Query 004454
Match_columns 753
No_of_seqs 571 out of 2470
Neff 6.5
Searched_HMMs 46136
Date Thu Mar 28 23:42:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004454.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004454hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1473 Nucleosome remodeling 99.9 3.8E-22 8.2E-27 231.1 9.9 126 519-667 170-298 (1414)
2 KOG0484 Transcription factor P 99.7 1.1E-16 2.3E-21 140.7 5.4 65 19-83 15-79 (125)
3 KOG0850 Transcription factor D 99.6 8.5E-16 1.8E-20 153.5 7.7 68 18-85 119-186 (245)
4 PF02791 DDT: DDT domain; Int 99.6 2.2E-15 4.9E-20 124.2 6.2 60 538-597 1-61 (61)
5 KOG0488 Transcription factor B 99.6 2.1E-15 4.6E-20 162.0 5.4 68 18-85 169-236 (309)
6 KOG0489 Transcription factor z 99.6 4.9E-15 1.1E-19 156.5 7.6 70 17-86 155-224 (261)
7 smart00571 DDT domain in diffe 99.5 6.6E-15 1.4E-19 122.1 6.0 60 538-597 1-63 (63)
8 KOG0485 Transcription factor N 99.5 1.3E-14 2.8E-19 143.2 8.3 65 18-82 101-165 (268)
9 KOG0843 Transcription factor E 99.5 4.7E-15 1E-19 143.1 4.6 64 20-83 101-164 (197)
10 KOG0842 Transcription factor t 99.5 7.9E-15 1.7E-19 155.1 6.6 66 19-84 151-216 (307)
11 KOG2251 Homeobox transcription 99.5 5.6E-14 1.2E-18 140.2 8.0 67 17-83 33-99 (228)
12 KOG0487 Transcription factor A 99.4 4E-14 8.7E-19 149.8 3.6 66 18-83 232-297 (308)
13 KOG0492 Transcription factor M 99.4 9.8E-14 2.1E-18 136.4 4.1 66 18-83 141-206 (246)
14 PF00046 Homeobox: Homeobox do 99.4 3E-13 6.6E-18 109.7 5.8 57 22-78 1-57 (57)
15 KOG0848 Transcription factor C 99.4 9.3E-14 2E-18 141.2 3.0 62 22-83 200-261 (317)
16 KOG0844 Transcription factor E 99.4 2.5E-13 5.3E-18 139.9 4.1 68 19-86 179-246 (408)
17 KOG0491 Transcription factor B 99.3 9.7E-13 2.1E-17 125.1 3.8 67 19-85 98-164 (194)
18 KOG0493 Transcription factor E 99.3 1.5E-12 3.3E-17 131.6 5.5 74 11-84 236-309 (342)
19 KOG0494 Transcription factor C 99.3 2.1E-12 4.6E-17 130.6 4.7 60 24-83 144-203 (332)
20 TIGR01565 homeo_ZF_HD homeobox 99.3 3.6E-12 7.8E-17 103.3 4.9 53 21-73 1-57 (58)
21 KOG3802 Transcription factor O 99.3 3.8E-12 8.3E-17 137.2 6.3 65 17-81 290-354 (398)
22 smart00389 HOX Homeodomain. DN 99.2 2.3E-11 5E-16 97.9 6.6 56 22-77 1-56 (56)
23 COG5576 Homeodomain-containing 99.2 1.6E-11 3.5E-16 119.4 6.0 71 14-84 44-114 (156)
24 cd00086 homeodomain Homeodomai 99.2 3.7E-11 8E-16 97.6 6.9 58 22-79 1-58 (59)
25 KOG4577 Transcription factor L 99.2 7.8E-11 1.7E-15 120.9 8.6 67 17-83 163-229 (383)
26 KOG0847 Transcription factor, 99.1 4.7E-11 1E-15 118.3 3.3 65 18-82 164-228 (288)
27 KOG0486 Transcription factor P 99.1 4E-11 8.7E-16 124.9 2.5 65 20-84 111-175 (351)
28 KOG0483 Transcription factor H 99.1 1.3E-10 2.8E-15 116.9 5.1 65 18-82 47-111 (198)
29 KOG1029 Endocytic adaptor prot 99.0 1.6E-07 3.5E-12 107.5 28.0 117 357-479 327-446 (1118)
30 KOG1168 Transcription factor A 98.9 1.8E-10 3.9E-15 118.3 1.0 80 1-80 284-368 (385)
31 KOG0490 Transcription factor, 98.7 5E-09 1.1E-13 108.5 3.7 64 18-81 57-120 (235)
32 KOG0849 Transcription factor P 98.6 5E-08 1.1E-12 107.5 6.4 69 16-84 171-239 (354)
33 PF11600 CAF-1_p150: Chromatin 98.4 5.9E-05 1.3E-09 78.0 23.4 13 449-461 159-171 (216)
34 KOG0775 Transcription factor S 98.3 2.6E-06 5.7E-11 88.0 8.8 52 28-79 183-234 (304)
35 PTZ00121 MAEBL; Provisional 98.3 5.8E-05 1.3E-09 91.9 20.7 9 218-226 881-889 (2084)
36 PTZ00266 NIMA-related protein 98.2 6.5E-05 1.4E-09 92.3 20.2 13 134-146 224-236 (1021)
37 KOG0774 Transcription factor P 98.2 3.2E-06 7E-11 86.5 6.8 64 21-84 188-254 (334)
38 PTZ00266 NIMA-related protein 98.1 0.00023 4.9E-09 87.7 21.3 15 543-557 666-680 (1021)
39 KOG4364 Chromatin assembly fac 98.1 0.00025 5.5E-09 81.1 19.7 21 49-69 38-58 (811)
40 KOG1029 Endocytic adaptor prot 98.0 0.00019 4.1E-09 83.1 18.5 31 346-376 327-357 (1118)
41 KOG4364 Chromatin assembly fac 98.0 0.00057 1.2E-08 78.3 19.8 20 639-658 664-683 (811)
42 KOG2252 CCAAT displacement pro 97.8 3.9E-05 8.4E-10 86.6 8.3 62 15-76 414-475 (558)
43 PF05920 Homeobox_KN: Homeobox 97.7 3.7E-05 8.1E-10 58.0 3.3 34 42-75 7-40 (40)
44 KOG0490 Transcription factor, 97.4 0.00012 2.6E-09 75.8 4.2 67 15-81 147-213 (235)
45 KOG2891 Surface glycoprotein [ 97.0 0.05 1.1E-06 57.0 18.3 18 347-364 278-295 (445)
46 KOG1146 Homeobox protein [Gene 96.8 0.0013 2.8E-08 81.0 4.9 66 18-83 900-965 (1406)
47 KOG1144 Translation initiation 96.7 0.043 9.3E-07 64.6 15.8 17 724-740 550-566 (1064)
48 KOG0163 Myosin class VI heavy 96.3 0.078 1.7E-06 62.1 15.3 25 557-581 1064-1089(1259)
49 KOG0163 Myosin class VI heavy 96.2 0.11 2.3E-06 61.0 15.6 23 54-76 376-398 (1259)
50 KOG1144 Translation initiation 96.1 0.11 2.4E-06 61.3 14.8 9 683-691 550-558 (1064)
51 PF05262 Borrelia_P83: Borreli 95.9 0.41 8.8E-06 55.2 18.1 27 125-151 15-41 (489)
52 KOG4661 Hsp27-ERE-TATA-binding 95.9 0.16 3.5E-06 57.9 14.3 10 651-660 848-857 (940)
53 KOG2507 Ubiquitin regulatory p 95.7 0.031 6.7E-07 61.8 8.1 27 534-560 407-433 (506)
54 KOG4661 Hsp27-ERE-TATA-binding 95.4 0.2 4.4E-06 57.1 13.0 16 645-660 865-880 (940)
55 KOG3054 Uncharacterized conser 94.1 0.48 1E-05 49.1 10.8 29 549-577 200-229 (299)
56 KOG3623 Homeobox transcription 93.9 0.96 2.1E-05 53.4 14.0 47 33-79 568-614 (1007)
57 PF11569 Homez: Homeodomain le 93.6 0.088 1.9E-06 42.6 3.7 42 33-74 10-51 (56)
58 COG3064 TolA Membrane protein 93.6 3.2 7E-05 44.7 16.2 16 647-662 311-326 (387)
59 KOG2412 Nuclear-export-signal 93.5 1.6 3.5E-05 50.2 14.7 40 619-660 497-536 (591)
60 KOG3054 Uncharacterized conser 93.0 0.85 1.8E-05 47.4 10.5 11 544-554 262-272 (299)
61 KOG2412 Nuclear-export-signal 92.5 1.8 3.9E-05 49.8 13.2 14 544-557 357-370 (591)
62 KOG0773 Transcription factor M 90.4 0.17 3.6E-06 56.0 2.6 60 21-80 239-301 (342)
63 KOG2072 Translation initiation 89.6 38 0.00082 41.3 20.6 11 155-165 394-404 (988)
64 KOG2072 Translation initiation 89.4 7.7 0.00017 46.9 14.9 12 20-31 140-151 (988)
65 KOG0742 AAA+-type ATPase [Post 87.9 55 0.0012 37.3 19.9 10 647-656 465-474 (630)
66 KOG3654 Uncharacterized CH dom 86.5 48 0.001 38.2 18.1 35 623-663 617-651 (708)
67 KOG3654 Uncharacterized CH dom 85.3 4.6 0.0001 46.0 9.5 15 65-79 118-132 (708)
68 PF07946 DUF1682: Protein of u 85.2 2.9 6.3E-05 46.0 8.1 11 62-72 29-39 (321)
69 PRK00106 hypothetical protein; 84.9 90 0.002 36.9 20.4 12 741-752 504-515 (535)
70 PF04218 CENP-B_N: CENP-B N-te 83.7 1.9 4.1E-05 34.6 4.3 46 22-72 1-46 (53)
71 PF05066 HARE-HTH: HB1, ASXL, 78.8 1.8 3.8E-05 36.7 2.7 30 720-750 1-30 (72)
72 PRK00106 hypothetical protein; 78.6 1.5E+02 0.0032 35.2 21.3 13 684-696 439-451 (535)
73 PF00769 ERM: Ezrin/radixin/mo 77.5 1E+02 0.0022 32.7 17.3 12 587-598 190-201 (246)
74 PF12037 DUF3523: Domain of un 75.6 1.2E+02 0.0027 32.7 22.8 14 540-553 226-239 (276)
75 KOG0579 Ste20-like serine/thre 75.4 2E+02 0.0042 34.9 26.6 13 355-367 798-810 (1187)
76 KOG2002 TPR-containing nuclear 74.3 20 0.00044 44.3 10.7 8 398-405 857-864 (1018)
77 COG4942 Membrane-bound metallo 73.2 1.8E+02 0.0038 33.4 18.0 9 551-559 308-316 (420)
78 PF09756 DDRGK: DDRGK domain; 73.1 1.1 2.4E-05 45.4 0.0 31 550-580 100-131 (188)
79 PF02029 Caldesmon: Caldesmon; 72.5 18 0.00039 42.1 9.5 11 71-81 12-22 (492)
80 PRK12704 phosphodiesterase; Pr 71.6 2.2E+02 0.0047 33.7 23.2 14 559-572 278-291 (520)
81 PF02029 Caldesmon: Caldesmon; 71.4 20 0.00043 41.8 9.4 8 565-572 390-397 (492)
82 KOG2507 Ubiquitin regulatory p 71.4 23 0.0005 40.0 9.5 14 635-649 405-418 (506)
83 KOG1924 RhoA GTPase effector D 71.2 15 0.00032 44.4 8.3 25 704-728 1070-1094(1102)
84 TIGR03319 YmdA_YtgF conserved 70.9 2.2E+02 0.0049 33.6 23.2 26 718-752 469-494 (514)
85 PRK12704 phosphodiesterase; Pr 68.5 2.5E+02 0.0054 33.2 23.5 10 742-751 490-499 (520)
86 PF00769 ERM: Ezrin/radixin/mo 67.8 1.7E+02 0.0037 31.0 18.4 6 579-584 209-214 (246)
87 KOG2689 Predicted ubiquitin re 66.4 82 0.0018 33.8 11.9 9 563-571 262-270 (290)
88 KOG0112 Large RNA-binding prot 63.5 94 0.002 38.5 13.0 38 125-162 491-528 (975)
89 KOG2357 Uncharacterized conser 63.2 29 0.00063 39.1 8.2 13 65-77 135-147 (440)
90 KOG1363 Predicted regulator of 61.8 38 0.00083 39.2 9.3 8 547-554 409-416 (460)
91 PF09726 Macoilin: Transmembra 61.6 3.8E+02 0.0083 32.9 27.3 7 55-61 156-162 (697)
92 KOG3634 Troponin [Cytoskeleton 60.7 74 0.0016 35.0 10.5 10 544-553 239-248 (361)
93 KOG3634 Troponin [Cytoskeleton 59.4 74 0.0016 35.0 10.3 11 580-590 239-249 (361)
94 KOG0742 AAA+-type ATPase [Post 59.4 3.3E+02 0.0071 31.4 18.0 26 572-597 456-481 (630)
95 TIGR01069 mutS2 MutS2 family p 56.9 3.5E+02 0.0075 33.7 17.0 17 553-569 691-707 (771)
96 PRK00409 recombination and DNA 54.6 3.9E+02 0.0084 33.3 16.9 17 553-569 702-718 (782)
97 TIGR01069 mutS2 MutS2 family p 53.7 3.9E+02 0.0084 33.3 16.7 7 221-227 354-360 (771)
98 PRK00409 recombination and DNA 52.4 4.4E+02 0.0096 32.8 16.9 9 732-740 770-778 (782)
99 KOG4848 Extracellular matrix-a 43.8 3.7E+02 0.0081 27.5 16.9 6 440-445 202-207 (225)
100 PF04545 Sigma70_r4: Sigma-70, 39.7 59 0.0013 25.1 4.5 44 27-75 4-47 (50)
101 PF04967 HTH_10: HTH DNA bindi 37.7 56 0.0012 26.3 4.1 42 28-69 1-44 (53)
102 KOG3915 Transcription regulato 37.6 1.8E+02 0.0039 33.4 9.3 6 157-162 343-348 (641)
103 PRK12705 hypothetical protein; 37.2 7.7E+02 0.017 29.2 20.0 12 741-752 477-488 (508)
104 KOG4246 Predicted DNA-binding 36.2 1.9E+02 0.0042 35.6 9.7 23 206-228 176-198 (1194)
105 PF01726 LexA_DNA_bind: LexA D 35.3 72 0.0016 26.7 4.6 32 545-577 9-40 (65)
106 KOG2253 U1 snRNP complex, subu 35.3 8.9E+02 0.019 29.4 15.8 10 686-695 621-630 (668)
107 KOG0982 Centrosomal protein Nu 34.1 7.8E+02 0.017 28.4 19.9 35 543-577 439-475 (502)
108 PF01527 HTH_Tnp_1: Transposas 33.8 36 0.00079 28.5 2.6 44 23-70 2-45 (76)
109 KOG4691 Uncharacterized conser 33.5 5.5E+02 0.012 26.4 11.1 21 475-495 173-193 (227)
110 cd06171 Sigma70_r4 Sigma70, re 32.5 76 0.0017 23.6 4.1 44 27-75 10-53 (55)
111 PF00440 TetR_N: Bacterial reg 30.5 37 0.0008 26.0 1.9 27 724-750 3-29 (47)
112 KOG2441 mRNA splicing factor/p 29.8 2.8E+02 0.0061 31.4 9.0 6 222-227 178-183 (506)
113 smart00550 Zalpha Z-DNA-bindin 29.6 55 0.0012 27.4 3.0 33 718-750 3-35 (68)
114 KOG1478 3-keto sterol reductas 29.3 74 0.0016 34.1 4.4 76 562-663 182-261 (341)
115 PF10668 Phage_terminase: Phag 28.3 48 0.001 27.5 2.3 20 50-69 24-43 (60)
116 PF03154 Atrophin-1: Atrophin- 26.2 40 0.00086 41.9 2.1 20 640-659 898-917 (982)
117 PF03154 Atrophin-1: Atrophin- 25.0 45 0.00097 41.5 2.2 6 603-608 743-748 (982)
118 COG2433 Uncharacterized conser 24.9 1.3E+03 0.028 27.9 14.1 6 158-163 181-186 (652)
119 PLN02316 synthase/transferase 24.0 2E+02 0.0042 37.0 7.5 9 722-730 858-866 (1036)
120 PF09607 BrkDBD: Brinker DNA-b 23.3 1.9E+02 0.0041 23.9 4.8 45 25-70 3-47 (58)
121 KOG1146 Homeobox protein [Gene 22.2 79 0.0017 40.8 3.6 62 19-80 703-764 (1406)
122 KOG0681 Actin-related protein 21.9 1.4E+03 0.029 27.5 12.9 11 579-589 538-548 (645)
123 PF12802 MarR_2: MarR family; 21.7 70 0.0015 25.5 2.1 28 723-750 7-34 (62)
124 PF08281 Sigma70_r4_2: Sigma-7 21.7 2.2E+02 0.0047 22.1 4.9 42 28-74 11-52 (54)
125 KOG1996 mRNA splicing factor [ 20.7 3.1E+02 0.0068 29.9 7.1 22 719-745 355-376 (378)
126 cd00569 HTH_Hin_like Helix-tur 20.6 2.6E+02 0.0055 18.2 4.9 38 27-69 5-42 (42)
127 TIGR03879 near_KaiC_dom probab 20.6 64 0.0014 27.8 1.7 35 37-71 21-55 (73)
128 PF10669 Phage_Gp23: Protein g 20.2 1.8E+02 0.0039 26.4 4.5 31 376-407 42-72 (121)
No 1
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=99.86 E-value=3.8e-22 Score=231.15 Aligned_cols=126 Identities=26% Similarity=0.480 Sum_probs=107.7
Q ss_pred CCCcccCCCCCcCCCCCCCcccHHHHHHHHHHHHHhhhccccCCCCHHHHHHHhcC-CChhhHHHHHHHHHHHHHhhhhh
Q 004454 519 PPKSVQLKRPFAVQPWNDSEDNIGNLLMVWRFLITFADVLGLWPFTLDEFVQAFHD-YDPRLLGEIHVTLLRSVIKDIED 597 (753)
Q Consensus 519 Pp~~v~l~~P~~s~pl~~~~e~v~~LL~Vw~FL~~F~~~L~Lspftlddf~~AL~~-~~s~LL~eiH~~Llk~l~~d~e~ 597 (753)
|+.-+.+.+|.++.++.+|+++|+++|.||+||++|+.+|.||||+|+|||+||.+ ..+.||+|+|++|||+|+++++.
