Query 006512
Match_columns 642
No_of_seqs 378 out of 1372
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 00:21:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006512.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006512hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0526 Nucleosome-binding fac 100.0 1E-167 2E-172 1325.7 48.0 608 1-638 1-611 (615)
2 COG5165 POB3 Nucleosome-bindin 100.0 1E-126 2E-131 971.8 34.9 490 5-505 3-498 (508)
3 PF03531 SSrecog: Structure-sp 100.0 3E-82 6.4E-87 629.7 9.5 221 74-294 1-221 (222)
4 KOG1189 Global transcriptional 100.0 5.3E-41 1.1E-45 368.7 13.3 277 211-498 607-905 (960)
5 COG5406 Nucleosome binding fac 100.0 1.4E-33 3E-38 304.7 17.4 244 223-476 669-930 (1001)
6 PF08512 Rtt106: Histone chape 99.9 4.4E-27 9.6E-32 207.0 10.4 91 348-441 1-95 (95)
7 PTZ00199 high mobility group p 99.8 4.4E-20 9.5E-25 162.3 6.4 83 544-626 9-93 (94)
8 cd01389 MATA_HMG-box MATA_HMG- 99.7 3.6E-17 7.8E-22 138.5 5.4 72 557-628 1-72 (77)
9 cd01388 SOX-TCF_HMG-box SOX-TC 99.7 9E-17 2E-21 134.3 5.5 69 558-626 2-70 (72)
10 COG5648 NHP6B Chromatin-associ 99.6 3.8E-16 8.2E-21 152.3 4.7 90 547-636 60-149 (211)
11 cd01390 HMGB-UBF_HMG-box HMGB- 99.6 6.2E-16 1.3E-20 126.2 5.0 66 558-623 1-66 (66)
12 PF00505 HMG_box: HMG (high mo 99.6 3.2E-16 6.9E-21 129.1 3.3 69 558-626 1-69 (69)
13 smart00398 HMG high mobility g 99.6 1.5E-15 3.2E-20 124.9 5.2 70 557-626 1-70 (70)
14 PF09011 HMG_box_2: HMG-box do 99.6 2.2E-15 4.8E-20 126.3 4.0 72 555-626 1-73 (73)
15 KOG0381 HMG box-containing pro 99.5 2.2E-14 4.8E-19 126.2 5.5 74 556-629 21-95 (96)
16 KOG0527 HMG-box transcription 99.5 2.6E-14 5.7E-19 151.0 6.4 77 552-628 57-133 (331)
17 cd00084 HMG-box High Mobility 99.5 2.8E-14 6.1E-19 115.9 5.0 66 558-623 1-66 (66)
18 KOG3248 Transcription factor T 98.8 2.1E-09 4.5E-14 111.1 3.3 71 557-627 191-261 (421)
19 KOG0528 HMG-box transcription 98.7 4.8E-09 1E-13 113.3 3.5 77 556-632 324-400 (511)
20 KOG4715 SWI/SNF-related matrix 98.6 1.9E-08 4.2E-13 103.1 4.1 75 553-627 60-134 (410)
21 KOG2746 HMG-box transcription 98.1 1.2E-06 2.7E-11 98.4 3.2 72 550-621 174-247 (683)
22 PF14887 HMG_box_5: HMG (high 97.9 1.8E-05 4E-10 65.8 4.6 75 557-632 3-77 (85)
23 KOG1189 Global transcriptional 97.1 0.00024 5.3E-09 81.0 3.0 41 400-441 833-873 (960)
24 PF04690 YABBY: YABBY protein; 96.0 0.0058 1.3E-07 59.4 3.4 45 556-600 120-164 (170)
25 PF14470 bPH_3: Bacterial PH d 95.7 0.078 1.7E-06 45.9 9.3 77 349-432 9-95 (96)
26 PF08512 Rtt106: Histone chape 95.4 0.058 1.3E-06 47.6 7.1 72 19-92 11-88 (95)
27 COG5648 NHP6B Chromatin-associ 95.3 0.013 2.9E-07 58.3 3.1 68 557-624 143-210 (211)
28 COG5406 Nucleosome binding fac 94.9 0.019 4.1E-07 64.9 3.2 44 310-354 772-816 (1001)
29 PF06382 DUF1074: Protein of u 94.6 0.032 6.8E-07 54.2 3.6 48 562-613 83-130 (183)
30 KOG0526 Nucleosome-binding fac 92.4 0.11 2.4E-06 58.0 3.6 45 97-141 7-53 (615)
31 PF05764 YL1: YL1 nuclear prot 91.8 0.16 3.4E-06 52.5 3.7 9 479-487 38-46 (240)
32 KOG3064 RNA-binding nuclear pr 90.4 0.16 3.6E-06 51.9 2.2 8 276-283 46-53 (303)
33 PF14470 bPH_3: Bacterial PH d 90.0 2 4.3E-05 37.0 8.5 74 17-91 20-96 (96)
34 PF08073 CHDNT: CHDNT (NUC034) 89.0 0.18 3.8E-06 40.1 0.9 39 562-600 13-51 (55)
35 KOG1832 HIV-1 Vpr-binding prot 87.0 0.66 1.4E-05 54.9 4.3 9 384-392 1326-1334(1516)
36 PF04769 MAT_Alpha1: Mating-ty 86.4 0.6 1.3E-05 47.0 3.1 56 552-613 38-93 (201)
37 COG0779 Uncharacterized protei 86.1 7.2 0.00016 37.6 10.2 89 47-141 24-149 (153)
38 PF04283 CheF-arch: Chemotaxis 86.0 16 0.00034 37.5 13.2 149 16-174 23-197 (221)
39 PF08567 TFIIH_BTF_p62_N: TFII 85.8 1.8 3.9E-05 37.0 5.4 52 18-69 11-67 (79)
40 PF04147 Nop14: Nop14-like fam 84.3 3.8 8.2E-05 49.9 9.2 15 598-612 457-471 (840)
41 PF04931 DNA_pol_phi: DNA poly 84.1 1.1 2.4E-05 54.0 4.5 15 419-433 620-634 (784)
42 PF06524 NOA36: NOA36 protein; 80.6 1.9 4.2E-05 44.5 4.1 7 323-329 162-168 (314)
43 COG5165 POB3 Nucleosome-bindin 78.9 6.8 0.00015 42.4 7.6 53 40-92 377-435 (508)
44 PRK14646 hypothetical protein; 76.8 22 0.00048 34.3 9.9 91 47-142 23-151 (155)
45 KOG1832 HIV-1 Vpr-binding prot 76.5 2.1 4.4E-05 51.0 3.2 36 379-422 1348-1383(1516)
46 PF10446 DUF2457: Protein of u 70.3 4.3 9.2E-05 45.1 3.6 8 427-434 12-19 (458)
47 PRK14630 hypothetical protein; 67.9 43 0.00094 31.9 9.5 89 47-141 24-142 (143)
48 PRK14637 hypothetical protein; 65.4 61 0.0013 31.2 10.1 89 47-141 24-145 (151)
49 PF06244 DUF1014: Protein of u 65.3 2.8 6.1E-05 38.9 0.9 45 557-601 71-116 (122)
50 TIGR03481 HpnM hopanoid biosyn 64.8 8.4 0.00018 38.6 4.2 48 581-628 62-111 (198)
51 PF08567 TFIIH_BTF_p62_N: TFII 62.2 41 0.00088 28.7 7.4 55 352-411 6-67 (79)
52 PF02893 GRAM: GRAM domain; I 61.7 12 0.00026 30.4 4.0 38 351-388 19-66 (69)
53 PF06524 NOA36: NOA36 protein; 59.7 12 0.00027 38.8 4.3 14 379-392 121-134 (314)
54 smart00568 GRAM domain in gluc 59.3 16 0.00034 29.0 4.1 38 351-388 12-58 (61)
55 PRK15117 ABC transporter perip 58.9 13 0.00029 37.6 4.5 49 580-628 65-115 (211)
56 KOG2897 DNA-binding protein YL 57.6 7.1 0.00015 42.5 2.3 14 584-597 188-201 (390)
57 KOG0127 Nucleolar protein fibr 57.2 10 0.00023 43.1 3.6 20 562-581 335-356 (678)
58 PF04147 Nop14: Nop14-like fam 56.8 10 0.00022 46.3 3.8 10 420-429 277-286 (840)
59 PF07622 DUF1583: Protein of u 55.0 1.1E+02 0.0024 33.9 10.8 75 49-141 52-126 (399)
60 PF02724 CDC45: CDC45-like pro 54.6 8 0.00017 45.5 2.4 19 610-628 258-276 (622)
