..|.
T Consensus 20 ~Cp~~~C~~~~~ 31 (64)
T PF01485_consen 20 WCPNPDCEYIIE 31 (64)
T ss_dssp --TTSST---EC
T ss_pred CCCCCCCcccEE
Confidence 4544 555553
No 268
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=38.24 E-value=15 Score=39.09 Aligned_cols=25 Identities=32% Similarity=0.756 Sum_probs=15.9
Q ss_pred cCce-eeccccccCcccccccccCcccCccCC
Q 010753 433 SRHS-VACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 433 ~rn~-~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
.+++ |.|.. ||-.-. .-|||||-|.
T Consensus 350 ~~~~~YRC~~--CGF~a~----~l~W~CPsC~ 375 (389)
T COG2956 350 RRKPRYRCQN--CGFTAH----TLYWHCPSCR 375 (389)
T ss_pred hhcCCceecc--cCCcce----eeeeeCCCcc
Confidence 3444 89998 982211 1139999995
No 269
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=37.97 E-value=61 Score=35.62 Aligned_cols=74 Identities=26% Similarity=0.398 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCcEEEEEE
Q 010753 4 ELRRAREKLEKEQKERKERARLKLEREKKAKEEAK--KQREAIEAAQRSRRLDAIDAQLKADQEMQESLLAGGGIVFYHT 81 (502)
Q Consensus 4 ~l~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~--~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 81 (502)
+|-.-++.|+++|.+.+--|-.|+.-||+.+|+-+ .-||-.|-++--+.|++++- |=.+++.++.++- .|+..
T Consensus 260 sl~dlQk~Lekar~e~rnvavek~~lerkl~ea~rl~elreg~e~e~~rkelE~lR~---~L~kAEkele~nS--~wsaP 334 (575)
T KOG4403|consen 260 SLEDLQKRLEKAREEQRNVAVEKLDLERKLDEAPRLSELREGVENETSRKELEQLRV---ALEKAEKELEANS--SWSAP 334 (575)
T ss_pred HHHHHHHHHHHHHHhhhchhhhhhhHHHHHhhhhhhhhhhcchhHHHHHHHHHHHHH---HHHHHHHHHHhcc--CCCCc
Confidence 34445566666666666666667777888874433 22223333222234444444 3445555666665 56544
Q ss_pred e
Q 010753 82 L 82 (502)
Q Consensus 82 ~ 82 (502)
+
T Consensus 335 ~ 335 (575)
T KOG4403|consen 335 L 335 (575)
T ss_pred H
Confidence 3
No 270
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=37.79 E-value=1.2e+02 Score=21.35 Aligned_cols=38 Identities=21% Similarity=0.301 Sum_probs=28.3
Q ss_pred CCCceeccHHHHHhcCCCCCCCCceEEEEEEecCCcceEEEeec
Q 010753 151 DEGFVGLPPHVWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPE 194 (502)
Q Consensus 151 ~EG~v~LP~wm~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~ 194 (502)
..|.+.||.-+.+.|++. .++.+.+.. ++.| -+.|.|.
T Consensus 5 ~kgri~iP~~~r~~l~~~---~gd~~~i~~--~~~~-~l~l~p~ 42 (43)
T TIGR01439 5 KKGQIVIPKEIREKLGLK---EGDRLEVIR--VEDG-EIILRPA 42 (43)
T ss_pred cCCeEEecHHHHHHcCcC---CCCEEEEEE--eCCC-EEEEEEC
Confidence 568999999999999988 566776653 3443 5777764
No 271
>PRK05978 hypothetical protein; Provisional
Probab=37.78 E-value=20 Score=33.85 Aligned_cols=28 Identities=25% Similarity=0.583 Sum_probs=17.6
Q ss_pred eccccccCcccc-cccccCcccCccCCCccC
Q 010753 438 ACQHAGCGMVLR-TEEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 438 ~C~~~~Cgk~F~-k~~l~~H~hC~~Cgk~f~ 467 (502)
+||. ||+.=. ++.|+-|-+|++||..|.
T Consensus 35 rCP~--CG~G~LF~g~Lkv~~~C~~CG~~~~ 63 (148)
T PRK05978 35 RCPA--CGEGKLFRAFLKPVDHCAACGEDFT 63 (148)
T ss_pred cCCC--CCCCcccccccccCCCccccCCccc
Confidence 5776 664322 256666677888887665
No 272
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=37.60 E-value=20 Score=28.18 Aligned_cols=30 Identities=17% Similarity=0.288 Sum_probs=18.3
Q ss_pred ccCcccccccCccccc-chHHhHhh-hccCce
Q 010753 407 EMDTVQCKNCKRFIPS-RSIVLHEA-YCSRHS 436 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~~-~~l~lHe~-~C~rn~ 436 (502)
+..+-.|+.|+..|+. ++|..|.. +++-++
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 4567789999999984 99999984 555444
No 273
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=37.49 E-value=14 Score=41.48 Aligned_cols=32 Identities=31% Similarity=0.646 Sum_probs=19.5
Q ss_pred CceeeccccccCccccc--ccc---------cCcccCccCCCccC
Q 010753 434 RHSVACQHAGCGMVLRT--EEA---------RDHVHCDKCGQGLQ 467 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k--~~l---------~~H~hC~~Cgk~f~ 467 (502)
+--+.||+ ||.-|.- ..+ ..||.|++||....
T Consensus 198 ~~~vpCPh--Cg~~~~l~~~~l~w~~~~~~~~a~y~C~~Cg~~i~ 240 (557)
T PF05876_consen 198 RYYVPCPH--CGEEQVLEWENLKWDKGEAPETARYVCPHCGCEIE 240 (557)
T ss_pred EEEccCCC--CCCCccccccceeecCCCCccceEEECCCCcCCCC
Confidence 44477888 8877763 222 12377888875544
No 274
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=37.28 E-value=2.6e+02 Score=33.11 Aligned_cols=9 Identities=33% Similarity=0.534 Sum_probs=4.2
Q ss_pred CCCCeEEeC
Q 010753 89 GSGDKIKLP 97 (502)
Q Consensus 89 ~~gDKIiLP 97 (502)
..||+|.++
T Consensus 638 ~~Gd~V~v~ 646 (782)
T PRK00409 638 KVGDEVKYL 646 (782)
T ss_pred CCCCEEEEc
Confidence 345554443
No 275
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=37.20 E-value=11 Score=34.42 Aligned_cols=29 Identities=21% Similarity=0.540 Sum_probs=18.1
Q ss_pred eeccccccCccc-cc--ccc--cCcccCccCCCccC
Q 010753 437 VACQHAGCGMVL-RT--EEA--RDHVHCDKCGQGLQ 467 (502)
Q Consensus 437 ~~C~~~~Cgk~F-~k--~~l--~~H~hC~~Cgk~f~ 467 (502)
..||. |+... .+ ... .++|.|+.|++.|.
T Consensus 31 ~~cP~--C~s~~~~k~g~~~~~~qRyrC~~C~~tf~ 64 (129)
T COG3677 31 VNCPR--CKSSNVVKIGGIRRGHQRYKCKSCGSTFT 64 (129)
T ss_pred CcCCC--CCccceeeECCccccccccccCCcCccee
Confidence 45777 77665 22 222 34488888888876
No 276
>PF06098 Radial_spoke_3: Radial spoke protein 3; InterPro: IPR009290 This family consists of several radial spoke protein 3 (RSP3) sequences. Eukaryotic cilia and flagella present in diverse types of cells perform motile, sensory, and developmental functions in organisms from protists to humans. They are centred by precisely organised, microtubule-based structures, the axonemes. The axoneme consists of two central singlet microtubules, called the central pair, and nine outer doublet microtubules. These structures are well conserved during evolution. The outer doublet microtubules, each composed of A and B sub-fibres, are connected to each other by nexin links, while the central pair is held at the centre of the axoneme by radial spokes. The radial spokes are T-shaped structures extending from the A-tubule of each outer doublet microtubule to the centre of the axoneme. Radial spoke protein 3 (RSP3), is present at the proximal end of the spoke stalk and helps in anchoring the radial spoke to the outer doublet. It is thought that radial spokes regulate the activity of inner arm dynein through protein phosphorylation and dephosphorylation [].
Probab=37.19 E-value=1.8e+02 Score=30.49 Aligned_cols=15 Identities=40% Similarity=0.669 Sum_probs=11.4
Q ss_pred eChhHHHHHHcCCCC
Q 010753 96 LPPSCFTELSGQGAF 110 (502)
Q Consensus 96 LP~SaL~~L~~~~~~ 110 (502)
|=+++|+.|.+.|.|
T Consensus 224 l~~~v~~~L~~~G~f 238 (291)
T PF06098_consen 224 LVPSVLDSLEDSGYF 238 (291)
T ss_pred HHHHHHHHHHHCCCC
Confidence 346799999888765
No 277
>TIGR01554 major_cap_HK97 phage major capsid protein, HK97 family. This family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease.
Probab=37.04 E-value=2e+02 Score=30.47 Aligned_cols=39 Identities=8% Similarity=0.003 Sum_probs=25.6
Q ss_pred EEEEEEecCCcceEEEeeccCCCCCCC--ChHHHHHHHhcc
Q 010753 176 VEVRYVRLPKGTYAKLQPEGIGFAELP--NQKAVLETSLRQ 214 (502)
Q Consensus 176 V~v~~~~LPkGt~vkLqP~~~~f~di~--n~KavLE~~LR~ 214 (502)
..+.-+.++-.+|..+-|.+...++-+ |..+.|...|..
T Consensus 179 ~~f~~v~~~~~k~~~~~~is~eLL~Ds~~dl~~~l~~~l~~ 219 (378)
T TIGR01554 179 PKFGPIAYALKTYGGYIRISNELLDDSAIDLLAWVAEEIAE 219 (378)
T ss_pred CcceeeeeehhhhhccccccHHHHhhhHhhHHHHHHHHHHH
Confidence 345555667777777778777766543 566777777743
No 278
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=36.96 E-value=14 Score=32.76 Aligned_cols=14 Identities=14% Similarity=0.541 Sum_probs=7.9
Q ss_pred cCcccccccCcccc
Q 010753 408 MDTVQCKNCKRFIP 421 (502)
Q Consensus 408 ~~~~~C~nC~k~~~ 421 (502)
+-...|.+||+.|+
T Consensus 68 p~~~~C~~Cg~~~~ 81 (113)
T PF01155_consen 68 PARARCRDCGHEFE 81 (113)
T ss_dssp --EEEETTTS-EEE
T ss_pred CCcEECCCCCCEEe
Confidence 34566888887775
No 279
>PF06409 NPIP: Nuclear pore complex interacting protein (NPIP); InterPro: IPR009443 This family consists of a series of primate specific nuclear pore complex interacting protein (NPIP) sequences. The function of this family is unknown but is well conserved from African apes to humans [].
Probab=36.87 E-value=1.8e+02 Score=29.63 Aligned_cols=22 Identities=14% Similarity=0.188 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010753 15 EQKERKERARLKLEREKKAKEE 36 (502)
Q Consensus 15 e~~~r~~~~~~~~~~e~~~~~~ 36 (502)
.+++-..+...++|+||+.-|+
T Consensus 125 ~~rKl~~ke~E~~EKErqlSeA 146 (265)
T PF06409_consen 125 HLRKLSMKECEHAEKERQLSEA 146 (265)
T ss_pred HHHHHHHHHHHHHHHHhhhhhh
Confidence 3455555555666667655333
No 280
>COG4741 Predicted secreted endonuclease distantly related to archaeal Holliday junction resolvase [Nucleotide transport and metabolism]
Probab=36.72 E-value=2e+02 Score=27.55 Aligned_cols=34 Identities=26% Similarity=0.343 Sum_probs=20.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 3 FELRRAREKLEKEQKERKERARLKLEREKKAKEEA 37 (502)
Q Consensus 3 ~~l~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a 37 (502)
++.++-+.|++..+++=.+.++.. |+||...+++
T Consensus 22 ~~Ir~lq~~~e~k~~~l~e~l~~~-e~~r~v~ea~ 55 (175)
T COG4741 22 AYIRSLQGKVESKARELEETLQKA-ERERLVNEAQ 55 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 455666667766666655555554 6666554443
No 281
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=36.60 E-value=10 Score=31.02 Aligned_cols=51 Identities=20% Similarity=0.443 Sum_probs=22.4
Q ss_pred ccccccCcccc----cchHHhHhh-hccCceeeccccccCcccccccccC--cccCccCC
Q 010753 411 VQCKNCKRFIP----SRSIVLHEA-YCSRHSVACQHAGCGMVLRTEEARD--HVHCDKCG 463 (502)
Q Consensus 411 ~~C~nC~k~~~----~~~l~lHe~-~C~rn~~~C~~~~Cgk~F~k~~l~~--H~hC~~Cg 463 (502)
.+|+-|+++|| -..+..|+. .-....+.|.. |++.+.-.+... -+.|+.|+
T Consensus 11 ~~~~cC~~~y~C~~CHde~~~H~~~~~~~~~v~Cg~--C~~~~~~~~~~c~~~~~C~~C~ 68 (71)
T PF05495_consen 11 IRFPCCGKYYPCRFCHDELEDHPFDRWPVKRVICGK--CRTEQPIDEYSCGADYFCPICG 68 (71)
T ss_dssp EEETTTTEEESSHHHHHHCSSS---TTT--EEEETT--T--EEES-SBTT--SEEETTTT
T ss_pred EECCcccCeecHHHHHHHhccCccccccccCeECCC--CCCccChhhhhcCCCccCcCcC
Confidence 35666777776 133335554 22333566666 666665522221 24555553
No 282
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=36.36 E-value=2.3e+02 Score=27.11 Aligned_cols=6 Identities=0% Similarity=0.075 Sum_probs=2.4
Q ss_pred ChhHHH
Q 010753 97 PPSCFT 102 (502)
Q Consensus 97 P~SaL~ 102 (502)
|.+.+.
T Consensus 167 ~~~~~~ 172 (181)
T PRK13454 167 DAAAVD 172 (181)
T ss_pred CHHHHH
Confidence 444433
No 283
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=36.33 E-value=16 Score=37.77 Aligned_cols=32 Identities=19% Similarity=0.604 Sum_probs=22.4
Q ss_pred cccccccCcccccchHHhHhhhccCceeeccccccCccccc
Q 010753 410 TVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRT 450 (502)
Q Consensus 410 ~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k 450 (502)
-.+|++|++.+-...| .+|.++||+ ||.-|+-
T Consensus 26 ~~~c~~c~~~~~~~~l-------~~~~~vc~~--c~~h~rl 57 (285)
T TIGR00515 26 WTKCPKCGQVLYTKEL-------ERNLEVCPK--CDHHMRM 57 (285)
T ss_pred eeECCCCcchhhHHHH-------HhhCCCCCC--CCCcCcC
Confidence 4679999987644333 255678888 9888774
No 284
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=36.24 E-value=23 Score=38.60 Aligned_cols=54 Identities=20% Similarity=0.393 Sum_probs=32.6
Q ss_pred cccccccCcccccchHHhHhh----------hccCceeeccccccCccccc---ccc-cC---cccCccCCCc
Q 010753 410 TVQCKNCKRFIPSRSIVLHEA----------YCSRHSVACQHAGCGMVLRT---EEA-RD---HVHCDKCGQG 465 (502)
Q Consensus 410 ~~~C~nC~k~~~~~~l~lHe~----------~C~rn~~~C~~~~Cgk~F~k---~~l-~~---H~hC~~Cgk~ 465 (502)
.|-|-|..+.+---.+.+|+. -..++-|+||. |++.|.. ..| .+ -|||..|+-.
T Consensus 92 ~YyyInY~~~idvVKyKlh~m~krled~~~d~t~~~~Y~Cp~--C~kkyt~Lea~~L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 92 TYYYINYAQVIDVVKYKLHQMRKRLEDRLRDDTNVAGYVCPN--CQKKYTSLEALQLLDNETGEFHCENCGGE 162 (436)
T ss_pred EEEEeehHHHHHHHHHHHHHHHHHHHHHhhhccccccccCCc--cccchhhhHHHHhhcccCceEEEecCCCc
Confidence 566777777665555556653 12234488887 8888876 222 22 3788888643
No 285
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=36.23 E-value=21 Score=31.91 Aligned_cols=15 Identities=13% Similarity=0.640 Sum_probs=9.9
Q ss_pred cCcccccccCccccc
Q 010753 408 MDTVQCKNCKRFIPS 422 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~ 422 (502)
+-...|.+||+.|+.
T Consensus 68 p~~~~C~~Cg~~~~~ 82 (114)
T PRK03681 68 EAECWCETCQQYVTL 82 (114)
T ss_pred CcEEEcccCCCeeec
Confidence 345678888876653
No 286
>PRK06991 ferredoxin; Provisional
Probab=36.21 E-value=1.6e+02 Score=30.42 Aligned_cols=25 Identities=28% Similarity=0.469 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 18 ERKERARLKLEREKKAKEEAKKQRE 42 (502)
Q Consensus 18 ~r~~~~~~~~~~e~~~~~~a~~~~~ 42 (502)
+|-+....|+++|+..+++..+++.
T Consensus 157 ~r~~~r~~Rl~~~~~~~~~~~~~~~ 181 (270)
T PRK06991 157 ARHDARQARLRREREAAEARAAARA 181 (270)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555666655554443333
No 287
>cd03403 Band_7_stomatin_like Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Stomatin is widely expressed and, highly expressed in red blood cells. It localizes predominantly to the plasma membrane and to intracellular vesicles of the endocytic pathway, where it is present in higher order homo-oligomeric complexes (of between 9 and 12 monomers). Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and, is implicated in trafficking of Glut1 glucose transporters. Prohibitin is a mitochondrial inner-membrane protein hypothesized to act as a chaperone for the stabilization of mitochondrial proteins. Podicin local
Probab=36.12 E-value=1.7e+02 Score=28.01 Aligned_cols=10 Identities=30% Similarity=0.511 Sum_probs=3.9
Q ss_pred HHHHHHHHHH
Q 010753 11 KLEKEQKERK 20 (502)
Q Consensus 11 k~~~e~~~r~ 20 (502)
+.+.|+++++
T Consensus 153 ~~~A~~~~~a 162 (215)
T cd03403 153 QAEAEREKRA 162 (215)
T ss_pred HHHHHHHHHH
Confidence 3344443333
No 288
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=36.10 E-value=20 Score=28.22 Aligned_cols=9 Identities=33% Similarity=0.914 Sum_probs=4.7
Q ss_pred cccccCccc
Q 010753 412 QCKNCKRFI 420 (502)
Q Consensus 412 ~C~nC~k~~ 420 (502)
.|+.||..|
T Consensus 4 ~CP~CG~~i 12 (54)
T TIGR01206 4 ECPDCGAEI 12 (54)
T ss_pred CCCCCCCEE
Confidence 455555544
No 289
>PRK06800 fliH flagellar assembly protein H; Validated
Probab=36.07 E-value=3.8e+02 Score=26.58 Aligned_cols=28 Identities=36% Similarity=0.507 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 4 ELRRAREKLEKEQKERKERARLKLEREKK 32 (502)
Q Consensus 4 ~l~~~~~k~~~e~~~r~~~~~~~~~~e~~ 32 (502)
+|....+-|++|-.+ -+..+.++++||.
T Consensus 42 ~L~~~Q~~L~~e~~~-l~~eqQ~l~~er~ 69 (228)
T PRK06800 42 ELLAQQKSLHKELNQ-LRQEQQKLERERQ 69 (228)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 355555555555432 2334455555553
No 290
>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]
Probab=36.00 E-value=1.1e+02 Score=34.63 Aligned_cols=21 Identities=29% Similarity=0.281 Sum_probs=14.5
Q ss_pred HHHHHHHhccCcccccCCEEEEEEC
Q 010753 205 KAVLETSLRQHATLSQDDVLTVNYG 229 (502)
Q Consensus 205 KavLE~~LR~~stLT~Gd~I~I~~~ 229 (502)
+..||..|.+|. |.+|.|+|.