T Consensus 170 ~~~vPpleLP~SSedi~IPne~Vm~alsIYevLRsF~~~LrisPF~feDFcaAL~~~~~ssLlaeVHvaLLrA~lr~eD~ 249 (1414)
T KOG1473|consen 170 PPLVPPLELPESSEDIGIPNEHVMDALSIYEVLRSFSRQLRISPFRFEDFCAALISHEQSSLLAEVHVALLRALLREEDR 249 (1414)
T ss_pred cccCCCccCCCcccccCCcHHHHHHHHHHHHHHHhhcceEEeCCccHHHHHHHHHhcCchhHHHHHHHHHHHHHhhhhhh
Confidence 44455688999999999999999999999999999999999999999999999974 55589999999999999999998
Q ss_pred hhcCCCCCCCCCCCCCCCCCCCCchhhhhhhhcccchhhhhhcCCCCCHHHHHHHHHHHhCC--CCCccccc
Q 004454 598 AAKTPFTGLGANQNSAVNPGGAHPQIVEGAYAWGFDIRSWQLHLNALTWPEILRQFALSAGF--GPQLNKRN 667 (753)
Q Consensus 598 ~~~~~~~~~~~~~~~~~~~~~~~~~~v~~a~~~~~~~~~w~~~Ld~~TwpEiLR~~l~s~G~--g~~~~~~~ 667 (753)
+++.|++ . +..+..+++ | .+||.||||||||||+.|.|+ |+.|.-.+
T Consensus 250 ----~~Thfs~--~-------------d~KdsvnI~---l-~liD~lTWPevLrqY~ea~~~ad~~v~~~~n 298 (1414)
T KOG1473|consen 250 ----LSTHFSP--L-------------DSKDSVNID---L-YLIDTLTWPEVLRQYFEADKHADGPVWDIFN 298 (1414)
T ss_pred ----cccccCc--c-------------ccccceeee---e-ehhccccHHHHHHHHHHhccccCcchhhhhc
Confidence 4778888 2 222233455 5 699999999999999999999 78885554
No 2
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]
Probab=99.65 E-value=1.1e-16 Score=140.71 Aligned_cols=65 Identities=32% Similarity=0.524 Sum_probs=61.5
Q ss_pred CcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccccc
Q 004454 19 AEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAK 83 (753)
Q Consensus 19 ~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~ 83 (753)
+++||-||.||..||..||..|..++||++..|++||.+++|++..|||||||||+|.+|+....
T Consensus 15 rKQRRIRTTFTS~QLkELErvF~ETHYPDIYTREEiA~kidLTEARVQVWFQNRRAKfRKQEr~a 79 (125)
T KOG0484|consen 15 RKQRRIRTTFTSAQLKELERVFAETHYPDIYTREEIALKIDLTEARVQVWFQNRRAKFRKQERAA 79 (125)
T ss_pred HHhhhhhhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhhhhHHHHHHHHHhhHHHHHHHHHHH
Confidence 57888999999999999999999999999999999999999999999999999999999987543
No 3
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=99.61 E-value=8.5e-16 Score=153.55 Aligned_cols=68 Identities=31% Similarity=0.503 Sum_probs=64.0
Q ss_pred cCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccCC
Q 004454 18 EAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKRQ 85 (753)
Q Consensus 18 ~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~~ 85 (753)
++|.|+.||.|+.-||..|+..|++++|+-.++|++||+.|||+..||+|||||||.|.||..++...
T Consensus 119 ~KK~RKPRTIYSS~QLqaL~rRFQkTQYLALPERAeLAAsLGLTQTQVKIWFQNrRSK~KKl~k~g~~ 186 (245)
T KOG0850|consen 119 GKKVRKPRTIYSSLQLQALNRRFQQTQYLALPERAELAASLGLTQTQVKIWFQNRRSKFKKLKKQGSG 186 (245)
T ss_pred cccccCCcccccHHHHHHHHHHHhhcchhcCcHHHHHHHHhCCchhHhhhhhhhhHHHHHHHHhcCCC
Confidence 57788899999999999999999999999999999999999999999999999999999999885543
No 4
>PF02791 DDT: DDT domain; InterPro: IPR004022 This domain is predicted to be a DNA binding domain. The DDT domain is named after (DNA binding homeobox and Different Transcription factors). It is found in foetal Alzheimer antigen and several hypothetical and uncharacterised proteins.
Probab=99.58 E-value=2.2e-15 Score=124.19 Aligned_cols=60 Identities=57% Similarity=0.954 Sum_probs=56.3
Q ss_pred cccHHHHHHHHHHHHHhhhccccCCCCHHHHHHHhcCCCh-hhHHHHHHHHHHHHHhhhhh
Q 004454 538 EDNIGNLLMVWRFLITFADVLGLWPFTLDEFVQAFHDYDP-RLLGEIHVTLLRSVIKDIED 597 (753)
Q Consensus 538 ~e~v~~LL~Vw~FL~~F~~~L~Lspftlddf~~AL~~~~s-~LL~eiH~~Llk~l~~d~e~ 597 (753)
+++|+++||||+||++|+++|+|+|||||||++||.+.++ .+++|||++||++|+++.+|
T Consensus 1 ~~~~~~~L~v~~Fl~~F~~~L~L~~ftlddf~~AL~~~~~~~ll~ei~~~LL~~l~~~~~d 61 (61)
T PF02791_consen 1 GEAFGDLLMVWEFLNTFGEVLGLSPFTLDDFEQALLCNDPSGLLAEIHCALLKALLADEED 61 (61)
T ss_pred CcHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHcCCCcchhHHHHHHHHHHHHHhccCC
Confidence 3679999999999999999999999999999999998877 59999999999999999875
No 5
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=99.56 E-value=2.1e-15 Score=162.00 Aligned_cols=68 Identities=34% Similarity=0.469 Sum_probs=63.8
Q ss_pred cCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccCC
Q 004454 18 EAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKRQ 85 (753)
Q Consensus 18 ~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~~ 85 (753)
.+|+|+.||.||..||..||+.|+++.|++..+|.+||..|||++.||++||||||+||||+......
T Consensus 169 pkK~RksRTaFT~~Ql~~LEkrF~~QKYLS~~DR~~LA~~LgLTdaQVKtWfQNRRtKWKrq~a~g~~ 236 (309)
T KOG0488|consen 169 PKKRRKSRTAFSDHQLFELEKRFEKQKYLSVADRIELAASLGLTDAQVKTWFQNRRTKWKRQTAEGGE 236 (309)
T ss_pred CcccccchhhhhHHHHHHHHHHHHHhhcccHHHHHHHHHHcCCchhhHHHHHhhhhHHHHHHHHhhhc
Confidence 47888899999999999999999999999999999999999999999999999999999998877543
No 6
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]
Probab=99.55 E-value=4.9e-15 Score=156.49 Aligned_cols=70 Identities=33% Similarity=0.508 Sum_probs=65.2
Q ss_pred ccCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccCCC
Q 004454 17 LEAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKRQP 86 (753)
Q Consensus 17 ~~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~~~ 86 (753)
..++.||.||.||..|+.+||+.|+.|+|++...|.+||..|+|+++||+|||||||+||||..+.....
T Consensus 155 ~~~~~kR~RtayT~~QllELEkEFhfN~YLtR~RRiEiA~~L~LtErQIKIWFQNRRMK~Kk~~k~~~~~ 224 (261)
T KOG0489|consen 155 TGGKSKRRRTAFTRYQLLELEKEFHFNKYLTRSRRIEIAHALNLTERQIKIWFQNRRMKWKKENKAKSSQ 224 (261)
T ss_pred ccCCCCCCCcccchhhhhhhhhhhccccccchHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhhcccccc
Confidence 3467899999999999999999999999999999999999999999999999999999999988777544
No 7
>smart00571 DDT domain in different transcription and chromosome remodeling factors.
Probab=99.54 E-value=6.6e-15 Score=122.10 Aligned_cols=60 Identities=47% Similarity=0.850 Sum_probs=55.9
Q ss_pred cccHHHHHHHHHHHHHhhhccccCCCC--HHHHHHHhcCCCh-hhHHHHHHHHHHHHHhhhhh
Q 004454 538 EDNIGNLLMVWRFLITFADVLGLWPFT--LDEFVQAFHDYDP-RLLGEIHVTLLRSVIKDIED 597 (753)
Q Consensus 538 ~e~v~~LL~Vw~FL~~F~~~L~Lspft--lddf~~AL~~~~s-~LL~eiH~~Llk~l~~d~e~ 597 (753)
++.|+|+||||+||++|+++|+|+||+ ||||++||++.++ .+|++||++||+++++|+++
T Consensus 1 ~~~~~d~l~V~eFl~~F~~~L~L~~f~~~l~~f~~Al~~~~~~~ll~ei~~~LL~~i~~d~~~ 63 (63)
T smart00571 1 NEAFGDLLMVYEFLRSFGKVLGLSPFRATLEDFIAALKCRDQNGLLTEVHVVLLRAILKDEGE 63 (63)
T ss_pred CcHHHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHHhcCCcchHHHHHHHHHHHHHHhCCCC
Confidence 367999999999999999999999999 9999999998888 59999999999999998763
No 8
>KOG0485 consensus Transcription factor NKX-5.1/HMX1, contains HOX domain [Transcription]
Probab=99.54 E-value=1.3e-14 Score=143.21 Aligned_cols=65 Identities=34% Similarity=0.498 Sum_probs=61.8
Q ss_pred cCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccc
Q 004454 18 EAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTA 82 (753)
Q Consensus 18 ~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~ 82 (753)
+.++||.||+|+..|+..||..|+..+|++..+|..||.+|.|++.||+|||||||.||||+...
T Consensus 101 ~~RKKktRTvFSraQV~qLEs~Fe~krYLSsaeRa~LA~sLqLTETQVKIWFQNRRnKwKRq~aa 165 (268)
T KOG0485|consen 101 DDRKKKTRTVFSRAQVFQLESTFELKRYLSSAERAGLAASLQLTETQVKIWFQNRRNKWKRQYAA 165 (268)
T ss_pred ccccccchhhhhHHHHHHHHHHHHHHhhhhHHHHhHHHHhhhhhhhhhhhhhhhhhHHHHHHHhh
Confidence 45888999999999999999999999999999999999999999999999999999999998654
No 9
>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription]
Probab=99.53 E-value=4.7e-15 Score=143.06 Aligned_cols=64 Identities=31% Similarity=0.465 Sum_probs=61.6
Q ss_pred cCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccccc
Q 004454 20 EVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAK 83 (753)
Q Consensus 20 k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~ 83 (753)
+.||.||.||.+||..||..|+.++|....+|+.||..|+|++.||+|||||||+|.||.+...
T Consensus 101 ~~kr~RT~ft~~Ql~~LE~~F~~~~Yvvg~eR~~LA~~L~LsetQVkvWFQNRRtk~kr~~~e~ 164 (197)
T KOG0843|consen 101 RPKRIRTAFTPEQLLKLEHAFEGNQYVVGAERKQLAQSLSLSETQVKVWFQNRRTKHKRMQQED 164 (197)
T ss_pred CCCccccccCHHHHHHHHHHHhcCCeeechHHHHHHHHcCCChhHhhhhhhhhhHHHHHHHHHh
Confidence 7899999999999999999999999999999999999999999999999999999999987663
No 10
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=99.53 E-value=7.9e-15 Score=155.08 Aligned_cols=66 Identities=26% Similarity=0.485 Sum_probs=61.9
Q ss_pred CcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccC
Q 004454 19 AEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKR 84 (753)
Q Consensus 19 ~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~ 84 (753)
.++||.|..||..|+.+||..|.+++|++.++|+.||..|+||++||||||||||-|+||+...+.
T Consensus 151 ~~kRKrRVLFSqAQV~ELERRFrqQRYLSAPERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~dk~ 216 (307)
T KOG0842|consen 151 RKKRKRRVLFSQAQVYELERRFRQQRYLSAPEREHLASSLRLTPTQVKIWFQNRRYKTKRQQKDKA 216 (307)
T ss_pred ccccccccccchhHHHHHHHHHHhhhccccHhHHHHHHhcCCCchheeeeeecchhhhhhhhhhhh
Confidence 467778899999999999999999999999999999999999999999999999999999877664
No 11
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=99.48 E-value=5.6e-14 Score=140.19 Aligned_cols=67 Identities=33% Similarity=0.544 Sum_probs=63.8
Q ss_pred ccCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccccc
Q 004454 17 LEAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAK 83 (753)
Q Consensus 17 ~~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~ 83 (753)
..+|.||.||+||..|+++||..|.+++||+...|++||.+|+|.+.+|||||.|||+|+|+++.+.