61 KOG3241 Uncharacterized conser 54.2 10 0.00022 37.2 2.5 24 478-501 190-213 (227)
62 PF02724 CDC45: CDC45-like pro 54.2 8 0.00017 45.5 2.3 14 594-607 355-368 (622)
63 PF05285 SDA1: SDA1; InterPro 53.1 8.4 0.00018 41.6 2.1 18 415-434 64-81 (324)
64 PRK14634 hypothetical protein; 52.9 1.1E+02 0.0024 29.6 9.5 91 47-142 23-151 (155)
65 PF14844 PH_BEACH: PH domain a 51.0 69 0.0015 28.3 7.4 68 356-428 15-102 (106)
66 PF14844 PH_BEACH: PH domain a 50.1 48 0.001 29.3 6.2 59 18-77 16-92 (106)
67 PHA02664 hypothetical protein; 50.0 16 0.00034 39.0 3.4 25 80-104 60-84 (534)
68 PRK14640 hypothetical protein; 48.8 1.6E+02 0.0034 28.3 9.8 89 47-141 22-147 (152)
69 PRK14638 hypothetical protein; 46.9 1.5E+02 0.0032 28.5 9.3 89 47-141 24-146 (150)
70 PF14317 YcxB: YcxB-like prote 46.6 36 0.00078 26.2 4.3 62 25-90 1-62 (62)
71 PF13619 KTSC: KTSC domain 44.6 53 0.0011 26.3 5.0 42 44-87 2-43 (60)
72 TIGR03503 conserved hypothetic 44.3 2.3E+02 0.0049 31.5 11.3 88 201-290 164-253 (374)
73 PRK14631 hypothetical protein; 44.2 1.3E+02 0.0028 29.6 8.6 95 47-141 24-170 (174)
74 PF02893 GRAM: GRAM domain; I 44.0 38 0.00081 27.5 4.2 36 105-140 27-66 (69)
75 PF12462 Helicase_IV_N: DNA he 43.9 81 0.0018 30.7 7.1 71 21-93 18-89 (166)
76 PRK14647 hypothetical protein; 42.9 1.5E+02 0.0033 28.6 8.8 90 47-141 24-155 (159)
77 KOG2141 Protein involved in hi 42.5 20 0.00042 42.3 2.9 26 583-608 333-358 (822)
78 PF03703 bPH_2: Bacterial PH d 40.3 41 0.00089 27.5 3.9 57 374-431 22-80 (80)
79 KOG2076 RNA polymerase III tra 39.4 18 0.00038 43.6 2.0 13 600-612 203-215 (895)
80 PF09026 CENP-B_dimeris: Centr 39.3 9.9 0.00022 33.7 0.0 13 558-570 56-68 (101)
81 COG4687 Uncharacterized protei 39.1 50 0.0011 30.1 4.4 73 19-94 23-98 (122)
82 PF10756 bPH_6: Bacterial PH d 37.4 47 0.001 27.4 3.8 56 22-81 3-58 (73)
83 PF08000 bPH_1: Bacterial PH d 36.3 2.9E+02 0.0062 25.7 9.1 63 350-415 32-103 (124)
84 KOG4264 Nucleo-cytoplasmic pro 35.8 28 0.00062 39.5 2.8 15 488-502 85-99 (694)
85 PF05494 Tol_Tol_Ttg2: Toluene 34.5 37 0.00081 32.7 3.2 47 581-627 36-84 (170)
86 PF11705 RNA_pol_3_Rpc31: DNA- 33.4 37 0.00081 34.8 3.1 6 278-283 34-39 (233)
87 TIGR02888 spore_YlmC_YmxH spor 32.1 1.1E+02 0.0024 25.9 5.3 49 204-252 14-67 (76)
88 PF02576 DUF150: Uncharacteris 32.1 2.5E+02 0.0054 26.3 8.3 90 47-141 12-141 (141)
89 PTZ00449 104 kDa microneme/rho 31.6 1E+02 0.0022 35.4 6.2 41 28-70 79-123 (943)
90 KOG3838 Mannose lectin ERGIC-5 31.5 36 0.00077 37.5 2.6 41 598-638 268-308 (497)
91 KOG2141 Protein involved in hi 31.5 41 0.0009 39.8 3.3 17 586-602 317-333 (822)
92 PF03517 Voldacs: Regulator of 31.1 1.8E+02 0.004 27.2 7.1 85 110-202 1-106 (135)
93 PF09073 BUD22: BUD22; InterP 29.9 74 0.0016 35.8 5.0 19 421-439 131-150 (432)
94 PRK14636 hypothetical protein; 29.1 3.1E+02 0.0067 27.1 8.6 92 47-141 21-149 (176)
95 cd01201 Neurobeachin Neurobeac 28.0 42 0.00091 30.6 2.1 61 17-78 16-93 (108)
96 PF06115 DUF956: Domain of unk 27.9 1.8E+02 0.0038 27.0 6.1 75 18-95 22-100 (118)
97 KOG2270 Serine/threonine prote 27.4 15 0.00031 40.8 -1.1 17 219-235 166-182 (520)
98 KOG0296 Angio-associated migra 26.8 1.4E+02 0.003 32.8 6.0 61 5-75 114-176 (399)
99 KOG0127 Nucleolar protein fibr 26.7 48 0.001 38.0 2.7 14 423-436 170-183 (678)
100 KOG0943 Predicted ubiquitin-pr 26.5 38 0.00083 42.2 2.0 22 123-144 1229-1250(3015)
101 COG4909 PduC Propanediol dehyd 26.5 57 0.0012 35.4 3.1 44 57-101 34-77 (554)
102 KOG2270 Serine/threonine prote 26.4 18 0.00039 40.1 -0.6 15 319-333 268-282 (520)
103 COG2854 Ttg2D ABC-type transpo 25.9 92 0.002 31.5 4.3 45 589-633 77-122 (202)
104 PF03115 Astro_capsid: Astrovi 25.4 23 0.00051 42.6 0.0 20 400-419 574-593 (787)
105 PF14317 YcxB: YcxB-like prote 25.3 1.4E+02 0.003 22.8 4.5 30 228-257 1-30 (62)
106 PF15406 PH_6: Pleckstrin homo 24.4 1.3E+02 0.0028 27.5 4.5 56 367-432 49-110 (112)
107 cd01794 DC_UbP_C dendritic cel 23.6 1.3E+02 0.0027 24.9 4.1 46 62-107 1-46 (70)
108 KOG2076 RNA polymerase III tra 22.8 49 0.0011 40.0 1.9 8 564-571 146-153 (895)
109 PF14605 Nup35_RRM_2: Nup53/35 22.3 1.4E+02 0.0029 23.4 3.8 42 71-116 3-45 (53)
110 PF01867 Cas_Cas1: CRISPR asso 21.8 1.3E+02 0.0028 31.5 4.7 36 109-144 7-43 (282)
111 PF13619 KTSC: KTSC domain 20.8 1.1E+02 0.0025 24.3 3.2 39 382-428 4-42 (60)
112 cd06481 ACD_HspB9_like Alpha c 20.5 2.5E+02 0.0055 24.1 5.5 37 222-258 21-65 (87)
113 PF04683 Proteasom_Rpn13: Prot 20.4 3.2E+02 0.0069 23.6 6.0 39 18-59 14-61 (85)
114 COG4343 CRISPR-associated prot 20.2 31 0.00067 35.9 -0.3 32 98-138 20-51 (281)
115 PF05285 SDA1: SDA1; InterPro 20.0 41 0.0009 36.3 0.6 22 598-619 244-265 (324)
No 1
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=100.00 E-value=1.1e-167 Score=1325.73 Aligned_cols=608 Identities=47% Similarity=0.768 Sum_probs=537.4
Q ss_pred CCCCCcccceEecCCCCCCCeeEEEecCceeEeeCCCCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChh
Q 006512 1 MTDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQ 80 (642)
Q Consensus 1 m~~~~~f~~i~~~~~g~~~~G~~~~~~~g~~~k~~~~~~~~~~~~~~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~ 80 (642)
|+++++|++||++++|...+|+|||+.+||+||+++||++++|+++||..+.|+|++|+|+|||.+++|.+|+|+||+++
T Consensus 1 mae~l~fn~iyl~~~G~~~~G~lkit~~gi~~K~~~ggk~~~v~~sei~~~~w~k~~r~~~LrV~tk~g~~~~~~GF~d~ 80 (615)
T KOG0526|consen 1 MAESLEFNDIYLEVSGHLKPGTLKITESGIGFKNSKGGKVVTVPASEIDKVKWQKGVRGYGLRVFTKDGGVYRFDGFRDD 80 (615)