T Consensus 475 ~~aLe~aL~~f~----Gtvl~VSHD 495 (530)
T COG0488 475 LEALEEALLDFE----GTVLLVSHD 495 (530)
T ss_pred HHHHHHHHHhCC----CeEEEEeCC
Confidence 456777887773 556777775
No 291
>PRK14873 primosome assembly protein PriA; Provisional
Probab=35.99 E-value=12 Score=43.04 Aligned_cols=16 Identities=31% Similarity=0.953 Sum_probs=10.9
Q ss_pred eeccccccCcccccccccCcccCccCC
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
..|.. ||.++ .|++|+
T Consensus 384 l~C~~--Cg~~~---------~C~~C~ 399 (665)
T PRK14873 384 LACAR--CRTPA---------RCRHCT 399 (665)
T ss_pred eEhhh--CcCee---------ECCCCC
Confidence 47887 88665 566665
No 292
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=35.94 E-value=1.7e+02 Score=30.48 Aligned_cols=23 Identities=22% Similarity=0.010 Sum_probs=17.9
Q ss_pred eeeeCCCceeccHHHHHhcCCCC
Q 010753 147 EFTADEGFVGLPPHVWRNLFPSD 169 (502)
Q Consensus 147 EFsA~EG~v~LP~wm~~~L~~~~ 169 (502)
.|-|.|----|=-||--|-+...
T Consensus 226 tF~a~E~L~~VR~wVd~n~~~~~ 248 (290)
T KOG2689|consen 226 TFNARETLAAVRLWVDLNRGDGL 248 (290)
T ss_pred ecCchhhHHHHHHHHHHhccCCC
Confidence 58888887888888888876553
No 293
>KOG4691 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.89 E-value=3e+02 Score=27.36 Aligned_cols=10 Identities=30% Similarity=0.259 Sum_probs=4.3
Q ss_pred HHHHHHHHHH
Q 010753 62 ADQEMQESLL 71 (502)
Q Consensus 62 ~~~~~~~~~~ 71 (502)
++|..+|++.
T Consensus 157 k~qae~eVl~ 166 (227)
T KOG4691|consen 157 KQQAEREVLQ 166 (227)
T ss_pred HHHHHHHHHH
Confidence 3344444443
No 294
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=35.59 E-value=2.5e+02 Score=25.78 Aligned_cols=6 Identities=67% Similarity=0.861 Sum_probs=2.3
Q ss_pred HHHHHH
Q 010753 33 AKEEAK 38 (502)
Q Consensus 33 ~~~~a~ 38 (502)
+|.+|.
T Consensus 71 Ar~eA~ 76 (141)
T PRK08476 71 AREEAN 76 (141)
T ss_pred HHHHHH
Confidence 334443
No 295
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=35.46 E-value=24 Score=26.82 Aligned_cols=9 Identities=22% Similarity=0.774 Sum_probs=4.5
Q ss_pred ccccCcccc
Q 010753 413 CKNCKRFIP 421 (502)
Q Consensus 413 C~nC~k~~~ 421 (502)
|..|++.|.
T Consensus 5 C~~C~~~F~ 13 (57)
T cd00065 5 CMGCGKPFT 13 (57)
T ss_pred CcccCcccc
Confidence 555555443
No 296
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=35.34 E-value=2.6e+02 Score=29.86 Aligned_cols=14 Identities=0% Similarity=0.318 Sum_probs=7.8
Q ss_pred CCCChHHHHHHHhc
Q 010753 200 ELPNQKAVLETSLR 213 (502)
Q Consensus 200 di~n~KavLE~~LR 213 (502)
+|+.+-.+.-..++
T Consensus 301 ~i~~Yag~ik~~Iq 314 (387)
T COG3064 301 DIDQYAGQIKSAIQ 314 (387)
T ss_pred hHHHHHHHHHHHHH
Confidence 55555555555554
No 297
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=35.31 E-value=3.6e+02 Score=24.87 Aligned_cols=20 Identities=15% Similarity=0.250 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLE 28 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~ 28 (502)
++++..+-+++.+.||.+.+
T Consensus 52 A~~~~~~~e~~L~~A~~ea~ 71 (159)
T PRK09173 52 AQQLLAEYQRKRKEAEKEAA 71 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444433
No 298
>PF13550 Phage-tail_3: Putative phage tail protein
Probab=35.22 E-value=42 Score=30.32 Aligned_cols=26 Identities=15% Similarity=0.364 Sum_probs=22.6
Q ss_pred cccccCCEEEEEECCEEEEEEEEEEc
Q 010753 216 ATLSQDDVLTVNYGELAYKLKVLELK 241 (502)
Q Consensus 216 stLT~Gd~I~I~~~~~~y~l~V~e~~ 241 (502)
..|..||+|.|.+.+..+.++|.+++
T Consensus 138 ~~l~pGDvi~l~~~~~~~~~RI~~i~ 163 (164)
T PF13550_consen 138 LALEPGDVIALSDDGRDMRFRITEIE 163 (164)
T ss_pred ccCCCCCEEEEEeCCCceEEEEEEEe
Confidence 35789999999999888999998875
No 299
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=35.21 E-value=26 Score=23.23 Aligned_cols=6 Identities=17% Similarity=0.739 Sum_probs=2.8
Q ss_pred eeeccc
Q 010753 436 SVACQH 441 (502)
Q Consensus 436 ~~~C~~ 441 (502)
.|.||.
T Consensus 16 ~f~CPn 21 (24)
T PF07754_consen 16 PFPCPN 21 (24)
T ss_pred eEeCCC
Confidence 345554
No 300
>PF09831 DUF2058: Uncharacterized protein conserved in bacteria (DUF2058); InterPro: IPR018636 This family, found in various prokaryotic proteins, has no known function.
Probab=34.95 E-value=1.4e+02 Score=29.01 Aligned_cols=18 Identities=11% Similarity=0.248 Sum_probs=13.4
Q ss_pred CCCeEEeChhHHHHHHcC
Q 010753 90 SGDKIKLPPSCFTELSGQ 107 (502)
Q Consensus 90 ~gDKIiLP~SaL~~L~~~ 107 (502)
.|.-.++|..+.+.+...
T Consensus 127 ~~~y~lVP~~vAeKI~~r 144 (177)
T PF09831_consen 127 EGGYELVPAEVAEKIAER 144 (177)
T ss_pred CCEEEEeeHHHHHHHHHh
Confidence 566677888888888664
No 301
>cd03407 Band_7_4 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic H
Probab=34.78 E-value=2.2e+02 Score=28.53 Aligned_cols=22 Identities=9% Similarity=0.054 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLERE 30 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e 30 (502)
.++..++|++++...+...++.
T Consensus 150 ~~~~~A~~~~~a~~~~Aea~~~ 171 (262)
T cd03407 150 NEINAAQRQRVAAVHKAEAEKI 171 (262)
T ss_pred HHHHHHHHHHHHHHHHhhHHHH
Confidence 3445556666665555554443
No 302
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=34.74 E-value=23 Score=31.80 Aligned_cols=15 Identities=20% Similarity=0.647 Sum_probs=10.3
Q ss_pred cCcccccccCccccc
Q 010753 408 MDTVQCKNCKRFIPS 422 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~ 422 (502)
+-...|.+||+.|+.
T Consensus 69 p~~~~C~~Cg~~~~~ 83 (117)
T PRK00564 69 KVELECKDCSHVFKP 83 (117)
T ss_pred CCEEEhhhCCCcccc
Confidence 345678888877754
No 303
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=34.60 E-value=22 Score=36.85 Aligned_cols=30 Identities=33% Similarity=0.706 Sum_probs=24.1
Q ss_pred eeeccccccCccccccccc-CcccCccCCCccC
Q 010753 436 SVACQHAGCGMVLRTEEAR-DHVHCDKCGQGLQ 467 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k~~l~-~H~hC~~Cgk~f~ 467 (502)
-.+|+. |++.+-+.+|. +.+.|+.||.-|.
T Consensus 26 ~~~c~~--c~~~~~~~~l~~~~~vc~~c~~h~r 56 (285)
T TIGR00515 26 WTKCPK--CGQVLYTKELERNLEVCPKCDHHMR 56 (285)
T ss_pred eeECCC--CcchhhHHHHHhhCCCCCCCCCcCc
Confidence 378998 99999887774 4578999987666
No 304
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=34.55 E-value=14 Score=41.12 Aligned_cols=16 Identities=38% Similarity=1.254 Sum_probs=10.8
Q ss_pred eeccccccCcccccccccCcccCccCC
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
..|.. ||.+. .|++|+
T Consensus 214 ~~C~~--Cg~~~---------~C~~C~ 229 (505)
T TIGR00595 214 LLCRS--CGYIL---------CCPNCD 229 (505)
T ss_pred eEhhh--CcCcc---------CCCCCC
Confidence 37887 88665 566665
No 305
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=34.30 E-value=23 Score=36.40 Aligned_cols=79 Identities=22% Similarity=0.473 Sum_probs=49.9
Q ss_pred ccccCcccccccCcccccchHHhHhhhcc---CceeeccccccCcccccccccCcccCccCCCccC-hhhHHHhhhccc-
Q 010753 405 SIEMDTVQCKNCKRFIPSRSIVLHEAYCS---RHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQ-RREMEKHMKVFH- 479 (502)
Q Consensus 405 ~~~~~~~~C~nC~k~~~~~~l~lHe~~C~---rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~-~s~l~kH~~i~H- 479 (502)
.|.-..|+|+-|..+.-..--.-|++-|. --+|+|.- |.+.= + |.|=.|.-.|- ..-..|-.+.--
T Consensus 137 ~hGGrif~CsfC~~flCEDDQFEHQAsCQvLe~E~~KC~S--CNrlG------q-~sCLRCK~cfCddHvrrKg~ky~k~ 207 (314)
T PF06524_consen 137 DHGGRIFKCSFCDNFLCEDDQFEHQASCQVLESETFKCQS--CNRLG------Q-YSCLRCKICFCDDHVRRKGFKYEKG 207 (314)
T ss_pred cCCCeEEEeecCCCeeeccchhhhhhhhhhhhcccccccc--ccccc------c-hhhhheeeeehhhhhhhcccccccC
Confidence 56778899999999998877779999883 34588887 76422 1 44544433355 222222222211
Q ss_pred ceeeec-CCccccc
Q 010753 480 EQCSCP-CGVVLEN 492 (502)
Q Consensus 480 tp~~C~-Cg~~f~~ 492 (502)
.|+.|+ ||+....
T Consensus 208 k~~PCPKCg~et~e 221 (314)
T PF06524_consen 208 KPIPCPKCGYETQE 221 (314)
T ss_pred CCCCCCCCCCcccc
Confidence 389999 9975443
No 306
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=33.85 E-value=2.4e+02 Score=28.48 Aligned_cols=15 Identities=33% Similarity=0.470 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHH
Q 010753 32 KAKEEAKKQREAIEA 46 (502)
Q Consensus 32 ~~~~~a~~~~~~~~~ 46 (502)
.++++|.+.++++.+
T Consensus 79 ~A~~eA~~~~~~il~ 93 (250)
T PRK14474 79 QAQEAADEQRQHLLN 93 (250)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444555444444433
No 307
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=33.68 E-value=26 Score=33.63 Aligned_cols=37 Identities=27% Similarity=0.504 Sum_probs=21.1
Q ss_pred eeeccccccCccccc---ccc---------cCc---ccCccCCCccChhhHHHh
Q 010753 436 SVACQHAGCGMVLRT---EEA---------RDH---VHCDKCGQGLQRREMEKH 474 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k---~~l---------~~H---~hC~~Cgk~f~~s~l~kH 474 (502)
--.||. |+-...+ ++- .+| |-|+.||+-|=+-+.-.+
T Consensus 97 ~~RCp~--CN~~L~~vs~eev~~~Vp~~~~~~~~~f~~C~~CgkiYW~GsHw~~ 148 (165)
T COG1656 97 FSRCPE--CNGELEKVSREEVKEKVPEKVYRNYEEFYRCPKCGKIYWKGSHWRR 148 (165)
T ss_pred cccCcc--cCCEeccCcHHHHhhccchhhhhcccceeECCCCcccccCchHHHH
Confidence 357888 8877765 221 122 668888776653333333
No 308
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=33.53 E-value=21 Score=38.21 Aligned_cols=22 Identities=32% Similarity=0.820 Sum_probs=15.0
Q ss_pred eeccccccCcccccccccCcccCccCCC
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCGQ 464 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk 464 (502)
|.|.. ||.... +.+|+|+.|+.
T Consensus 1 ~~c~~--cg~~~~----~~~g~cp~c~~ 22 (372)
T cd01121 1 YVCSE--CGYVSP----KWLGKCPECGE 22 (372)
T ss_pred CCCCC--CCCCCC----CccEECcCCCC
Confidence 67777 885543 45578888873
No 309
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=33.38 E-value=19 Score=37.46 Aligned_cols=32 Identities=19% Similarity=0.596 Sum_probs=22.6
Q ss_pred cccccccCcccccchHHhHhhhccCceeeccccccCccccc
Q 010753 410 TVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRT 450 (502)
Q Consensus 410 ~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k 450 (502)
-.+|++|++.+-...| .+|.++||+ ||.-|+-
T Consensus 27 ~~~c~~c~~~~~~~~l-------~~~~~vc~~--c~~h~rl 58 (292)
T PRK05654 27 WTKCPSCGQVLYRKEL-------EANLNVCPK--CGHHMRI 58 (292)
T ss_pred eeECCCccchhhHHHH-------HhcCCCCCC--CCCCeeC
Confidence 5679999987644333 245579998 9988864
No 310
>PRK05580 primosome assembly protein PriA; Validated
Probab=33.30 E-value=14 Score=42.54 Aligned_cols=42 Identities=33% Similarity=0.878 Sum_probs=21.8
Q ss_pred eeccccccCcccccccccCcccCccCCCccC----hhhHHHhhhcccc--eeeec-CCcc
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCGQGLQ----RREMEKHMKVFHE--QCSCP-CGVV 489 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~----~s~l~kH~~i~Ht--p~~C~-Cg~~ 489 (502)
..|.. ||.++ .|++|+-++. ...|.=|..=++. |..|+ ||..
T Consensus 382 ~~C~~--Cg~~~---------~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 382 LLCRD--CGWVA---------ECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred eEhhh--CcCcc---------CCCCCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCC
Confidence 67887 88665 5777754332 1112222222111 67788 8753
No 311
>PF02029 Caldesmon: Caldesmon; InterPro: IPR006018 This group of proteins includes two protein families: caldesmon and lymphocyte specific protein. Caldesmon (CDM) is an actin- and myosin-binding protein implicated in the regulation of actomyosin interactions in smooth muscle and non-muscle cells, possibly acting as a bridge between myosin and actin filaments []. CDM is believed to be an elongated molecule, with an N-terminal myosin/calmodulin- binding domain and a C-terminal tropomyosin/actin/calmodulin-binding domain, separated by a 40nm-long central helix []. A high-molecular-weight form of CDM is predominantly expressed in smooth muscles, while a low-molecular-weight form is widely distributed in non- muscle tissues and cells (the protein is not expressed in skeletal muscle or heart).
Probab=33.28 E-value=84 Score=35.14 Aligned_cols=15 Identities=27% Similarity=0.339 Sum_probs=7.8
Q ss_pred EeeeccCCCCCCeEE
Q 010753 81 TLEALPFQGSGDKIK 95 (502)
Q Consensus 81 ~~~~~~~~~~gDKIi 95 (502)
.|.++++.+.+=||.
T Consensus 345 ~f~~~~p~~~s~ki~ 359 (492)
T PF02029_consen 345 PFKCFSPKGSSLKIG 359 (492)
T ss_pred cccccCCCccceeeh
Confidence 444555555555553
No 312
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=33.26 E-value=4.3e+02 Score=28.85 Aligned_cols=64 Identities=31% Similarity=0.413 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHH---H--HHHHH-HH-HHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 010753 8 AREKLEKEQKERK-ERARLKLEREKKAKEE---A--KKQRE-AI-EAAQRSRRLDAIDAQLKADQEMQESLL 71 (502)
Q Consensus 8 ~~~k~~~e~~~r~-~~~~~~~~~e~~~~~~---a--~~~~~-~~-~~~~~~~r~~~~~~~~~~~~~~~~~~~ 71 (502)
.++|++.||.-|+ ..|+.|.++|-.++++ | .+|.. ++ |.++-.+.-|.+..++++.++..|.+.
T Consensus 305 qrQKle~e~~l~a~qeakek~~KEAqareaklqaec~rQ~qlaLEEKaaLrkerd~L~keLeekkreleql~ 376 (442)
T PF06637_consen 305 QRQKLEAEQGLQASQEAKEKAGKEAQAREAKLQAECARQTQLALEEKAALRKERDSLAKELEEKKRELEQLK 376 (442)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888887554 4466676666544332 2 23222 23 333334445667777666666655544
No 313
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=33.12 E-value=28 Score=28.33 Aligned_cols=31 Identities=16% Similarity=0.000 Sum_probs=13.3
Q ss_pred CceeeccccccCccccc----ccccC-cccCccCCCccC
Q 010753 434 RHSVACQHAGCGMVLRT----EEARD-HVHCDKCGQGLQ 467 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k----~~l~~-H~hC~~Cgk~f~ 467 (502)
+.|+.-+ ||++|-+ .-+.. +..|+.|++...
T Consensus 15 ~dPVi~~---~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 15 RDPVILP---SGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp SSEEEET---TSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred hCceeCC---cCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 5555544 5555555 12223 345566654444
No 314
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=33.01 E-value=59 Score=28.80 Aligned_cols=26 Identities=31% Similarity=0.625 Sum_probs=23.5
Q ss_pred cccccCCEEEEEECCEEEEEEEEEEc
Q 010753 216 ATLSQDDVLTVNYGELAYKLKVLELK 241 (502)
Q Consensus 216 stLT~Gd~I~I~~~~~~y~l~V~e~~ 241 (502)
..+-.||+|.|.+++..+.+.|..+.
T Consensus 47 ~~VK~GD~l~i~~~~~~~~v~Vl~~~ 72 (100)
T COG1188 47 KEVKVGDILTIRFGNKEFTVKVLALG 72 (100)
T ss_pred cccCCCCEEEEEeCCcEEEEEEEecc
Confidence 56789999999999999999999875
No 315
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=33.01 E-value=32 Score=27.16 Aligned_cols=44 Identities=23% Similarity=0.588 Sum_probs=25.3
Q ss_pred ccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCcccCcc--CCCcc
Q 010753 411 VQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDK--CGQGL 466 (502)
Q Consensus 411 ~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~--Cgk~f 466 (502)
..|.-||+.|.. +.-.++||. ||..+.+.=|...-+|.. |+..|
T Consensus 6 ~~C~~Cg~~~~~----------~dDiVvCp~--CgapyHR~C~~~~g~C~~~~c~~~~ 51 (54)
T PF14446_consen 6 CKCPVCGKKFKD----------GDDIVVCPE--CGAPYHRDCWEKAGGCINYSCGTGF 51 (54)
T ss_pred ccChhhCCcccC----------CCCEEECCC--CCCcccHHHHhhCCceEeccCCCCc
Confidence 356667766631 123466776 777776655555556644 65554
No 316
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=32.85 E-value=9.5 Score=46.59 Aligned_cols=39 Identities=15% Similarity=0.259 Sum_probs=23.7
Q ss_pred ccCccCCCccC-hhhHHHhhhc-ccc--eeeec-CCcccccccc
Q 010753 457 VHCDKCGQGLQ-RREMEKHMKV-FHE--QCSCP-CGVVLENAAM 495 (502)
Q Consensus 457 ~hC~~Cgk~f~-~s~l~kH~~i-~Ht--p~~C~-Cg~~f~~~~~ 495 (502)
|-|..|+.--. .-+|..||.- +|. |..|- |+..+.....
T Consensus 590 ~~C~vc~yetniarnlrihmtss~~s~~p~~~Lq~~it~~l~~~ 633 (1406)
T KOG1146|consen 590 WRCEVCSYETNIARNLRIHMTASPSSSPPSLVLQQNITSSLASL 633 (1406)
T ss_pred cchhhhcchhhhhhccccccccCCCCCChHHHhhhcchhhcccc
Confidence 77888863333 6667777763 333 46776 7766655443
No 317
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=32.82 E-value=16 Score=30.35 Aligned_cols=8 Identities=50% Similarity=1.464 Sum_probs=3.6
Q ss_pred cccCccCC
Q 010753 456 HVHCDKCG 463 (502)
Q Consensus 456 H~hC~~Cg 463 (502)
||||+.|+
T Consensus 17 ~~~C~~C~ 24 (70)
T PF07191_consen 17 HYHCEACQ 24 (70)
T ss_dssp EEEETTT-
T ss_pred EEECcccc
Confidence 45555554
No 318
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=32.50 E-value=23 Score=29.50 Aligned_cols=38 Identities=16% Similarity=0.318 Sum_probs=17.2
Q ss_pred cCccCCCccC-hhhHHHhhhcccceeeec---CCcccccccc
Q 010753 458 HCDKCGQGLQ-RREMEKHMKVFHEQCSCP---CGVVLENAAM 495 (502)
Q Consensus 458 hC~~Cgk~f~-~s~l~kH~~i~Htp~~C~---Cg~~f~~~~~ 495 (502)
+|++||..-. .++...+..+--.=++|. ||.+|.....