T Consensus 33 ~pRkqRRERTtFtr~QlevLe~LF~kTqYPDv~~rEelAlklnLpeSrVqVWFKNRRAK~r~qq~qq 99 (228)
T KOG2251|consen 33 GPRKQRRERTTFTRKQLEVLEALFAKTQYPDVFMREELALKLNLPESRVQVWFKNRRAKCRRQQQQQ 99 (228)
T ss_pred cchhcccccceecHHHHHHHHHHHHhhcCccHHHHHHHHHHhCCchhhhhhhhccccchhhHhhhhh
Confidence 4578899999999999999999999999999999999999999999999999999999999988765
No 12
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=99.44 E-value=4e-14 Score=149.83 Aligned_cols=66 Identities=33% Similarity=0.506 Sum_probs=62.4
Q ss_pred cCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccccc
Q 004454 18 EAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAK 83 (753)
Q Consensus 18 ~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~ 83 (753)
.++.||||--+|..|+.+||+.|..|.|++...|.+|+..|+|+++||+|||||||+|.||..+..
T Consensus 232 ~~~~RKKRcPYTK~QtlELEkEFlfN~YitkeKR~ElSr~lNLTeRQVKIWFQNRRMK~KK~~re~ 297 (308)
T KOG0487|consen 232 ARRGRKKRCPYTKHQTLELEKEFLFNMYITKEKRLELSRTLNLTERQVKIWFQNRRMKEKKVNREN 297 (308)
T ss_pred ccccccccCCchHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccchhheeeeehhhhhHHhhhhhhh
Confidence 367889999999999999999999999999999999999999999999999999999999998644
No 13
>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only]
Probab=99.41 E-value=9.8e-14 Score=136.38 Aligned_cols=66 Identities=33% Similarity=0.498 Sum_probs=61.5
Q ss_pred cCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccccc
Q 004454 18 EAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAK 83 (753)
Q Consensus 18 ~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~ 83 (753)
.+..|+.||-||.+||..||+-|...+|.++.+|.+++..|.|++.||+|||||||+|.||.+...
T Consensus 141 hk~nRkPRtPFTtqQLlaLErkfrekqYLSiaEraefSsSL~LTeTqVKIWFQNRRAKaKRlQeae 206 (246)
T KOG0492|consen 141 HKPNRKPRTPFTTQQLLALERKFREKQYLSIAERAEFSSSLELTETQVKIWFQNRRAKAKRLQEAE 206 (246)
T ss_pred cCCCCCCCCCCCHHHHHHHHHHHhHhhhhhHHHHHhhhhhhhhhhhheehhhhhhhHHHHHHHHHH
Confidence 455678999999999999999999999999999999999999999999999999999999987544
No 14
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=99.41 E-value=3e-13 Score=109.67 Aligned_cols=57 Identities=44% Similarity=0.746 Sum_probs=55.2
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcc
Q 004454 22 KTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRK 78 (753)
Q Consensus 22 rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr 78 (753)
|++|+.||..|+..|+..|..++||+..++..||..|||+..+|++||+|+|.++||
T Consensus 1 kr~r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l~l~~~~V~~WF~nrR~k~kk 57 (57)
T PF00046_consen 1 KRKRTRFTKEQLKVLEEYFQENPYPSKEEREELAKELGLTERQVKNWFQNRRRKEKK 57 (57)
T ss_dssp SSSSSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCCCHHHHHHHHHHHHHhccccccccccccccccccccccccCHHHhHHHhCc
Confidence 578999999999999999999999999999999999999999999999999999875
No 15
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]
Probab=99.40 E-value=9.3e-14 Score=141.18 Aligned_cols=62 Identities=39% Similarity=0.568 Sum_probs=59.1
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccccc
Q 004454 22 KTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAK 83 (753)
Q Consensus 22 rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~ 83 (753)
-|.|.++|..|+.+||+.|..++|.++..+.+||..|||+++||+|||||||+|+||..+++
T Consensus 200 DKYRvVYTDhQRLELEKEfh~SryITirRKSELA~~LgLsERQVKIWFQNRRAKERK~nKKk 261 (317)
T KOG0848|consen 200 DKYRVVYTDHQRLELEKEFHTSRYITIRRKSELAATLGLSERQVKIWFQNRRAKERKDNKKK 261 (317)
T ss_pred cceeEEecchhhhhhhhhhccccceeeehhHHHHHhhCccHhhhhHhhhhhhHHHHHHHHHH
Confidence 35688999999999999999999999999999999999999999999999999999988877
No 16
>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription]
Probab=99.37 E-value=2.5e-13 Score=139.94 Aligned_cols=68 Identities=34% Similarity=0.559 Sum_probs=63.2
Q ss_pred CcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccCCC
Q 004454 19 AEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKRQP 86 (753)
Q Consensus 19 ~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~~~ 86 (753)
..-||.||.||.+|+..||+.|-+..|.+...|.+||..|+|.+..|+|||||||+|+||+.-...+.
T Consensus 179 dqmRRYRTAFTReQIaRLEKEFyrENYVSRprRcELAAaLNLPEtTIKVWFQNRRMKDKRQRlamaWP 246 (408)
T KOG0844|consen 179 DQMRRYRTAFTREQIARLEKEFYRENYVSRPRRCELAAALNLPETTIKVWFQNRRMKDKRQRLAMAWP 246 (408)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHhccccCchhhhHHHhhCCCcceeehhhhhchhhhhhhhhhccCC
Confidence 45688999999999999999999999999999999999999999999999999999999987766543
No 17
>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only]
Probab=99.31 E-value=9.7e-13 Score=125.10 Aligned_cols=67 Identities=31% Similarity=0.512 Sum_probs=62.5
Q ss_pred CcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccCC
Q 004454 19 AEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKRQ 85 (753)
Q Consensus 19 ~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~~ 85 (753)
.++++.||+|+..|+..|++.|+.++|.+..+|.+||..|+|++.||+.||||||+|.||.+.....
T Consensus 98 ~~r~K~Rtvfs~~ql~~l~~rFe~QrYLS~~e~~ELan~L~LS~~QVKTWFQNrRMK~Kk~~r~~~p 164 (194)
T KOG0491|consen 98 CRRRKARTVFSDPQLSGLEKRFERQRYLSTPERQELANALSLSETQVKTWFQNRRMKHKKQQRNNQP 164 (194)
T ss_pred HHhhhhcccccCccccccHHHHhhhhhcccHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhccCC
Confidence 3567789999999999999999999999999999999999999999999999999999998877653
No 18
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=99.31 E-value=1.5e-12 Score=131.63 Aligned_cols=74 Identities=36% Similarity=0.547 Sum_probs=64.8
Q ss_pred hhcCCCccCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccC
Q 004454 11 KKKKKPLEAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKR 84 (753)
Q Consensus 11 ~~~~~~~~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~ 84 (753)
.+++.++..--||.||.||.+||..|+..|..++|++...|.+||..|||.+.||+|||||+|+|.||....+.
T Consensus 236 ~kkkk~~~~eeKRPRTAFtaeQL~RLK~EF~enRYlTEqRRQ~La~ELgLNEsQIKIWFQNKRAKiKKsTgskn 309 (342)
T KOG0493|consen 236 PKKKKSSSKEEKRPRTAFTAEQLQRLKAEFQENRYLTEQRRQELAQELGLNESQIKIWFQNKRAKIKKSTGSKN 309 (342)
T ss_pred ccccCCccchhcCccccccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCcCHHHhhHHhhhhhhhhhhccCCCC
Confidence 33444445566789999999999999999999999999999999999999999999999999999999765553
No 19
>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only]
Probab=99.28 E-value=2.1e-12 Score=130.62 Aligned_cols=60 Identities=35% Similarity=0.485 Sum_probs=57.3
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccccc
Q 004454 24 KRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAK 83 (753)
Q Consensus 24 ~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~ 83 (753)
-||.||..|+..||+.|...+||+...|+-||.++.|.+.+|+|||||||+||||..+.-
T Consensus 144 ~RTiFT~~Qle~LEkaFkeaHYPDv~Are~la~ktelpEDRIqVWfQNRRAKWRk~Ek~w 203 (332)
T KOG0494|consen 144 FRTIFTSYQLEELEKAFKEAHYPDVYAREMLADKTELPEDRIQVWFQNRRAKWRKTEKRW 203 (332)
T ss_pred ccchhhHHHHHHHHHHHhhccCccHHHHHHHhhhccCchhhhhHHhhhhhHHhhhhhhhc
Confidence 399999999999999999999999999999999999999999999999999999977655
No 20
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=99.28 E-value=3.6e-12 Score=103.31 Aligned_cols=53 Identities=17% Similarity=0.313 Sum_probs=51.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhcCC----CCHHHHHHHHHHhCCChHHHhHhhhhhh
Q 004454 21 VKTKRKMKTASQLEILEKTYAVESY----PSEALRAELSAQLGLSDRQLQMWFCHRR 73 (753)
Q Consensus 21 ~rr~Rt~~t~~Ql~~Le~~F~~~~y----ps~~~r~~LA~~lgL~~~qVqiWFqNRR 73 (753)
+||.||.||.+|+..|+..|+.++| |+...+.+||..|||++.+|+|||||.+
T Consensus 1 ~kR~RT~Ft~~Q~~~Le~~fe~~~y~~~~~~~~~r~~la~~lgl~~~vvKVWfqN~k 57 (58)
T TIGR01565 1 KKRRRTKFTAEQKEKMRDFAEKLGWKLKDKRREEVREFCEEIGVTRKVFKVWMHNNK 57 (58)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHhCCCHHHeeeecccCC
Confidence 4789999999999999999999999 9999999999999999999999999965
No 21
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]
Probab=99.27 E-value=3.8e-12 Score=137.23 Aligned_cols=65 Identities=22% Similarity=0.452 Sum_probs=62.4
Q ss_pred ccCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccc
Q 004454 17 LEAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPT 81 (753)
Q Consensus 17 ~~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~ 81 (753)
..+|+||+||.|+...+..||++|.+|+.|+..+...||.+|+|...+|+|||||||+|.||...
T Consensus 290 a~~RkRKKRTSie~~vr~aLE~~F~~npKPt~qEIt~iA~~L~leKEVVRVWFCNRRQkeKR~~~ 354 (398)
T KOG3802|consen 290 AQSRKRKKRTSIEVNVRGALEKHFLKNPKPTSQEITHIAESLQLEKEVVRVWFCNRRQKEKRITP 354 (398)
T ss_pred ccccccccccceeHHHHHHHHHHHHhCCCCCHHHHHHHHHHhccccceEEEEeeccccccccCCC
Confidence 45689999999999999999999999999999999999999999999999999999999999877
No 22
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=99.22 E-value=2.3e-11 Score=97.95 Aligned_cols=56 Identities=48% Similarity=0.743 Sum_probs=52.9
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhc
Q 004454 22 KTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDR 77 (753)
Q Consensus 22 rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~k 77 (753)
++.|+.|+..|+..|+..|..++||+..++..||..+||+..+|++||+|||.+.+
T Consensus 1 ~k~r~~~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~~ 56 (56)
T smart00389 1 RRKRTSFTPEQLEELEKEFQKNPYPSREEREELAAKLGLSERQVKVWFQNRRAKWK 56 (56)
T ss_pred CCCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHhHHHHhhccC
Confidence 45788899999999999999999999999999999999999999999999998864
No 23
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=99.20 E-value=1.6e-11 Score=119.44 Aligned_cols=71 Identities=32% Similarity=0.579 Sum_probs=64.2
Q ss_pred CCCccCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccC
Q 004454 14 KKPLEAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKR 84 (753)
Q Consensus 14 ~~~~~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~ 84 (753)
...+....+++|++.|..|+.+|+..|..|+||+...|..|+..|+|+++-|||||||||++.|+......
T Consensus 44 ~~~~s~~~~~~r~R~t~~Q~~vL~~~F~i~p~Ps~~~r~~L~~~lnm~~ksVqIWFQNkR~~~k~~~~~~~ 114 (156)
T COG5576 44 KQDGSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSGKV 114 (156)
T ss_pred cccCCCcCcccceechHHHHHHHHHHhccCCCCCHHHHHHHHHhcCCChhhhhhhhchHHHHHHHhcccch
Confidence 33345678889999999999999999999999999999999999999999999999999999998776643
No 24
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=99.19 E-value=3.7e-11 Score=97.57 Aligned_cols=58 Identities=43% Similarity=0.732 Sum_probs=54.9
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccc
Q 004454 22 KTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKA 79 (753)
Q Consensus 22 rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~ 79 (753)
++.|+.|+..|+.+|+..|..++||+..++..||..+||+..+|++||+|||.+.++.
T Consensus 1 ~~~r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~~~~ 58 (59)
T cd00086 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRS 58 (59)
T ss_pred CCCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHhcc
Confidence 3578899999999999999999999999999999999999999999999999998764
No 25
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=99.16 E-value=7.8e-11 Score=120.91 Aligned_cols=67 Identities=34% Similarity=0.547 Sum_probs=62.6
Q ss_pred ccCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccccc
Q 004454 17 LEAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAK 83 (753)
Q Consensus 17 ~~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~ 83 (753)
.....||+||.||+.||+.|+..|...+.|....|++|+..+||..++|||||||||+|.||.++..
T Consensus 163 gd~~nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLsseTGLDMRVVQVWFQNRRAKEKRLKKDA 229 (383)
T KOG4577|consen 163 GDASNKRPRTTITAKQLETLKQAYNTSPKPARHVREQLSSETGLDMRVVQVWFQNRRAKEKRLKKDA 229 (383)
T ss_pred cccccCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhhhccCcceeehhhhhhhhhHHHHhhhhhc
Confidence 3467889999999999999999999999999999999999999999999999999999999987654
No 26
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=99.09 E-value=4.7e-11 Score=118.27 Aligned_cols=65 Identities=32% Similarity=0.494 Sum_probs=60.4
Q ss_pred cCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccc
Q 004454 18 EAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTA 82 (753)
Q Consensus 18 ~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~ 82 (753)
.++++-.|.+|+..|+..|+..|++..|+-..+|.+||..+||++.||+|||||||+||||+...
T Consensus 164 dG~rk~srPTf~g~qi~~le~~feqtkylaG~~ra~lA~~lgmteSqvkVWFQNRRTKWRKkhAa 228 (288)
T KOG0847|consen 164 NGQRKQSRPTFTGHQIYQLERKFEQTKYLAGADRAQLAQELNMTESQVKVWFQNRRTKWRKKHAA 228 (288)
T ss_pred CccccccCCCccchhhhhhhhhhhhhhcccchhHHHhhccccccHHHHHHHHhcchhhhhhhhcc
Confidence 35677789999999999999999999999999999999999999999999999999999997643
No 27
>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription]
Probab=99.08 E-value=4e-11 Score=124.94 Aligned_cols=65 Identities=29% Similarity=0.504 Sum_probs=61.9
Q ss_pred cCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccC
Q 004454 20 EVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKR 84 (753)
Q Consensus 20 k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~ 84 (753)
|+||.||.||.+||..||..|.+++||+...|++||..++|++..|+|||.|||+||+|.....+
T Consensus 111 KqrrQrthFtSqqlqele~tF~rNrypdMstrEEIavwtNlTE~rvrvwfknrrakwrkrErN~~ 175 (351)
T KOG0486|consen 111 KQRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRERNQQ 175 (351)
T ss_pred hhhhhhhhhHHHHHHHHHHHHhhccCCccchhhHHHhhccccchhhhhhcccchhhhhhhhhhHH
Confidence 67889999999999999999999999999999999999999999999999999999999876664
No 28
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=99.06 E-value=1.3e-10 Score=116.92 Aligned_cols=65 Identities=28% Similarity=0.463 Sum_probs=58.7
Q ss_pred cCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccc
Q 004454 18 EAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTA 82 (753)
Q Consensus 18 ~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~ 82 (753)
+.....++.+||.+|+..||..|+...|.....+..||..|||.++||.|||||||++||.++..