T ss_pred CCcccccCceEEecccccccceEEEccCceeEeeCCCCceEEeehHHhhhhhhhhhccccceEEEccCCceEEecCcCHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHhhcCCCCcceeeeeeeeeeeeeeecCceEEEEeCCEeEEEEeccccccccccCCceEEEEEecCCCCCCC
Q 006512 81 DVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGAN 160 (642)
Q Consensus 81 d~~~l~~~~~~~~~~~~~~~e~~~~G~nwG~~~~~~~~l~f~~~~k~~feip~~~is~~~~~~knev~~ef~~~~~~~~~ 160 (642)
|++.|++||+++|++++++++||++|||||++.|.|+.|+|.+++||+|||||++|+|| ++|||||+||||++|+
T Consensus 81 d~~~L~~ff~~~~~~~i~qkel~ikGwNwGea~~~G~~l~F~~~skpiFEIP~s~Vsn~-l~gKNEv~LEFh~nDd---- 155 (615)
T KOG0526|consen 81 DLEKLKSFFSSNFSITIEQKELSIKGWNWGEADFKGQELVFDVNSKPIFEIPLSDVSNT-LTGKNEVTLEFHQNDD---- 155 (615)
T ss_pred HHHHHHHHHHHhhccchhhheeeecccccccccccCcEEEEeeCCceeEEeehhhhhhh-hcCCceEEEEEeccCC----
Confidence 99999999999999999999999999999999999999999999999999999999999 7799999999999998
Q ss_pred CCCceeEEEEEecCCCCCCCCCCCCCHHHHHHHHHHhhcccccCCcceEEEEcCeeeecCCcceEEEEecCcEEEEcccc
Q 006512 161 EKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQAN 240 (642)
Q Consensus 161 ~~~~l~e~rf~iP~~~~~~~~~~~~~~~~~~~~~i~~~a~~~~~~g~~i~~~~~i~~~~PRGry~i~~~~~~lrl~gkt~ 240 (642)
.+.+|||||||||.+.. .| ++++++++|++.|+++||+++++||+||+|++|+|+||||||+|+||+++||||||||
T Consensus 156 a~~~LmEmRF~iP~d~~--~g-ed~~~~e~F~~~v~~kAdv~~~~gdaI~~f~~i~~lTPRGRYdI~iy~t~lrL~GkTy 232 (615)
T KOG0526|consen 156 APVGLMEMRFHIPEDQE--DG-EDRDKVEAFYENVLAKADVSSAVGDAIVSFEEILCLTPRGRYDIKIYPTFLRLHGKTY 232 (615)
T ss_pred CCcceEEEEEecCcccc--cc-ccccHHHHHHHHHHHhcCcccccCCceEEeeeeeeecCCccceeEEehhhhhhccccc
Confidence 36779999999996543 22 4579999999999999999999999999999999999999999999999999999999
Q ss_pred eeEeecCceeEEEecccCCCCeEEEEEecCCcccCCCcccceEEEEEEccceehhcccCCHHHHhhhhhcccccccccch
Q 006512 241 DFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLI 320 (642)
Q Consensus 241 d~~I~y~nI~r~F~lP~~d~~~~~~vi~L~~Pi~qGqtky~~lv~~f~~~e~~~~el~~~eee~~~k~~~~l~~~~~g~~ 320 (642)
||||+|++|.|+|+||++|++|+||||+|+||||||||||||||+||.++++++++|++++++++.+|+++|++.|+||+
T Consensus 233 DyKI~y~SI~rLflLPk~d~rh~~fVisldPPIRQGQTrY~~LV~qF~kDee~e~eLslsdE~l~~k~~~kL~k~ysg~i 312 (615)
T KOG0526|consen 233 DYKIPYKSINRLFLLPKKDQRHVYFVISLDPPIRQGQTRYPFLVLQFGKDEEVELELSLSDEELEEKYKGKLKKEYSGPI 312 (615)
T ss_pred ceecchhheeeeEeccCCCCceEEEEEecCCccccCccccceEEEEeccccceeEeecccHHHHhhhhcchhhhhcCccH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhcCCeeccCCCcccCCCcceEEEeecCceeEEEecCcceeeccCCCeEEEcCceeEEEEEEecCCCccee
Q 006512 321 HEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMH 400 (642)
Q Consensus 321 ~~v~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c~~ka~~G~LypL~~~llf~~KPp~~I~~~dI~~V~f~Rv~~~~~~~r 400 (642)
|+||+++|++|||+||++||+|.|+.|++||+|++||++|+||||++|||||||||+||+|+||..|+|+|++.+++++|
T Consensus 313 ~Ev~s~V~k~L~~rKit~Pg~F~s~~g~~av~CS~KAneG~LYPLekgFlFl~KP~l~I~f~EIS~V~fsR~~~s~t~tr 392 (615)
T KOG0526|consen 313 YEVFSIVMKALCGRKITVPGEFLSHSGTAAVKCSFKANEGLLYPLEKGFLFLPKPPLYIRFEEISSVNFSRSGLSGTSTR 392 (615)
T ss_pred HHHHHHHHHHHhCceeeccccccccCCCceeeeeecccCceEeecccceEeecCCceEeeccceeeEEEEeccCCcccee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999987677779
Q ss_pred eEEEEEEEcCCceEEEeeechhhhhhHHHHHhcCCceEeecCCccccchhhhhhc-CCCCCCCChhhhhhcccCCCCCCC
Q 006512 401 YFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQ-EDDDDAVDPHLERIKNEAGGDESD 479 (642)
Q Consensus 401 tFDl~i~~K~~~~~~Fs~I~~~e~~~l~~fl~~k~l~~~n~~~~~~~~~~~~~~~-~~~dd~~d~~~~~~~~~~~~ddde 479 (642)
||||+|++|+|.+|+|++|+++||..|++||++|+|+|+|.+.....-...+.+. .+.+++++ .+++..|+++
T Consensus 393 tFD~ei~lk~g~~~tFs~i~keE~~~L~~fl~sK~lki~N~~~~~~~D~~~~~~~~e~~~~edd------~~d~~~de~~ 466 (615)
T KOG0526|consen 393 TFDFEITLKSGTSYTFSNISKEEYGKLFDFLNSKGLKIRNEGREDEIDEYLATLKAEDRDEEDD------SDDSSTDEDE 466 (615)
T ss_pred eEEEEEEEcCCCeeeecccCHHHHHHHHHHHhhcCceeecCCcccccchHHhhhccccchhhhc------ccccccccch
Confidence 9999999999999999999999999999999999999999966331112222222 22222211 2344456678
Q ss_pred ccCccccc--CCCCCCCCCCCCCCCCCCCCcCCCCCCchhhhhcccccccccccccccCCCCCCcccccccccccCCCCC
Q 006512 480 EEDSDFVA--DKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRDGDEDGKKKKQKKKKDPNA 557 (642)
Q Consensus 480 eeDedf~~--~~sd~~ee~ds~~e~~~~~~e~~~e~e~~~kk~~k~~~~k~k~kkkkKk~k~~~~k~kkkkkkkkkd~~~ 557 (642)
|+|+||+. +++|++|+|||++.++++++.+++ +++++.. .+++++++++.+ +++++++.|+++||++
T Consensus 467 e~Dedf~~~~~~d~vaee~dS~~~ds~~~eg~S~---~~~k~~~----~~kk~K~ek~~k----~~~~~k~~kk~kdpna 535 (615)
T KOG0526|consen 467 EEDEDFKPGEEDDDVAEEFDSDEADSSDEEGDSD---EPKKERS----SEKKPKREKKEK----EKEKKKKGKKKKDPNA 535 (615)
T ss_pred hhhhhcccCccccccccccCCcccccccccCCcc---ccccccc----ccccchhhhHhh----hhccccCcccCCCCCC
Confidence 88999996 556689999993333333332222 1111111 111111111111 2233366788999999
Q ss_pred CCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccCCCCCCCCCCCC
Q 006512 558 PKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGN 637 (642)
Q Consensus 558 PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk~~~~~~~~~~~ 637 (642)
||||+||||+|++..|..||.+ |+++++|+|++|++|+.|++ |.+|+++|+.+|+||+.+|++|+... ....++.
T Consensus 536 pkra~sa~m~w~~~~r~~ik~d--gi~~~dv~kk~g~~wk~ms~--k~~we~ka~~dk~ry~~em~~yk~g~-~~~~~~~ 610 (615)
T KOG0526|consen 536 PKRATSAYMLWLNASRESIKED--GISVGDVAKKAGEKWKQMSA--KEEWEDKAAVDKQRYEDEMKEYKNGQ-MNSKSGK 610 (615)
T ss_pred CccchhHHHHHHHhhhhhHhhc--CchHHHHHHHHhHHHhhhcc--cchhhHHHHHHHHHHHHHHHhhcCCC-cccccCc
Confidence 9999999999999999999988 99999999999999999998 99999999999999999999999554 4444444
Q ss_pred C
Q 006512 638 E 638 (642)
Q Consensus 638 ~ 638 (642)
.