T Consensus 3 ~CP~Cg~~a~irtSr~~s~~~~~~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 3 HCPLCQHAAHARTSRYITDTTKERYHQCQNVNCSATFITYES 44 (72)
T ss_pred cCCCCCCccEEEEChhcChhhheeeeecCCCCCCCEEEEEEE
Confidence 4666653333 333333332211145563 6666655443
No 319
>PF03154 Atrophin-1: Atrophin-1 family; InterPro: IPR002951 Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA (OMIM:125370) is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins [, ]. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteristic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity [].. This entry includes Atrophin-1 and related proteins.
Probab=32.47 E-value=28 Score=41.42 Aligned_cols=28 Identities=43% Similarity=0.620 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLEREKKAKEEAK 38 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~ 38 (502)
..||.|..+++.|++|+.+ |+++++|+.
T Consensus 577 gSKLAkKRee~~ek~RRea--Eq~~reerE 604 (982)
T PF03154_consen 577 GSKLAKKREERVEKARREA--EQRAREERE 604 (982)
T ss_pred ccHHhhhhHHHHHHHHhhh--hccchhhhh
Confidence 3578776666666665544 445555443
No 320
>COG2268 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.21 E-value=2.8e+02 Score=31.58 Aligned_cols=6 Identities=17% Similarity=0.346 Sum_probs=2.3
Q ss_pred HHcCCc
Q 010753 70 LLAGGG 75 (502)
Q Consensus 70 ~~~~~g 75 (502)
...+.+
T Consensus 448 ~~~~~a 453 (548)
T COG2268 448 QVLGDA 453 (548)
T ss_pred HHhhhH
Confidence 333333
No 321
>PRK10780 periplasmic chaperone; Provisional
Probab=32.18 E-value=3.1e+02 Score=25.68 Aligned_cols=23 Identities=22% Similarity=0.144 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 010753 5 LRRAREKLEKEQKERKERARLKL 27 (502)
Q Consensus 5 l~~~~~k~~~e~~~r~~~~~~~~ 27 (502)
...+..+|+++.+.+...+..+.
T Consensus 41 ~k~~~~~le~~~~~~q~el~~~~ 63 (165)
T PRK10780 41 RTGVSKQLENEFKGRASELQRME 63 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667788888777776665443
No 322
>PF12474 PKK: Polo kinase kinase ; InterPro: IPR022165 This domain family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF00069 from PFAM. Polo-like kinase 1 (Plx1) is essential during mitosis for the activation of Cdc25C, for spindle assembly, and for cyclin B degradation. This family is Polo kinase kinase (PKK) which phosphorylates Polo kinase and Polo-like kinase to activate them. PKK is a serine/threonine kinase. ; GO: 0004674 protein serine/threonine kinase activity
Probab=31.90 E-value=2.4e+02 Score=26.33 Aligned_cols=25 Identities=32% Similarity=0.349 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 3 FELRRAREKLEKEQKERKERARLKL 27 (502)
Q Consensus 3 ~~l~~~~~k~~~e~~~r~~~~~~~~ 27 (502)
.|+++....+..||++|...-+.-+
T Consensus 48 ~e~r~~~KriR~Eq~~~l~~FkesL 72 (142)
T PF12474_consen 48 QERRRLPKRIRAEQKKRLAMFKESL 72 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566666667777766665544433
No 323
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=31.88 E-value=28 Score=35.71 Aligned_cols=58 Identities=26% Similarity=0.511 Sum_probs=33.3
Q ss_pred cCcccccccCccccc-chHHhHhhhccCce--eeccccccCc---cccc---ccccCccc-----CccCCCccC
Q 010753 408 MDTVQCKNCKRFIPS-RSIVLHEAYCSRHS--VACQHAGCGM---VLRT---EEARDHVH-----CDKCGQGLQ 467 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~-~~l~lHe~~C~rn~--~~C~~~~Cgk---~F~k---~~l~~H~h-----C~~Cgk~f~ 467 (502)
+..+.|.+|++...+ +.-+.-+.+|.|=- ..||. ||- +.-- ..+..||| |..|.+.|-
T Consensus 161 ~yHFkCt~C~keL~sdaRevk~eLyClrChD~mgipi--CgaC~rpIeervi~amgKhWHveHFvCa~CekPFl 232 (332)
T KOG2272|consen 161 PYHFKCTTCGKELTSDAREVKGELYCLRCHDKMGIPI--CGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPFL 232 (332)
T ss_pred ccceecccccccccchhhhhccceeccccccccCCcc--cccccCchHHHHHHHhccccchhheeehhcCCccc
Confidence 566788888888864 22233356775532 34443 443 3221 34556665 888887775
No 324
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=31.78 E-value=3.1e+02 Score=30.59 Aligned_cols=16 Identities=13% Similarity=0.279 Sum_probs=9.2
Q ss_pred cceeeccCCCCCceEE
Q 010753 340 HLHEWSSHDAGSKVVI 355 (502)
Q Consensus 340 ~~h~~ss~d~~sk~i~ 355 (502)
+-+.|.|.|.+.+.+.
T Consensus 473 NAlLfRTGdqSrdivL 488 (630)
T KOG0742|consen 473 NALLFRTGDQSRDIVL 488 (630)
T ss_pred HHHHHHhcccccceEE
Confidence 3466666666665433
No 325
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=31.60 E-value=21 Score=31.88 Aligned_cols=26 Identities=19% Similarity=0.588 Sum_probs=19.2
Q ss_pred CceeeccccccCcccccccccCcccCccCC
Q 010753 434 RHSVACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
.-...|+. ||..|.... .++.||.||
T Consensus 68 p~~~~C~~--Cg~~~~~~~--~~~~CP~Cg 93 (113)
T PRK12380 68 PAQAWCWD--CSQVVEIHQ--HDAQCPHCH 93 (113)
T ss_pred CcEEEccc--CCCEEecCC--cCccCcCCC
Confidence 34488998 998886642 446799998
No 326
>KOG2769 consensus Putative u4/u6 small nuclear ribonucleoprotein [RNA processing and modification]
Probab=31.53 E-value=1.5e+02 Score=33.15 Aligned_cols=40 Identities=18% Similarity=0.346 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 010753 30 EKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQES 69 (502)
Q Consensus 30 e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~ 69 (502)
|...|.+++.++.+.|.++-+|+|.+.+..+++.+.--|.
T Consensus 345 E~~VR~Q~aeR~kaHe~~N~aRKLT~~qkreKk~rKl~ED 384 (522)
T KOG2769|consen 345 EAEVRDQMAERQKAHEDENAARKLTPEQKREKKERKLFED 384 (522)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhcCCHHHHHHHHHhhhccC
Confidence 4556788889999999999999999998888887765443
No 327
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=31.51 E-value=17 Score=32.32 Aligned_cols=26 Identities=31% Similarity=0.709 Sum_probs=17.9
Q ss_pred eeeccccccCcccccccccCcccCccCC
Q 010753 436 SVACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
++.|.. ||++|...+-.----|+.||
T Consensus 2 pH~Ctr--CG~vf~~g~~~il~GCp~CG 27 (112)
T COG3364 2 PHQCTR--CGEVFDDGSEEILSGCPKCG 27 (112)
T ss_pred Cceecc--cccccccccHHHHccCcccc
Confidence 567988 99999883221123699997
No 328
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=31.48 E-value=25 Score=36.54 Aligned_cols=30 Identities=33% Similarity=0.742 Sum_probs=24.0
Q ss_pred eeeccccccCcccccccccCc-ccCccCCCccC
Q 010753 436 SVACQHAGCGMVLRTEEARDH-VHCDKCGQGLQ 467 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k~~l~~H-~hC~~Cgk~f~ 467 (502)
-.+||. |+..+-+.+|... +.|++||.-|.
T Consensus 27 ~~~c~~--c~~~~~~~~l~~~~~vc~~c~~h~r 57 (292)
T PRK05654 27 WTKCPS--CGQVLYRKELEANLNVCPKCGHHMR 57 (292)
T ss_pred eeECCC--ccchhhHHHHHhcCCCCCCCCCCee
Confidence 378998 9999988777554 78999987666
No 329
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=31.33 E-value=95 Score=25.49 Aligned_cols=54 Identities=19% Similarity=0.092 Sum_probs=37.9
Q ss_pred CceeccHHHHHhcCCCCCCCCceEEEEEEecCCcceEEEeeccC--CCCCCCChHHHHHHHhccC
Q 010753 153 GFVGLPPHVWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEGI--GFAELPNQKAVLETSLRQH 215 (502)
Q Consensus 153 G~v~LP~wm~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~~--~f~di~n~KavLE~~LR~~ 215 (502)
-.|-||.-+++.|++. +|+.|.|... +.-+.|.|... +| + ......++..++.|
T Consensus 10 ~~vtIPk~i~~~lgl~---~Gd~v~v~~~----~~~iii~~~~~~~~~-~-~~~~~~~~~~~~~y 65 (74)
T TIGR02609 10 LVVTLPKEVLESLGLK---EGDTLYVDEE----EGGLKLKRFDEGKEL-E-KKMQMAVERAMSKY 65 (74)
T ss_pred eEEEECHHHHHHcCcC---CCCEEEEEEE----CCEEEEEECCCCccH-H-HHHHHHHHHHHHHH
Confidence 3588999999999998 6788866433 44577788876 33 1 22334688888777
No 330
>PRK05978 hypothetical protein; Provisional
Probab=31.22 E-value=21 Score=33.70 Aligned_cols=29 Identities=28% Similarity=0.682 Sum_probs=19.3
Q ss_pred cCccCCCccC-hhhHHHhhhcccceeeec-CCcccccc
Q 010753 458 HCDKCGQGLQ-RREMEKHMKVFHEQCSCP-CGVVLENA 493 (502)
Q Consensus 458 hC~~Cgk~f~-~s~l~kH~~i~Htp~~C~-Cg~~f~~~ 493 (502)
.|+.||++-- +.-|+.| -.|+ ||..|...
T Consensus 35 rCP~CG~G~LF~g~Lkv~-------~~C~~CG~~~~~~ 65 (148)
T PRK05978 35 RCPACGEGKLFRAFLKPV-------DHCAACGEDFTHH 65 (148)
T ss_pred cCCCCCCCcccccccccC-------CCccccCCccccC
Confidence 6999987633 3344433 4599 99888754
No 331
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=31.20 E-value=20 Score=32.09 Aligned_cols=26 Identities=23% Similarity=0.549 Sum_probs=19.8
Q ss_pred ceeeccccccCcccccccccCcccCccCCC
Q 010753 435 HSVACQHAGCGMVLRTEEARDHVHCDKCGQ 464 (502)
Q Consensus 435 n~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk 464 (502)
=...|+. ||+.|....+ ++.||.||.
T Consensus 69 ~~~~C~~--Cg~~~~~~~~--~~~CP~Cgs 94 (115)
T TIGR00100 69 VECECED--CSEEVSPEID--LYRCPKCHG 94 (115)
T ss_pred cEEEccc--CCCEEecCCc--CccCcCCcC
Confidence 3478998 9988876432 588999983
No 332
>COG1390 NtpE Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]
Probab=31.13 E-value=5.1e+02 Score=25.33 Aligned_cols=17 Identities=24% Similarity=0.370 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q 010753 6 RRAREKLEKEQKERKER 22 (502)
Q Consensus 6 ~~~~~k~~~e~~~r~~~ 22 (502)
..--+++.++.++.+++
T Consensus 5 e~~i~~I~~~a~eeak~ 21 (194)
T COG1390 5 EKLIKKILREAEEEAEE 21 (194)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334444444433333
No 333
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=31.02 E-value=35 Score=27.12 Aligned_cols=28 Identities=21% Similarity=0.548 Sum_probs=15.7
Q ss_pred cccccCcccccchHHhHhhhccCceeeccccccCcccc
Q 010753 412 QCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLR 449 (502)
Q Consensus 412 ~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~ 449 (502)
.|+.||..... .-..+.+.|+. ||..+.
T Consensus 30 ~C~~CG~~~~~--------~~~~r~~~C~~--Cg~~~~ 57 (69)
T PF07282_consen 30 TCPRCGHRNKK--------RRSGRVFTCPN--CGFEMD 57 (69)
T ss_pred CccCccccccc--------ccccceEEcCC--CCCEEC
Confidence 48888775544 12234466666 665544
No 334
>PF12297 EVC2_like: Ellis van Creveld protein 2 like protein; InterPro: IPR022076 This family of proteins is found in eukaryotes. Proteins in this family are typically between 571 and 1310 amino acids in length. There are two conserved sequence motifs: LPA and ELH. EVC2 is implicated in Ellis van Creveld chondrodysplastic dwarfism in humans. Mutations in this protein can give rise to this congenital condition. LIMBIN is a protein which shares around 80% sequence homology with EVC2 and it is implicated in a similar condition in bovine chondrodysplastic dwarfism.
Probab=30.87 E-value=2e+02 Score=31.69 Aligned_cols=39 Identities=23% Similarity=0.250 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 6 RRAREKLEKEQKERKERARLKLEREKKAKEEAKKQREAI 44 (502)
Q Consensus 6 ~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~ 44 (502)
.....+++.|-..+..++..+...|-++|.++..||++-
T Consensus 205 l~le~~l~eEy~rkm~aL~~~c~lE~r~k~e~~~qre~a 243 (429)
T PF12297_consen 205 LGLEKRLQEEYDRKMVALTAECNLETRKKMEAQHQREMA 243 (429)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 334556666666677777777777777766666555554
No 335
>TIGR01932 hflC HflC protein. HflK and HflC are paralogs encoded by tandem genes in Proteobacteria, spirochetes, and some other bacterial lineages. The HflKC complex is anchored in the membrane and exposed to the periplasm. The complex is not active as a protease, but rather binds to and appears to modulate the ATP-dependent protease FtsH. The overall function of HflKC is not fully described.//Regulation of FtsH protease appears to be negative (PubMed:8947034, PubMed:96367)
Probab=30.75 E-value=3e+02 Score=28.69 Aligned_cols=12 Identities=17% Similarity=0.202 Sum_probs=7.4
Q ss_pred CCCCeEEeChhH
Q 010753 89 GSGDKIKLPPSC 100 (502)
Q Consensus 89 ~~gDKIiLP~Sa 100 (502)
+.++.++||+..
T Consensus 299 ~~~~~~vl~~~~ 310 (317)
T TIGR01932 299 DNQDEKVLSTDS 310 (317)
T ss_pred CCCCEEEECCCc
Confidence 345568887753
No 336
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=30.61 E-value=3e+02 Score=30.80 Aligned_cols=41 Identities=15% Similarity=0.164 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 3 FELRRAREKLEKEQKERKERARLKLEREKKAKEEAKKQREAI 44 (502)
Q Consensus 3 ~~l~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~ 44 (502)
|+-.....+|+ ||+.+..++.++++.+|...+.-.++++..
T Consensus 62 FddkVnqSALt-eqQ~kasELEKqLaaLrqElq~~saq~~dl 102 (475)
T PRK13729 62 FDDKVRQHATT-EMQVTAAQMQKQYEEIRRELDVLNKQRGDD 102 (475)
T ss_pred hHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhhhhhhH
Confidence 55555555554 556667778888888864444333444444
No 337
>PF13904 DUF4207: Domain of unknown function (DUF4207)
Probab=30.46 E-value=4.6e+02 Score=26.76 Aligned_cols=18 Identities=39% Similarity=0.532 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 010753 25 LKLEREKKAKEEAKKQRE 42 (502)
Q Consensus 25 ~~~~~e~~~~~~a~~~~~ 42 (502)
.+.|+++...+++.+++.
T Consensus 113 ~~~E~~k~~~e~e~Rk~l 130 (264)
T PF13904_consen 113 QKEEREKQEEEKEERKRL 130 (264)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444443333433333
No 338
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=30.19 E-value=21 Score=32.89 Aligned_cols=29 Identities=28% Similarity=0.756 Sum_probs=20.7
Q ss_pred CceeeccccccCccccccc-------------------ccCcccCccCCC
Q 010753 434 RHSVACQHAGCGMVLRTEE-------------------ARDHVHCDKCGQ 464 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k~~-------------------l~~H~hC~~Cgk 464 (502)
.-.+.|+. ||..|...+ ...++.||.||.
T Consensus 68 p~~~~C~~--CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs 115 (135)
T PRK03824 68 EAVLKCRN--CGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGS 115 (135)
T ss_pred ceEEECCC--CCCEEecccccccccccccccccccccccccCcCCcCCCC
Confidence 45689998 999987642 023477999983
No 339
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=30.15 E-value=22 Score=31.06 Aligned_cols=20 Identities=30% Similarity=0.858 Sum_probs=12.2
Q ss_pred eeeec-CCccccccccc--ccCC
Q 010753 481 QCSCP-CGVVLENAAMV--SYCP 500 (502)
Q Consensus 481 p~~C~-Cg~~f~~~~~~--~~Cp 500 (502)
|-.|. ||+.|.....- |-||
T Consensus 58 Pa~CkkCGfef~~~~ik~pSRCP 80 (97)
T COG3357 58 PARCKKCGFEFRDDKIKKPSRCP 80 (97)
T ss_pred ChhhcccCccccccccCCcccCC
Confidence 66677 77777663222 6666
No 340
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.13 E-value=28 Score=32.28 Aligned_cols=19 Identities=21% Similarity=0.560 Sum_probs=12.0
Q ss_pred ccccccCcccc--cchHHhHhh
Q 010753 411 VQCKNCKRFIP--SRSIVLHEA 430 (502)
Q Consensus 411 ~~C~nC~k~~~--~~~l~lHe~ 430 (502)
..| .||.+|- ..|-.+|-+
T Consensus 71 ~rc-ecghsf~d~r~nwkl~a~ 91 (165)
T COG4647 71 IRC-ECGHSFGDYRENWKLHAN 91 (165)
T ss_pred EEE-eccccccChhhCceeeeE
Confidence 445 4777774 566667665
No 341
>COG1422 Predicted membrane protein [Function unknown]
Probab=30.00 E-value=1.8e+02 Score=28.92 Aligned_cols=15 Identities=20% Similarity=0.222 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHH
Q 010753 35 EEAKKQREAIEAAQR 49 (502)
Q Consensus 35 ~~a~~~~~~~~~~~~ 49 (502)
++++.=+++.++++|
T Consensus 79 k~m~efq~e~~eA~~ 93 (201)
T COG1422 79 KMMKEFQKEFREAQE 93 (201)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333444444444
No 342
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=29.99 E-value=24 Score=32.60 Aligned_cols=22 Identities=23% Similarity=0.830 Sum_probs=11.4
Q ss_pred ccCccCCCccChhhHHHhhhcccc
Q 010753 457 VHCDKCGQGLQRREMEKHMKVFHE 480 (502)
Q Consensus 457 ~hC~~Cgk~f~~s~l~kH~~i~Ht 480 (502)
..|=+||+.|. .|++|.+.||+
T Consensus 73 i~clecGk~~k--~LkrHL~~~~g 94 (132)
T PF05443_consen 73 IICLECGKKFK--TLKRHLRTHHG 94 (132)
T ss_dssp EE-TBT--EES--BHHHHHHHTT-
T ss_pred eEEccCCcccc--hHHHHHHHccC
Confidence 44556666666 55777777654
No 343
>PF12773 DZR: Double zinc ribbon
Probab=29.84 E-value=40 Score=25.10 Aligned_cols=14 Identities=29% Similarity=0.641 Sum_probs=8.0
Q ss_pred cCcccccccCcccc
Q 010753 408 MDTVQCKNCKRFIP 421 (502)
Q Consensus 408 ~~~~~C~nC~k~~~ 421 (502)
.+..-|.+||..++
T Consensus 10 ~~~~fC~~CG~~l~ 23 (50)
T PF12773_consen 10 DDAKFCPHCGTPLP 23 (50)
T ss_pred ccccCChhhcCChh
Confidence 34445666666655
No 344
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=29.81 E-value=23 Score=32.70 Aligned_cols=25 Identities=28% Similarity=0.513 Sum_probs=16.0
Q ss_pred cccccCcccccccCcccc--cchHHhH
Q 010753 404 SSIEMDTVQCKNCKRFIP--SRSIVLH 428 (502)
Q Consensus 404 ~~~~~~~~~C~nC~k~~~--~~~l~lH 428 (502)
.++..|...|=.|||.|. ++||..|
T Consensus 66 kSI~~d~i~clecGk~~k~LkrHL~~~ 92 (132)
T PF05443_consen 66 KSITPDYIICLECGKKFKTLKRHLRTH 92 (132)
T ss_dssp TTB-SS-EE-TBT--EESBHHHHHHHT
T ss_pred hccccCeeEEccCCcccchHHHHHHHc
Confidence 367889999999999996 5777777
No 345
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=29.51 E-value=4.3e+02 Score=23.89 Aligned_cols=35 Identities=11% Similarity=0.041 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLEREK-KAKEEAKKQREA 43 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~ 43 (502)
++++..+-+++...|+.....-+ .++++|.+.++.