T Consensus 47 ~~~~~~kk~Rlt~eQ~~~LE~~F~~~~~L~p~~K~~LAk~LgL~pRQVavWFQNRRARwK~kqlE 111 (198)
T KOG0483|consen 47 GSKGKGKKRRLTSEQVKFLEKSFESEKKLEPERKKKLAKELGLQPRQVAVWFQNRRARWKTKQLE 111 (198)
T ss_pred ccccccccccccHHHHHHhHHhhccccccChHHHHHHHHhhCCChhHHHHHHhhccccccchhhh
Confidence 33455566789999999999999999999999999999999999999999999999999997743
No 29
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.01 E-value=1.6e-07 Score=107.48 Aligned_cols=117 Identities=35% Similarity=0.358 Sum_probs=66.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 004454 357 ARIAREVEAHEKRIRKELEKQDILRRKREEQIRKEMERQDRERRKEEERLL-REKLREEERYLREQR-RELERREKFLQK 434 (753)
Q Consensus 357 ~r~~ke~e~~e~~~~ke~e~~e~~r~k~ee~~rke~er~~~er~keeer~~-re~~~eeer~~re~~-~e~er~ek~~~k 434 (753)
..++|+++..+++.++|+|+. +++++||+++|++||++.||+++.|+++ -|++++.|+.+.|++ ++.+++|+++
T Consensus 327 aELerRRq~leeqqqreree~--eqkEreE~ekkererqEqErk~qlElekqLerQReiE~qrEEerkkeie~rEaar-- 402 (1118)
T KOG1029|consen 327 AELERRRQALEEQQQREREEV--EQKEREEEEKKERERQEQERKAQLELEKQLERQREIERQREEERKKEIERREAAR-- 402 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
Confidence 445555555555444444443 3455677778888888888877666544 556666665554443 3333333322
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHH
Q 004454 435 ESIRAEKRRQKE-ELRRVKEAERLKVANERAVARRIAKESMALVED 479 (753)
Q Consensus 435 e~~r~ek~~~ke-e~~~~ke~e~~k~~eek~~~~~~ake~~~~~e~ 479 (753)
+..||+|+.| |..+.+|..-++.++++.+....++......+.
T Consensus 403 --~ElEkqRqlewErar~qem~~Qk~reqe~iv~~nak~~ql~~el 446 (1118)
T KOG1029|consen 403 --EELEKQRQLEWERARRQEMLNQKNREQEWIVYLNAKKKQLQQEL 446 (1118)
T ss_pred --HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 2345566655 556666666667777666666655544433333
No 30
>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription]
Probab=98.94 E-value=1.8e-10 Score=118.33 Aligned_cols=80 Identities=30% Similarity=0.469 Sum_probs=70.4
Q ss_pred ChhhhhhhhhhhcCC-----CccCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhh
Q 004454 1 MEAASEAEEKKKKKK-----PLEAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLK 75 (753)
Q Consensus 1 ~~~~~~~~~~~~~~~-----~~~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K 75 (753)
+|++++..+++.... -+++-+||+||.+-......||.+|..++.|+....+.||++|+|...+|+|||||.|+|
T Consensus 284 LEeAE~a~keK~~~pd~~~l~~~~ekKRKRTSIAAPEKRsLEayFavQPRPS~EkIAaIAekLDLKKNVVRVWFCNQRQK 363 (385)
T KOG1168|consen 284 LEEAEAAMKEKDTKPDINELLPGGEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQK 363 (385)
T ss_pred HHHHHHHHHhhccCCchhhccCccccccccccccCcccccHHHHhccCCCCchhHHHHHHHhhhhhhceEEEEeeccHHH
Confidence 367777777774333 157889999999999999999999999999999999999999999999999999999999
Q ss_pred hcccc
Q 004454 76 DRKAP 80 (753)
Q Consensus 76 ~kr~~ 80 (753)
.||..
T Consensus 364 QKRm~ 368 (385)
T KOG1168|consen 364 QKRMK 368 (385)
T ss_pred HHHhh
Confidence 99843
No 31
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=98.75 E-value=5e-09 Score=108.54 Aligned_cols=64 Identities=33% Similarity=0.404 Sum_probs=60.8
Q ss_pred cCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccc
Q 004454 18 EAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPT 81 (753)
Q Consensus 18 ~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~ 81 (753)
..++|+.|+.|+..|++.|+..|.+++||+...|+.||..+++++..|+|||||||+||++...
T Consensus 57 ~~~~rr~rt~~~~~ql~~ler~f~~~h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~~ 120 (235)
T KOG0490|consen 57 KFSKRCARCKFTISQLDELERAFEKVHLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEER 120 (235)
T ss_pred hccccccCCCCCcCHHHHHHHhhcCCCcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhhc
Confidence 4577889999999999999999999999999999999999999999999999999999999775
No 32
>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription]
Probab=98.60 E-value=5e-08 Score=107.54 Aligned_cols=69 Identities=30% Similarity=0.472 Sum_probs=63.8
Q ss_pred CccCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccC
Q 004454 16 PLEAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKR 84 (753)
Q Consensus 16 ~~~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~ 84 (753)
..+++.+|.||+|+..|+..|+..|..++||++..|+.||..+++++..|+|||+|||++++|.....+
T Consensus 171 ~~~~~~rr~rtsft~~Q~~~le~~f~rt~yP~i~~Re~La~~i~l~e~riqvwf~nrra~~rr~~~~~s 239 (354)
T KOG0849|consen 171 ALQRGGRRNRTSFSPSQLEALEECFQRTPYPDIVGRETLAKETGLPEPRVQVWFQNRRAKWRRQHRDCS 239 (354)
T ss_pred cccccccccccccccchHHHHHHHhcCCCCCchhhHHHHhhhccCCchHHHHHHhhhhhhhhhcccccc
Confidence 345777888999999999999999999999999999999999999999999999999999999886544
No 33
>PF11600 CAF-1_p150: Chromatin assembly factor 1 complex p150 subunit, N-terminal; InterPro: IPR021644 P150 is a polypeptide subunit of CAF-1, which functions in depositing newly synthesised and acetylated histones H3/H4 into chromatin during DNA replication and repair [].P150 is the HP1 interaction site of CAF-1 and lies within the N-terminal region of the protein [].
Probab=98.43 E-value=5.9e-05 Score=78.02 Aligned_cols=13 Identities=38% Similarity=0.488 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHHH
Q 004454 449 RRVKEAERLKVAN 461 (753)
Q Consensus 449 ~~~ke~e~~k~~e 461 (753)
++.+++++++..+
T Consensus 159 k~~keeekr~~eE 171 (216)
T PF11600_consen 159 KRKKEEEKRKKEE 171 (216)
T ss_pred HHHHHHHHHhhHH
Confidence 3334444433333
No 34
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=98.27 E-value=2.6e-06 Score=88.00 Aligned_cols=52 Identities=33% Similarity=0.523 Sum_probs=47.3
Q ss_pred CCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccc
Q 004454 28 KTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKA 79 (753)
Q Consensus 28 ~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~ 79 (753)
|-..-...|..+|.+++||+..++.+||..+||+..||-+||.|||+++|-.
T Consensus 183 FKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~tQVsNWFKNRRQRDRa~ 234 (304)
T KOG0775|consen 183 FKEKSRSLLREWYLQNPYPSPREKRELAEATGLTITQVSNWFKNRRQRDRAA 234 (304)
T ss_pred hhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchhhhhhhhhhhhhhhhhc
Confidence 4445578899999999999999999999999999999999999999999943
No 35
>PTZ00121 MAEBL; Provisional
Probab=98.26 E-value=5.8e-05 Score=91.90 Aligned_cols=9 Identities=0% Similarity=-0.186 Sum_probs=5.5
Q ss_pred cCCCCCCCC
Q 004454 218 EYKFLPEQP 226 (753)
Q Consensus 218 e~~flP~~p 226 (753)
.+||.|..-
T Consensus 881 p~Cf~p~Kt 889 (2084)
T PTZ00121 881 PNCQIIRKT 889 (2084)
T ss_pred Ccccccccc
Confidence 566666654
No 36
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=98.20 E-value=6.5e-05 Score=92.33 Aligned_cols=13 Identities=15% Similarity=0.289 Sum_probs=7.1
Q ss_pred hhhhHHHHHHhhh
Q 004454 134 VEMRVIAFVESQL 146 (753)
Q Consensus 134 ~~~~~i~~ves~l 146 (753)
.++-++++|-..|
T Consensus 224 SDVWSLG~ILYEL 236 (1021)
T PTZ00266 224 SDMWALGCIIYEL 236 (1021)
T ss_pred hHHHHHHHHHHHH
Confidence 4555666655544
No 37
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]
Probab=98.17 E-value=3.2e-06 Score=86.45 Aligned_cols=64 Identities=27% Similarity=0.487 Sum_probs=58.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHh---hcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccccccC
Q 004454 21 VKTKRKMKTASQLEILEKTYA---VESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAKR 84 (753)
Q Consensus 21 ~rr~Rt~~t~~Ql~~Le~~F~---~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~~ 84 (753)
.||+|..|+..-.++|..+|. .++||+...+++||.+.|++..||-.||.|+|-+.+|.....+
T Consensus 188 arRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAkqCnItvsQvsnwfgnkrIrykK~~~k~~ 254 (334)
T KOG0774|consen 188 ARRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAKQCNITVSQVSNWFGNKRIRYKKNMGKNQ 254 (334)
T ss_pred HHHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHHHcCceehhhccccccceeehhhhhhhhh
Confidence 567889999999999999995 5799999999999999999999999999999999999776554
No 38
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=98.07 E-value=0.00023 Score=87.69 Aligned_cols=15 Identities=0% Similarity=-0.208 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHhhhc
Q 004454 543 NLLMVWRFLITFADV 557 (753)
Q Consensus 543 ~LL~Vw~FL~~F~~~ 557 (753)
..-..|+-+++|...
T Consensus 666 ~~~~~~~~~~~~~~~ 680 (1021)
T PTZ00266 666 RGKDSSDHVSSYKPY 680 (1021)
T ss_pred ccccccchhhccchh
Confidence 333444555554443
No 39
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=98.06 E-value=0.00025 Score=81.07 Aligned_cols=21 Identities=19% Similarity=0.094 Sum_probs=13.2
Q ss_pred HHHHHHHHHhCCChHHHhHhh
Q 004454 49 ALRAELSAQLGLSDRQLQMWF 69 (753)
Q Consensus 49 ~~r~~LA~~lgL~~~qVqiWF 69 (753)
...+.+-..+|+...+.-+.|
T Consensus 38 ~~~e~~t~~~N~~~d~~~~d~ 58 (811)
T KOG4364|consen 38 EEKESQTSSLNLEMDGLFDDF 58 (811)
T ss_pred cccccchhhhhcccchhHHHH
Confidence 344445666777777777766
No 40
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=98.05 E-value=0.00019 Score=83.09 Aligned_cols=31 Identities=35% Similarity=0.466 Sum_probs=14.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004454 346 SRTEKKRKSEEARIAREVEAHEKRIRKELEK 376 (753)
Q Consensus 346 ~~~ek~~~~ee~r~~ke~e~~e~~~~ke~e~ 376 (753)
...+++++.-++..+|++++.+++.+.|.+|
T Consensus 327 aELerRRq~leeqqqreree~eqkEreE~ek 357 (1118)
T KOG1029|consen 327 AELERRRQALEEQQQREREEVEQKEREEEEK 357 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666654444444444443333333333
No 41
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=97.95 E-value=0.00057 Score=78.31 Aligned_cols=20 Identities=15% Similarity=0.062 Sum_probs=11.5
Q ss_pred hcCCCCCHHHHHHHHHHHhC
Q 004454 639 LHLNALTWPEILRQFALSAG 658 (753)
Q Consensus 639 ~~Ld~~TwpEiLR~~l~s~G 658 (753)
-|+|.-.-.-|++.|+.++-
T Consensus 664 ~hgn~ns~~~ii~E~qE~~k 683 (811)
T KOG4364|consen 664 SHGNENSINDIIDEDQEASK 683 (811)
T ss_pred hcccccchHHHHHHHHHHHH
Confidence 35555555566666666554
No 42
>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription]
Probab=97.85 E-value=3.9e-05 Score=86.59 Aligned_cols=62 Identities=21% Similarity=0.256 Sum_probs=56.9
Q ss_pred CCccCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhh
Q 004454 15 KPLEAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKD 76 (753)
Q Consensus 15 ~~~~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~ 76 (753)
+...-..||.|.+||..|...|...|..+++|+......|+.+|||....|.+||-|-|.+.
T Consensus 414 ~d~~~~~KKPRlVfTd~QkrTL~aiFke~~RPS~Emq~tIS~qL~L~~sTV~NfFmNaRRRs 475 (558)
T KOG2252|consen 414 DDKMLQTKKPRLVFTDIQKRTLQAIFKENKRPSREMQETISQQLNLELSTVINFFMNARRRS 475 (558)
T ss_pred ccccccCCCceeeecHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCcHHHHHHHHHhhhhhc
Confidence 33456788899999999999999999999999999999999999999999999999988764
No 43
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=97.68 E-value=3.7e-05 Score=58.01 Aligned_cols=34 Identities=38% Similarity=0.709 Sum_probs=28.8
Q ss_pred hcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhh
Q 004454 42 VESYPSEALRAELSAQLGLSDRQLQMWFCHRRLK 75 (753)
Q Consensus 42 ~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K 75 (753)
.++||+..++..||..+||+..||..||-|.|.+
T Consensus 7 ~nPYPs~~ek~~L~~~tgls~~Qi~~WF~NaRrR 40 (40)
T PF05920_consen 7 HNPYPSKEEKEELAKQTGLSRKQISNWFINARRR 40 (40)
T ss_dssp TSGS--HHHHHHHHHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHcCCCHHHHHHHHHHhHcc
Confidence 4799999999999999999999999999999864
No 44
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=97.42 E-value=0.00012 Score=75.84 Aligned_cols=67 Identities=34% Similarity=0.546 Sum_probs=62.1
Q ss_pred CCccCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccc
Q 004454 15 KPLEAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPT 81 (753)
Q Consensus 15 ~~~~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~ 81 (753)
.....+.++.|+.++..|+..+...|..+++|+...+..|+..+|++...|++||||+|.+.++...
T Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~l~~~~~~~~~~~q~~~~~~~~~~~~~~~ 213 (235)
T KOG0490|consen 147 GPSNKKPRRPRTTFTENQLEVLETVFRATPKPDADDREQLAEETGLSERVIQVWFQNRRAKLRKHKR 213 (235)
T ss_pred CCCccccCCCccccccchhHhhhhcccCCCCCchhhHHHHHHhcCCChhhhhhhcccHHHHHHhhcc
Confidence 3345678889999999999999999999999999999999999999999999999999999998766
No 45
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=97.04 E-value=0.05 Score=56.98 Aligned_cols=18 Identities=39% Similarity=0.638 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 004454 347 RTEKKRKSEEARIAREVE 364 (753)
Q Consensus 347 ~~ek~~~~ee~r~~ke~e 364 (753)
+.+.+++.+-+++..+.+
T Consensus 278 raeerrqieterlrqeee 295 (445)
T KOG2891|consen 278 RAEERRQIETERLRQEEE 295 (445)
T ss_pred HHHHHhhhhHHHHhhhHh
Confidence 344444445555544443
No 46
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=96.78 E-value=0.0013 Score=80.98 Aligned_cols=66 Identities=26% Similarity=0.424 Sum_probs=60.6
Q ss_pred cCcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccccccc
Q 004454 18 EAEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAPTAK 83 (753)
Q Consensus 18 ~~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~~~~ 83 (753)
.-.+|..||.++..||.++...|....||...+.+.|...+++..++|++||||-|+|.++.....