T Consensus 611 s 611 (615)
T KOG0526|consen 611 S 611 (615)
T ss_pred c
Confidence 3
No 2
>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=100.00 E-value=9.8e-127 Score=971.79 Aligned_cols=490 Identities=33% Similarity=0.591 Sum_probs=454.2
Q ss_pred CcccceEecCCCCCCCeeEEEecCceeEeeC-CCCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHH
Q 006512 5 PSFNNISLGGRGGTNPGQLKIYSGKISWKKL-GGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVA 83 (642)
Q Consensus 5 ~~f~~i~~~~~g~~~~G~~~~~~~g~~~k~~-~~~~~~~~~~~~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~ 83 (642)
..|++||++. +.-+|++||+.+|||||.+ ..-+++|++.++|+.++|+|++|||.|+|.+|+..+|.+|||.+.|++
T Consensus 3 t~~D~iyln~--s~k~g~~rIa~sGlgwK~s~s~~~pftlp~~Ev~~~~wsrg~Rgy~lkI~~k~~~v~~ldgfsQ~d~d 80 (508)
T COG5165 3 TLNDCIYLND--SDKKGTVRIARSGLGWKASDSERKPFTLPRNEVKDAEWSRGVRGYKLKIRVKGNAVYELDGFSQNDID 80 (508)
T ss_pred cccceeEecc--cccCceEEEcCCCceeecCCccCCceeechhHhhHHHHhhhcccceEEEEEcCCCceEecCcCHHHHH
Confidence 4799999999 8899999999999999954 334799999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCcceeeeeeeeeeeeeeecCceEEEEeCCEeEEEEeccccccccccCCceEEEEEecCCCCCCCCCC
Q 006512 84 TLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKD 163 (642)
Q Consensus 84 ~l~~~~~~~~~~~~~~~e~~~~G~nwG~~~~~~~~l~f~~~~k~~feip~~~is~~~~~~knev~~ef~~~~~~~~~~~~ 163 (642)
.|++.|+++|+|.+++||||++|||||.+.|.|+.++|.+|+||+||||+++|.|+|+++||||+|||...|.....++|
T Consensus 81 ~lkn~f~~~F~i~~eqkE~si~gwnwGe~~~~g~e~vf~~N~kp~FEIP~~~i~ntnl~~kNEv~vef~~~de~~~pa~d 160 (508)
T COG5165 81 ELKNIFSEYFRITLEQKELSIAGWNWGELGINGQEAVFFRNTKPIFEIPVDDIENTNLDIKNEVSVEFRIQDEEYQPAGD 160 (508)
T ss_pred HHHHHHHHheeeeEEEeeeeeccccccccccccceeeeeecCCeeEEeehhhhccccccccceeEEEEeccccccCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999987777788899
Q ss_pred ceeEEEEEecCCCCCCCC---C-CCCCHHHHHHHHHHhhcccccCCcceEEEEcCeeeecCCcceEEEEecCcEEEEccc
Q 006512 164 SLMEISFHIPNSNTQFVG---D-ENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQA 239 (642)
Q Consensus 164 ~l~e~rf~iP~~~~~~~~---~-~~~~~~~~~~~~i~~~a~~~~~~g~~i~~~~~i~~~~PRGry~i~~~~~~lrl~gkt 239 (642)
+|||||||+|++.++.++ + -+++.|++||+.|+++||||+++||+|++|++|+++||||||+|+||.++|||+|||
T Consensus 161 elvEmRfy~pg~~~kEd~a~Ge~vek~~a~~fye~lkekadige~agDaIvsf~~~~l~tPRGrydid~y~~~lRLrGkt 240 (508)
T COG5165 161 ELVEMRFYSPGVKTKEDIAGGESVEKSMAEAFYEELKEKADIGESAGDAIVSFEGLSLATPRGRYDIDFYRDYLRLRGKT 240 (508)
T ss_pred cceEEEEecCCCcchhhccCcchhhHHHHHHHHHHHhhhcccccccccceeeeeceeeecCCccccchhhhhhhhhcccc
Confidence 999999999997654432 1 356899999999999999999999999999999999999999999999999999999
Q ss_pred ceeEeecCceeEEEecccCCCCeEEEEEecCCcccCCCcccceEEEEEEccceehhcccCCHHHHhhhhhcccccccccc
Q 006512 240 NDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGL 319 (642)
Q Consensus 240 ~d~~I~y~nI~r~F~lP~~d~~~~~~vi~L~~Pi~qGqtky~~lv~~f~~~e~~~~el~~~eee~~~k~~~~l~~~~~g~ 319 (642)
|||||.|++|+++|+||++++.|++|||+++||||||||||||||.||.++++++++||+.++.++++|+++|+.+|.++
T Consensus 241 YdyKi~y~sI~~l~~LpK~dd~h~~~Vig~ePPlRQGQTrYpflV~qF~kded~Ev~Lnvede~~~e~y~dklK~~Yd~~ 320 (508)
T COG5165 241 YDYKIYYKSIKMLYVLPKIDDGHRYVVIGAEPPLRQGQTRYPFLVVQFQKDEDVEVELNVEDEDYEENYKDKLKGEYDGL 320 (508)
T ss_pred cceeeeeeeeeEEEEeccCCCccEEEEEecCCcccCCCccCCeEEEEEecccceeeeeccchhhhhhhHHHhhhhhccch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHhhhcCCeeccCCCcccCCCcceEEEeecCceeEEEecCcceeeccCCCeEEEcCceeEEEEEEecCCCcce
Q 006512 320 IHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNM 399 (642)
Q Consensus 320 ~~~v~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c~~ka~~G~LypL~~~llf~~KPp~~I~~~dI~~V~f~Rv~~~~~~~ 399 (642)
+++||+++|++||++++++|+.|.|+.|+.||+|++||++|+||||++|||||+||+++|+++||..|+|+|+|.+++++
T Consensus 321 ~~ev~s~v~~gLt~rkvv~p~ef~S~~g~~av~Cs~KAnEGqLYpLD~~flFlpKptl~l~~sdis~V~~SRig~ss~~a 400 (508)
T COG5165 321 LSEVFSEVMEGLTVRKVVRPSEFESRDGMRAVRCSMKANEGQLYPLDDCFLFLPKPTLRLDLSDISLVEFSRIGLSSMQA 400 (508)
T ss_pred HHHHHHHHHHhhcceeeecchhhcccCCceeeeeeeeccCceEeeccceEEeccCceEEeecccceEEEEeecccchhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999988888
Q ss_pred eeEEEEEEEcCCceEEEeeechhhhhhHHHHHhcCCceEeecCCccccchhhhhhcCCCCCCCChhhhhhcccCCCCCCC
Q 006512 400 HYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGDESD 479 (642)
Q Consensus 400 rtFDl~i~~K~~~~~~Fs~I~~~e~~~l~~fl~~k~l~~~n~~~~~~~~~~~~~~~~~~dd~~d~~~~~~~~~~~~ddde 479 (642)
|||||+++++++..++|++|++.|+..|.+||.+|||+++|+.. .. .....+..+.|++ +++.+++.++|+
T Consensus 401 rTFDlt~~lrs~~sytF~nisk~Eq~aLeqfl~sK~ik~~ne~~-~e--~~qt~lgs~sD~E------d~~~~~~~eede 471 (508)
T COG5165 401 RTFDLTLFLRSPGSYTFNNISKDEQGALEQFLHSKGIKARNEEV-QE--RLQTDLGSISDSE------DINMGSAGEEDE 471 (508)
T ss_pred ceeeEEEEEecCCceeecCcCHHHHHHHHHHHhccCceecchhh-hh--hhhhccccccchh------hhcccccccccc
Confidence 99999999999999999999999999999999999999999721 11 1222222222222 244566777888
Q ss_pred ccCccccc-CCCCCCCCCCCCCCCCCC
Q 006512 480 EEDSDFVA-DKDDGGSPTDDSGEEDSD 505 (642)
Q Consensus 480 eeDedf~~-~~sd~~ee~ds~~e~~~~ 505 (642)
++||||+. +++|++||||++++.++.
T Consensus 472 sedEdfq~~sdsDvaeEyD~~a~~sd~ 498 (508)
T COG5165 472 SEDEDFQMVSDSDVAEEYDLQAALSDA 498 (508)
T ss_pred ccccccceeeccchhhhhccchhhccc
Confidence 99999996 899999999998776443
No 3
>PF03531 SSrecog: Structure-specific recognition protein (SSRP1); InterPro: IPR000969 Human structure-specific recognition protein, SSRP1, [] binds specifically to DNA modified with the anti-cancer drug cisplatin. An 81kDa protein is predicted, containing several highly-charged domains and a stretch of 75 residues that share 47% identity with a portion of the high mobility group (HMG) protein HMG1. This HMG box probably constitutes the structure recognition element for cisplatin-modified DNA, the probable recognition motif being the local duplex unwinding and bending that occurs on formation of intra-strand cross-links []. SSRP1 is the human homologue of a recently identified mouse protein that binds to recombination signal sequences []. These sequences have been postulated to form stem-loop structures, further implicating local bends and unwinding in DNA as a recognition target for HMG-box proteins. A Drosophila melanogaster cDNA encoding an HMG-box-containing protein has also been isolated [, ]. This protein shares 50% sequence identity with human SSRP1. In vitro binding studies using Drosophila SSRP showed that the protein binds to single-stranded DNA and RNA, with highest affinity for nucleotides G and U. Comparison of the predicted amino acid sequences among SSRP family members reveals 48% identity, with structural conservation in the C terminus of the HMG box, as well as domains of highly charged residues. The most highly conserved regions lie in the poorly understood N terminus, suggesting that this portion of the protein is critical for its function []. This entry contains Pob3 Q04636 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p (IPR013953 from INTERPRO)-Pob3p) []. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 3F5R_A 2GCL_B 2GCJ_D.