T Consensus 45 a~~~~~e~~~~l~~A~~ea~~i~~~a~~~a~~~~~~ 80 (147)
T TIGR01144 45 AALAQKKAQVILKEAKDEAQEIIENANKRGSEILEE 80 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444333333 333334333333
No 346
>KOG3756 consensus Pinin (desmosome-associated protein) [Cytoskeleton]
Probab=29.10 E-value=4.4e+02 Score=28.06 Aligned_cols=30 Identities=33% Similarity=0.463 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 10 EKLEKEQKERKERARLKLEREKKAKEEAKK 39 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~ 39 (502)
+|.+.|-+++.++-.+++|-|+++.+.|..
T Consensus 153 ~KFkqE~kr~t~rq~KraEieqKlEeq~~e 182 (340)
T KOG3756|consen 153 QKFKQESKRATERQVKRAEIEQKLEEQAEE 182 (340)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566555555555566666655444433
No 347
>PF06188 HrpE: HrpE/YscL/FliH and V-type ATPase subunit E; InterPro: IPR009335 This family consists of several bacterial HrpE proteins, which are believed to function on the type III secretion system, specifically the secretion of HrpZ (harpinPss) []. This family also includes V-type proton ATPase subunit E proteins. This subunit appears to form a tight interaction with subunit G in the F0 complex. Subunits E and G may act together as stators to prevent certain subunits from rotating with the central rotary element []. PF01991 from PFAM also contains V-type ATPase subunit E proteins. There is an evolutionary link between type III secretion systems and membrane-associated proton translocating ATPases [].
Probab=29.01 E-value=5.4e+02 Score=24.93 Aligned_cols=15 Identities=20% Similarity=0.381 Sum_probs=7.2
Q ss_pred CCCeEEeChhHHHHH
Q 010753 90 SGDKIKLPPSCFTEL 104 (502)
Q Consensus 90 ~gDKIiLP~SaL~~L 104 (502)
..-.+..=|+.++.+
T Consensus 131 ~~~tL~~hP~~~~~V 145 (191)
T PF06188_consen 131 SEATLRCHPDQLEEV 145 (191)
T ss_pred cceEEEECHHHHHHH
Confidence 333444455555544
No 348
>PRK03598 putative efflux pump membrane fusion protein; Provisional
Probab=29.00 E-value=5.7e+02 Score=26.24 Aligned_cols=10 Identities=40% Similarity=0.614 Sum_probs=5.9
Q ss_pred CCceEEEEEe
Q 010753 112 KGPLHFKLSV 121 (502)
Q Consensus 112 ~~Pl~F~l~n 121 (502)
++.-+|.|..
T Consensus 227 ~G~~l~~I~~ 236 (331)
T PRK03598 227 AGSTVFTLSL 236 (331)
T ss_pred CCCeEEEEec
Confidence 3555677764
No 349
>PF12848 ABC_tran_2: ABC transporter
Probab=28.73 E-value=3.2e+02 Score=22.19 Aligned_cols=12 Identities=33% Similarity=0.703 Sum_probs=6.3
Q ss_pred HHHHHHhhHHHH
Q 010753 45 EAAQRSRRLDAI 56 (502)
Q Consensus 45 ~~~~~~~r~~~~ 56 (502)
.+..|+++|+.+
T Consensus 59 ~a~sr~k~lekl 70 (85)
T PF12848_consen 59 QAKSREKRLEKL 70 (85)
T ss_pred HHHHHHHHHHHH
Confidence 344555555555
No 350
>PF05300 DUF737: Protein of unknown function (DUF737); InterPro: IPR007964 This family consists of several uncharacterised mammalian proteins of unknown function.
Probab=28.21 E-value=3.7e+02 Score=26.34 Aligned_cols=28 Identities=29% Similarity=0.383 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERARLKLEREKKAKEE 36 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e~~~~~~ 36 (502)
....+++|..=++.+.+-+++||.+..+
T Consensus 85 ~kr~e~eQa~VQeEL~r~a~rEReAa~e 112 (187)
T PF05300_consen 85 LKRFEQEQAQVQEELARLAQREREAAAE 112 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3556677777777777777888755443
No 351
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=28.17 E-value=31 Score=30.14 Aligned_cols=25 Identities=28% Similarity=0.910 Sum_probs=14.9
Q ss_pred eeeccccccCcccccccccCcccCccC
Q 010753 436 SVACQHAGCGMVLRTEEARDHVHCDKC 462 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k~~l~~H~hC~~C 462 (502)
|-.|.. ||-.|.....+.--.|+.|
T Consensus 58 Pa~Ckk--CGfef~~~~ik~pSRCP~C 82 (97)
T COG3357 58 PARCKK--CGFEFRDDKIKKPSRCPKC 82 (97)
T ss_pred Chhhcc--cCccccccccCCcccCCcc
Confidence 456666 7766666444444567777
No 352
>cd05829 Sortase_E Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. The function of Sortase E is unknown. In two different sortase families, the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. Most gram-positive bacteria contain more than one sortase and it is thought that the different sortases anchor different surface protein classes. The sortase domain is a modified beta-barrel flanked by two (SrtA) or three (SrtB) short alpha-helices.
Probab=28.14 E-value=79 Score=29.09 Aligned_cols=25 Identities=16% Similarity=0.205 Sum_probs=21.0
Q ss_pred cccccCCEEEEEE-CCEEEEEEEEEE
Q 010753 216 ATLSQDDVLTVNY-GELAYKLKVLEL 240 (502)
Q Consensus 216 stLT~Gd~I~I~~-~~~~y~l~V~e~ 240 (502)
..|.+||.|.|.. .+..|...|.++
T Consensus 71 ~~l~~GD~I~v~~~~g~~~~Y~V~~~ 96 (144)
T cd05829 71 GDLRKGDKVEVTRADGQTATFRVDRV 96 (144)
T ss_pred hcCCCCCEEEEEECCCCEEEEEEeEE
Confidence 4688999999999 677888888875
No 353
>TIGR02473 flagell_FliJ flagellar export protein FliJ. Members of this family are the FliJ protein found, in nearly every case, in the midst of other flagellar biosynthesis genes in bacgterial genomes. Typically the fliJ gene is found adjacent to the gene for the flagellum-specific ATPase FliI. Sequence scoring in the gray zone between trusted and noise cutoffs include both probable FliJ proteins and components of bacterial type III secretion systems.
Probab=27.88 E-value=4.3e+02 Score=23.35 Aligned_cols=59 Identities=15% Similarity=0.230 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 010753 13 EKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQESLL 71 (502)
Q Consensus 13 ~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~ 71 (502)
-..|+.....++..++.-|..=.+|.+.++.+|...-.++.+...++.+++|++..++.
T Consensus 77 i~~q~~~l~~~~~~~e~~r~~l~~a~~~~k~lekL~ek~~~~~~~~~~r~EQk~lDE~a 135 (141)
T TIGR02473 77 IQQQQQELALLQQEVEAKRERLLEARRELKALEKLKEKKQKEYRAEEAKREQKEMDELA 135 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence 34566666677777777776666777777777776655555556666666666555443
No 354
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=27.70 E-value=30 Score=25.36 Aligned_cols=14 Identities=43% Similarity=1.108 Sum_probs=7.8
Q ss_pred CceeeccccccCcccc
Q 010753 434 RHSVACQHAGCGMVLR 449 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~ 449 (502)
+..++|+. ||.+..
T Consensus 17 ~g~~vC~~--CG~Vl~ 30 (43)
T PF08271_consen 17 RGELVCPN--CGLVLE 30 (43)
T ss_dssp TTEEEETT--T-BBEE
T ss_pred CCeEECCC--CCCEee
Confidence 44556666 776654
No 355
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=27.62 E-value=26 Score=37.32 Aligned_cols=52 Identities=23% Similarity=0.664 Sum_probs=19.4
Q ss_pred eeeccccccCccccc-ccc---cCc-----------ccCccCCCccChhhHHHhhhcccceeeec-CCc-cccccccc
Q 010753 436 SVACQHAGCGMVLRT-EEA---RDH-----------VHCDKCGQGLQRREMEKHMKVFHEQCSCP-CGV-VLENAAMV 496 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k-~~l---~~H-----------~hC~~Cgk~f~~s~l~kH~~i~Htp~~C~-Cg~-~f~~~~~~ 496 (502)
.|.|.+ |.....+ ++. .+| |.|.+||.- ..+| .++ ....|. ||- .|.+-.|+
T Consensus 252 av~C~~--C~yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~C~~R--t~sl---~r~--P~~~C~~Cg~~~wer~~M~ 320 (344)
T PF09332_consen 252 AVTCKQ--CKYTAFKPSDRCKEEGHPLKWHDAVKRFFKCKDCGNR--TISL---ERL--PKKHCSNCGSSKWERTGML 320 (344)
T ss_dssp EEEETT--T--EESS--HHHHHTT--EEEEEEE-EEEE-T-TS-E--EEES---SSS----S--TTT-S---EEE---
T ss_pred EEEcCC--CCCcccCcchhHHhcCCceEEeeeeeeeEECCCCCCe--eeec---ccC--CCCCCCcCCcCceeehhhh
Confidence 477777 8766655 222 344 779999732 2233 122 125688 884 45555554
No 356
>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT.3. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of proteins with unknown function.
Probab=27.59 E-value=4.3e+02 Score=23.27 Aligned_cols=14 Identities=14% Similarity=0.325 Sum_probs=11.0
Q ss_pred eEEeChhHHHHHHc
Q 010753 93 KIKLPPSCFTELSG 106 (502)
Q Consensus 93 KIiLP~SaL~~L~~ 106 (502)
..-+|.++++.|-+
T Consensus 94 ~~~~P~~V~d~L~~ 107 (110)
T PF10828_consen 94 NTAVPDAVIDSLRR 107 (110)
T ss_pred cCCCCHHHHHHHHH
Confidence 56789999997754
No 357
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=27.56 E-value=19 Score=34.28 Aligned_cols=14 Identities=21% Similarity=0.465 Sum_probs=9.2
Q ss_pred ceeeec-CCcccccc
Q 010753 480 EQCSCP-CGVVLENA 493 (502)
Q Consensus 480 tp~~C~-Cg~~f~~~ 493 (502)
.|..|. ||+.|++-
T Consensus 67 ~PsYC~~CGkpyPWt 81 (158)
T PF10083_consen 67 APSYCHNCGKPYPWT 81 (158)
T ss_pred CChhHHhCCCCCchH
Confidence 377777 77777663
No 358
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=27.49 E-value=2.3e+02 Score=25.82 Aligned_cols=16 Identities=25% Similarity=0.343 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 010753 7 RAREKLEKEQKERKER 22 (502)
Q Consensus 7 ~~~~k~~~e~~~r~~~ 22 (502)
.+.++|+++.++...+
T Consensus 36 ~~~~~l~~~~~~~~~~ 51 (158)
T PF03938_consen 36 DAQAKLQEKFKALQKE 51 (158)
T ss_dssp THHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444555544444333
No 359
>PTZ00399 cysteinyl-tRNA-synthetase; Provisional
Probab=27.45 E-value=88 Score=36.10 Aligned_cols=10 Identities=20% Similarity=0.135 Sum_probs=5.4
Q ss_pred eChhHHHHHH
Q 010753 96 LPPSCFTELS 105 (502)
Q Consensus 96 LP~SaL~~L~ 105 (502)
|+-|....|.
T Consensus 622 ~sk~~~kkl~ 631 (651)
T PTZ00399 622 ISKKERKKLS 631 (651)
T ss_pred CCHHHHHHHH
Confidence 3666655554
No 360
>PRK02292 V-type ATP synthase subunit E; Provisional
Probab=27.43 E-value=5.4e+02 Score=24.36 Aligned_cols=15 Identities=20% Similarity=0.357 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHH
Q 010753 9 REKLEKEQKERKERA 23 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~ 23 (502)
.++...+-+++.++-
T Consensus 7 ~~~I~~~a~~e~~~I 21 (188)
T PRK02292 7 VEDIRDEARARASEI 21 (188)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333444444333333
No 361
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=27.39 E-value=4.7e+02 Score=28.58 Aligned_cols=21 Identities=33% Similarity=0.498 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 010753 11 KLEKEQKERKERARLKLEREK 31 (502)
Q Consensus 11 k~~~e~~~r~~~~~~~~~~e~ 31 (502)
+.++=-++..+--|.|++-|+
T Consensus 293 ~I~~VarENs~LqrQKle~e~ 313 (442)
T PF06637_consen 293 GIERVARENSDLQRQKLEAEQ 313 (442)
T ss_pred hHHHHHHhhhHHHHHHHHHHH
Confidence 333333444444444444444
No 362
>PRK11637 AmiB activator; Provisional
Probab=27.36 E-value=5.6e+02 Score=27.62 Aligned_cols=10 Identities=30% Similarity=0.375 Sum_probs=5.9
Q ss_pred CCEEEEEECC
Q 010753 221 DDVLTVNYGE 230 (502)
Q Consensus 221 Gd~I~I~~~~ 230 (502)
|-+|.|.|++
T Consensus 360 G~~vii~hg~ 369 (428)
T PRK11637 360 GLVVVVEHGK 369 (428)
T ss_pred ccEEEEEeCC
Confidence 5556666654
No 363
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=27.36 E-value=39 Score=32.43 Aligned_cols=22 Identities=27% Similarity=0.667 Sum_probs=14.4
Q ss_pred eeccccccCcccccccccCcccCccCC
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cg 463 (502)
|+|+. ||-.+-- ..-+.||.||
T Consensus 135 ~vC~v--CGy~~~g---e~P~~CPiCg 156 (166)
T COG1592 135 WVCPV--CGYTHEG---EAPEVCPICG 156 (166)
T ss_pred EEcCC--CCCcccC---CCCCcCCCCC
Confidence 77777 7765544 3446777776
No 364
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=27.33 E-value=1.7e+02 Score=33.29 Aligned_cols=40 Identities=23% Similarity=0.252 Sum_probs=19.0
Q ss_pred HHcCCcEEEEEEeeeccCCCCCCeEEeChhHHHHHHcCCCCCCCce
Q 010753 70 LLAGGGIVFYHTLEALPFQGSGDKIKLPPSCFTELSGQGAFDKGPL 115 (502)
Q Consensus 70 ~~~~~g~~~~~~~~~~~~~~~gDKIiLP~SaL~~L~~~~~~~~~Pl 115 (502)
+..+..=.|+..-. .-.+-....|+++-..|++. .|..|-
T Consensus 454 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~s~s--~de~p~ 493 (546)
T PF07888_consen 454 LDKVADEKWKEAAA----LTEDATAASPPSCPADLSDS--EDESPE 493 (546)
T ss_pred HHHhhhhhhhcccc----ccCccccccCCCCCcCCCCc--ccCCcc
Confidence 44556667765433 22333445666643334442 234554
No 365
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=27.31 E-value=5.1e+02 Score=30.01 Aligned_cols=33 Identities=27% Similarity=0.473 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 010753 38 KKQREAIEAAQRSRRLDAIDAQLKADQEMQESL 70 (502)
Q Consensus 38 ~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~ 70 (502)
.+-+...|..++++|++.++..++.+..+-+.|
T Consensus 468 ~~~~~~rei~~~~~~I~~L~~~L~e~~~~ve~L 500 (652)
T COG2433 468 DKVRKDREIRARDRRIERLEKELEEKKKRVEEL 500 (652)
T ss_pred HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666677778888888877776666655444
No 366
>PF11656 DUF3811: YjbD family (DUF3811); InterPro: IPR020317 This entry contains proteins with no known function.
Probab=27.23 E-value=2.2e+02 Score=24.59 Aligned_cols=71 Identities=20% Similarity=0.243 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCcEEEEEE
Q 010753 9 REKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQESLLAGGGIVFYHT 81 (502)
Q Consensus 9 ~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 81 (502)
-+--++|-+.+.++||.+++|+=--.|.-.-..|.|..--.+|- .++....+++..+...-.+.-++||..
T Consensus 10 Teseq~evkt~L~~aRk~~gR~LTNaE~NkiKde~i~ki~~ere--~~aKkar~ekkk~k~~ps~~TfsWSa~ 80 (87)
T PF11656_consen 10 TESEQREVKTLLDQARKNLGRELTNAEQNKIKDEIIDKIMAERE--KAAKKARAEKKKNKVKPSSATFSWSAS 80 (87)
T ss_pred hHHHHHHHHHHHHHHHHHcCCccchhhhhHHHHHHHHHHHHHHH--HHHHHHHHHHHHhccCCCccceecccC
Confidence 34456677778888888887764222222222222332222211 112222234444444446677888754
No 367
>cd06166 Sortase_D_5 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-5, represented by Clostridium perfringens CPE2315. Subfamily-5 sortases recognize a nonstandard sorting signal (LAXTG) and have replaced Sortase A in some gram-postive bacteria. They may play a housekeeping role in the cell.
Probab=27.21 E-value=91 Score=27.83 Aligned_cols=30 Identities=17% Similarity=0.274 Sum_probs=24.3
Q ss_pred hccCcccccCCEEEEEECCEEEEEEEEEEc
Q 010753 212 LRQHATLSQDDVLTVNYGELAYKLKVLELK 241 (502)
Q Consensus 212 LR~~stLT~Gd~I~I~~~~~~y~l~V~e~~ 241 (502)
+++...|.+||.|.|...+..|...|.+++
T Consensus 59 F~~L~~l~~Gd~v~v~~~~~~~~Y~V~~~~ 88 (126)
T cd06166 59 FNRLDEVEKGDEIKVTTKNGTYKYKITSIF 88 (126)
T ss_pred cCChHHCCCCCEEEEEECCEEEEEEEEEEE
Confidence 344566779999999999999999888765
No 368
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=27.14 E-value=21 Score=35.33 Aligned_cols=19 Identities=32% Similarity=0.747 Sum_probs=0.0
Q ss_pred CccCCCccChhhHHHhhhc
Q 010753 459 CDKCGQGLQRREMEKHMKV 477 (502)
Q Consensus 459 C~~Cgk~f~~s~l~kH~~i 477 (502)
|+.||+..+-+.+..||||
T Consensus 171 cPitGe~IP~~e~~eHmRi 189 (229)
T PF12230_consen 171 CPITGEMIPADEMDEHMRI 189 (229)
T ss_dssp -------------------
T ss_pred ccccccccccccccccccc
No 369
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=27.09 E-value=29 Score=26.53 Aligned_cols=11 Identities=27% Similarity=0.570 Sum_probs=5.6
Q ss_pred cccc--ccCcccc
Q 010753 411 VQCK--NCKRFIP 421 (502)
Q Consensus 411 ~~C~--nC~k~~~ 421 (502)
.-|+ +|+..+.