T Consensus 900 ~~~r~a~~~~~~d~qlk~i~~~~~~q~~~~~~~~E~l~~~~~~~~~~i~vw~qna~~~s~k~~~n~ 965 (1406)
T KOG1146|consen 900 GMGRRAYRTQESDLQLKIIKACYEAQRTPTMQECEVLEEPIGLPKRVIQVWFQNARAKSKKAKLNG 965 (1406)
T ss_pred hhhhhhhccchhHHHHHHHHHHHhhccCChHHHHHhhcccccCCcchhHHhhhhhhhhhhhhhhcc
Confidence 445778999999999999999999999999999999999999999999999999999998876533
No 47
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=96.66 E-value=0.043 Score=64.58 Aligned_cols=17 Identities=24% Similarity=0.266 Sum_probs=8.8
Q ss_pred HHHHHHhhhcCCCCCcH
Q 004454 724 FAAFHVLSLEGSEGLTI 740 (753)
Q Consensus 724 ~~~~~~l~~~g~~g~~~ 740 (753)
-+.|.-|-..|+.=|.+
T Consensus 550 hEsFtnlRsrgsslC~~ 566 (1064)
T KOG1144|consen 550 HESFTNLRSRGSSLCDL 566 (1064)
T ss_pred chhhhhhhhccccccce
Confidence 45555555555554443
No 48
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=96.35 E-value=0.078 Score=62.14 Aligned_cols=25 Identities=20% Similarity=0.254 Sum_probs=17.3
Q ss_pred ccccCCCCHHHHHHHhc-CCChhhHH
Q 004454 557 VLGLWPFTLDEFVQAFH-DYDPRLLG 581 (753)
Q Consensus 557 ~L~Lspftlddf~~AL~-~~~s~LL~ 581 (753)
..+|+...+.+|-.+|. +-|-.||.
T Consensus 1064 KYDl~~wkyaeLRDtINTS~DieLL~ 1089 (1259)
T KOG0163|consen 1064 KYDLSKWKYAELRDTINTSCDIELLE 1089 (1259)
T ss_pred ccccccccHHHHHHhhcccccHHHHH
Confidence 35677778888888886 44446664
No 49
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=96.24 E-value=0.11 Score=61.04 Aligned_cols=23 Identities=26% Similarity=0.528 Sum_probs=12.0
Q ss_pred HHHHhCCChHHHhHhhhhhhhhh
Q 004454 54 LSAQLGLSDRQLQMWFCHRRLKD 76 (753)
Q Consensus 54 LA~~lgL~~~qVqiWFqNRR~K~ 76 (753)
-|.-|||....+++-.|-|-+..
T Consensus 376 ~a~LLGld~~elr~~L~aRvMqt 398 (1259)
T KOG0163|consen 376 AAELLGLDQTELRTGLCARVMQT 398 (1259)
T ss_pred HHHHhCCCHHHHHHHHHHHHHHh
Confidence 34455555555555555554443
No 50
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=96.08 E-value=0.11 Score=61.30 Aligned_cols=9 Identities=33% Similarity=0.571 Sum_probs=4.4
Q ss_pred cchhhhccc
Q 004454 683 ENIISNLRN 691 (753)
Q Consensus 683 ~~~~~~~~~ 691 (753)
..-+.+||+
T Consensus 550 hEsFtnlRs 558 (1064)
T KOG1144|consen 550 HESFTNLRS 558 (1064)
T ss_pred chhhhhhhh
Confidence 344445555
No 51
>PF05262 Borrelia_P83: Borrelia P83/100 protein; InterPro: IPR007926 This family consists of several Borrelia P83/P100 antigen proteins.
Probab=95.87 E-value=0.41 Score=55.20 Aligned_cols=27 Identities=26% Similarity=0.340 Sum_probs=15.5
Q ss_pred CCCCCchhhhhhhHHHHHHhhhCCCCc
Q 004454 125 PFPLPQRNIVEMRVIAFVESQLGEPLR 151 (753)
Q Consensus 125 ~~~~p~~~~~~~~~i~~ves~l~~p~~ 151 (753)
.|..|+...-....|..|=+.|+..+.
T Consensus 15 Ny~gp~~~~~t~~~i~~iG~~la~~~~ 41 (489)
T PF05262_consen 15 NYSGPHASIETAQQIRGIGSGLAEALK 41 (489)
T ss_pred ecCCCCcchhHHHHHHHHHHHHHHHHh
Confidence 445555555555666666666665554
No 52
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=95.85 E-value=0.16 Score=57.87 Aligned_cols=10 Identities=30% Similarity=0.335 Sum_probs=5.3
Q ss_pred HHHHHHhCCC
Q 004454 651 RQFALSAGFG 660 (753)
Q Consensus 651 R~~l~s~G~g 660 (753)
|.|--++|.|
T Consensus 848 r~wqgs~dgG 857 (940)
T KOG4661|consen 848 RRWQGSSDGG 857 (940)
T ss_pred hhhccCCCCc
Confidence 5555555554
No 53
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=95.73 E-value=0.031 Score=61.78 Aligned_cols=27 Identities=26% Similarity=0.433 Sum_probs=20.7
Q ss_pred CCCCcccHHHHHHHHHHHHHhhhcccc
Q 004454 534 WNDSEDNIGNLLMVWRFLITFADVLGL 560 (753)
Q Consensus 534 l~~~~e~v~~LL~Vw~FL~~F~~~L~L 560 (753)
|.+-.-..+-|+-+|.|+.+|...+.-
T Consensus 407 w~ll~pv~~gl~altr~~s~f~~~f~w 433 (506)
T KOG2507|consen 407 WNLLDPVSGGLFALTRRVSSFANPFSW 433 (506)
T ss_pred hcccCccchhHHHHHHHHHHHhccCCC
Confidence 544455568899999999999887764
No 54
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=95.38 E-value=0.2 Score=57.08 Aligned_cols=16 Identities=31% Similarity=0.416 Sum_probs=6.8
Q ss_pred CHHHHHHHHHHHhCCC
Q 004454 645 TWPEILRQFALSAGFG 660 (753)
Q Consensus 645 TwpEiLR~~l~s~G~g 660 (753)
.|.-=-|.++=++|-|
T Consensus 865 rWqGGers~sG~sGpG 880 (940)
T KOG4661|consen 865 RWQGGERSHSGSSGPG 880 (940)
T ss_pred cccCCcccccCCCCCc
Confidence 3543334444444443
No 55
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.08 E-value=0.48 Score=49.14 Aligned_cols=29 Identities=14% Similarity=0.218 Sum_probs=17.3
Q ss_pred HHHHHhhhccccC-CCCHHHHHHHhcCCCh
Q 004454 549 RFLITFADVLGLW-PFTLDEFVQAFHDYDP 577 (753)
Q Consensus 549 ~FL~~F~~~L~Ls-pftlddf~~AL~~~~s 577 (753)
+||..|-+.+.-. -..|+||..++.....
T Consensus 200 nll~eFv~YIk~nKvV~ledLas~f~Lrtq 229 (299)
T KOG3054|consen 200 NLLSEFVEYIKKNKVVPLEDLASEFGLRTQ 229 (299)
T ss_pred HHHHHHHHHHHhcCeeeHHHHHHHhCccHH
Confidence 3445555555443 3568888888875544
No 56
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=93.89 E-value=0.96 Score=53.42 Aligned_cols=47 Identities=23% Similarity=0.458 Sum_probs=43.6
Q ss_pred HHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhccc
Q 004454 33 LEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKA 79 (753)
Q Consensus 33 l~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~ 79 (753)
+..|..+|..|..|+..+...+|.+.||+...|+.||+++++.....
T Consensus 568 ~sllkayyaln~~ps~eelskia~qvglp~~vvk~wfE~~~a~e~sv 614 (1007)
T KOG3623|consen 568 TSLLKAYYALNGLPSEEELSKIAQQVGLPFAVVKAWFEDEEAEEMSV 614 (1007)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHhcccHHHHHHHHHhhhhhhhhh
Confidence 78899999999999999999999999999999999999998886553
No 57
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A.
Probab=93.63 E-value=0.088 Score=42.62 Aligned_cols=42 Identities=26% Similarity=0.341 Sum_probs=31.3
Q ss_pred HHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhh
Q 004454 33 LEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRL 74 (753)
Q Consensus 33 l~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~ 74 (753)
+..|+.+|....++.......|..+.+|+..||+.||-.++.
T Consensus 10 ~~pL~~Yy~~h~~L~E~DL~~L~~kS~ms~qqVr~WFa~~~~ 51 (56)
T PF11569_consen 10 IQPLEDYYLKHKQLQEEDLDELCDKSRMSYQQVRDWFAERMQ 51 (56)
T ss_dssp -HHHHHHHHHT----TTHHHHHHHHTT--HHHHHHHHHHHS-
T ss_pred hHHHHHHHHHcCCccHhhHHHHHHHHCCCHHHHHHHHHHhcc
Confidence 456999999999999999999999999999999999976643
No 58
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=93.58 E-value=3.2 Score=44.74 Aligned_cols=16 Identities=19% Similarity=0.304 Sum_probs=10.5
Q ss_pred HHHHHHHHHHhCCCCC
Q 004454 647 PEILRQFALSAGFGPQ 662 (753)
Q Consensus 647 pEiLR~~l~s~G~g~~ 662 (753)
.+|-+.||...-|.-+
T Consensus 311 ~~Iq~rfl~~~sf~gK 326 (387)
T COG3064 311 SAIQSRFLDADSFAGK 326 (387)
T ss_pred HHHHHHHhcccccCCc
Confidence 4677777777777433
No 59
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=93.54 E-value=1.6 Score=50.19 Aligned_cols=40 Identities=30% Similarity=0.374 Sum_probs=25.6
Q ss_pred CCchhhhhhhhcccchhhhhhcCCCCCHHHHHHHHHHHhCCC
Q 004454 619 AHPQIVEGAYAWGFDIRSWQLHLNALTWPEILRQFALSAGFG 660 (753)
Q Consensus 619 ~~~~~v~~a~~~~~~~~~w~~~Ld~~TwpEiLR~~l~s~G~g 660 (753)
.|+..+...|+|--.|-+- .+..-|---||=.||-++|||
T Consensus 497 ~hpf~i~~gW~wLA~iln~--~p~~~~tatll~s~Lq~aG~~ 536 (591)
T KOG2412|consen 497 VHPFGINHGWAWLARILNK--IPLLDTTATLLNSFLQTAGFG 536 (591)
T ss_pred CCcchhhcccHHHHHHhCC--CCccchHHHHHHHHHHHHHHH
Confidence 4666667777774444443 333337777888888888874
No 60
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.98 E-value=0.85 Score=47.36 Aligned_cols=11 Identities=27% Similarity=0.277 Sum_probs=4.6
Q ss_pred HHHHHHHHHHh
Q 004454 544 LLMVWRFLITF 554 (753)
Q Consensus 544 LL~Vw~FL~~F 554 (753)
|+.|-.|++.-
T Consensus 262 l~AVAkfIkqr 272 (299)
T KOG3054|consen 262 LAAVAKFIKQR 272 (299)
T ss_pred HHHHHHHHHHc
Confidence 34444444433
No 61
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=92.49 E-value=1.8 Score=49.80 Aligned_cols=14 Identities=14% Similarity=0.052 Sum_probs=9.1
Q ss_pred HHHHHHHHHHhhhc
Q 004454 544 LLMVWRFLITFADV 557 (753)
Q Consensus 544 LL~Vw~FL~~F~~~ 557 (753)
|..+.+-|.+|..-
T Consensus 357 L~qI~dkl~s~~~~ 370 (591)
T KOG2412|consen 357 LRQIFDKLDSLFGG 370 (591)
T ss_pred HHHHHHHHHHHhcC
Confidence 77777777765443
No 62
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=90.44 E-value=0.17 Score=56.03 Aligned_cols=60 Identities=25% Similarity=0.355 Sum_probs=49.3
Q ss_pred CCCCCCCCCHHHHHHHHHHH-h--hcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccc
Q 004454 21 VKTKRKMKTASQLEILEKTY-A--VESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAP 80 (753)
Q Consensus 21 ~rr~Rt~~t~~Ql~~Le~~F-~--~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~ 80 (753)
..|.+..+......+|+.+. . ..+||+..++..||.++||+..||.+||-|.|-+..+-.
T Consensus 239 ~~r~~~~lP~~a~~ilr~Wl~~h~~~PYPse~~K~~La~~TGLs~~Qv~NWFINaR~R~w~p~ 301 (342)
T KOG0773|consen 239 KWRPQRGLPKEAVSILRAWLFEHLLHPYPSDDEKLMLAKQTGLSRPQVSNWFINARVRLWKPM 301 (342)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHhccCCCCcchhccccchhcCCCcccCCchhhhcccccCCch
Confidence 44556688889899998773 3 257999999999999999999999999999988755543
No 63
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=89.60 E-value=38 Score=41.31 Aligned_cols=11 Identities=55% Similarity=0.742 Sum_probs=7.3
Q ss_pred CCCCcccCCCC
Q 004454 155 PILGVEFDSLP 165 (753)
Q Consensus 155 P~lg~~~dplp 165 (753)
-+|-++|+||-
T Consensus 394 ~iLEveF~PL~ 404 (988)
T KOG2072|consen 394 NILEVEFHPLK 404 (988)
T ss_pred HHHHhcCCHHH
Confidence 45667787764
No 64
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=89.40 E-value=7.7 Score=46.89 Aligned_cols=12 Identities=17% Similarity=0.268 Sum_probs=6.2
Q ss_pred cCCCCCCCCCHH
Q 004454 20 EVKTKRKMKTAS 31 (753)
Q Consensus 20 k~rr~Rt~~t~~ 31 (753)
+-|--|+.+|++
T Consensus 140 qdR~DR~lltPW 151 (988)
T KOG2072|consen 140 QDRSDRELLTPW 151 (988)
T ss_pred ccccchHHHHHH
Confidence 344455565554
No 65
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=87.88 E-value=55 Score=37.30 Aligned_cols=10 Identities=20% Similarity=0.039 Sum_probs=4.4
Q ss_pred HHHHHHHHHH
Q 004454 647 PEILRQFALS 656 (753)
Q Consensus 647 pEiLR~~l~s 656 (753)
+|-.|.-|.+
T Consensus 465 SEaqRsaLNA 474 (630)
T KOG0742|consen 465 SEAQRSALNA 474 (630)
T ss_pred cHHHHHHHHH
Confidence 4444444433
No 66
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=86.51 E-value=48 Score=38.20 Aligned_cols=35 Identities=17% Similarity=0.290 Sum_probs=22.1
Q ss_pred hhhhhhhcccchhhhhhcCCCCCHHHHHHHHHHHhCCCCCc
Q 004454 623 IVEGAYAWGFDIRSWQLHLNALTWPEILRQFALSAGFGPQL 663 (753)
Q Consensus 623 ~v~~a~~~~~~~~~w~~~Ld~~TwpEiLR~~l~s~G~g~~~ 663 (753)
+++-+|--||-. +.+-..+|=+|.+|.. .|.||..