Probab=100.00 E-value=3e-82 Score=629.75 Aligned_cols=221 Identities=49% Similarity=0.869 Sum_probs=111.5
Q ss_pred EcCCChhhHHHHHHHHHhhcCCCCcceeeeeeeeeeeeeeecCceEEEEeCCEeEEEEeccccccccccCCceEEEEEec
Q 006512 74 FTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHV 153 (642)
Q Consensus 74 ~~gf~~~d~~~l~~~~~~~~~~~~~~~e~~~~G~nwG~~~~~~~~l~f~~~~k~~feip~~~is~~~~~~knev~~ef~~ 153 (642)
||||+++|+++|++||++||+++|++++||++|||||+++|+|++|+|.|+|||||||||++|||||++|||||+||||+
T Consensus 1 FdGF~~~D~~~L~~~~k~~y~i~le~~els~kGwNWG~~~~~g~~L~F~v~~K~aFEIPl~~Vsn~n~~gKNEV~lEF~~ 80 (222)
T PF03531_consen 1 FDGFKEEDFEKLKKFFKKNYDIELEEKELSVKGWNWGKADFEGSELVFNVDNKPAFEIPLSDVSNCNLAGKNEVALEFHQ 80 (222)
T ss_dssp EEEE-GGGHHHHHHHHHHHH----EE-SSTTTT-----------------------------------------------
T ss_pred CcCCCHHHHHHHHHHHHHHcCCCCcccceecCCEeeceeEEcCCEEEEEECCeEEEEeeHHHhhhccCCCCCEEEEEcCC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCceeEEEEEecCCCCCCCCCCCCCHHHHHHHHHHhhcccccCCcceEEEEcCeeeecCCcceEEEEecCcE
Q 006512 154 DDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFL 233 (642)
Q Consensus 154 ~~~~~~~~~~~l~e~rf~iP~~~~~~~~~~~~~~~~~~~~~i~~~a~~~~~~g~~i~~~~~i~~~~PRGry~i~~~~~~l 233 (642)
+|++..+++|+|||||||||+++.+..+|++.++|++|+++||+||+|++++|++||+|.+|+|+||||||+|+||+++|
T Consensus 81 ~d~~~~~~~D~LvEmRFyvP~~~~~~~~Dee~~~a~~f~~~i~~ka~i~~~~g~~i~~f~~i~~ltPRGRydi~~y~~~l 160 (222)
T PF03531_consen 81 DDDAEVANEDSLVEMRFYVPGTEKEEDEDEEDSAAEAFYDTILEKADIGQVSGDAIASFEDILCLTPRGRYDIEMYPTFL 160 (222)
T ss_dssp ----------------------------------------------------TTSSEEEEEEEEEETTEEEEEEE-SSEE
T ss_pred CCCCCCCCCCEEEEEEEEcCCCCCcccccccccHHHHHHHHHHHHhhccccccccccccccccccccccccccccccccc
Confidence 99875557899999999999985555556778999999999999999999999999999999999999999999999999
Q ss_pred EEEcccceeEeecCceeEEEecccCCCCeEEEEEecCCcccCCCcccceEEEEEEccceeh
Q 006512 234 RLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQ 294 (642)
Q Consensus 234 rl~gkt~d~~I~y~nI~r~F~lP~~d~~~~~~vi~L~~Pi~qGqtky~~lv~~f~~~e~~~ 294 (642)
|||||||||||+|++|.|+|+||+||++|++|||+|+|||||||||||||||||.++++++
T Consensus 161 rl~GktyDykI~y~~I~rlflLpk~d~~~~~~Vi~LdpPiRQGQT~Y~~lV~qf~~de~~~ 221 (222)
T PF03531_consen 161 RLHGKTYDYKIQYSSISRLFLLPKPDDRHVFFVISLDPPIRQGQTRYPFLVMQFSKDEEVE 221 (222)
T ss_dssp EEEESSBEEEEEGGGEEEEEEEE-TTSSEEEEEEEEEEEEEETTEEEEEEEEEEETT-EEE
T ss_pred ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccC
Confidence 9999999999999999999999999999999999999999999999999999999998765
No 4
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=100.00 E-value=5.3e-41 Score=368.68 Aligned_cols=277 Identities=18% Similarity=0.263 Sum_probs=210.0
Q ss_pred EEcCeeeecC----CcceEEEEecCcEEEEcc-cceeEeecCceeEEEecccCCCCeEEEEEecCCcccCCCcccceEEE
Q 006512 211 TFEGIAILTP----RGRYSVELHLSFLRLQGQ-ANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVL 285 (642)
Q Consensus 211 ~~~~i~~~~P----RGry~i~~~~~~lrl~gk-t~d~~I~y~nI~r~F~lP~~d~~~~~~vi~L~~Pi~qGqtky~~lv~ 285 (642)
.+.||-+-+| |-.=+|++|.|+||+.+- .-...|+|+||+|+|||||..++++++||||++|||.|++|+.+|+|
T Consensus 607 ~L~dlyiRp~i~~Kr~~G~lEaH~NGfRy~s~R~~~vdiLfsNIKhafFqpc~~Emi~llHfHLknpIm~GkkK~~dVQF 686 (960)
T KOG1189|consen 607 KLKDLYIRPNIDTKRIPGSLEAHENGFRYQSLRDERVDILFSNIKHAFFQPCEGEMIILLHFHLKNPIMVGKKKTKDVQF 686 (960)
T ss_pred chhheEecCCccccccccceeeecCceeeeeccccchhhhhhhhhhhhcCccccceeeEeeehhccceeecccceeeeee
Confidence 6677765444 566789999999999983 35799999999999999999999999999999999999999999999
Q ss_pred EEEccceehhcc-----cCCHHHHhhhhhcccccccccchHHHHHHHHhhhcCCeeccCCCcccCCCcceEEEeecCcee
Q 006512 286 QFETDYVVQSEL-----LMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDG 360 (642)
Q Consensus 286 ~f~~~e~~~~el-----~~~eee~~~k~~~~l~~~~~g~~~~v~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c~~ka~~G 360 (642)
+.++++.+ -++ ..+.+++..+.++|-.++.-+..|.-|+.....++.-. -.|..+.+..++.+.+..+..
T Consensus 687 Y~Ev~div-~dlg~~~~~~D~del~~EQ~Er~rr~~ln~~FksF~~kv~~~~~~~----~efd~pfr~lGF~GvP~rssv 761 (960)
T KOG1189|consen 687 YREVGDIV-TDLGKRRRMGDRDELEQEQEERDRRAKLNMAFKSFAEKVAEATESE----LEFDVPFRELGFNGVPFRSSV 761 (960)
T ss_pred eehhhhHH-HhhccCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc----eeeccchhhcCcCCCCcccee
Confidence 98887653 222 24566665544444444444445555554444444321 167777777788888889999
Q ss_pred EEEecCcceeeccCCC-eEEEcCceeEEEEEEecCCCcceeeEEEEEEEcC--CceEEEeeechhhhhhHHHHHhcCCce
Q 006512 361 VLYPLEKSFFFLPKPP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT--EQEHLFRNIQRNEYHNLFDFISGKGLK 437 (642)
Q Consensus 361 ~LypL~~~llf~~KPp-~~I~~~dI~~V~f~Rv~~~~~~~rtFDl~i~~K~--~~~~~Fs~I~~~e~~~l~~fl~~k~l~ 437 (642)
+|.|+..||+.++.+| ++|+|+||+.|||+||++++ |||||+|++|+ ..+.++.+||.+.++.|++||++++|+
T Consensus 762 ~i~pTs~cLV~LtE~P~~VvtL~eVEiv~~ERV~f~l---KnfDmvfIfKd~~k~v~~i~svp~~sLd~iKEWLdscDI~ 838 (960)
T KOG1189|consen 762 FIQPTSSCLVNLTEWPFFVVTLEEVEIVNLERVQFGL---KNFDMVFIFKDFKKKVTMINSVPMESLDKLKEWLDSCDIK 838 (960)
T ss_pred eeecchhhhhccccCCceEEeecceeeeeeeeeeecc---ccceEEEEeccccccceeeeccchhhhhHHHHhhhcccce
Confidence 9999999999999866 55999999999999999988 99999999999 689999999999999999999999999
Q ss_pred EeecCCccccchhhhhhcCCCCCC----CChhhhhhcccC-C----CCCCCccCcccccCCCCCCCCCCC
Q 006512 438 IMNLGDMKTTDGVAAVLQEDDDDA----VDPHLERIKNEA-G----GDESDEEDSDFVADKDDGGSPTDD 498 (642)
Q Consensus 438 ~~n~~~~~~~~~~~~~~~~~~dd~----~d~~~~~~~~~~-~----~dddeeeDedf~~~~sd~~ee~ds 498 (642)
+. ++..+. +|..+|...-||. +|++|..+..++ + .++++++|+.|+++++|+++|.|+
T Consensus 839 y~-Eg~~sL--NW~~ImKTI~dDP~~Ffe~GgW~fL~~~~sdsee~~~ese~e~~~y~psd~~v~~eS~e 905 (960)
T KOG1189|consen 839 YT-EGVQSL--NWTKIMKTITDDPIAFFEDGGWSFLNVESSDSEEGGDESEEEDSAYEPSDDDVSDESDE 905 (960)
T ss_pred ee-cccccc--cHHHHhhhhccCHHHHHhcCCeeeecCCCCcccccccccccccccCCccccCccccccc
Confidence 99 444333 6677776555554 467787776544 2 223344566677655554444333
No 5
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=100.00 E-value=1.4e-33 Score=304.67 Aligned_cols=244 Identities=15% Similarity=0.203 Sum_probs=184.4
Q ss_pred ceEEEEecCcEEEEcc---cceeEeecCceeEEEecccCCCCeEEEEEecCCcccCCCcccceEEEEEEcccee------
Q 006512 223 RYSVELHLSFLRLQGQ---ANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVV------ 293 (642)
Q Consensus 223 ry~i~~~~~~lrl~gk---t~d~~I~y~nI~r~F~lP~~d~~~~~~vi~L~~Pi~qGqtky~~lv~~f~~~e~~------ 293 (642)
-=.|++|.|++|+++. ..-+.|+|+||+|+|||||..+.++++||||++||+.|+.+..+|+|+-++....