T Consensus 19 ~~CP~~~C~~~~~ 31 (64)
T smart00647 19 KWCPAPDCSAAII 31 (64)
T ss_pred cCCCCCCCcceEE
Confidence 3455 5555553
No 370
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=27.04 E-value=30 Score=38.16 Aligned_cols=38 Identities=26% Similarity=0.680 Sum_probs=26.0
Q ss_pred chHHhHhhhccCc-eeeccccccCcccccccc-cCc----------ccCccCC
Q 010753 423 RSIVLHEAYCSRH-SVACQHAGCGMVLRTEEA-RDH----------VHCDKCG 463 (502)
Q Consensus 423 ~~l~lHe~~C~rn-~~~C~~~~Cgk~F~k~~l-~~H----------~hC~~Cg 463 (502)
-.++.|.+ |.+. .+.||- =+|.+...+. ..| .-|++||
T Consensus 79 C~fvvHkr-ChefVtF~CPG--adkg~dtDdpr~kHkf~~~tYssPTFCDhCG 128 (683)
T KOG0696|consen 79 CCFVVHKR-CHEFVTFSCPG--ADKGPDTDDPRSKHKFKIHTYSSPTFCDHCG 128 (683)
T ss_pred Eeehhhhh-hcceEEEECCC--CCCCCCCCCcccccceeeeecCCCchhhhHH
Confidence 46889998 5554 599995 8888876222 333 2399997
No 371
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=27.03 E-value=3.2e+02 Score=24.35 Aligned_cols=9 Identities=44% Similarity=0.833 Sum_probs=4.3
Q ss_pred hhHHHHHHH
Q 010753 51 RRLDAIDAQ 59 (502)
Q Consensus 51 ~r~~~~~~~ 59 (502)
+++++++.+
T Consensus 87 ~~l~~l~~~ 95 (108)
T PF06210_consen 87 RKLDALREK 95 (108)
T ss_pred HHHHHHHHH
Confidence 355555444
No 372
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=26.90 E-value=17 Score=26.47 Aligned_cols=7 Identities=29% Similarity=1.151 Sum_probs=2.1
Q ss_pred cccccCc
Q 010753 412 QCKNCKR 418 (502)
Q Consensus 412 ~C~nC~k 418 (502)
+|++||.
T Consensus 2 ~Cp~Cg~ 8 (39)
T PF01096_consen 2 KCPKCGH 8 (39)
T ss_dssp --SSS-S
T ss_pred CCcCCCC
Confidence 3555554
No 373
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=26.88 E-value=6.2e+02 Score=28.35 Aligned_cols=13 Identities=46% Similarity=0.968 Sum_probs=6.0
Q ss_pred CcEEEEEEeeecc
Q 010753 74 GGIVFYHTLEALP 86 (502)
Q Consensus 74 ~g~~~~~~~~~~~ 86 (502)
.|+.|-....+.|
T Consensus 171 ~~~~Wv~P~D~~~ 183 (472)
T TIGR03752 171 GGVVWVEPQDALP 183 (472)
T ss_pred CceEeeccccccc
Confidence 3444544444444
No 374
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=26.69 E-value=4.3e+02 Score=23.02 Aligned_cols=37 Identities=35% Similarity=0.396 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 010753 7 RAREKLEKEQKERKERARLKLEREK-KAKEEAKKQREA 43 (502)
Q Consensus 7 ~~~~k~~~e~~~r~~~~~~~~~~e~-~~~~~a~~~~~~ 43 (502)
..++++..+-+++...||.....-. .++++|.+.++.
T Consensus 47 ~ea~~~~~e~~~~l~~a~~ea~~i~~~a~~~a~~~~~~ 84 (132)
T PF00430_consen 47 EEAEQLLAEYEEKLAEAREEAQEIIEEAKEEAEKEKEE 84 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555544443 333444333333
No 375
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=26.55 E-value=37 Score=28.27 Aligned_cols=39 Identities=18% Similarity=0.415 Sum_probs=25.2
Q ss_pred ccccccCcccc-cchHHhHhhhccCceeeccccccCccccc
Q 010753 411 VQCKNCKRFIP-SRSIVLHEAYCSRHSVACQHAGCGMVLRT 450 (502)
Q Consensus 411 ~~C~nC~k~~~-~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k 450 (502)
..|+.||..-. ..+-.++.. ..|..+.|....||..|..
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~-~~~~Y~qC~N~eCg~tF~t 41 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT-TKERYHQCQNVNCSATFIT 41 (72)
T ss_pred ccCCCCCCccEEEEChhcChh-hheeeeecCCCCCCCEEEE
Confidence 46888886653 344444544 4577788872238888876
No 376
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.48 E-value=1.2e+02 Score=30.05 Aligned_cols=13 Identities=23% Similarity=0.345 Sum_probs=5.8
Q ss_pred CCCChHHHHHHHh
Q 010753 200 ELPNQKAVLETSL 212 (502)
Q Consensus 200 di~n~KavLE~~L 212 (502)
.++-||.+|-..+
T Consensus 191 rlsQ~Kqll~Kew 203 (221)
T KOG3223|consen 191 RLSQYKQLLKKEW 203 (221)
T ss_pred cHHHHHHHHHHHH
Confidence 3444454444433
No 377
>PRK05035 electron transport complex protein RnfC; Provisional
Probab=26.45 E-value=1.7e+02 Score=34.25 Aligned_cols=10 Identities=60% Similarity=0.843 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q 010753 25 LKLEREKKAK 34 (502)
Q Consensus 25 ~~~~~e~~~~ 34 (502)
.|+|||+..|
T Consensus 460 ~R~~r~~~~~ 469 (695)
T PRK05035 460 ARLEREKAAR 469 (695)
T ss_pred HHHHHHHHHH
Confidence 3444444433
No 378
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=26.45 E-value=37 Score=27.23 Aligned_cols=13 Identities=38% Similarity=1.007 Sum_probs=11.0
Q ss_pred CcccCccCCCccC
Q 010753 455 DHVHCDKCGQGLQ 467 (502)
Q Consensus 455 ~H~hC~~Cgk~f~ 467 (502)
.|-||..||++..
T Consensus 2 ~HkHC~~CG~~Ip 14 (59)
T PF09889_consen 2 PHKHCPVCGKPIP 14 (59)
T ss_pred CCCcCCcCCCcCC
Confidence 5889999998776
No 379
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=26.40 E-value=3.2e+02 Score=30.06 Aligned_cols=11 Identities=36% Similarity=0.564 Sum_probs=4.3
Q ss_pred HHHHHHHHHHH
Q 010753 33 AKEEAKKQREA 43 (502)
Q Consensus 33 ~~~~a~~~~~~ 43 (502)
++++|.+.+++
T Consensus 76 A~~~A~~~~~~ 86 (445)
T PRK13428 76 AREDAERIAEQ 86 (445)
T ss_pred HHHHHHHHHHH
Confidence 33444333333
No 380
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=26.40 E-value=4e+02 Score=31.19 Aligned_cols=7 Identities=43% Similarity=0.392 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 010753 6 RRAREKL 12 (502)
Q Consensus 6 ~~~~~k~ 12 (502)
|.+.+|.
T Consensus 504 R~~lEkQ 510 (697)
T PF09726_consen 504 RASLEKQ 510 (697)
T ss_pred HHHHHHH
Confidence 3333333
No 381
>COG3478 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=26.34 E-value=32 Score=28.24 Aligned_cols=25 Identities=24% Similarity=0.472 Sum_probs=14.1
Q ss_pred hHHHhhhcccc---eeeec-CCc-cccccc
Q 010753 470 EMEKHMKVFHE---QCSCP-CGV-VLENAA 494 (502)
Q Consensus 470 ~l~kH~~i~Ht---p~~C~-Cg~-~f~~~~ 494 (502)
.|.+-..+.|. -.+|. ||. .|.+.+
T Consensus 26 ~lskifdvq~n~f~~itCk~CgYtEfY~a~ 55 (68)
T COG3478 26 GLSKIFDVQNNKFIVITCKNCGYTEFYSAK 55 (68)
T ss_pred CcceeEEecccEEEEEEeccCCchhheecc
Confidence 34444445453 66798 996 455443
No 382
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=26.32 E-value=33 Score=22.62 Aligned_cols=9 Identities=44% Similarity=0.814 Sum_probs=4.9
Q ss_pred cccccCccc
Q 010753 412 QCKNCKRFI 420 (502)
Q Consensus 412 ~C~nC~k~~ 420 (502)
.|++||+.+
T Consensus 4 ~Cp~Cg~~~ 12 (26)
T PF13248_consen 4 FCPNCGAEI 12 (26)
T ss_pred CCcccCCcC
Confidence 466666543
No 383
>PF06098 Radial_spoke_3: Radial spoke protein 3; InterPro: IPR009290 This family consists of several radial spoke protein 3 (RSP3) sequences. Eukaryotic cilia and flagella present in diverse types of cells perform motile, sensory, and developmental functions in organisms from protists to humans. They are centred by precisely organised, microtubule-based structures, the axonemes. The axoneme consists of two central singlet microtubules, called the central pair, and nine outer doublet microtubules. These structures are well conserved during evolution. The outer doublet microtubules, each composed of A and B sub-fibres, are connected to each other by nexin links, while the central pair is held at the centre of the axoneme by radial spokes. The radial spokes are T-shaped structures extending from the A-tubule of each outer doublet microtubule to the centre of the axoneme. Radial spoke protein 3 (RSP3), is present at the proximal end of the spoke stalk and helps in anchoring the radial spoke to the outer doublet. It is thought that radial spokes regulate the activity of inner arm dynein through protein phosphorylation and dephosphorylation [].
Probab=26.24 E-value=7e+02 Score=26.13 Aligned_cols=15 Identities=20% Similarity=0.485 Sum_probs=5.6
Q ss_pred HhhHHHHHHHHHHHH
Q 010753 50 SRRLDAIDAQLKADQ 64 (502)
Q Consensus 50 ~~r~~~~~~~~~~~~ 64 (502)
+||+++.++..++++
T Consensus 191 erR~~q~~~~~~~~~ 205 (291)
T PF06098_consen 191 ERRIKQQKERLEKEK 205 (291)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334333333333333
No 384
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=26.22 E-value=16 Score=42.52 Aligned_cols=75 Identities=25% Similarity=0.559 Sum_probs=47.1
Q ss_pred cccccCcccccccCcccccchHHhHhhhccCce-eeccccccCccccc-ccc--cCc-------ccCccCCCccC-hhhH
Q 010753 404 SSIEMDTVQCKNCKRFIPSRSIVLHEAYCSRHS-VACQHAGCGMVLRT-EEA--RDH-------VHCDKCGQGLQ-RREM 471 (502)
Q Consensus 404 ~~~~~~~~~C~nC~k~~~~~~l~lHe~~C~rn~-~~C~~~~Cgk~F~k-~~l--~~H-------~hC~~Cgk~f~-~s~l 471 (502)
..+.+|.-.|..|.+-+-..+= + -.+-| .-|.+ ||=.|.- ..+ .+. -.|+.|-+-|. +
T Consensus 62 ~~ippD~a~C~~Cl~E~~dp~~----R-ry~YpF~nCt~--CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p--- 131 (711)
T TIGR00143 62 SIIPADVATCSDCLEEMLDKND----R-RYLYPFISCTH--CGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDP--- 131 (711)
T ss_pred eecCCchhhHHHHHHHhcCCCc----c-cccCCcccccC--CCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCC---
Confidence 3567899999999998731110 0 01333 46898 9999975 222 111 35999966555 3
Q ss_pred HHhhhcccc-eeeec-CCccc
Q 010753 472 EKHMKVFHE-QCSCP-CGVVL 490 (502)
Q Consensus 472 ~kH~~i~Ht-p~~C~-Cg~~f 490 (502)
..|-||- +..|+ ||-..
T Consensus 132 --~~rr~h~~~~~C~~Cgp~l 150 (711)
T TIGR00143 132 --LDRRFHAQPIACPRCGPQL 150 (711)
T ss_pred --ccccCCCCCccCCCCCcEE
Confidence 2455564 89999 99544
No 385
>PF08782 c-SKI_SMAD_bind: c-SKI Smad4 binding domain; InterPro: IPR014890 c-SKI is an oncoprotein that inhibits TGF-beta signalling through interaction with Smad proteins []. This protein binds to Smad4 [].; GO: 0005634 nucleus; PDB: 1MR1_C.
Probab=26.15 E-value=16 Score=32.01 Aligned_cols=46 Identities=13% Similarity=0.365 Sum_probs=23.8
Q ss_pred cccCcccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCcc
Q 010753 406 IEMDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHV 457 (502)
Q Consensus 406 ~~~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~ 457 (502)
.+....+|..|+..|+-..++.|.=...+ ++.|+. .|....|..|.
T Consensus 24 ~~a~CI~C~~C~~~FsP~kFV~HsHr~~e-~~t~hw-----gfds~nWr~yL 69 (96)
T PF08782_consen 24 PNAKCIECLECRGMFSPQKFVFHSHRPQE-KRTCHW-----GFDSANWRRYL 69 (96)
T ss_dssp TT---EEETTT--EE-HHHHTT--SS----TTEEEE-----S--GGGHHHC-
T ss_pred CCCCceEcccCCCEeCCcCEEEecCCCCC-CccCCC-----ccCHhHhhHHh
Confidence 35678899999999999999999865555 556764 45555555553
No 386
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=26.15 E-value=6.7e+02 Score=25.04 Aligned_cols=9 Identities=33% Similarity=0.360 Sum_probs=3.9
Q ss_pred eChhHHHHH
Q 010753 96 LPPSCFTEL 104 (502)
Q Consensus 96 LP~SaL~~L 104 (502)
||++....|
T Consensus 160 l~~~~~~~l 168 (246)
T TIGR03321 160 LDPDEKAAL 168 (246)
T ss_pred CCHHHHHHH
Confidence 444444444
No 387
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=26.02 E-value=2.9e+02 Score=28.83 Aligned_cols=21 Identities=24% Similarity=0.444 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHhhHHHHHH
Q 010753 38 KKQREAIEAAQRSRRLDAIDA 58 (502)
Q Consensus 38 ~~~~~~~~~~~~~~r~~~~~~ 58 (502)
++|..+.++++|+|=+.++++
T Consensus 148 RrreK~e~~eaRqRV~~~Ie~ 168 (290)
T KOG2689|consen 148 RRREKAEDEEARQRVLRQIER 168 (290)
T ss_pred HHHHhhhhHHHHHHHHHHHHH
Confidence 344444666666655555543
No 388
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=26.00 E-value=15 Score=42.32 Aligned_cols=15 Identities=20% Similarity=0.576 Sum_probs=10.5
Q ss_pred cCcccCccCCCccCh
Q 010753 454 RDHVHCDKCGQGLQR 468 (502)
Q Consensus 454 ~~H~hC~~Cgk~f~~ 468 (502)
.++-.||.|+.+||.
T Consensus 676 tRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 676 TRQRKCPKCNAAFGA 690 (698)
T ss_pred HhcCCCCCCCCCCCc
Confidence 444678888888883
No 389
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=25.98 E-value=49 Score=33.88 Aligned_cols=63 Identities=22% Similarity=0.538 Sum_probs=33.3
Q ss_pred CcccccccCcccccchHHhHhhhc-cCce-eeccccccCccccc----ccc-cCcccCccCCCccC-hhhHHHhhhcccc
Q 010753 409 DTVQCKNCKRFIPSRSIVLHEAYC-SRHS-VACQHAGCGMVLRT----EEA-RDHVHCDKCGQGLQ-RREMEKHMKVFHE 480 (502)
Q Consensus 409 ~~~~C~nC~k~~~~~~l~lHe~~C-~rn~-~~C~~~~Cgk~F~k----~~l-~~H~hC~~Cgk~f~-~s~l~kH~~i~Ht 480 (502)
..|.|+.|... =.+.+ .||. -.|.. |.+.|-= .-| ..-|||+.|+..|. -.. |.+
T Consensus 111 rqFaC~~Cd~~--------WwRrvp~rKeVSRCr~--C~~rYDPVP~dkmwG~aef~C~~C~h~F~G~~q----m~v--- 173 (278)
T PF15135_consen 111 RQFACSSCDHM--------WWRRVPQRKEVSRCRK--CRKRYDPVPCDKMWGIAEFHCPKCRHNFRGFAQ----MGV--- 173 (278)
T ss_pred eeeeccccchH--------HHhccCcccccccccc--cccccCCCccccccceeeeecccccccchhhhh----cCC---
Confidence 46778888542 11212 2333 46665 7777653 111 11178888887776 211 222
Q ss_pred eeeec-CCc
Q 010753 481 QCSCP-CGV 488 (502)
Q Consensus 481 p~~C~-Cg~ 488 (502)
+-.|- |+.
T Consensus 174 ~sPCy~C~~ 182 (278)
T PF15135_consen 174 PSPCYGCGN 182 (278)
T ss_pred CCCccCCCC
Confidence 66676 764
No 390
>COG2268 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.89 E-value=4.3e+02 Score=30.09 Aligned_cols=21 Identities=24% Similarity=0.223 Sum_probs=8.8
Q ss_pred HHHHhhHHHHHHHHHHHHHHH
Q 010753 47 AQRSRRLDAIDAQLKADQEMQ 67 (502)
Q Consensus 47 ~~~~~r~~~~~~~~~~~~~~~ 67 (502)
.|++.+|+.++...+++++.+
T Consensus 398 eqe~v~i~~~~e~~~aea~a~ 418 (548)
T COG2268 398 EQEQVEIAVRAEAAKAEAEAQ 418 (548)
T ss_pred HHHHHHHHHHHHhHHHHHHHH
Confidence 344444444433333333333
No 391
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=25.85 E-value=16 Score=41.28 Aligned_cols=17 Identities=29% Similarity=0.604 Sum_probs=8.3
Q ss_pred eeccccccCcccccccccC
Q 010753 437 VACQHAGCGMVLRTEEARD 455 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~ 455 (502)
|+|.. |+.+..-.....
T Consensus 161 fkc~~--c~~vL~gey~sk 177 (670)
T KOG1044|consen 161 FKCKS--CSAVLNGEYMSK 177 (670)
T ss_pred eehhh--hcccccceeecc
Confidence 45555 555555433333
No 392
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=25.84 E-value=41 Score=36.47 Aligned_cols=33 Identities=18% Similarity=0.570 Sum_probs=20.9
Q ss_pred hccCceeeccccccCcccccccccCc--ccCccCCCc
Q 010753 431 YCSRHSVACQHAGCGMVLRTEEARDH--VHCDKCGQG 465 (502)
Q Consensus 431 ~C~rn~~~C~~~~Cgk~F~k~~l~~H--~hC~~Cgk~ 465 (502)
+-..+-..|++ ||-+.....+..+ .+|+.||-.
T Consensus 8 ~~~~~~~~C~~--Cd~l~~~~~l~~g~~a~CpRCg~~ 42 (403)
T TIGR00155 8 HPAAKHILCSQ--CDMLVALPRIESGQKAACPRCGTT 42 (403)
T ss_pred CCCCCeeeCCC--CCCcccccCCCCCCeeECCCCCCC
Confidence 33444456887 8888777555444 578888743
No 393
>TIGR01461 greB transcription elongation factor GreB. The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB.
Probab=25.81 E-value=3.2e+02 Score=25.74 Aligned_cols=42 Identities=19% Similarity=0.301 Sum_probs=28.4
Q ss_pred EEEEEeeeeeCCCceeccHHHHHhcCCCCCCCCceEEEEEEecCCcc
Q 010753 141 THSGVLEFTADEGFVGLPPHVWRNLFPSDTPNNSFVEVRYVRLPKGT 187 (502)
Q Consensus 141 th~GVlEFsA~EG~v~LP~wm~~~L~~~~~~~~~~V~v~~~~LPkGt 187 (502)
+.+|..|.....|.|-.-..+-++|.... .|+.|.| .+|.|+
T Consensus 103 ~iVgp~ead~~~~~IS~~SPlG~ALlGk~--~GD~v~v---~~p~g~ 144 (156)
T TIGR01461 103 RIVGYDEIDGRKNYISIDSPLARALLKKE--VGDEVVV---NTPAGE 144 (156)
T ss_pred EEEChHHhCcCCCeECCCCHHHHHHcCCC--CCCEEEE---EcCCCc
Confidence 34555665566677777777888885432 5788776 579986
No 394
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=25.80 E-value=25 Score=38.34 Aligned_cols=38 Identities=24% Similarity=0.559 Sum_probs=24.4
Q ss_pred ccCcccccccCccccc-chHHhHhhhccCceeeccccccCccc
Q 010753 407 EMDTVQCKNCKRFIPS-RSIVLHEAYCSRHSVACQHAGCGMVL 448 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~~-~~l~lHe~~C~rn~~~C~~~~Cgk~F 448 (502)
+...|.|++|.+.|.. ..+.|-.. .+--|.|.. ||--.