T Consensus 617 FliLfrds~cqf---ralyT~~~ETeei~kl---~gmgpk~ 651 (708)
T KOG3654|consen 617 FLILFRDSGCQF---RALYTYMPETEEIRKL---TGMGPKM 651 (708)
T ss_pred hhhhhhhcccee---ecccccCccHHHHhhh---hccCchh
Confidence 334444446663 3366778888888865 4778776
No 67
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=85.28 E-value=4.6 Score=46.01 Aligned_cols=15 Identities=27% Similarity=0.384 Sum_probs=8.0
Q ss_pred HhHhhhhhhhhhccc
Q 004454 65 LQMWFCHRRLKDRKA 79 (753)
Q Consensus 65 VqiWFqNRR~K~kr~ 79 (753)
+---|-..|+|.-|.
T Consensus 118 mea~fakqrqklgks 132 (708)
T KOG3654|consen 118 MEAIFAKQRQKLGKS 132 (708)
T ss_pred HHHHHHHHHHHhchh
Confidence 444565556665543
No 68
>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=85.19 E-value=2.9 Score=46.04 Aligned_cols=11 Identities=27% Similarity=0.628 Sum_probs=6.5
Q ss_pred hHHHhHhhhhh
Q 004454 62 DRQLQMWFCHR 72 (753)
Q Consensus 62 ~~qVqiWFqNR 72 (753)
.+.+..||.-.
T Consensus 29 ~~~A~~w~~~~ 39 (321)
T PF07946_consen 29 RRIAKAWFESH 39 (321)
T ss_pred HHHHHHHHHHH
Confidence 45566777543
No 69
>PRK00106 hypothetical protein; Provisional
Probab=84.94 E-value=90 Score=36.93 Aligned_cols=12 Identities=33% Similarity=0.520 Sum_probs=8.1
Q ss_pred HHHHHHHHhhhc
Q 004454 741 LEVADKIQVTLE 752 (753)
Q Consensus 741 ~~~~~~~~~~~~ 752 (753)
.|||++|+..|.
T Consensus 504 ~~ia~~Ie~~~~ 515 (535)
T PRK00106 504 HKVREKIENNLD 515 (535)
T ss_pred HHHHHHHHHhCc
Confidence 367788776654
No 70
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.
Probab=83.66 E-value=1.9 Score=34.59 Aligned_cols=46 Identities=17% Similarity=0.214 Sum_probs=34.8
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhh
Q 004454 22 KTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHR 72 (753)
Q Consensus 22 rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNR 72 (753)
||+|..+|-.+-..+-..++... ....||..+|++..+|..|..|+
T Consensus 1 krkR~~LTl~eK~~iI~~~e~g~-----s~~~ia~~fgv~~sTv~~I~K~k 46 (53)
T PF04218_consen 1 KRKRKSLTLEEKLEIIKRLEEGE-----SKRDIAREFGVSRSTVSTILKNK 46 (53)
T ss_dssp SSSSSS--HHHHHHHHHHHHCTT------HHHHHHHHT--CCHHHHHHHCH
T ss_pred CCCCccCCHHHHHHHHHHHHcCC-----CHHHHHHHhCCCHHHHHHHHHhH
Confidence 57899999988887777777665 57889999999999999999885
No 71
>PF05066 HARE-HTH: HB1, ASXL, restriction endonuclease HTH domain; InterPro: IPR007759 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The delta protein is a dispensable subunit of Bacillus subtilis RNA polymerase (RNAP) that has major effects on the biochemical properties of the purified enzyme. In the presence of delta, RNAP displays an increased specificity of transcription, a decreased affinity for nucleic acids, and an increased efficiency of RNA synthesis because of enhanced recycling []. The delta protein, contains two distinct regions, an N-terminal domain and a glutamate and aspartate residue-rich C-terminal region [].; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent; PDB: 2KRC_A.
Probab=78.83 E-value=1.8 Score=36.69 Aligned_cols=30 Identities=37% Similarity=0.387 Sum_probs=25.0
Q ss_pred cchhHHHHHHhhhcCCCCCcHHHHHHHHHhh
Q 004454 720 GTVKFAAFHVLSLEGSEGLTILEVADKIQVT 750 (753)
Q Consensus 720 gt~k~~~~~~l~~~g~~g~~~~~~~~~~~~~ 750 (753)
+|++=||++||...| ..|++.||++.|+..
T Consensus 1 mt~~eaa~~vL~~~~-~pm~~~eI~~~i~~~ 30 (72)
T PF05066_consen 1 MTFKEAAYEVLEEAG-RPMTFKEIWEEIQER 30 (72)
T ss_dssp S-HHHHHHHHHHHH--S-EEHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHhcC-CCcCHHHHHHHHHHh
Confidence 588999999999999 999999999999864
No 72
>PRK00106 hypothetical protein; Provisional
Probab=78.60 E-value=1.5e+02 Score=35.16 Aligned_cols=13 Identities=23% Similarity=0.360 Sum_probs=6.6
Q ss_pred chhhhcccCccch
Q 004454 684 NIISNLRNGSAVG 696 (753)
Q Consensus 684 ~~~~~~~~~~~~~ 696 (753)
|+++.-|.|+..+
T Consensus 439 D~lsa~Rpgar~~ 451 (535)
T PRK00106 439 DALSSARPGARNE 451 (535)
T ss_pred HHhccCCCCCCcC
Confidence 4555555555543
No 73
>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []. Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.
Probab=77.55 E-value=1e+02 Score=32.70 Aligned_cols=12 Identities=17% Similarity=0.387 Sum_probs=7.4
Q ss_pred HHHHHHhhhhhh
Q 004454 587 LLRSVIKDIEDA 598 (753)
Q Consensus 587 Llk~l~~d~e~~ 598 (753)
=|+.|-.+++.+
T Consensus 190 QL~~L~~EL~~~ 201 (246)
T PF00769_consen 190 QLKELKSELEQL 201 (246)
T ss_dssp HHHHHHHHHHTT
T ss_pred HHHHHHHHHHHH
Confidence 356666666664
No 74
>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=75.58 E-value=1.2e+02 Score=32.68 Aligned_cols=14 Identities=29% Similarity=0.128 Sum_probs=6.3
Q ss_pred cHHHHHHHHHHHHH
Q 004454 540 NIGNLLMVWRFLIT 553 (753)
Q Consensus 540 ~v~~LL~Vw~FL~~ 553 (753)
.|..||.-|+-|.+
T Consensus 226 G~~~lltD~~kl~~ 239 (276)
T PF12037_consen 226 GFRALLTDRDKLTT 239 (276)
T ss_pred HHHHHHhCHHHHHH
Confidence 34445544444443
No 75
>KOG0579 consensus Ste20-like serine/threonine protein kinase [Signal transduction mechanisms]
Probab=75.40 E-value=2e+02 Score=34.89 Aligned_cols=13 Identities=23% Similarity=0.365 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHH
Q 004454 355 EEARIAREVEAHE 367 (753)
Q Consensus 355 ee~r~~ke~e~~e 367 (753)
+-.+++|+..+..
T Consensus 798 eLR~LQkeE~R~q 810 (1187)
T KOG0579|consen 798 ELRRLQKEEARQQ 810 (1187)
T ss_pred HHHHHHHHHHHHH
Confidence 3444555444433
No 76
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=74.26 E-value=20 Score=44.32 Aligned_cols=8 Identities=50% Similarity=0.937 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 004454 398 ERRKEEER 405 (753)
Q Consensus 398 er~keeer 405 (753)
+|++|+|+
T Consensus 857 ~r~~eee~ 864 (1018)
T KOG2002|consen 857 RRKEEEEK 864 (1018)
T ss_pred HHHHHHHH
Confidence 33333333
No 77
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=73.22 E-value=1.8e+02 Score=33.37 Aligned_cols=9 Identities=33% Similarity=0.464 Sum_probs=4.9
Q ss_pred HHHhhhccc
Q 004454 551 LITFADVLG 559 (753)
Q Consensus 551 L~~F~~~L~ 559 (753)
|+.||+..+
T Consensus 308 l~rFG~~~~ 316 (420)
T COG4942 308 LRRFGQADG 316 (420)
T ss_pred HHHhcccCC
Confidence 455665554
No 78
>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=73.15 E-value=1.1 Score=45.43 Aligned_cols=31 Identities=13% Similarity=0.266 Sum_probs=17.1
Q ss_pred HHHHhhhccccCC-CCHHHHHHHhcCCChhhH
Q 004454 550 FLITFADVLGLWP-FTLDEFVQAFHDYDPRLL 580 (753)
Q Consensus 550 FL~~F~~~L~Lsp-ftlddf~~AL~~~~s~LL 580 (753)
+|..|-+.+...- ..|+||...+.......+
T Consensus 100 lL~~Fi~yIK~~Kvv~ledla~~f~l~t~~~i 131 (188)
T PF09756_consen 100 LLQEFINYIKEHKVVNLEDLAAEFGLRTQDVI 131 (188)
T ss_dssp HHHHHHHHHHH-SEE-HHHHHHHH-S-HHHHH
T ss_pred HHHHHHHHHHHcceeeHHHHHHHcCCCHHHHH
Confidence 4455555555544 468999999876665444
No 79
>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=72.47 E-value=18 Score=42.06 Aligned_cols=11 Identities=18% Similarity=0.407 Sum_probs=5.5
Q ss_pred hhhhhhccccc
Q 004454 71 HRRLKDRKAPT 81 (753)
Q Consensus 71 NRR~K~kr~~~ 81 (753)
-||++..++..
T Consensus 12 RRRARqeR~r~ 22 (492)
T PF02029_consen 12 RRRARQERLRQ 22 (492)
T ss_pred HHHHHHHHHHh
Confidence 35555555443
No 80
>PRK12704 phosphodiesterase; Provisional
Probab=71.58 E-value=2.2e+02 Score=33.71 Aligned_cols=14 Identities=21% Similarity=0.458 Sum_probs=8.1
Q ss_pred ccCCCCHHHHHHHh
Q 004454 559 GLWPFTLDEFVQAF 572 (753)
Q Consensus 559 ~Lspftlddf~~AL 572 (753)
.+.||..+++++..
T Consensus 278 ~i~P~~iee~~~~~ 291 (520)
T PRK12704 278 RIHPARIEEMVEKA 291 (520)
T ss_pred CcCCCCHHHHHHHH
Confidence 45566666665555
No 81
>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=71.42 E-value=20 Score=41.78 Aligned_cols=8 Identities=25% Similarity=0.713 Sum_probs=3.7
Q ss_pred HHHHHHHh
Q 004454 565 LDEFVQAF 572 (753)
Q Consensus 565 lddf~~AL 572 (753)
|+.+..||
T Consensus 390 leqyt~a~ 397 (492)
T PF02029_consen 390 LEQYTSAI 397 (492)
T ss_pred HHHHHHHh
Confidence 44444444
No 82
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=71.36 E-value=23 Score=39.99 Aligned_cols=14 Identities=21% Similarity=0.342 Sum_probs=10.4
Q ss_pred hhhhhcCCCCCHHHH
Q 004454 635 RSWQLHLNALTWPEI 649 (753)
Q Consensus 635 ~~w~~~Ld~~TwpEi 649 (753)
..| .+|++.+|+=+
T Consensus 405 ~sw-~ll~pv~~gl~ 418 (506)
T KOG2507|consen 405 ESW-NLLDPVSGGLF 418 (506)
T ss_pred hhh-cccCccchhHH
Confidence 347 78999998754
No 83
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=71.21 E-value=15 Score=44.37 Aligned_cols=25 Identities=24% Similarity=0.212 Sum_probs=15.9
Q ss_pred hccccccccCCCccCCcchhHHHHH
Q 004454 704 EMGLSNLRRSRHRLTPGTVKFAAFH 728 (753)
Q Consensus 704 ~~~~~~~~~~~~~l~~gt~k~~~~~ 728 (753)
.+|-|.+-||+|+.+-|.+-.+--+
T Consensus 1070 r~g~l~rsrsrh~~a~gqlm~~~~~ 1094 (1102)
T KOG1924|consen 1070 RRGCLDRSRSRHQNALGQLMDLTRQ 1094 (1102)
T ss_pred cccchhhhhHhhhhhhhHHHHHHHH
Confidence 3455566677788887776655433
No 84
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=70.85 E-value=2.2e+02 Score=33.55 Aligned_cols=26 Identities=31% Similarity=0.391 Sum_probs=14.5
Q ss_pred CCcchhHHHHHHhhhcCCCCCcHHHHHHHHHhhhc
Q 004454 718 TPGTVKFAAFHVLSLEGSEGLTILEVADKIQVTLE 752 (753)
Q Consensus 718 ~~gt~k~~~~~~l~~~g~~g~~~~~~~~~~~~~~~ 752 (753)
.|.-|.=..-.+|+ .|||++|+..|.
T Consensus 469 ~~~~v~d~~~~~la---------~~i~~~ie~~~~ 494 (514)
T TIGR03319 469 KPEKISDDQAVVLA---------RDIAKKIEEELE 494 (514)
T ss_pred cCCcCChHHHHHHH---------HHHHHHHHHhCc
Confidence 34445444444554 367777776553
No 85
>PRK12704 phosphodiesterase; Provisional
Probab=68.54 E-value=2.5e+02 Score=33.21 Aligned_cols=10 Identities=40% Similarity=0.654 Sum_probs=6.2
Q ss_pred HHHHHHHhhh
Q 004454 742 EVADKIQVTL 751 (753)
Q Consensus 742 ~~~~~~~~~~ 751 (753)
|||++|...|
T Consensus 490 ~i~~~ie~~~ 499 (520)
T PRK12704 490 DIAKKIEEEL 499 (520)
T ss_pred HHHHHHHHhC
Confidence 5666666554
No 86
>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []. Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.
Probab=67.84 E-value=1.7e+02 Score=31.02 Aligned_cols=6 Identities=50% Similarity=0.545 Sum_probs=2.3
Q ss_pred hHHHHH
Q 004454 579 LLGEIH 584 (753)
Q Consensus 579 LL~eiH 584 (753)
-++-||
T Consensus 209 ~~D~~h 214 (246)
T PF00769_consen 209 QLDIIH 214 (246)
T ss_dssp HHHHHH
T ss_pred hhHHHH
Confidence 333333
No 87
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=66.38 E-value=82 Score=33.84 Aligned_cols=9 Identities=33% Similarity=0.512 Sum_probs=3.8
Q ss_pred CCHHHHHHH
Q 004454 563 FTLDEFVQA 571 (753)
Q Consensus 563 ftlddf~~A 571 (753)
|+=||+..-
T Consensus 262 f~edD~~Kp 270 (290)
T KOG2689|consen 262 FTEDDELKP 270 (290)
T ss_pred ccccccccc
Confidence 444444433
No 88
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=63.49 E-value=94 Score=38.46 Aligned_cols=38 Identities=16% Similarity=-0.022 Sum_probs=23.3
Q ss_pred CCCCCchhhhhhhHHHHHHhhhCCCCcCCCCCCCcccC
Q 004454 125 PFPLPQRNIVEMRVIAFVESQLGEPLREDGPILGVEFD 162 (753)
Q Consensus 125 ~~~~p~~~~~~~~~i~~ves~l~~p~~~~gP~lg~~~d 162 (753)
.+|.+++-.....++++++.-.|.|+....-.+-+.|.
T Consensus 491 q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla 528 (975)
T KOG0112|consen 491 QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLA 528 (975)
T ss_pred CcceeeecccCccchhhHHHHhcCcCCCCCcccccccc
Confidence 34444444455567777887788887655555555554
No 89
>KOG2357 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.21 E-value=29 Score=39.13 Aligned_cols=13 Identities=31% Similarity=0.373 Sum_probs=6.7
Q ss_pred HhHhhhhhhhhhc
Q 004454 65 LQMWFCHRRLKDR 77 (753)
Q Consensus 65 VqiWFqNRR~K~k 77 (753)
-+-||+-.|.-..