T Consensus 669 pg~~eiHeNGiRfqsplrsds~idiLFSNikhlfFq~c~gEliviiH~HLk~PIl~GkrKvqdVQFYREasd~~vdeTg~ 748 (1001)
T COG5406 669 PGNLEIHENGIRFQSPLRSDSHIDILFSNIKHLFFQECNGELIVIIHFHLKSPILTGKRKVQDVQFYREASDTMVDETGK 748 (1001)
T ss_pred CccEEEecCceeecCCcccCceeEEeeccchhheeccCCceEEEEEEEeecCceecCCceeeeeeeeecccccchhhhcc
Confidence 3589999999999994 2368999999999999999999999999999999999999999997777664322
Q ss_pred --hhcccCCHHHHhhhhhcccccccccchHHHHHHHHhhhcCCeeccCCCcccCCCcceEEEeecCceeEEEecCcceee
Q 006512 294 --QSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFF 371 (642)
Q Consensus 294 --~~el~~~eee~~~k~~~~l~~~~~g~~~~v~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c~~ka~~G~LypL~~~llf 371 (642)
.-+.-.+++|++++.++|-++......|.-|+......++-.+. |....+..++.+.+..+..++.|+..||+-
T Consensus 749 ~~rk~~ygdedElEqEqeerrrraald~eFksFa~~Iaeas~gri~----~~~~fr~lgF~GVPfRs~V~~~pTtdCLVq 824 (1001)
T COG5406 749 RGRKEHYGDEDELEQEQEERRRRAALDQEFKSFASSIAEASEGRIE----FKVQFRKLGFYGVPFRSSVMIKPTTDCLVQ 824 (1001)
T ss_pred ccchhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceE----EeeechhccccCCccccceeeecchhheee
Confidence 11233456677766666666666666677676666555532221 233333344444455566677799999999
Q ss_pred ccCCCeE-EEcCceeEEEEEEecCCCcceeeEEEEEEEcC--CceEEEeeechhhhhhHHHHHhcCCceEeecCCccccc
Q 006512 372 LPKPPTL-ILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT--EQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTD 448 (642)
Q Consensus 372 ~~KPp~~-I~~~dI~~V~f~Rv~~~~~~~rtFDl~i~~K~--~~~~~Fs~I~~~e~~~l~~fl~~k~l~~~n~~~~~~~~ 448 (642)
+..||++ |+|++|+.|+|+||++|+ |||||++++++ +.+.++++||.+.++.|++||++++|.+... ..+.
T Consensus 825 L~e~Pf~VitLeevEi~~lERVqfgl---KnfD~vFi~~df~rp~vhIntvpvesld~lKewLds~di~f~e~-~~nl-- 898 (1001)
T COG5406 825 LDEAPFFVITLEEVEIVNLERVQFGL---KNFDVVFILRDFYRPLVHINTVPVESLDKLKEWLDSNDILFMET-SANL-- 898 (1001)
T ss_pred ccCCceEEEEecceeEEeeeeEEeec---ccceEEEEeccccCCcceeccccHHHHHHHHHHhhhcCceeEec-cccc--
Confidence 9999966 999999999999999988 99999999999 6899999999999999999999999999844 3332
Q ss_pred hhhhhhcCCC----CCCCChhhhhhcccCCCC
Q 006512 449 GVAAVLQEDD----DDAVDPHLERIKNEAGGD 476 (642)
Q Consensus 449 ~~~~~~~~~~----dd~~d~~~~~~~~~~~~d 476 (642)
+|+.++...- ...+|++|..+..+++++
T Consensus 899 nW~timksi~~DPi~FfedGgW~fL~~gsddE 930 (1001)
T COG5406 899 NWNTIMKSIMKDPISFFEDGGWSFLMVGSDDE 930 (1001)
T ss_pred cHHHHHHHHhcCcHHHhhcCcceeeecCCccc
Confidence 4555544332 333566677766555443
No 6
>PF08512 Rtt106: Histone chaperone Rttp106-like; InterPro: IPR013719 This is a domain of unknown function that is associated with a number of different protein families. It is found in Rtt106p, which is a histone chaperone involved in heterochromatin-mediated silencing []. It is also found in genes annotated as transcription factors/regulators. This domain is the C-terminal domain of yeast Spt16p P32558 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p-Pob3p, IPR000969 from INTERPRO) []. In addition Spt16p and its relatives, in this entry, are described as non-peptidase homologues belonging to the MEROPS peptidase family M24. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. ; PDB: 3TW1_A 3GYO_A 3TO1_A 3FSS_A 3TVV_B 3GYP_A 2GCJ_D 2GCL_A.
Probab=99.94 E-value=4.4e-27 Score=207.01 Aligned_cols=91 Identities=48% Similarity=0.759 Sum_probs=81.2
Q ss_pred cceEEEeecCceeEEEecCcceee-ccCCCeEEEcCceeEEEEEEe-cCCCcceeeEEEEEEEcC--CceEEEeeechhh
Q 006512 348 GYAVKSSLKAEDGVLYPLEKSFFF-LPKPPTLILHEEIDYVEFERH-AAGGSNMHYFDLLIRLKT--EQEHLFRNIQRNE 423 (642)
Q Consensus 348 ~~~v~c~~ka~~G~LypL~~~llf-~~KPp~~I~~~dI~~V~f~Rv-~~~~~~~rtFDl~i~~K~--~~~~~Fs~I~~~e 423 (642)
.+||+|++||++|+||||++||+| ++||+++|+++||+.|+|+|+ +.+ +|||||+|++|+ +++++|+||+++|
T Consensus 1 f~~V~c~~ka~~g~L~pl~~~l~f~~~kP~~~i~~~dI~~v~feRv~~~~---~ktFDl~v~~k~~~~~~~~fs~I~~~e 77 (95)
T PF08512_consen 1 FYGVKCSYKANEGFLYPLEKCLLFGLEKPPFVIPLDDIESVEFERVSSFS---SKTFDLVVILKDYEGPPHEFSSIDREE 77 (95)
T ss_dssp -EEEEEEETTEEEEEEEESSEEEEECSSS-EEEEGGGEEEEEEE--ESSS---SSEEEEEEEETT-TS-EEEEEEEEGGG
T ss_pred CCceeEeccccCEEEEEccceEEEecCCCeEEEEhhHeeEEEEEecccCc---ceEEEEEEEEecCCCCcEEEeeECHHH
Confidence 368999999999999999999999 999999999999999999998 332 399999999999 8999999999999
Q ss_pred hhhHHHHHhcCCceEeec
Q 006512 424 YHNLFDFISGKGLKIMNL 441 (642)
Q Consensus 424 ~~~l~~fl~~k~l~~~n~ 441 (642)
++.|++||+++||+++|+
T Consensus 78 ~~~l~~~l~~~~i~~~~~ 95 (95)
T PF08512_consen 78 YDNLKDFLKSKNIKIKNE 95 (95)
T ss_dssp HHHHHHHHHHCCHHCCCH
T ss_pred HHHHHHHHHHCCCEeecC
Confidence 999999999999999874
No 7
>PTZ00199 high mobility group protein; Provisional
Probab=99.80 E-value=4.4e-20 Score=162.33 Aligned_cols=83 Identities=48% Similarity=0.867 Sum_probs=77.7
Q ss_pred cccccccccCCCCCCCCCcceeEeeehHHHHHHHHhCCCCC--chhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHH
Q 006512 544 GKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIA--FTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDE 621 (642)
Q Consensus 544 ~kkkkkkkkkd~~~PKRP~sAy~lF~~e~R~~ik~~~P~~~--~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e 621 (642)
.+++++++++||++||||+|||++||+++|..|+.+||+++ +++|+++||++|+.||+++|++|.++|+.++++|.++
T Consensus 9 ~~k~~~k~~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk~rY~~e 88 (94)
T PTZ00199 9 LVRKNKRKKKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDKVRYEKE 88 (94)
T ss_pred cccccCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHH
Confidence 44555667899999999999999999999999999999986 8999999999999999999999999999999999999
Q ss_pred hcccC
Q 006512 622 ISGYK 626 (642)
Q Consensus 622 ~~~yk 626 (642)
|.+|+
T Consensus 89 ~~~Y~ 93 (94)
T PTZ00199 89 KAEYA 93 (94)
T ss_pred HHHHh
Confidence 99995
No 8
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=99.68 E-value=3.6e-17 Score=138.47 Aligned_cols=72 Identities=28% Similarity=0.542 Sum_probs=69.8
Q ss_pred CCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccCCC
Q 006512 557 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNP 628 (642)
Q Consensus 557 ~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk~~ 628 (642)
+||||+||||||+++.|..++.+||++++.+|+++||++|+.|++++|++|.++|+.++++|.+++++|+-.