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L~~~--~~~~F~C~~--C~gel 163 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQLLDN--ETGEFHCEN--CGGEL 163 (436)
T ss_pred ccccccCCccccchhhhHHHHhhcc--cCceEEEec--CCCch
Confidence 5678999999999974 33333332 123478887 87444
No 395
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=25.70 E-value=39 Score=34.65 Aligned_cols=24 Identities=29% Similarity=0.771 Sum_probs=15.3
Q ss_pred eeccccccCcccccccccCcccCccCCCccC
Q 010753 437 VACQHAGCGMVLRTEEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~ 467 (502)
+.|++ ||-+-. .-+|+||.|| +|+
T Consensus 355 ~~c~~--cg~~~~----~~~~~c~~c~-~~~ 378 (389)
T PRK11788 355 YRCRN--CGFTAR----TLYWHCPSCK-AWE 378 (389)
T ss_pred EECCC--CCCCCc----cceeECcCCC-Ccc
Confidence 66777 774331 2237899995 776
No 396
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=25.68 E-value=35 Score=35.41 Aligned_cols=32 Identities=19% Similarity=0.610 Sum_probs=23.0
Q ss_pred cccccccCcccccchHHhHhhhccCceeeccccccCccccc
Q 010753 410 TVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRT 450 (502)
Q Consensus 410 ~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k 450 (502)
-.+|+.|++.+-..-| ..|.++||. ||.-|+-
T Consensus 28 w~KCp~c~~~~y~~eL-------~~n~~vcp~--c~~h~ri 59 (294)
T COG0777 28 WTKCPSCGEMLYRKEL-------ESNLKVCPK--CGHHMRI 59 (294)
T ss_pred eeECCCccceeeHHHH-------Hhhhhcccc--cCccccc
Confidence 4679999987644333 356679998 9988774
No 397
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=25.68 E-value=28 Score=31.22 Aligned_cols=27 Identities=26% Similarity=0.701 Sum_probs=18.2
Q ss_pred ceeeccccccCcccccccccCcccCccCCC
Q 010753 435 HSVACQHAGCGMVLRTEEARDHVHCDKCGQ 464 (502)
Q Consensus 435 n~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk 464 (502)
=...|+. ||..|..... ...+||.||.
T Consensus 70 ~~~~C~~--Cg~~~~~~~~-~~~~CP~Cgs 96 (117)
T PRK00564 70 VELECKD--CSHVFKPNAL-DYGVCEKCHS 96 (117)
T ss_pred CEEEhhh--CCCccccCCc-cCCcCcCCCC
Confidence 3478998 9988865321 1246999983
No 398
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=25.58 E-value=30 Score=33.54 Aligned_cols=13 Identities=23% Similarity=0.419 Sum_probs=6.3
Q ss_pred cCcccccccCccc
Q 010753 408 MDTVQCKNCKRFI 420 (502)
Q Consensus 408 ~~~~~C~nC~k~~ 420 (502)
...|.|++|.=.+
T Consensus 111 ~~~y~C~~~~~r~ 123 (176)
T COG1675 111 NNYYVCPNCHVKY 123 (176)
T ss_pred CCceeCCCCCCcc
Confidence 3445555554443
No 399
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=25.51 E-value=51 Score=23.28 Aligned_cols=6 Identities=50% Similarity=1.519 Sum_probs=3.1
Q ss_pred cCccCC
Q 010753 458 HCDKCG 463 (502)
Q Consensus 458 hC~~Cg 463 (502)
.|+.||
T Consensus 20 ~CP~Cg 25 (34)
T cd00729 20 KCPICG 25 (34)
T ss_pred cCcCCC
Confidence 455554
No 400
>PF12037 DUF3523: Domain of unknown function (DUF3523); InterPro: IPR021911 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 257 to 277 amino acids in length. This domain is found associated with PF00004 from PFAM. This domain has a conserved LER sequence motif.
Probab=25.34 E-value=7.4e+02 Score=25.82 Aligned_cols=69 Identities=26% Similarity=0.322 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHhhHHHHHHHHHHHHHHHHHHHc
Q 010753 4 ELRRAREKLEKEQKERKERARLKLEREKKAKEEAKKQRE-----------AIEAAQRSRRLDAIDAQLKADQEMQESLLA 72 (502)
Q Consensus 4 ~l~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~-----------~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~ 72 (502)
+|.+-+-.-+-++++++...-+|.+.|...|.|+.++.= ..+++.-+|.-+...+..+++-+..++..+
T Consensus 114 ~LaRkR~~~e~~~qr~~n~e~lk~QEes~~rqE~~Rr~Te~~i~~~r~~t~~~eaeL~~e~~~~k~~AEa~gra~~eReN 193 (276)
T PF12037_consen 114 ELARKRYQDELEQQRRRNEELLKMQEESVIRQEQMRRATEEQILAQRRQTEEEEAELRRETERAKAEAEAEGRAKEEREN 193 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
No 401
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=25.30 E-value=4.6e+02 Score=25.43 Aligned_cols=21 Identities=19% Similarity=0.368 Sum_probs=8.5
Q ss_pred HHHhhHHHHHHHHHHHHHHHH
Q 010753 48 QRSRRLDAIDAQLKADQEMQE 68 (502)
Q Consensus 48 ~~~~r~~~~~~~~~~~~~~~~ 68 (502)
.|++.|+.++...+.-.+.++
T Consensus 104 eR~~~l~~l~~l~~~~~~l~~ 124 (188)
T PF03962_consen 104 EREELLEELEELKKELKELKK 124 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444333333333
No 402
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.17 E-value=30 Score=35.04 Aligned_cols=15 Identities=13% Similarity=0.702 Sum_probs=9.2
Q ss_pred CceeeccccccCccccc
Q 010753 434 RHSVACQHAGCGMVLRT 450 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k 450 (502)
.+-+.||. |+-+|++
T Consensus 17 kk~ieCPv--C~tkFkk 31 (267)
T COG1655 17 KKTIECPV--CNTKFKK 31 (267)
T ss_pred hceeccCc--ccchhhh
Confidence 34456666 6666665
No 403
>PRK07720 fliJ flagellar biosynthesis chaperone; Validated
Probab=24.80 E-value=5.3e+02 Score=23.39 Aligned_cols=56 Identities=11% Similarity=0.083 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 010753 15 EQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQESL 70 (502)
Q Consensus 15 e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~ 70 (502)
.|++.-..++...+.-|..=.+|.+.+..+|...--++.+....+.+.+|++--++
T Consensus 82 ~q~~~v~~~~~~ve~~r~~~~ea~~~~k~~ekLker~~~~~~~~e~r~EQk~~DE~ 137 (146)
T PRK07720 82 HYQLLVMQAREQMNRKQQDLTEKNIEVKKYEKMKEKKQEMFALEEKAAEMKEMDEI 137 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666777777777666777777777777655555555555556665554443
No 404
>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification. ; InterPro: IPR019759 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....
Probab=24.40 E-value=3.3e+02 Score=20.89 Aligned_cols=47 Identities=13% Similarity=0.226 Sum_probs=29.6
Q ss_pred ecCCcceEEEeeccCCCCCCCChHHHHHHHhccCcccccCCEEEEEECCEE-EEEEEEEEcCCCceEEE
Q 010753 182 RLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQHATLSQDDVLTVNYGELA-YKLKVLELKPSSSVSVL 249 (502)
Q Consensus 182 ~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~~stLT~Gd~I~I~~~~~~-y~l~V~e~~P~~aVsIi 249 (502)
.++.|.+|-+.|.. .+..||++.+...+.. +.++-....|.+.+-+.
T Consensus 10 ~i~~Gd~v~v~~~~---------------------~~~~gdivv~~~~~~~~~~iKrv~~~~~~~~~~~ 57 (70)
T PF00717_consen 10 TIKDGDIVLVDPSS---------------------EPKDGDIVVVKIDGDEELYIKRVVGEPGGIILIS 57 (70)
T ss_dssp TSSTTEEEEEEETS------------------------TTSEEEEEETTEESEEEEEEEEETTEEEEE-
T ss_pred CeeCCCEEEEEEcC---------------------CCccCeEEEEEECCceeeEEEEEEEeCCCEEEEe
Confidence 35667777777654 6778999999998876 65655555666555443
No 405
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=24.38 E-value=3.8e+02 Score=25.25 Aligned_cols=44 Identities=20% Similarity=0.303 Sum_probs=31.5
Q ss_pred eEEEEEeeeeeCCCceeccHHHHHhcCCCCCCCCceEEEEEEecCCcce
Q 010753 140 STHSGVLEFTADEGFVGLPPHVWRNLFPSDTPNNSFVEVRYVRLPKGTY 188 (502)
Q Consensus 140 ~th~GVlEFsA~EG~v~LP~wm~~~L~~~~~~~~~~V~v~~~~LPkGt~ 188 (502)
.+.+|..|.....|.|-+-..|-++|.... .|+.|.| .+|.|++
T Consensus 104 ~~iVgp~e~d~~~~~IS~~SPlG~ALlGk~--vGd~v~v---~~p~g~~ 147 (157)
T PRK01885 104 FRIVGPDEIDGRKGYISIDSPMARALLKKE--VGDEVTV---NTPAGEA 147 (157)
T ss_pred EEEEChHHhCcCCCeEeccCHHHHHHhCCC--CCCEEEE---EcCCCcE
Confidence 445677776677788888888888885432 5777765 5888864
No 406
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=24.32 E-value=23 Score=40.07 Aligned_cols=44 Identities=30% Similarity=0.680 Sum_probs=29.7
Q ss_pred cCccccc--------ccccCc-c--------cCccCCCccC-hhhHHHhhhcccc----eeeec-CCccccccc
Q 010753 444 CGMVLRT--------EEARDH-V--------HCDKCGQGLQ-RREMEKHMKVFHE----QCSCP-CGVVLENAA 494 (502)
Q Consensus 444 Cgk~F~k--------~~l~~H-~--------hC~~Cgk~f~-~s~l~kH~~i~Ht----p~~C~-Cg~~f~~~~ 494 (502)
|.-.|+- +.+.+| | .|.+|||+|. +- .||+ -..|. |-.+|-.+-
T Consensus 224 CKptFRe~gsr~~rE~~fvrHHWVHrrRqeGkC~~CgKgFQQKf-------~FhsKEivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 224 CKPTFREYGSRKTRESGFVRHHWVHRRRQEGKCNTCGKGFQQKF-------FFHSKEIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred cccchhhccccCcccccchHHhHhhHhhhccccchhhhhhhhhe-------eeccccEEEEEehHHHHHhhcch
Confidence 6567763 456666 4 4999999998 32 3343 78899 987776543
No 407
>TIGR01147 V_ATP_synt_G vacuolar ATP synthase, subunit G. This model describes the vacuolar ATP synthase G subunit in eukaryotes and includes members from diverse groups e.g., fungi, plants, parasites etc. V-ATPases are multi-subunit enzymes composed of two functional domains: A transmembrane Vo domain and a peripheral catalytic domain V1. The G subunit is one of the subunits of the catalytic domain. V-ATPases are responsible for the acidification of endosomes and lysosomes, which are part of the central vacuolar system.
Probab=24.25 E-value=4.3e+02 Score=23.86 Aligned_cols=22 Identities=14% Similarity=0.327 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 010753 12 LEKEQKERKERARLKLEREKKA 33 (502)
Q Consensus 12 ~~~e~~~r~~~~~~~~~~e~~~ 33 (502)
|++|++...=-.+.|..|-++.
T Consensus 12 L~AE~eA~~IV~~AR~~r~~RL 33 (113)
T TIGR01147 12 LQAEKRAAEKVSEARKRKTKRL 33 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444433333333333333
No 408
>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]
Probab=24.14 E-value=4.8e+02 Score=28.66 Aligned_cols=10 Identities=20% Similarity=0.398 Sum_probs=8.2
Q ss_pred CCceEEEEEe
Q 010753 112 KGPLHFKLSV 121 (502)
Q Consensus 112 ~~Pl~F~l~n 121 (502)
..|--|+++.
T Consensus 326 nR~aal~l~~ 335 (499)
T COG4372 326 NRPAALRLRR 335 (499)
T ss_pred CCCcceeeec
Confidence 4788899987
No 409
>PRK13452 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=24.08 E-value=2e+02 Score=26.84 Aligned_cols=9 Identities=11% Similarity=0.386 Sum_probs=5.5
Q ss_pred HcCCcEEEE
Q 010753 71 LAGGGIVFY 79 (502)
Q Consensus 71 ~~~~g~~~~ 79 (502)
....|+.||
T Consensus 134 ~~~~~~~~~ 142 (145)
T PRK13452 134 NSSNGLYYS 142 (145)
T ss_pred hhcCCceec
Confidence 445677665
No 410
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=24.05 E-value=4.8e+02 Score=23.23 Aligned_cols=11 Identities=9% Similarity=0.105 Sum_probs=5.0
Q ss_pred HHHHhhHHHHH
Q 010753 47 AQRSRRLDAID 57 (502)
Q Consensus 47 ~~~~~r~~~~~ 57 (502)
...|+||--.|
T Consensus 77 ~~~~q~Lm~rQ 87 (121)
T PF10669_consen 77 MNKQQSLMNRQ 87 (121)
T ss_pred hhHHHHHHHHH
Confidence 34455553333
No 411
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=23.86 E-value=29 Score=30.96 Aligned_cols=28 Identities=14% Similarity=0.387 Sum_probs=19.2
Q ss_pred CceeeccccccCcccccccccCcccCccCCC
Q 010753 434 RHSVACQHAGCGMVLRTEEARDHVHCDKCGQ 464 (502)
Q Consensus 434 rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk 464 (502)
.=...|+. ||..|....+ .++.||.||.
T Consensus 68 p~~~~C~~--Cg~~~~~~~~-~~~~CP~Cgs 95 (114)
T PRK03681 68 EAECWCET--CQQYVTLLTQ-RVRRCPQCHG 95 (114)
T ss_pred CcEEEccc--CCCeeecCCc-cCCcCcCcCC
Confidence 33478998 9988866322 1267999983
No 412
>KOG2963 consensus RNA-binding protein required for 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=23.63 E-value=2.1e+02 Score=30.79 Aligned_cols=6 Identities=17% Similarity=0.401 Sum_probs=2.4
Q ss_pred HHHHhh
Q 010753 47 AQRSRR 52 (502)
Q Consensus 47 ~~~~~r 52 (502)
++.+||
T Consensus 344 env~Rk 349 (405)
T KOG2963|consen 344 ENVARK 349 (405)
T ss_pred HHHHHH
Confidence 334444
No 413
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the TIGR01479 GMP_PMI mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase. This enzyme is known to be bifunctional, as both mannose-6-phosphate isomerase (EC 5.3.1.8) (PMI) and mannose-1-phosphate guanylyltransferase (EC 2.7.7.22) in Pseudomonas aeruginosa, Xanthomonas campestris, and Gluconacetobacter xylinus. The literature on the enzyme from E. coli attributes mannose-6-phosphate isomerase activity to an adjacent gene, but the present sequence has not been shown to lack the activity. The PMI domain is C-terminal.
Probab=23.51 E-value=3.6e+02 Score=29.67 Aligned_cols=90 Identities=20% Similarity=0.279 Sum_probs=58.3
Q ss_pred ceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhcc-CcccccCCEEEEEECC-EEEE-EEEEEEcCCCceEEEc
Q 010753 174 SFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQ-HATLSQDDVLTVNYGE-LAYK-LKVLELKPSSSVSVLE 250 (502)
Q Consensus 174 ~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~-~stLT~Gd~I~I~~~~-~~y~-l~V~e~~P~~aVsIid 250 (502)
+.|.|.|.-+.|+.-|..-|.+.++.|+-+|.++++..=.+ ......|+++.+.-.+ ..|. -+++-+---+.+-||+
T Consensus 244 ~~iSiDyavmEk~~~v~vv~~~~~W~DvGsw~~l~~~~~~d~~~n~~~~~~~~~~~~~~~v~~~~~~v~~~G~~~~ivv~ 323 (468)
T TIGR01479 244 PSESIDYAVMEKTADAVVVPMDAGWSDVGSWSALWEISDKDADGNVLKGDVLTHDTKNSYIYSESRLVAVVGVEDLVVVE 323 (468)
T ss_pred cCCCeeeeeeEcCCcEEEEeCCCCccccCCHHHHHHhhcccccCCeecCcEEEEeCCCCEEEcCCcEEEEECCcceEEEE
Confidence 45778899999999999999999999999999998865442 1222267777665433 2220 0111111114667778
Q ss_pred CceEEeccCCCCC
Q 010753 251 TDIEVDIVSPDDM 263 (502)
Q Consensus 251 TDleVD~~~~~~~ 263 (502)
|+=.+=+++-+..
T Consensus 324 t~d~~lv~~~~~~ 336 (468)
T TIGR01479 324 TKDAVLVAHKDRV 336 (468)
T ss_pred cCCeEEEechHHh
Confidence 8766666665443
No 415
>PF11875 DUF3395: Domain of unknown function (DUF3395); InterPro: IPR024586 Chaperone DnaJ was originally characterised from Escherichia coli as a 41 kDa heat shock protein. DnaJ has a modular structure consisting of a J-domain, a proximal G/F-domain, and a distal zinc finger domain, followed by less conserved C-terminal sequences. Since then, a large number of DnaJ-related proteins containing a J-domain have been characterised from a variety of different organisms. In the genome of Arabidopsis thaliana a total of 89 J-domain proteins have been identified []. This entry represents a C-terminal domain found in some eukaryotic DnaJ-like proteins, including member 11 from the subfamily C1 and protein DnaJ 13 from Arabidopsis. This domain is typically between 147 to 176 amino acids in length.