T Consensus 135 A~~wF~s~~s~le 147 (440)
T KOG2357|consen 135 AQAWFGSLRSLLE 147 (440)
T ss_pred HHHHHHHHHHHHH
Confidence 4456665555443
No 90
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=61.83 E-value=38 Score=39.20 Aligned_cols=8 Identities=0% Similarity=0.297 Sum_probs=3.5
Q ss_pred HHHHHHHh
Q 004454 547 VWRFLITF 554 (753)
Q Consensus 547 Vw~FL~~F 554 (753)
+|+|+..-
T Consensus 409 l~~~v~~~ 416 (460)
T KOG1363|consen 409 LYDYVDSN 416 (460)
T ss_pred HHHHHHhc
Confidence 44444433
No 91
>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=61.60 E-value=3.8e+02 Score=32.91 Aligned_cols=7 Identities=14% Similarity=0.368 Sum_probs=3.8
Q ss_pred HHHhCCC
Q 004454 55 SAQLGLS 61 (753)
Q Consensus 55 A~~lgL~ 61 (753)
|..+|.+
T Consensus 156 ah~igyp 162 (697)
T PF09726_consen 156 AHCIGYP 162 (697)
T ss_pred HhhcCCc
Confidence 5555544
No 92
>KOG3634 consensus Troponin [Cytoskeleton]
Probab=60.67 E-value=74 Score=34.95 Aligned_cols=10 Identities=0% Similarity=-0.004 Sum_probs=4.6
Q ss_pred HHHHHHHHHH
Q 004454 544 LLMVWRFLIT 553 (753)
Q Consensus 544 LL~Vw~FL~~ 553 (753)
+=..|.-|+.
T Consensus 239 iKELhqrI~k 248 (361)
T KOG3634|consen 239 IKELHQRICK 248 (361)
T ss_pred HHHHHHHHHH
Confidence 4445544443
No 93
>KOG3634 consensus Troponin [Cytoskeleton]
Probab=59.44 E-value=74 Score=34.96 Aligned_cols=11 Identities=18% Similarity=0.434 Sum_probs=5.1
Q ss_pred HHHHHHHHHHH
Q 004454 580 LGEIHVTLLRS 590 (753)
Q Consensus 580 L~eiH~~Llk~ 590 (753)
+-+||..|.++
T Consensus 239 iKELhqrI~kL 249 (361)
T KOG3634|consen 239 IKELHQRICKL 249 (361)
T ss_pred HHHHHHHHHHH
Confidence 34555544443
No 94
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=59.40 E-value=3.3e+02 Score=31.41 Aligned_cols=26 Identities=12% Similarity=0.235 Sum_probs=17.3
Q ss_pred hcCCChhhHHHHHHHHHHHHHhhhhh
Q 004454 572 FHDYDPRLLGEIHVTLLRSVIKDIED 597 (753)
Q Consensus 572 L~~~~s~LL~eiH~~Llk~l~~d~e~ 597 (753)
||.-..+.+.|-..+-|+++|=--++
T Consensus 456 LceRnktymSEaqRsaLNAlLfRTGd 481 (630)
T KOG0742|consen 456 LCERNKTYMSEAQRSALNALLFRTGD 481 (630)
T ss_pred HHHhchhhhcHHHHHHHHHHHHHhcc
Confidence 34444577777777777777766665
No 95
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=56.89 E-value=3.5e+02 Score=33.69 Aligned_cols=17 Identities=18% Similarity=0.012 Sum_probs=9.8
Q ss_pred HhhhccccCCCCHHHHH
Q 004454 553 TFADVLGLWPFTLDEFV 569 (753)
Q Consensus 553 ~F~~~L~Lspftlddf~ 569 (753)
.+...|+|-..+.|+=.
T Consensus 691 ~~~~~ldl~G~~~~eA~ 707 (771)
T TIGR01069 691 EASLTLDLRGQRSEEAL 707 (771)
T ss_pred CCCceEECCCCCHHHHH
Confidence 45556666666665544
No 96
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=54.62 E-value=3.9e+02 Score=33.32 Aligned_cols=17 Identities=24% Similarity=0.196 Sum_probs=9.1
Q ss_pred HhhhccccCCCCHHHHH
Q 004454 553 TFADVLGLWPFTLDEFV 569 (753)
Q Consensus 553 ~F~~~L~Lspftlddf~ 569 (753)
.+...|+|..++.|+-.
T Consensus 702 ~~~~~lDL~G~~~eeA~ 718 (782)
T PRK00409 702 TVSLELDLRGMRYEEAL 718 (782)
T ss_pred CCCceEECCCCCHHHHH
Confidence 34555666666665433
No 97
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=53.72 E-value=3.9e+02 Score=33.29 Aligned_cols=7 Identities=14% Similarity=0.311 Sum_probs=3.6
Q ss_pred CCCCCCC
Q 004454 221 FLPEQPT 227 (753)
Q Consensus 221 flP~~ps 227 (753)
|+|....
T Consensus 354 ~Vpa~~~ 360 (771)
T TIGR01069 354 PIPANEH 360 (771)
T ss_pred CccCCcc
Confidence 5555543
No 98
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=52.37 E-value=4.4e+02 Score=32.85 Aligned_cols=9 Identities=56% Similarity=0.689 Sum_probs=4.6
Q ss_pred hcCCCCCcH
Q 004454 732 LEGSEGLTI 740 (753)
Q Consensus 732 ~~g~~g~~~ 740 (753)
.+|..|.||
T Consensus 770 ~~GG~Gat~ 778 (782)
T PRK00409 770 NEGGFGVTI 778 (782)
T ss_pred ccCCCeEEE
Confidence 345555554
No 99
>KOG4848 consensus Extracellular matrix-associated peroxidase [Extracellular structures; Defense mechanisms]
Probab=43.81 E-value=3.7e+02 Score=27.47 Aligned_cols=6 Identities=50% Similarity=0.590 Sum_probs=2.2
Q ss_pred HHHHHH
Q 004454 440 EKRRQK 445 (753)
Q Consensus 440 ek~~~k 445 (753)
|+++.+
T Consensus 202 ekK~~K 207 (225)
T KOG4848|consen 202 EKKAVK 207 (225)
T ss_pred HHHHHH
Confidence 333333
No 100
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=39.74 E-value=59 Score=25.13 Aligned_cols=44 Identities=16% Similarity=0.191 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhh
Q 004454 27 MKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLK 75 (753)
Q Consensus 27 ~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K 75 (753)
.+++.+..+|...| .....-.++|..+|++...|+.+...-..|
T Consensus 4 ~L~~~er~vi~~~y-----~~~~t~~eIa~~lg~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 4 QLPPREREVIRLRY-----FEGLTLEEIAERLGISRSTVRRILKRALKK 47 (50)
T ss_dssp TS-HHHHHHHHHHH-----TST-SHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHh-----cCCCCHHHHHHHHCCcHHHHHHHHHHHHHH
Confidence 46788889998888 223446788999999999999887554443
No 101
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=37.74 E-value=56 Score=26.35 Aligned_cols=42 Identities=29% Similarity=0.400 Sum_probs=34.0
Q ss_pred CCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHhCCChHHHhHhh
Q 004454 28 KTASQLEILEKTYAVES--YPSEALRAELSAQLGLSDRQLQMWF 69 (753)
Q Consensus 28 ~t~~Ql~~Le~~F~~~~--yps~~~r~~LA~~lgL~~~qVqiWF 69 (753)
+|..|+.+|...|...= +|-...-.+||..||++...|..-.
T Consensus 1 LT~~Q~e~L~~A~~~GYfd~PR~~tl~elA~~lgis~st~~~~L 44 (53)
T PF04967_consen 1 LTDRQREILKAAYELGYFDVPRRITLEELAEELGISKSTVSEHL 44 (53)
T ss_pred CCHHHHHHHHHHHHcCCCCCCCcCCHHHHHHHhCCCHHHHHHHH
Confidence 57899999999987764 4667788899999999998776443
No 102
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=37.60 E-value=1.8e+02 Score=33.42 Aligned_cols=6 Identities=33% Similarity=0.479 Sum_probs=2.2
Q ss_pred CCcccC
Q 004454 157 LGVEFD 162 (753)
Q Consensus 157 lg~~~d 162 (753)
.|-+.+
T Consensus 343 ~gae~e 348 (641)
T KOG3915|consen 343 QGAESE 348 (641)
T ss_pred cccccC
Confidence 333333
No 103
>PRK12705 hypothetical protein; Provisional
Probab=37.17 E-value=7.7e+02 Score=29.17 Aligned_cols=12 Identities=33% Similarity=0.476 Sum_probs=7.1
Q ss_pred HHHHHHHHhhhc
Q 004454 741 LEVADKIQVTLE 752 (753)
Q Consensus 741 ~~~~~~~~~~~~ 752 (753)
.|||++|+..|.
T Consensus 477 ~~Ia~~Ie~el~ 488 (508)
T PRK12705 477 RDIAKKIENDLT 488 (508)
T ss_pred HHHHHHHHhhCc
Confidence 366777765543
No 104
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=36.22 E-value=1.9e+02 Score=35.60 Aligned_cols=23 Identities=22% Similarity=0.326 Sum_probs=18.9
Q ss_pred ccCCCCcccccccCCCCCCCCCC
Q 004454 206 TIHPQGATRTVHEYKFLPEQPTV 228 (753)
Q Consensus 206 ~~~~~~~~r~~~e~~flP~~ps~ 228 (753)
+++|..+-+.+.+-.|.|.-|.-
T Consensus 176 g~hp~vgD~V~vea~Ynpsmpfk 198 (1194)
T KOG4246|consen 176 GLHPSVGDAVNVEADYNPSMPFK 198 (1194)
T ss_pred cCCCccccceeeecccCCCCCcc
Confidence 34499999999999999988863
No 105
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=35.34 E-value=72 Score=26.69 Aligned_cols=32 Identities=22% Similarity=0.267 Sum_probs=25.3
Q ss_pred HHHHHHHHHhhhccccCCCCHHHHHHHhcCCCh
Q 004454 545 LMVWRFLITFADVLGLWPFTLDEFVQAFHDYDP 577 (753)
Q Consensus 545 L~Vw~FL~~F~~~L~Lspftlddf~~AL~~~~s 577 (753)
..|++||..|-..-|.+| |+.|++.+|..+..
T Consensus 9 ~~vL~~I~~~~~~~G~~P-t~rEIa~~~g~~S~ 40 (65)
T PF01726_consen 9 KEVLEFIREYIEENGYPP-TVREIAEALGLKST 40 (65)
T ss_dssp HHHHHHHHHHHHHHSS----HHHHHHHHTSSSH
T ss_pred HHHHHHHHHHHHHcCCCC-CHHHHHHHhCCCCh
Confidence 468999999999999876 99999999986644
No 106
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=35.26 E-value=8.9e+02 Score=29.36 Aligned_cols=10 Identities=40% Similarity=0.441 Sum_probs=5.0
Q ss_pred hhhcccCccc
Q 004454 686 ISNLRNGSAV 695 (753)
Q Consensus 686 ~~~~~~~~~~ 695 (753)
+++++.++.+
T Consensus 621 ~s~i~~h~~~ 630 (668)
T KOG2253|consen 621 CSNIRQHSSP 630 (668)
T ss_pred HHHHHhcCCH
Confidence 3455555554
No 107
>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=34.12 E-value=7.8e+02 Score=28.35 Aligned_cols=35 Identities=23% Similarity=0.406 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHhhhccc--cCCCCHHHHHHHhcCCCh
Q 004454 543 NLLMVWRFLITFADVLG--LWPFTLDEFVQAFHDYDP 577 (753)
Q Consensus 543 ~LL~Vw~FL~~F~~~L~--Lspftlddf~~AL~~~~s 577 (753)
..|..|.|+.+|...|- ++..+-|+|.+||.....
T Consensus 439 q~lkn~ha~~~~~~Slaaeid~~sqdeLmqafqeqee 475 (502)
T KOG0982|consen 439 QFLKNWHATFSLFFSLAAEIDEMSQDELMQAFQEQEE 475 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 34556666665555443 456789999999975554
No 108
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=33.79 E-value=36 Score=28.46 Aligned_cols=44 Identities=20% Similarity=0.228 Sum_probs=28.5
Q ss_pred CCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhh
Q 004454 23 TKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFC 70 (753)
Q Consensus 23 r~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFq 70 (753)
++|..||.++...+-..+. ........+|..+|++..++..|-.
T Consensus 2 ~~r~~ys~e~K~~~v~~~~----~~g~sv~~va~~~gi~~~~l~~W~~ 45 (76)
T PF01527_consen 2 RKRRRYSPEFKLQAVREYL----ESGESVSEVAREYGISPSTLYNWRK 45 (76)
T ss_dssp -SS----HHHHHHHHHHHH----HHHCHHHHHHHHHTS-HHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHH----HCCCceEeeecccccccccccHHHH
Confidence 4678899988777655552 2235678899999999999999953
No 109
>KOG4691 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.52 E-value=5.5e+02 Score=26.37 Aligned_cols=21 Identities=24% Similarity=0.101 Sum_probs=11.0
Q ss_pred hhhHHHHHHHHHHhhccCCCC
Q 004454 475 ALVEDERLELMELAASSKGLP 495 (753)
Q Consensus 475 ~~~e~Ee~E~~elaa~Ss~l~ 495 (753)
..+..+.++..-+.+-.++..
T Consensus 173 nfITReNLea~Ie~AL~~p~~ 193 (227)
T KOG4691|consen 173 NFITRENLEARIEAALDSPKN 193 (227)
T ss_pred hhhhHHhHHHHHHHHHcCccc
Confidence 345555556555555555443
No 110
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=32.47 E-value=76 Score=23.58 Aligned_cols=44 Identities=14% Similarity=0.163 Sum_probs=31.8
Q ss_pred CCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhh
Q 004454 27 MKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLK 75 (753)
Q Consensus 27 ~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K 75 (753)
.++..+..++...|. ....-.++|..+|++...|..|...-+.+
T Consensus 10 ~l~~~~~~~~~~~~~-----~~~~~~~ia~~~~~s~~~i~~~~~~~~~~ 53 (55)
T cd06171 10 KLPEREREVILLRFG-----EGLSYEEIAEILGISRSTVRQRLHRALKK 53 (55)
T ss_pred hCCHHHHHHHHHHHh-----cCCCHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 356677777766653 22356778999999999999998765544
No 111
>PF00440 TetR_N: Bacterial regulatory proteins, tetR family; InterPro: IPR001647 This entry represents a DNA-binding domain with a helix-turn-helix (HTH) structure that is found in several bacterial and archaeal transcriptional regulators, such as TetR, the tetracycline resistance repressor. Numerous other transcriptional regulatory proteins also contain HTH-type DNA-binding domains, and can be grouped into subfamiles based on sequence similarity. The domain represented by this entry is found in a subfamily of proteins that includes the transcriptional regulators TetR, TetC, AcrR, BetI, Bm3R1, EnvR, QacR, MtrR, TcmR, Ttk, YbiH, and YhgD [, , ]. Many of these proteins function as repressors that control the level of susceptibility to hydrophobic antibiotics and detergents. They all have similar molecular weights, ranging from 21 to 25 kDa. The helix-turn-helix motif is located in the initial third of the protein. The 3D structure of the homodimeric TetR protein complexed with 7-chloro-tetracycline-magnesium has been determined to 2.1 A resolution []. TetR folds into ten alpha-helices with connecting turns and loops. The three N-terminal alpha-helices of the repressor form the DNA-binding domain: this structural motif encompasses an HTH fold with an inverse orientation compared with that of other DNA-binding proteins.; GO: 0003677 DNA binding; PDB: 3NPI_B 3IUV_A 3CCY_A 2JK3_A 2FX0_A 2JJ7_A 2WV1_B 3BTI_D 3BR6_E 3BR5_A ....