T Consensus 1 ~~kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k~~~~~~~p~Yky~ 72 (77)
T cd01389 1 KIPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESPEVKAYYKELAEEEKERHAREYPDYKYT 72 (77)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHCCCCccc
Confidence 489999999999999999999999999999999999999999999999999999999999999999999764
No 9
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=99.66 E-value=9e-17 Score=134.34 Aligned_cols=69 Identities=32% Similarity=0.568 Sum_probs=67.8
Q ss_pred CCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccC
Q 006512 558 PKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYK 626 (642)
Q Consensus 558 PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk 626 (642)
.|||+||||+||+++|+.++++||++++.+|+++||++|+.||+++|++|.++|++++++|.+++++|+
T Consensus 2 iKrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~~~p~y~ 70 (72)
T cd01388 2 IKRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMKLYPDYK 70 (72)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHCcCCC
Confidence 589999999999999999999999999999999999999999999999999999999999999999997
No 10
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.61 E-value=3.8e-16 Score=152.26 Aligned_cols=90 Identities=40% Similarity=0.814 Sum_probs=84.3
Q ss_pred ccccccCCCCCCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccC
Q 006512 547 KKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYK 626 (642)
Q Consensus 547 kkkkkkkd~~~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk 626 (642)
...+++++|++||||+||||+|++++|.++++.+|.+++.+|++++|++|++|++++|++|...|..++++|.+++..|.
T Consensus 60 ~~~r~k~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq~ek~~y~ 139 (211)
T COG5648 60 RLVRKKKDPNGPKRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREKEEYN 139 (211)
T ss_pred HHHHHhcCCCCCCCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHHHHHHhhh
Confidence 34667899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCC
Q 006512 627 NPKPMDIDSG 636 (642)
Q Consensus 627 ~~~~~~~~~~ 636 (642)
++.+.....+
T Consensus 140 ~k~~~~~~~~ 149 (211)
T COG5648 140 KKLPNKAPIG 149 (211)
T ss_pred cccCCCCCCc
Confidence 9888776543
No 11
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=99.60 E-value=6.2e-16 Score=126.20 Aligned_cols=66 Identities=47% Similarity=0.890 Sum_probs=64.6
Q ss_pred CCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhc
Q 006512 558 PKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEIS 623 (642)
Q Consensus 558 PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~ 623 (642)
||||+|||++|+++.|..++.+||++++.+|++.||++|++||+++|++|.++|++++++|..+|.
T Consensus 1 Pkrp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls~~eK~~y~~~a~~~~~~y~~e~~ 66 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELSEEEKKKYEEKAEKDKERYEKEMK 66 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhC
Confidence 899999999999999999999999999999999999999999999999999999999999999874
No 12
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....
Probab=99.60 E-value=3.2e-16 Score=129.15 Aligned_cols=69 Identities=35% Similarity=0.801 Sum_probs=65.7
Q ss_pred CCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccC
Q 006512 558 PKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYK 626 (642)
Q Consensus 558 PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk 626 (642)
||||+|||++||++.|..++.+||+++..+|++.||++|++||+++|++|.+.|.+++++|.++|+.|+
T Consensus 1 PkrP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l~~~eK~~y~~~a~~~~~~y~~~~~~y~ 69 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNLSEEEKAPYKEEAEEEKERYEKEMPEYK 69 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 899999999999999999999999999999999999999999999999999999999999999999885
No 13
>smart00398 HMG high mobility group.
Probab=99.58 E-value=1.5e-15 Score=124.91 Aligned_cols=70 Identities=50% Similarity=0.922 Sum_probs=68.3
Q ss_pred CCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccC
Q 006512 557 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYK 626 (642)
Q Consensus 557 ~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk 626 (642)
+||||+|||++|+++.|+.++.+||++++.+|++.||++|+.||+++|++|.++|++++++|.++++.|+
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~~ek~~y~~~a~~~~~~y~~~~~~y~ 70 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEYK 70 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 5899999999999999999999999999999999999999999999999999999999999999999985
No 14
>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins. It has no known function. ; GO: 0005634 nucleus; PDB: 2EQZ_A 1V64_A 2CTO_A 1H5P_A 3TQ6_A 3FGH_A 3TMM_A 1J3X_A 2YRQ_A 1AAB_A ....
Probab=99.55 E-value=2.2e-15 Score=126.30 Aligned_cols=72 Identities=38% Similarity=0.740 Sum_probs=63.8
Q ss_pred CCCCCCCcceeEeeehHHHHHHHHh-CCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccC
Q 006512 555 PNAPKRAMSGFIFFSQMERENIKKS-NPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYK 626 (642)
Q Consensus 555 ~~~PKRP~sAy~lF~~e~R~~ik~~-~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk 626 (642)
|++||||+|||+||+.+++..++.+ .+.....++++.|+.+|++||++||++|.++|++++++|.++|..|+
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls~~EK~~Y~~~A~~~k~~y~~e~~~~~ 73 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLSEEEKEPYEERAKEDKERYEREMKEWN 73 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 6789999999999999999999998 77788999999999999999999999999999999999999999884
No 15
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=99.49 E-value=2.2e-14 Score=126.17 Aligned_cols=74 Identities=43% Similarity=0.825 Sum_probs=71.4
Q ss_pred CCCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhc-ccCCCC
Q 006512 556 NAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEIS-GYKNPK 629 (642)
Q Consensus 556 ~~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~-~yk~~~ 629 (642)
..||||++||++|+.+.|..++.+||++++.+|++++|++|++|++++|++|..+|..++++|..+|. .|++..
T Consensus 21 ~~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~~~~k~~y~~ka~~~k~~Y~~~~~~~~~~~~ 95 (96)
T KOG0381|consen 21 QAPKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLAEEEKQPYEEKASKLKEKYEKELAGEYKASL 95 (96)
T ss_pred CCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 59999999999999999999999999999999999999999999999999999999999999999999 888754
No 16
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=99.49 E-value=2.6e-14 Score=151.00 Aligned_cols=77 Identities=30% Similarity=0.543 Sum_probs=72.3
Q ss_pred cCCCCCCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccCCC
Q 006512 552 KKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNP 628 (642)
Q Consensus 552 kkd~~~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk~~ 628 (642)
++...+.||||||||+|++.+|.+|.+++|.+.++||+|.||.+||.|+++||.+|.+.|++.|++|+++++.||-+
T Consensus 57 k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~mHNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~HmkehPdYKYR 133 (331)
T KOG0527|consen 57 KTSTDRIKRPMNAFMVWSQGQRRKLAKQNPKMHNSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMKEYPDYKYR 133 (331)
T ss_pred CCCccccCCCcchhhhhhHHHHHHHHHhCcchhhHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHHhCCCcccc
Confidence 44445789999999999999999999999999999999999999999999999999999999999999999999653
No 17
>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III member
Probab=99.48 E-value=2.8e-14 Score=115.92 Aligned_cols=66 Identities=44% Similarity=0.883 Sum_probs=64.0
Q ss_pred CCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhc
Q 006512 558 PKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEIS 623 (642)
Q Consensus 558 PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~ 623 (642)
||||+|||++|+++.|..++.++|+++..+|++.||++|+.|++++|++|.++|+.++.+|.+++.
T Consensus 1 pkrp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~~~~k~~y~~~a~~~~~~y~~~~~ 66 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSEEEKKKYEEKAEKDKERYEKEMP 66 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhC
Confidence 799999999999999999999999999999999999999999999999999999999999998763
No 18
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=98.81 E-value=2.1e-09 Score=111.06 Aligned_cols=71 Identities=20% Similarity=0.397 Sum_probs=66.4
Q ss_pred CCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccCC
Q 006512 557 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKN 627 (642)
Q Consensus 557 ~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk~ 627 (642)
..|+|+||||||++|.|++|.+++--...++|.++||.+|.+||.||.++|.++|+++|+-+..-++.|-+
T Consensus 191 hiKKPLNAFmlyMKEmRa~vvaEctlKeSAaiNqiLGrRWH~LSrEEQAKYyElArKerqlH~qlYP~WSA 261 (421)
T KOG3248|consen 191 HIKKPLNAFMLYMKEMRAKVVAECTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSA 261 (421)
T ss_pred cccccHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCcch
Confidence 46999999999999999999999876678999999999999999999999999999999999999988854
No 19
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=98.74 E-value=4.8e-09 Score=113.32 Aligned_cols=77 Identities=26% Similarity=0.484 Sum_probs=71.3
Q ss_pred CCCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccCCCCCCC
Q 006512 556 NAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMD 632 (642)
Q Consensus 556 ~~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk~~~~~~ 632 (642)
...||||||||.|.++.|.+|.+.+|++.+..|+|+||.+||.|+-.||++|.+.-++.-..|...++.|+-+-..+
T Consensus 324 PHIKRPMNAFMVWAkDERRKILqA~PDMHNSnISKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~PdYrYkPRPK 400 (511)
T KOG0528|consen 324 PHIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKYPDYRYKPRPK 400 (511)
T ss_pred ccccCCcchhhcccchhhhhhhhcCccccccchhHHhcccccccccccccchHHHHHHHHHhhhccCcccccCCCCC
Confidence 46799999999999999999999999999999999999999999999999999988888889999999998765544
No 20
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=98.64 E-value=1.9e-08 Score=103.12 Aligned_cols=75 Identities=25% Similarity=0.631 Sum_probs=71.3
Q ss_pred CCCCCCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccCC
Q 006512 553 KDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKN 627 (642)
Q Consensus 553 kd~~~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk~ 627 (642)
+.|+.|-+|+-+||.|++..+.++++.||++..-+|.|++|.+|+.|+++||+.|...++..|..|.+.|+.|..