Probab=23.50 E-value=2.9e+02 Score=25.92 Aligned_cols=10 Identities=20% Similarity=0.102 Sum_probs=6.6
Q ss_pred CCceEEEEEe
Q 010753 112 KGPLHFKLSV 121 (502)
Q Consensus 112 ~~Pl~F~l~n 121 (502)
.-||.|.+.+
T Consensus 88 TipLq~lV~d 97 (151)
T PF11875_consen 88 TIPLQALVKD 97 (151)
T ss_pred hhhhhhEeec
Confidence 3577777755
No 416
>KOG2880 consensus SMAD6 interacting protein AMSH, contains JAB/MPN/Mov34 domain [Signal transduction mechanisms]
Probab=23.35 E-value=4.6e+02 Score=28.51 Aligned_cols=25 Identities=32% Similarity=0.352 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 4 ELRRAREKLEKEQKERKERARLKLE 28 (502)
Q Consensus 4 ~l~~~~~k~~~e~~~r~~~~~~~~~ 28 (502)
|+..-+.||+.|--.|.+.++.++-
T Consensus 81 ek~d~~~klk~~~~p~~deL~~~ll 105 (424)
T KOG2880|consen 81 EKEDIRKKLKEEAFPRIDELKAKLL 105 (424)
T ss_pred hHHHHHHHHHHHhhhhHHHHHHHHH
Confidence 4455667777777777777776653
No 417
>PRK11347 antitoxin ChpS; Provisional
Probab=23.35 E-value=3.2e+02 Score=23.12 Aligned_cols=48 Identities=21% Similarity=0.165 Sum_probs=35.4
Q ss_pred ceeccHHHHHhcCCCCCCCCceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhccCc
Q 010753 154 FVGLPPHVWRNLFPSDTPNNSFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQHA 216 (502)
Q Consensus 154 ~v~LP~wm~~~L~~~~~~~~~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~~s 216 (502)
-|-||.-+++.|++. .++.|.|... +..+.|+|....| -||.-|..|+
T Consensus 13 ~vriPk~il~~l~l~---~G~~v~i~v~----~~~iii~p~~~~~--------tL~eLla~~~ 60 (83)
T PRK11347 13 GMVIPNIVMKELNLQ---PGQSVEAQVS----NNQLILTPISRRY--------SLDELLAQCD 60 (83)
T ss_pred eEEeCHHHHHHcCCC---CCCEEEEEEE----CCEEEEEECCCCC--------CHHHHHhcCC
Confidence 478999999999998 5778877654 3458899985443 3777776654
No 418
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=23.31 E-value=18 Score=28.92 Aligned_cols=22 Identities=32% Similarity=0.739 Sum_probs=15.3
Q ss_pred cCceeeccccccCccccc-ccccCc
Q 010753 433 SRHSVACQHAGCGMVLRT-EEARDH 456 (502)
Q Consensus 433 ~rn~~~C~~~~Cgk~F~k-~~l~~H 456 (502)
++-...||. ||++|+. .+..+|
T Consensus 14 GE~~lrCPR--C~~~FR~~K~Y~RH 36 (65)
T COG4049 14 GEEFLRCPR--CGMVFRRRKDYIRH 36 (65)
T ss_pred CceeeeCCc--hhHHHHHhHHHHHH
Confidence 455577887 8888876 666666
No 419
>KOG3231 consensus Predicted assembly/vacuolar sorting protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.22 E-value=3.8e+02 Score=26.10 Aligned_cols=33 Identities=24% Similarity=0.454 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010753 10 EKLEKEQKERKERARLKLEREKKAKEEAKKQRE 42 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~ 42 (502)
..+.||++.....+.+-||++|++-++..|+.|
T Consensus 10 ke~~ren~ReLRkt~RdierdRr~me~~Ek~LE 42 (208)
T KOG3231|consen 10 KEVIRENNRELRKTQRDIERDRRAMEKQEKQLE 42 (208)
T ss_pred HHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 357788888888888889999888666555544
No 420
>PRK09335 30S ribosomal protein S26e; Provisional
Probab=23.21 E-value=37 Score=29.79 Aligned_cols=15 Identities=47% Similarity=0.979 Sum_probs=13.1
Q ss_pred cCcccccccCccccc
Q 010753 408 MDTVQCKNCKRFIPS 422 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~ 422 (502)
..+.+|+|||+.+|+
T Consensus 18 v~~V~C~nCgr~vPK 32 (95)
T PRK09335 18 VGYVQCDNCGRRVPR 32 (95)
T ss_pred CccEEeCCCCCcCcC
Confidence 568899999999984
No 421
>PLN00186 ribosomal protein S26; Provisional
Probab=23.20 E-value=36 Score=30.51 Aligned_cols=16 Identities=25% Similarity=0.945 Sum_probs=13.5
Q ss_pred ccCcccccccCccccc
Q 010753 407 EMDTVQCKNCKRFIPS 422 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~~ 422 (502)
..+.+.|+|||+.+|+
T Consensus 17 hv~~V~C~nCgr~vPK 32 (109)
T PLN00186 17 HVKRIRCSNCGKCVPK 32 (109)
T ss_pred CCcceeeCCCcccccc
Confidence 3678899999999984
No 422
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=23.14 E-value=6.7e+02 Score=29.05 Aligned_cols=27 Identities=22% Similarity=0.528 Sum_probs=19.7
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHcCCc
Q 010753 49 RSRRLDAIDAQLKADQEMQESLLAGGG 75 (502)
Q Consensus 49 ~~~r~~~~~~~~~~~~~~~~~~~~~~g 75 (502)
..+++++++.....-++|..-...|.|
T Consensus 493 ~~~~ve~L~~~l~~l~k~~~lE~sG~g 519 (652)
T COG2433 493 KKKRVEELERKLAELRKMRKLELSGKG 519 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhcCCC
Confidence 345777777777777777777777777
No 423
>PF15402 Spc7_N: N-terminus of kinetochore NMS complex subunit Spc7
Probab=23.08 E-value=1.1e+02 Score=36.72 Aligned_cols=20 Identities=30% Similarity=0.333 Sum_probs=13.2
Q ss_pred CChHHHHHHHhccC--cccccC
Q 010753 202 PNQKAVLETSLRQH--ATLSQD 221 (502)
Q Consensus 202 ~n~KavLE~~LR~~--stLT~G 221 (502)
.+=-+-|+.+||.= ..=|+|
T Consensus 335 t~sS~~LdeaLR~AAr~AGTq~ 356 (927)
T PF15402_consen 335 TSSSARLDEALRQAARRAGTQG 356 (927)
T ss_pred CcchhHHHHHHHHHHHHhhhcc
Confidence 44557799999963 355554
No 424
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=23.02 E-value=17 Score=42.13 Aligned_cols=23 Identities=26% Similarity=0.546 Sum_probs=20.3
Q ss_pred cccCccCCCccC-hhhHHHhhhcc
Q 010753 456 HVHCDKCGQGLQ-RREMEKHMKVF 478 (502)
Q Consensus 456 H~hC~~Cgk~f~-~s~l~kH~~i~ 478 (502)
-|||..|+|.|- -.+++.||+.|
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHH
Confidence 389999999998 78899999983
No 425
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=22.92 E-value=47 Score=25.61 Aligned_cols=7 Identities=29% Similarity=0.895 Sum_probs=4.3
Q ss_pred cccccCc
Q 010753 412 QCKNCKR 418 (502)
Q Consensus 412 ~C~nC~k 418 (502)
.|++||.
T Consensus 22 fCP~Cg~ 28 (50)
T PRK00432 22 FCPRCGS 28 (50)
T ss_pred cCcCCCc
Confidence 5666664
No 426
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=22.90 E-value=23 Score=40.03 Aligned_cols=70 Identities=24% Similarity=0.679 Sum_probs=48.2
Q ss_pred cCcccccccCcccccchHHhHhh-hccCce-----eeccccccCccccc---ccccCccc-----CccCCCccC-hhhH-
Q 010753 408 MDTVQCKNCKRFIPSRSIVLHEA-YCSRHS-----VACQHAGCGMVLRT---EEARDHVH-----CDKCGQGLQ-RREM- 471 (502)
Q Consensus 408 ~~~~~C~nC~k~~~~~~l~lHe~-~C~rn~-----~~C~~~~Cgk~F~k---~~l~~H~h-----C~~Cgk~f~-~s~l- 471 (502)
.-.+.|+.|+....-..|..|-. +|.+.. ++|-. |.+-+.- ..=..||| |..||+-|+ -..|
T Consensus 158 v~cfkc~~c~~vL~gey~skdg~pyce~dy~~~fgvkc~~--c~~fisgkvLqag~kh~HPtCARCsRCgqmF~eGEEMY 235 (670)
T KOG1044|consen 158 VSCFKCKSCSAVLNGEYMSKDGVPYCEKDYQAKFGVKCEE--CEKFISGKVLQAGDKHFHPTCARCSRCGQMFGEGEEMY 235 (670)
T ss_pred eeeeehhhhcccccceeeccCCCcchhhhhhhhcCeehHH--hhhhhhhhhhhccCcccCcchhhhhhhccccccchhee
Confidence 45788999998887777777776 776544 78887 8777664 22237777 899999998 3332
Q ss_pred HHhhhccc
Q 010753 472 EKHMKVFH 479 (502)
Q Consensus 472 ~kH~~i~H 479 (502)
.+=..|+|
T Consensus 236 lQGs~iWH 243 (670)
T KOG1044|consen 236 LQGSEIWH 243 (670)
T ss_pred eccccccC
Confidence 34445666
No 427
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=22.89 E-value=60 Score=32.96 Aligned_cols=48 Identities=17% Similarity=0.387 Sum_probs=37.8
Q ss_pred CcccccccCcccc-cchHHhHhh---hccC--ceeeccccccCccccc-ccccCc
Q 010753 409 DTVQCKNCKRFIP-SRSIVLHEA---YCSR--HSVACQHAGCGMVLRT-EEARDH 456 (502)
Q Consensus 409 ~~~~C~nC~k~~~-~~~l~lHe~---~C~r--n~~~C~~~~Cgk~F~k-~~l~~H 456 (502)
....|..|...|. ...+..|.. |-++ +++.|+.-.|++.|.+ ..+..|
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~ 342 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRH 342 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCC
Confidence 4688999999997 477777777 6688 8999993229999998 666666
No 428
>PRK15460 cpsB mannose-1-phosphate guanyltransferase; Provisional
Probab=22.89 E-value=2.7e+02 Score=31.01 Aligned_cols=91 Identities=15% Similarity=0.228 Sum_probs=60.6
Q ss_pred ceEEEEEEecCCcceEEEeeccCCCCCCCChHHHHHHHhcc-CcccccCCEEEEEECC-EEE-EEEEEEEcCCCceEEEc
Q 010753 174 SFVEVRYVRLPKGTYAKLQPEGIGFAELPNQKAVLETSLRQ-HATLSQDDVLTVNYGE-LAY-KLKVLELKPSSSVSVLE 250 (502)
Q Consensus 174 ~~V~v~~~~LPkGt~vkLqP~~~~f~di~n~KavLE~~LR~-~stLT~Gd~I~I~~~~-~~y-~l~V~e~~P~~aVsIid 250 (502)
+.|.|.|.-+.|..-|..-|.+.++.|+-+|.++.|-.=.+ .-....|+++.+.-.| ..| .-+++-+-.-+.+.||+
T Consensus 253 ~~iSiDyavmEk~~~v~vvp~~f~WsDvGsW~sl~~~~~~d~~gn~~~g~~~~~~~~n~~v~~~~~~va~iGv~d~ivV~ 332 (478)
T PRK15460 253 PEESVDYAVMERTADAVVVPMDAGWSDVGSWSSLWEISAHTAEGNVCHGDVINHKTENSYVYAESGLVTTVGVKDLVVVQ 332 (478)
T ss_pred cCcchhhhhhcccCceEEEecCCCccccCCHHHHHHhhccccCCCeecccEEEEeCcCCEEEeCCCEEEEECCcCEEEEE
Confidence 45678888899999999999999999999999998865442 1122267877775433 222 00222233334677888
Q ss_pred CceEEeccCCCCCC
Q 010753 251 TDIEVDIVSPDDMS 264 (502)
Q Consensus 251 TDleVD~~~~~~~~ 264 (502)
|+=.+=+++-+..+
T Consensus 333 t~DalLV~~k~~~q 346 (478)
T PRK15460 333 TKDAVLIADRNAVQ 346 (478)
T ss_pred cCCcEEEechhhhh
Confidence 88777666665443
No 429
>PF11822 DUF3342: Domain of unknown function (DUF3342); InterPro: IPR021777 This family of proteins are functionally uncharacterised. This family is found in bacteria. This presumed domain is typically between 170 to 303 amino acids in length. The N-terminal half of this family is a BTB-like domain.
Probab=22.85 E-value=48 Score=35.02 Aligned_cols=23 Identities=26% Similarity=0.586 Sum_probs=19.7
Q ss_pred cCccCCCccChhhHHHhhhcccc
Q 010753 458 HCDKCGQGLQRREMEKHMKVFHE 480 (502)
Q Consensus 458 hC~~Cgk~f~~s~l~kH~~i~Ht 480 (502)
+|..|++.|.-..+.+|...+|+
T Consensus 263 ~CsrC~q~F~~~el~~~~C~yHp 285 (317)
T PF11822_consen 263 YCSRCNQVFPCSELSTHHCRYHP 285 (317)
T ss_pred ECccCCcEeeHHHcccccccCCC
Confidence 69999999998888888777785
No 430
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=22.74 E-value=38 Score=24.32 Aligned_cols=10 Identities=30% Similarity=1.036 Sum_probs=6.2
Q ss_pred ccCccCCCcc
Q 010753 457 VHCDKCGQGL 466 (502)
Q Consensus 457 ~hC~~Cgk~f 466 (502)
|.|++||+.+
T Consensus 33 ~~C~~CGE~~ 42 (46)
T TIGR03831 33 LVCPQCGEEY 42 (46)
T ss_pred cccccCCCEe
Confidence 5677776554
No 431
>PF07321 YscO: Type III secretion protein YscO; InterPro: IPR009929 This family contains the bacterial type III secretion protein YscO, which is approximately 150 residues long. YscO has been shown to be required for high-level expression and secretion of the anti-host proteins V antigen and Yops in Yersinia pestis [].
Probab=22.71 E-value=6.6e+02 Score=23.75 Aligned_cols=47 Identities=21% Similarity=0.315 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 010753 23 ARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQES 69 (502)
Q Consensus 23 ~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~ 69 (502)
++.+++.-++.-..|.++.+.+.+..++.+-++.+..+..+.+.+|+
T Consensus 100 e~~~l~~a~~~~~~a~r~~eKf~eL~~~~~~e~~~~~e~~Ee~E~EE 146 (152)
T PF07321_consen 100 ERQALEEARKQLQQARRQQEKFAELAEQEQAEARQQREYQEEQEQEE 146 (152)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333344444556666666666666555555544444444444
No 432
>KOG2963 consensus RNA-binding protein required for 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=22.43 E-value=2.7e+02 Score=30.00 Aligned_cols=15 Identities=20% Similarity=0.377 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHH
Q 010753 23 ARLKLEREKKAKEEA 37 (502)
Q Consensus 23 ~~~~~~~e~~~~~~a 37 (502)
++++.-+|+++||.+
T Consensus 329 ekk~~lKeqRkkeQ~ 343 (405)
T KOG2963|consen 329 EKKRRLKEQRKKEQE 343 (405)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333444444444444
No 433
>PF10636 hemP: Hemin uptake protein hemP; InterPro: IPR019600 This entry represents bacterial proteins that are involved in the uptake of the iron source hemin []. ; PDB: 2JRA_B 2LOJ_A.
Probab=22.40 E-value=1.7e+02 Score=21.55 Aligned_cols=22 Identities=14% Similarity=0.388 Sum_probs=18.2
Q ss_pred cccCCEEEEEECCEEEEEEEEE
Q 010753 218 LSQDDVLTVNYGELAYKLKVLE 239 (502)
Q Consensus 218 LT~Gd~I~I~~~~~~y~l~V~e 239 (502)
+--+..|.|.|++..|.|.+..
T Consensus 9 ~~~~~ev~I~H~g~~Y~LR~Tr 30 (38)
T PF10636_consen 9 FGGGREVRIEHGGQIYRLRITR 30 (38)
T ss_dssp TTTTSEEEEEETTEEEEEEEET
T ss_pred hCCCCEEEEEeCCeEEEeeEcc
Confidence 3456789999999999998864
No 434
>PTZ00172 40S ribosomal protein S26; Provisional
Probab=22.34 E-value=38 Score=30.34 Aligned_cols=16 Identities=38% Similarity=0.999 Sum_probs=13.6
Q ss_pred ccCcccccccCccccc
Q 010753 407 EMDTVQCKNCKRFIPS 422 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~~ 422 (502)
..+.+.|.|||+.+|+
T Consensus 17 hv~~V~C~nCgr~vPK 32 (108)
T PTZ00172 17 HVKPVRCSNCGRCVPK 32 (108)
T ss_pred CCccEEeCCccccccc
Confidence 3678899999999984
No 435
>KOG3816 consensus Cell differentiation regulator of the Headcase family [Signal transduction mechanisms]
Probab=22.16 E-value=32 Score=37.24 Aligned_cols=51 Identities=31% Similarity=0.595 Sum_probs=29.4
Q ss_pred ccccccCcccccchHHh--------Hhh-hccCceeeccccccCccccc-----ccccCc---ccCccCC
Q 010753 411 VQCKNCKRFIPSRSIVL--------HEA-YCSRHSVACQHAGCGMVLRT-----EEARDH---VHCDKCG 463 (502)
Q Consensus 411 ~~C~nC~k~~~~~~l~l--------He~-~C~rn~~~C~~~~Cgk~F~k-----~~l~~H---~hC~~Cg 463 (502)
..|.+|++.+--..++| --. -|---.++|.. |+|.... ..+.+. ..|++|+
T Consensus 440 I~C~~Ck~~wDGss~vLGTmY~YDI~aa~pCC~~R~~C~~--C~k~l~~~~q~~t~~s~ys~~~~cP~c~ 507 (526)
T KOG3816|consen 440 IICKNCKKDWDGSSFVLGTMYYYDIVAAGPCCPVRLVCQS--CRKSLGVRDQLATQLSNYSALRICPSCK 507 (526)
T ss_pred HHHhhcCCCCCCcceeechhhhhhhhhcCCcchhhhhhhh--hccccccHHHHHHHHhhhhcccccCCcC
Confidence 57999998875333333 332 44444467777 8777753 222222 4577775
No 436
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=21.94 E-value=49 Score=24.91 Aligned_cols=20 Identities=25% Similarity=0.853 Sum_probs=13.6
Q ss_pred ccCccCCCccC------hhhHHHhhh
Q 010753 457 VHCDKCGQGLQ------RREMEKHMK 476 (502)
Q Consensus 457 ~hC~~Cgk~f~------~s~l~kH~~ 476 (502)
-.|.+|++.+. .++|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 34555655543 689999988
No 437
>PRK10930 FtsH protease regulator HflK; Provisional
Probab=21.85 E-value=7e+02 Score=27.37 Aligned_cols=8 Identities=0% Similarity=0.131 Sum_probs=3.1
Q ss_pred HHhhHHHH
Q 010753 49 RSRRLDAI 56 (502)
Q Consensus 49 ~~~r~~~~ 56 (502)
|++++-++
T Consensus 294 r~~~i~~A 301 (419)
T PRK10930 294 KAQTILEA 301 (419)
T ss_pred HHHHHHHh
Confidence 34343333
No 438
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=21.60 E-value=61 Score=37.40 Aligned_cols=41 Identities=22% Similarity=0.671 Sum_probs=27.8
Q ss_pred ccCcccccccCcccccchHHhHhhhccCceeeccccccCcccccccccCcccCccCCCccC
Q 010753 407 EMDTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVLRTEEARDHVHCDKCGQGLQ 467 (502)
Q Consensus 407 ~~~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F~k~~l~~H~hC~~Cgk~f~ 467 (502)
..+..-|.+||..+.. ..|++ ||...... --.|+.||...+
T Consensus 12 ~~~akFC~~CG~~l~~--------------~~Cp~--CG~~~~~~----~~fC~~CG~~~~ 52 (645)
T PRK14559 12 PNNNRFCQKCGTSLTH--------------KPCPQ--CGTEVPVD----EAHCPNCGAETG 52 (645)
T ss_pred CCCCccccccCCCCCC--------------CcCCC--CCCCCCcc----cccccccCCccc
Confidence 4455679999998741 25888 99775431 136999987666
No 439
>KOG3090 consensus Prohibitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=21.57 E-value=1.3e+02 Score=30.72 Aligned_cols=41 Identities=20% Similarity=0.274 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHcCCcEEEEEEeeecc-----CCCCCCeEEeChhHH
Q 010753 61 KADQEMQESLLAGGGIVFYHTLEALP-----FQGSGDKIKLPPSCF 101 (502)
Q Consensus 61 ~~~~~~~~~~~~~~g~~~~~~~~~~~-----~~~~gDKIiLP~SaL 101 (502)
|+.|--=|.+..+.|.--.+.+++.. .....+|+.|+.+.|
T Consensus 230 ksAqliGeAi~nn~~fi~Lrki~aAr~IA~tia~S~NkvyL~~~~L 275 (290)
T KOG3090|consen 230 KSAQLIGEAIKNNPAFITLRKIEAAREIAQTIASSANKVYLSSDDL 275 (290)
T ss_pred HHHHHHHHHHhCCccceeehhHHHHHHHHHHHhcCCCeEEecccce
Confidence 33333335566778877777777765 257889999998865
No 440
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=21.42 E-value=52 Score=24.45 Aligned_cols=24 Identities=29% Similarity=0.834 Sum_probs=11.2
Q ss_pred eeccccccCcccccccc--cCcccCccCC
Q 010753 437 VACQHAGCGMVLRTEEA--RDHVHCDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l--~~H~hC~~Cg 463 (502)
++||+ ||.. .-..+ ...|.|..|+
T Consensus 19 ~~CP~--Cg~~-~~~~~~~~~~~~C~~C~ 44 (46)
T PF12760_consen 19 FVCPH--CGST-KHYRLKTRGRYRCKACR 44 (46)
T ss_pred CCCCC--CCCe-eeEEeCCCCeEECCCCC
Confidence 55666 6644 11111 2236666664
No 441
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.15 E-value=9.6e+02 Score=25.41 Aligned_cols=68 Identities=22% Similarity=0.249 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 010753 4 ELRRAREKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQESLL 71 (502)
Q Consensus 4 ~l~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~ 71 (502)
+....-++++++.+..-.+-+.|..+|...-++......+..++-|..-...-+.+.++.++..+.++
T Consensus 117 ~te~~l~~y~~~n~~~I~~n~~~~~~e~~~~~~~~~~E~~~~~~rr~~~~~~e~ee~~~~~~~~~~~l 184 (309)
T TIGR00570 117 NTKKKIETYQKENKDVIQKNKEKSTREQEELEEALEFEKEEEEQRRLLLQKEEEEQQMNKRKNKQALL 184 (309)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 442
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=21.07 E-value=17 Score=45.60 Aligned_cols=157 Identities=16% Similarity=0.035 Sum_probs=0.0
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH---------
Q 010753 1 MDFELRRAREKLEKEQKERKERARLKLEREKK----AKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQ--------- 67 (502)
Q Consensus 1 m~~~l~~~~~k~~~e~~~r~~~~~~~~~~e~~----~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~--------- 67 (502)
|.+++..+-..+.+..++.+.+.-.++|++.+ ..+.+-.++..+....+..++++++.++..--.++
T Consensus 1190 ~~~e~~~~~~~~~~~s~~~~~~~~~~ler~l~~~~~~~~~~l~~~~~~~~s~~~~~ld~~erl~~~~d~vld~l~~~~~~ 1269 (1606)
T KOG0701|consen 1190 DTLEPKHAGKLSFRRSKIVKKKNLDRLERELGLKFKFLEAALLVQAFIHCSLRAEGLDATERLEFLGDAVLDKLSDKHPF 1269 (1606)
T ss_pred hcccccchhhhhhhhhhHhhhhhHHHHHHhhcccchhhhhhcchhhcccccccccccchHHHHHhhHHHHHHHHHHhhhH
Q ss_pred HHHHcCCcEEEEEEeeecc---CCCCCCeEEeChhHHHHHHcCCCCCCCceEEEEEecCCCCCCCCCCCccCCCCeEEEE
Q 010753 68 ESLLAGGGIVFYHTLEALP---FQGSGDKIKLPPSCFTELSGQGAFDKGPLHFKLSVLHQEGPSNMEDGEKESNRSTHSG 144 (502)
Q Consensus 68 ~~~~~~~g~~~~~~~~~~~---~~~~gDKIiLP~SaL~~L~~~~~~~~~Pl~F~l~n~~~~~~~~~~~~~~~~~~~th~G 144 (502)
+.+....|........+.. ..+.++..+.|+.-.-.+..+++.+..+..|..+...... +...++.|
T Consensus 1270 ~~~~~~~~~~lt~~~~~~v~~l~e~~~~~~v~~~l~~~l~~~s~~~~K~i~d~v~sli~~~~----------~~~~~~s~ 1339 (1606)
T KOG0701|consen 1270 EVFIRLDGGELTDLREAGVNTLNENDLNVKVPKSLPYNLLDQSSVLEKSIADSVEALIGASL----------SEGGPSSA 1339 (1606)
T ss_pred hhhhcccCcchhhhhhhhhhhhhhcccccccCCcceeeehhhccCccchHHHHHHHhhhhhh----------hccCCCcc
Q ss_pred EeeeeeCCCceeccHHHHHhcCC
Q 010753 145 VLEFTADEGFVGLPPHVWRNLFP 167 (502)
Q Consensus 145 VlEFsA~EG~v~LP~wm~~~L~~ 167 (502)
.+++..+-....+|+-++..+++
T Consensus 1340 l~~~~~~~~l~~i~es~~~~~~~ 1362 (1606)
T KOG0701|consen 1340 LLFMDWPPILLDIPESIASPDSI 1362 (1606)
T ss_pred ccccccccccccccccccccchh
No 443
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=21.06 E-value=29 Score=27.50 Aligned_cols=26 Identities=23% Similarity=0.765 Sum_probs=0.0
Q ss_pred ceeeccccccCcccccccccCc--ccCccC
Q 010753 435 HSVACQHAGCGMVLRTEEARDH--VHCDKC 462 (502)
Q Consensus 435 n~~~C~~~~Cgk~F~k~~l~~H--~hC~~C 462 (502)
+++.|.+ |+|+..+.+...| .+|+.|
T Consensus 3 ~tiRC~~--CnKlLa~a~~~~yle~KCPrC 30 (60)
T COG4416 3 QTIRCAK--CNKLLAEAEGQAYLEKKCPRC 30 (60)
T ss_pred eeeehHH--HhHHHHhcccceeeeecCCcc
No 444
>PF15437 PGBA_C: Plasminogen-binding protein pgbA C-terminal
Probab=20.95 E-value=5.4e+02 Score=22.18 Aligned_cols=47 Identities=26% Similarity=0.391 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Q 010753 14 KEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKA 62 (502)
Q Consensus 14 ~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~ 62 (502)
+|.+.|....++|+-.|+++++=-.++++--|...++ |+..+..+++
T Consensus 37 kEekrrLkeEkKkAKAeqrA~EfEqRakehqErDEkE--lEERrKALe~ 83 (86)
T PF15437_consen 37 KEEKRRLKEEKKKAKAEQRAREFEQRAKEHQERDEKE--LEERRKALEM 83 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHhhhc
No 445
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=20.88 E-value=33 Score=40.57 Aligned_cols=46 Identities=26% Similarity=0.600 Sum_probs=0.0
Q ss_pred eeeccccccCccccc---ccccCc----ccCccCCCccChhhHHHhhhcccceeeec-CCccccccccc
Q 010753 436 SVACQHAGCGMVLRT---EEARDH----VHCDKCGQGLQRREMEKHMKVFHEQCSCP-CGVVLENAAMV 496 (502)
Q Consensus 436 ~~~C~~~~Cgk~F~k---~~l~~H----~hC~~Cgk~f~~s~l~kH~~i~Htp~~C~-Cg~~f~~~~~~ 496 (502)
...||. ||+.-.. +.=-.| |.|+.|+...... .|+ |+......+..