Probab=30.50 E-value=37 Score=26.04 Aligned_cols=27 Identities=26% Similarity=0.423 Sum_probs=23.7
Q ss_pred HHHHHHhhhcCCCCCcHHHHHHHHHhh
Q 004454 724 FAAFHVLSLEGSEGLTILEVADKIQVT 750 (753)
Q Consensus 724 ~~~~~~l~~~g~~g~~~~~~~~~~~~~ 750 (753)
-+|..++...|-.++||.+||++.-.+
T Consensus 3 ~aa~~l~~~~G~~~~s~~~Ia~~~gvs 29 (47)
T PF00440_consen 3 EAALELFAEKGYEAVSIRDIARRAGVS 29 (47)
T ss_dssp HHHHHHHHHHHTTTSSHHHHHHHHTSC
T ss_pred HHHHHHHHHhCHHhCCHHHHHHHHccc
Confidence 378999999999999999999987554
No 112
>KOG2441 consensus mRNA splicing factor/probable chromatin binding snw family nuclear protein [RNA processing and modification; Chromatin structure and dynamics]
Probab=29.80 E-value=2.8e+02 Score=31.41 Aligned_cols=6 Identities=33% Similarity=0.534 Sum_probs=2.6
Q ss_pred CCCCCC
Q 004454 222 LPEQPT 227 (753)
Q Consensus 222 lP~~ps 227 (753)
.|.|+.
T Consensus 178 tpsqq~ 183 (506)
T KOG2441|consen 178 TPSQQA 183 (506)
T ss_pred cccchh
Confidence 344443
No 113
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=29.58 E-value=55 Score=27.45 Aligned_cols=33 Identities=21% Similarity=0.303 Sum_probs=26.7
Q ss_pred CCcchhHHHHHHhhhcCCCCCcHHHHHHHHHhh
Q 004454 718 TPGTVKFAAFHVLSLEGSEGLTILEVADKIQVT 750 (753)
Q Consensus 718 ~~gt~k~~~~~~l~~~g~~g~~~~~~~~~~~~~ 750 (753)
++--++-.....|...|..|++..|||+.+..+
T Consensus 3 ~~~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~ 35 (68)
T smart00550 3 TQDSLEEKILEFLENSGDETSTALQLAKNLGLP 35 (68)
T ss_pred CchHHHHHHHHHHHHCCCCCcCHHHHHHHHCCC
Confidence 455566778889999999899999999987643
No 114
>KOG1478 consensus 3-keto sterol reductase [Lipid transport and metabolism]
Probab=29.33 E-value=74 Score=34.14 Aligned_cols=76 Identities=25% Similarity=0.282 Sum_probs=49.8
Q ss_pred CCCHHHHHHHhc--CCCh--hhHHHHHHHHHHHHHhhhhhhhcCCCCCCCCCCCCCCCCCCCCchhhhhhhhcccchhhh
Q 004454 562 PFTLDEFVQAFH--DYDP--RLLGEIHVTLLRSVIKDIEDAAKTPFTGLGANQNSAVNPGGAHPQIVEGAYAWGFDIRSW 637 (753)
Q Consensus 562 pftlddf~~AL~--~~~s--~LL~eiH~~Llk~l~~d~e~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~a~~~~~~~~~w 637 (753)
.|+|+||+..=- .+.+ .|++-+|+++.+....-- +.. ...+|.+..+ +...|
T Consensus 182 ~lsleD~q~~kg~~pY~sSKrl~DlLh~A~~~~~~~~g----------~~q--------yvv~pg~~tt------~~~~~ 237 (341)
T KOG1478|consen 182 NLSLEDFQHSKGKEPYSSSKRLTDLLHVALNRNFKPLG----------INQ--------YVVQPGIFTT------NSFSE 237 (341)
T ss_pred cCCHHHHhhhcCCCCcchhHHHHHHHHHHHhccccccc----------hhh--------hcccCceeec------chhhh
Confidence 499999975432 2333 799999999987654311 000 0112222111 22236
Q ss_pred hhcCCCCCHHHHHHHHHHHhCCCCCc
Q 004454 638 QLHLNALTWPEILRQFALSAGFGPQL 663 (753)
Q Consensus 638 ~~~Ld~~TwpEiLR~~l~s~G~g~~~ 663 (753)
.|+++||--++..++++.=+|+-|
T Consensus 238 --~l~~~~~~~~~~~fyl~rllgspw 261 (341)
T KOG1478|consen 238 --YLNPFTYFGMLCGFYLARLLGSPW 261 (341)
T ss_pred --hhhhHHHHHHHHHHHHHHHhcCcc
Confidence 899999999999999999999998
No 115
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=28.25 E-value=48 Score=27.49 Aligned_cols=20 Identities=20% Similarity=0.572 Sum_probs=17.5
Q ss_pred HHHHHHHHhCCChHHHhHhh
Q 004454 50 LRAELSAQLGLSDRQLQMWF 69 (753)
Q Consensus 50 ~r~~LA~~lgL~~~qVqiWF 69 (753)
.-.+||..||+++.+|+.|=
T Consensus 24 ~lkdIA~~Lgvs~~tIr~WK 43 (60)
T PF10668_consen 24 KLKDIAEKLGVSESTIRKWK 43 (60)
T ss_pred cHHHHHHHHCCCHHHHHHHh
Confidence 45678999999999999993
No 116
>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=26.21 E-value=40 Score=41.90 Aligned_cols=20 Identities=20% Similarity=0.145 Sum_probs=12.3
Q ss_pred cCCCCCHHHHHHHHHHHhCC
Q 004454 640 HLNALTWPEILRQFALSAGF 659 (753)
Q Consensus 640 ~Ld~~TwpEiLR~~l~s~G~ 659 (753)
+...+.=.|+||.-|..+-|
T Consensus 898 l~~~~h~~e~lrh~~f~~py 917 (982)
T PF03154_consen 898 LPHPPHEHEMLRHPLFGAPY 917 (982)
T ss_pred CCCCCccHHhhhcccccCcc
Confidence 34455667788877665544
No 117
>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=25.04 E-value=45 Score=41.47 Aligned_cols=6 Identities=17% Similarity=0.263 Sum_probs=2.9
Q ss_pred CCCCCC
Q 004454 603 FTGLGA 608 (753)
Q Consensus 603 ~~~~~~ 608 (753)
..||.+
T Consensus 743 K~gfe~ 748 (982)
T PF03154_consen 743 KPGFEV 748 (982)
T ss_pred cccccc
Confidence 445544
No 118
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=24.92 E-value=1.3e+03 Score=27.93 Aligned_cols=6 Identities=33% Similarity=1.043 Sum_probs=4.1
Q ss_pred CcccCC
Q 004454 158 GVEFDS 163 (753)
Q Consensus 158 g~~~dp 163 (753)
|++||-
T Consensus 181 gldyDl 186 (652)
T COG2433 181 GLDYDL 186 (652)
T ss_pred CCCcee
Confidence 677765
No 119
>PLN02316 synthase/transferase
Probab=24.03 E-value=2e+02 Score=36.97 Aligned_cols=9 Identities=33% Similarity=0.593 Sum_probs=3.9
Q ss_pred hhHHHHHHh
Q 004454 722 VKFAAFHVL 730 (753)
Q Consensus 722 ~k~~~~~~l 730 (753)
+.-|+.++|
T Consensus 858 Li~Al~~ll 866 (1036)
T PLN02316 858 IKHAIWRTL 866 (1036)
T ss_pred HHHHHHHHh
Confidence 444444443
No 120
>PF09607 BrkDBD: Brinker DNA-binding domain; InterPro: IPR018586 This DNA-binding domain is the first approx. 100 residues of the N-terminal end of Brinker. The structure of this domain in complex with DNA consists of four alpha-helices that contain a helix-turn-helix DNA recognition motif specific for GC-rich DNA. The Brinker nuclear repressor is a major element of the Drosophila Decapentaplegic morphogen signalling pathway []. ; PDB: 2GLO_A.
Probab=23.32 E-value=1.9e+02 Score=23.93 Aligned_cols=45 Identities=20% Similarity=0.179 Sum_probs=22.9
Q ss_pred CCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhh
Q 004454 25 RKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFC 70 (753)
Q Consensus 25 Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFq 70 (753)
|..||...-...-..|..+..--...|+. |.++|+++++|+-|-+
T Consensus 3 rrsy~~~FKL~Vv~~a~~~~nc~~~~RAa-arkf~V~r~~Vr~W~k 47 (58)
T PF09607_consen 3 RRSYTAEFKLKVVEYAEKDNNCKGNQRAA-ARKFNVSRRQVRKWRK 47 (58)
T ss_dssp -----HHHHHHHHHHHHH-TTTTT-HHHH-HHHTTS-HHHHHHHHT
T ss_pred ccccChHHHHHHHHHHHHccchhhhHHHH-HHHhCccHHHHHHHHH
Confidence 44566543333333344444333344554 9999999999999964
No 121
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=22.20 E-value=79 Score=40.76 Aligned_cols=62 Identities=24% Similarity=0.298 Sum_probs=56.6
Q ss_pred CcCCCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhhhhcccc
Q 004454 19 AEVKTKRKMKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRLKDRKAP 80 (753)
Q Consensus 19 ~k~rr~Rt~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~K~kr~~ 80 (753)
-+.++.|+.+-..++..|-.+|-.+.-|+...+..|......+.+++.+||+|-|.+.++..
T Consensus 703 ~~~~~~~~~~~~~aa~~l~~a~~~~~sps~k~~~civcd~~st~~l~~l~~h~~~~rs~ke~ 764 (1406)
T KOG1146|consen 703 PRDKLLRLTILPEAAMILGRAYMQDNSPSLKVFDCIVCDVFSTDRLDQLWFHNTRERSRKEQ 764 (1406)
T ss_pred cccccCcccccHHHHhhhhhcccCCCCHHHHHHHHhhhhhhhhhhHHHHhhcchhhhhhhhc
Confidence 45667788888899999999999999999999999999999999999999999999988765
No 122
>KOG0681 consensus Actin-related protein - Arp5p [Cytoskeleton]
Probab=21.86 E-value=1.4e+03 Score=27.46 Aligned_cols=11 Identities=55% Similarity=0.531 Sum_probs=4.2
Q ss_pred hHHHHHHHHHH
Q 004454 579 LLGEIHVTLLR 589 (753)
Q Consensus 579 LL~eiH~~Llk 589 (753)
-|.||-..+|+
T Consensus 538 Gl~Ei~~~il~ 548 (645)
T KOG0681|consen 538 GLAEIMDTILR 548 (645)
T ss_pred hHHHHHHHHHH
Confidence 33333333333
No 123
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=21.75 E-value=70 Score=25.47 Aligned_cols=28 Identities=25% Similarity=0.427 Sum_probs=20.8
Q ss_pred hHHHHHHhhhcCCCCCcHHHHHHHHHhh
Q 004454 723 KFAAFHVLSLEGSEGLTILEVADKIQVT 750 (753)
Q Consensus 723 k~~~~~~l~~~g~~g~~~~~~~~~~~~~ 750 (753)
-+.+..+|...|..++++.|||+.+..+
T Consensus 7 q~~vL~~l~~~~~~~~t~~~la~~l~~~ 34 (62)
T PF12802_consen 7 QFRVLMALARHPGEELTQSELAERLGIS 34 (62)
T ss_dssp HHHHHHHHHHSTTSGEEHHHHHHHHTS-
T ss_pred HHHHHHHHHHCCCCCcCHHHHHHHHCcC
Confidence 4556666777777779999999987653
No 124
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=21.70 E-value=2.2e+02 Score=22.11 Aligned_cols=42 Identities=24% Similarity=0.241 Sum_probs=26.8
Q ss_pred CCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhhhhh
Q 004454 28 KTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCHRRL 74 (753)
Q Consensus 28 ~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqNRR~ 74 (753)
+++.+..++.-.| .....-.++|..+|++...|+.|...-|.
T Consensus 11 L~~~~r~i~~l~~-----~~g~s~~eIa~~l~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 11 LPERQREIFLLRY-----FQGMSYAEIAEILGISESTVKRRLRRARK 52 (54)
T ss_dssp S-HHHHHHHHHHH-----TS---HHHHHHHCTS-HHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHH-----HHCcCHHHHHHHHCcCHHHHHHHHHHHHh
Confidence 4555555555433 44556788999999999999999875443
No 125
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=20.66 E-value=3.1e+02 Score=29.89 Aligned_cols=22 Identities=36% Similarity=0.403 Sum_probs=11.2
Q ss_pred CcchhHHHHHHhhhcCCCCCcHHHHHH
Q 004454 719 PGTVKFAAFHVLSLEGSEGLTILEVAD 745 (753)
Q Consensus 719 ~gt~k~~~~~~l~~~g~~g~~~~~~~~ 745 (753)
=|-|--|-|.-|+. .+++|||.
T Consensus 355 GGr~v~A~Fyn~ek-----fs~~ela~ 376 (378)
T KOG1996|consen 355 GGRVVSACFYNLEK-----FSNLELAE 376 (378)
T ss_pred cceeeeheeccHHh-----hhhhhhhh
Confidence 34444455655543 34556664
No 126
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D
Probab=20.61 E-value=2.6e+02 Score=18.22 Aligned_cols=38 Identities=26% Similarity=0.291 Sum_probs=26.4
Q ss_pred CCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhh
Q 004454 27 MKTASQLEILEKTYAVESYPSEALRAELSAQLGLSDRQLQMWF 69 (753)
Q Consensus 27 ~~t~~Ql~~Le~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWF 69 (753)
.++..+...+...|... + ....+|..+|++...|..|.
T Consensus 5 ~~~~~~~~~i~~~~~~~-~----s~~~ia~~~~is~~tv~~~~ 42 (42)
T cd00569 5 KLTPEQIEEARRLLAAG-E----SVAEIARRLGVSRSTLYRYL 42 (42)
T ss_pred cCCHHHHHHHHHHHHcC-C----CHHHHHHHHCCCHHHHHHhC
Confidence 35666666666666532 2 45678899999999998873
No 127
>TIGR03879 near_KaiC_dom probable regulatory domain. This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation.
Probab=20.60 E-value=64 Score=27.83 Aligned_cols=35 Identities=14% Similarity=0.220 Sum_probs=28.1
Q ss_pred HHHHhhcCCCCHHHHHHHHHHhCCChHHHhHhhhh
Q 004454 37 EKTYAVESYPSEALRAELSAQLGLSDRQLQMWFCH 71 (753)
Q Consensus 37 e~~F~~~~yps~~~r~~LA~~lgL~~~qVqiWFqN 71 (753)
+..|....|...-...++|..+|++...|+.|+.+
T Consensus 21 r~af~L~R~~eGlS~kEIAe~LGIS~~TVk~~l~~ 55 (73)
T TIGR03879 21 EAAAALAREEAGKTASEIAEELGRTEQTVRNHLKG 55 (73)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHhc
Confidence 44566666666677889999999999999999864
No 128
>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=20.23 E-value=1.8e+02 Score=26.36 Aligned_cols=31 Identities=39% Similarity=0.500 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004454 376 KQDILRRKREEQIRKEMERQDRERRKEEERLL 407 (753)
Q Consensus 376 ~~e~~r~k~ee~~rke~er~~~er~keeer~~ 407 (753)
++-+.+-++ |+.++|++++++++.-++|+.+
T Consensus 42 r~~r~~MKE-ER~K~E~~~q~r~rES~~Er~K 72 (121)
T PF10669_consen 42 RQVRIRMKE-ERSKKEEKRQKRNRESKRERQK 72 (121)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHhhhhHHHHHh
Done!