T Consensus 655 ~r~Cp~--Cg~~t~~~~Cp~CG~~T~~~~~Cp~C~~~~~~~-------------~C~~C~~~~~~~~~~ 708 (900)
T PF03833_consen 655 RRRCPK--CGKETFYNRCPECGSHTEPVYVCPDCGIEVEED-------------ECPKCGRETTSYSKQ 708 (900)
T ss_dssp ---------------------------------------------------------------------
T ss_pred cccCcc--cCCcchhhcCcccCCccccceeccccccccCcc-------------ccccccccCccccee
No 446
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=20.85 E-value=51 Score=29.27 Aligned_cols=32 Identities=19% Similarity=0.556 Sum_probs=0.0
Q ss_pred cCceeeccccccCccccc-ccccCc-----ccCccCCCcc
Q 010753 433 SRHSVACQHAGCGMVLRT-EEARDH-----VHCDKCGQGL 466 (502)
Q Consensus 433 ~rn~~~C~~~~Cgk~F~k-~~l~~H-----~hC~~Cgk~f 466 (502)
+.+.|.||. ||..-.. -.++.- .+|..||.+|
T Consensus 19 L~k~FtCp~--Cghe~vs~ctvkk~~~~g~~~Cg~CGls~ 56 (104)
T COG4888 19 LPKTFTCPR--CGHEKVSSCTVKKTVNIGTAVCGNCGLSF 56 (104)
T ss_pred CCceEecCc--cCCeeeeEEEEEecCceeEEEcccCcceE
No 447
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.82 E-value=56 Score=31.92 Aligned_cols=109 Identities=14% Similarity=0.291 Sum_probs=0.0
Q ss_pred eEEecCCCCccccceEEEEE--eccCCCeeEEEEEEEecCCCCcCccccCCCCcccccCcccccccCccc-ccchHHhHh
Q 010753 353 VVILSSKDKSVDVGTYSIGV--YGFKDMTKFQVLVTLEDDSGRKVGQEATSSSSSIEMDTVQCKNCKRFI-PSRSIVLHE 429 (502)
Q Consensus 353 ~i~i~~~~~~l~a~~~~i~v--~~~~~~~~~~l~v~~~~~~~~~~g~~~~~~~~~~~~~~~~C~nC~k~~-~~~~l~lHe 429 (502)
.|.|+++++.+=-|.+..|- ..+....+..+-+..-+ .....-..+.+...|.-|-..| ++.....--
T Consensus 98 ~ieiD~k~PkmLPEcf~lgadhv~~P~gie~~~~i~L~d---------Pe~~~led~kd~lE~df~a~a~Lekdd~~~~c 168 (234)
T KOG3268|consen 98 IIEIDFKDPKMLPECFELGADHVSFPEGIECILGIELPD---------PEGLQLEDDKDQLECDFCAAAFLEKDDELGAC 168 (234)
T ss_pred EEEecCCCCccchhhHhhccccccccccceEEeccccCC---------ccccccccccceeeeCccHHHhcCcchhhhcc
Q ss_pred hhccCce-------eeccccccCccccc---ccccCc------------ccCccCCCccC-hhh
Q 010753 430 AYCSRHS-------VACQHAGCGMVLRT---EEARDH------------VHCDKCGQGLQ-RRE 470 (502)
Q Consensus 430 ~~C~rn~-------~~C~~~~Cgk~F~k---~~l~~H------------~hC~~Cgk~f~-~s~ 470 (502)
..|.--. +.|..-.|||.|.+ .+|-+- -.|+.|++... +.+
T Consensus 169 gicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmS 232 (234)
T KOG3268|consen 169 GICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMS 232 (234)
T ss_pred cceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeecc
No 448
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.77 E-value=55 Score=29.63 Aligned_cols=24 Identities=38% Similarity=0.895 Sum_probs=0.0
Q ss_pred eeccccccCccccc-ccccCccc----CccCC
Q 010753 437 VACQHAGCGMVLRT-EEARDHVH----CDKCG 463 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k-~~l~~H~h----C~~Cg 463 (502)
..| . ||..|.- .....|++ ||.||
T Consensus 71 ~~C-~--Cg~~~~~~~~~~~~~~~~~~CP~Cg 99 (124)
T PRK00762 71 IEC-E--CGYEGVVDEDEIDHYAAVIECPVCG 99 (124)
T ss_pred EEe-e--CcCcccccccchhccccCCcCcCCC
No 449
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins.
Probab=20.65 E-value=31 Score=28.07 Aligned_cols=33 Identities=30% Similarity=0.711 Sum_probs=0.0
Q ss_pred ccCccCC------CccC--hhhHHHhhhcccc---eeeec-CCcc
Q 010753 457 VHCDKCG------QGLQ--RREMEKHMKVFHE---QCSCP-CGVV 489 (502)
Q Consensus 457 ~hC~~Cg------k~f~--~s~l~kH~~i~Ht---p~~C~-Cg~~ 489 (502)
|+|+.|| +.+. ...+.+=..+.|. -..|+ ||.+
T Consensus 1 y~C~KCg~~~~e~~~v~~tgg~~skiFdvq~~~f~~v~C~~CGYT 45 (64)
T PF09855_consen 1 YKCPKCGNEEYESGEVRATGGGLSKIFDVQNKKFTTVSCTNCGYT 45 (64)
T ss_pred CCCCCCCCcceecceEEccCCeeEEEEEecCcEEEEEECCCCCCE
No 450
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.60 E-value=43 Score=30.31 Aligned_cols=29 Identities=17% Similarity=0.441 Sum_probs=0.0
Q ss_pred ccccccCcccccchHHhHhhhccCceeeccccccC
Q 010753 411 VQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCG 445 (502)
Q Consensus 411 ~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cg 445 (502)
..| +||+.|+......+.. ...+.||. ||
T Consensus 71 ~~C-~Cg~~~~~~~~~~~~~---~~~~~CP~--Cg 99 (124)
T PRK00762 71 IEC-ECGYEGVVDEDEIDHY---AAVIECPV--CG 99 (124)
T ss_pred EEe-eCcCcccccccchhcc---ccCCcCcC--CC
No 451
>PF13025 DUF3886: Protein of unknown function (DUF3886)
Probab=20.56 E-value=2.6e+02 Score=23.33 Aligned_cols=50 Identities=26% Similarity=0.332 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCcEEE
Q 010753 27 LEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKADQEMQESLLAGGGIVF 78 (502)
Q Consensus 27 ~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~g~~~ 78 (502)
+++=+..+.+....-+..++..++||+.++.+.++ ..-=|+++..-.+.|
T Consensus 19 ~~kLka~k~eLk~~ee~r~e~e~~~~~~erk~rEK--nksFeELL~eS~ldW 68 (70)
T PF13025_consen 19 LAKLKAKKQELKAEEEKRKEEERARRREERKEREK--NKSFEELLNESELDW 68 (70)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh--hcCHHHHHhcccCCC
No 452
>KOG1088 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.52 E-value=35 Score=31.11 Aligned_cols=25 Identities=20% Similarity=0.437 Sum_probs=0.0
Q ss_pred ccccCcccccccCcccc----cchHHhHh
Q 010753 405 SIEMDTVQCKNCKRFIP----SRSIVLHE 429 (502)
Q Consensus 405 ~~~~~~~~C~nC~k~~~----~~~l~lHe 429 (502)
++.++.-+|++||+-|| -.||.+|+
T Consensus 93 ~v~EG~l~CpetG~vfpI~~GIPNMLL~e 121 (124)
T KOG1088|consen 93 DVIEGELVCPETGRVFPISDGIPNMLLSE 121 (124)
T ss_pred hhccceEecCCCCcEeecccCCcccccCc
No 453
>PRK11637 AmiB activator; Provisional
Probab=20.49 E-value=9.3e+02 Score=25.96 Aligned_cols=69 Identities=16% Similarity=0.246 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-HHHHHHHHHHHHHHHHHHHc
Q 010753 4 ELRRAREKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRR-LDAIDAQLKADQEMQESLLA 72 (502)
Q Consensus 4 ~l~~~~~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r-~~~~~~~~~~~~~~~~~~~~ 72 (502)
+|....+.|+.++.+-.........+-.........+++.+.+...+++ .++.-++.+++++..+.++.
T Consensus 181 ~L~~~k~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~~~I~ 250 (428)
T PRK11637 181 ELAAQKAELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLRDSIA 250 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 454
>KOG2505 consensus Ankyrin repeat protein [General function prediction only]
Probab=20.39 E-value=2.5e+02 Score=31.68 Aligned_cols=43 Identities=33% Similarity=0.416 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 010753 10 EKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRR 52 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r 52 (502)
...++||++++..+..++.++.+.+++-+|++|.-..+..+.|
T Consensus 503 rEq~~eq~ekkkek~anqka~kk~kkelrkaeekqk~ae~ser 545 (591)
T KOG2505|consen 503 REQEREQAEKKKEKKANQKAKKKLKKELRKAEEKQKYAEMSER 545 (591)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhh
No 455
>cd03401 Band_7_prohibitin Band_7_prohibitin. A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup group includes proteins similar to prohibitin (a lipid raft-associated integral membrane protein). Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. These microdomains in addition to being stable scaffolds may also be also dynamic units with their own regulatory functions. Prohibitin is a mitochondrial inner-membrane protein which may act as a chaperone for the stabilization of mitochondrial proteins. Human prohibitin forms a heter-oligomeric complex with Bap-37 (prohibitin 2, a band 7 domain carrying homologue). This complex may protect non-assembled membrane proteins against proteolysis by the m-AAA protease. Prohibitin and Bap-37 yeast homologues have been implicated in yeast longevity and, in the maintenance of mitochondrial morphology.
Probab=20.38 E-value=2.7e+02 Score=26.13 Aligned_cols=43 Identities=21% Similarity=0.321 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 010753 21 ERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKAD 63 (502)
Q Consensus 21 ~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~~ 63 (502)
+.-+.-+++...+.++|.+++.++++++.++.-..++|+-+|+
T Consensus 152 ~~~~~ai~~k~~a~q~~~~a~~~~~~a~~ea~~~~~~A~gea~ 194 (196)
T cd03401 152 KEFTKAVEAKQVAQQEAERAKFVVEKAEQEKQAAVIRAEGEAE 194 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
No 456
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=20.17 E-value=28 Score=27.18 Aligned_cols=32 Identities=16% Similarity=0.648 Sum_probs=0.0
Q ss_pred CcccccccCcccccchHHhHhhhccCceeeccccccCccc
Q 010753 409 DTVQCKNCKRFIPSRSIVLHEAYCSRHSVACQHAGCGMVL 448 (502)
Q Consensus 409 ~~~~C~nC~k~~~~~~l~lHe~~C~rn~~~C~~~~Cgk~F 448 (502)
..+.|.+|+|...+..-..+-. ++||. ||.++
T Consensus 3 ~eiRC~~CnklLa~~g~~~~le------IKCpR--C~tiN 34 (51)
T PF10122_consen 3 KEIRCGHCNKLLAKAGEVIELE------IKCPR--CKTIN 34 (51)
T ss_pred cceeccchhHHHhhhcCccEEE------EECCC--CCccc
No 457
>cd05828 Sortase_D_4 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-4. These sortases recognize a unique sorting signal (LPXTA) and they constitute a specialized sorting pathway found in bacilli. Their substrates are predicted to be predominantly enzymes such as 5'-nucleotidases, glycosyl hydrolase, and subtilase.
Probab=20.14 E-value=1.6e+02 Score=26.27 Aligned_cols=30 Identities=20% Similarity=0.287 Sum_probs=0.0
Q ss_pred hccCcccccCCEEEEEECCEEEEEEEEEEc
Q 010753 212 LRQHATLSQDDVLTVNYGELAYKLKVLELK 241 (502)
Q Consensus 212 LR~~stLT~Gd~I~I~~~~~~y~l~V~e~~ 241 (502)
+++...|.+||.|.|...+..|...|.+++
T Consensus 56 F~~L~~l~~Gd~i~v~~~~~~~~Y~V~~~~ 85 (127)
T cd05828 56 FRFLGELEPGDIITLQTLGGTYTYRVTSTR 85 (127)
T ss_pred hhChhcCCCCCEEEEEECCEEEEEEEeeEE
No 458
>PF06476 DUF1090: Protein of unknown function (DUF1090); InterPro: IPR009468 This family consists of several bacterial proteins of unknown function and is known as YqjC in Escherichia coli.
Probab=20.13 E-value=3.6e+02 Score=24.26 Aligned_cols=53 Identities=23% Similarity=0.371 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Q 010753 10 EKLEKEQKERKERARLKLEREKKAKEEAKKQREAIEAAQRSRRLDAIDAQLKA 62 (502)
Q Consensus 10 ~k~~~e~~~r~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~~~r~~~~~~~~~~ 62 (502)
.+|.++.+..-+..+.++..-..-=.+|...-..-.-..|+++|+.+++++++
T Consensus 62 ~~l~~e~q~ki~~~~~kV~ere~eL~eA~~~G~~~KI~K~~~KL~ea~~eL~~ 114 (115)
T PF06476_consen 62 EGLKAERQQKIAEKQQKVAEREAELKEAQAKGDSDKIAKRQKKLAEAKAELKE 114 (115)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhh
No 459
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=20.10 E-value=59 Score=33.28 Aligned_cols=26 Identities=23% Similarity=0.686 Sum_probs=0.0
Q ss_pred eeccccccCccccccccc-Ccc-cCccCCC
Q 010753 437 VACQHAGCGMVLRTEEAR-DHV-HCDKCGQ 464 (502)
Q Consensus 437 ~~C~~~~Cgk~F~k~~l~-~H~-hC~~Cgk 464 (502)
+.|.+ |...|.-..+. +.+ +|+||.|
T Consensus 158 v~Cgh--C~~~Fl~~~~~~~tlARCPHCrK 185 (256)
T PF09788_consen 158 VICGH--CSNTFLFNTLTSNTLARCPHCRK 185 (256)
T ss_pred EECCC--CCCcEeccCCCCCccccCCCCce
No 460
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=20.05 E-value=57 Score=30.48 Aligned_cols=30 Identities=13% Similarity=0.367 Sum_probs=0.0
Q ss_pred ccccccCcccCccCCCccChhhHHHhhhcccc
Q 010753 449 RTEEARDHVHCDKCGQGLQRREMEKHMKVFHE 480 (502)
Q Consensus 449 ~k~~l~~H~hC~~Cgk~f~~s~l~kH~~i~Ht 480 (502)
+|+--..+..|=+||+.|. +|++|...||.
T Consensus 69 kKSVtpD~IicLEDGkkfK--SLKRHL~t~~g 98 (148)
T COG4957 69 KKSVTPDYIICLEDGKKFK--SLKRHLTTHYG 98 (148)
T ss_pred ccccCCCeEEEeccCcchH--HHHHHHhcccC
Done!