T Consensus 60 kpPkppekpl~pymrySrkvWd~VkA~nPe~kLWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEKieY~~smkayh~ 134 (410)
T KOG4715|consen 60 KPPKPPEKPLMPYMRYSRKVWDQVKASNPELKLWEIGKIIGGMWLDLPDEEKQEYLNEYEAEKIEYNESMKAYHN 134 (410)
T ss_pred CCCCCCCcccchhhHHhhhhhhhhhccCcchHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 456678899999999999999999999999999999999999999999999999999999999999999999955
No 21
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=98.13 E-value=1.2e-06 Score=98.37 Aligned_cols=72 Identities=24% Similarity=0.445 Sum_probs=66.5
Q ss_pred cccCCCCCCCCCcceeEeeehHHH--HHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHH
Q 006512 550 KKKKDPNAPKRAMSGFIFFSQMER--ENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDE 621 (642)
Q Consensus 550 kkkkd~~~PKRP~sAy~lF~~e~R--~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e 621 (642)
..+.+....+|||+||++|++.+| ..+...||+..++.|+|+||++|-.|.+.||+.|.++|.+.|++|-++
T Consensus 174 pnkr~k~HirrPMnaf~ifskrhr~~g~vhq~~pn~DNrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~Ahfka 247 (683)
T KOG2746|consen 174 PNKRDKDHIRRPMNAFHIFSKRHRGEGRVHQRHPNQDNRTISKILGEWWYTLGPNEKQKYHDLAFQVKEAHFKA 247 (683)
T ss_pred CCcCcchhhhhhhHHHHHHHhhcCCccchhccCccccchhHHHHHhhhHhhhCchhhhhHHHHHHHHHHHHhhh
Confidence 344555578999999999999999 999999999999999999999999999999999999999999999986
No 22
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=97.86 E-value=1.8e-05 Score=65.83 Aligned_cols=75 Identities=16% Similarity=0.228 Sum_probs=62.0
Q ss_pred CCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcccCCCCCCC
Q 006512 557 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMD 632 (642)
Q Consensus 557 ~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~yk~~~~~~ 632 (642)
.|..|.+|--+|.+..+..+.+.++.....+ .+.+...|++|++.+|-+|..+|.++..+|+.+|.+|+...+..
T Consensus 3 lPE~PKt~qe~Wqq~vi~dYla~~~~dr~K~-~kam~~~W~~me~Kekl~WIkKA~EdqKrYE~el~e~r~~~~~~ 77 (85)
T PF14887_consen 3 LPETPKTAQEIWQQSVIGDYLAKFRNDRKKA-LKAMEAQWSQMEKKEKLKWIKKAAEDQKRYERELREMRSAPADA 77 (85)
T ss_dssp -S----THHHHHHHHHHHHHHHHTTSTHHHH-HHHHHHHHHTTGGGHHHHHHHHHHHHHHHHHHHHHCCS-CCCTT
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHhhHhHHHH-HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 4677888888999999999989999877776 55999999999999999999999999999999999999876643
No 23
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=97.14 E-value=0.00024 Score=81.03 Aligned_cols=41 Identities=15% Similarity=0.228 Sum_probs=31.4
Q ss_pred eeEEEEEEEcCCceEEEeeechhhhhhHHHHHhcCCceEeec
Q 006512 400 HYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNL 441 (642)
Q Consensus 400 rtFDl~i~~K~~~~~~Fs~I~~~e~~~l~~fl~~k~l~~~n~ 441 (642)
-++|+..+ -+.+.+.|+.|.+.-.+....|+..-|+.+.+.
T Consensus 833 dscDI~y~-Eg~~sLNW~~ImKTI~dDP~~Ffe~GgW~fL~~ 873 (960)
T KOG1189|consen 833 DSCDIKYT-EGVQSLNWTKIMKTITDDPIAFFEDGGWSFLNV 873 (960)
T ss_pred hcccceee-cccccccHHHHhhhhccCHHHHHhcCCeeeecC
Confidence 34665443 244688899999999999999999888888765
No 24
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=95.97 E-value=0.0058 Score=59.37 Aligned_cols=45 Identities=22% Similarity=0.386 Sum_probs=41.0
Q ss_pred CCCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCC
Q 006512 556 NAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMS 600 (642)
Q Consensus 556 ~~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls 600 (642)
.+..|-+|||..|+++.-++||+.+|+++++|.-+..++.|+..+
T Consensus 120 EKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h~p 164 (170)
T PF04690_consen 120 EKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAHFP 164 (170)
T ss_pred cccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhCc
Confidence 345577799999999999999999999999999999999998765
No 25
>PF14470 bPH_3: Bacterial PH domain
Probab=95.74 E-value=0.078 Score=45.94 Aligned_cols=77 Identities=23% Similarity=0.379 Sum_probs=60.8
Q ss_pred ceEEEeec----CceeEEEecCcceeeccCCC------eEEEcCceeEEEEEEecCCCcceeeEEEEEEEcCCceEEEee
Q 006512 349 YAVKSSLK----AEDGVLYPLEKSFFFLPKPP------TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRN 418 (642)
Q Consensus 349 ~~v~c~~k----a~~G~LypL~~~llf~~KPp------~~I~~~dI~~V~f~Rv~~~~~~~rtFDl~i~~K~~~~~~Fs~ 418 (642)
..+.|.++ ...|.|+.+++=|+|+.+.+ .-|++++|.+|++..--.+ .+ +.|.+ ++..++|.+
T Consensus 9 ~~~~~~~~~~~~~~~g~l~~TnkRlif~~~~~~~~~~~~~i~y~~I~~v~~~~g~~~----~~--i~i~~-~~~~~~i~~ 81 (96)
T PF14470_consen 9 YVAVGSYNYFFTSFPGVLVLTNKRLIFYSKGMFGGKKFESIPYDDITSVSFKKGILG----GK--ITIET-NGEKIKIDN 81 (96)
T ss_pred EEEEEEEeecccCceeEEEEeCCEEEEEEcccCCCceEEEEEhhheEEEEEEccccc----cE--EEEEE-CCEEEEEEE
Confidence 35677777 88999999999999975542 2389999999999962211 22 66666 778999999
Q ss_pred echhhhhhHHHHHh
Q 006512 419 IQRNEYHNLFDFIS 432 (642)
Q Consensus 419 I~~~e~~~l~~fl~ 432 (642)
|++.+.+.+.++++
T Consensus 82 i~k~~~~~~~~~i~ 95 (96)
T PF14470_consen 82 IQKGDVKEFYEYIK 95 (96)
T ss_pred cCHHHHHHHHHHHh
Confidence 99999999998886
No 26
>PF08512 Rtt106: Histone chaperone Rttp106-like; InterPro: IPR013719 This is a domain of unknown function that is associated with a number of different protein families. It is found in Rtt106p, which is a histone chaperone involved in heterochromatin-mediated silencing []. It is also found in genes annotated as transcription factors/regulators. This domain is the C-terminal domain of yeast Spt16p P32558 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p-Pob3p, IPR000969 from INTERPRO) []. In addition Spt16p and its relatives, in this entry, are described as non-peptidase homologues belonging to the MEROPS peptidase family M24. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. ; PDB: 3TW1_A 3GYO_A 3TO1_A 3FSS_A 3TVV_B 3GYP_A 2GCJ_D 2GCL_A.
Probab=95.36 E-value=0.058 Score=47.64 Aligned_cols=72 Identities=24% Similarity=0.279 Sum_probs=60.7
Q ss_pred CCeeEEEecCceeEeeCCCCceEEeecCCcceeEEEEe----cCcceEEEEEeC--CcEEEEcCCChhhHHHHHHHHHhh
Q 006512 19 NPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKV----PRTNQLGVRTKD--GLYYKFTGFRDQDVATLTNFFQSN 92 (642)
Q Consensus 19 ~~G~~~~~~~g~~~k~~~~~~~~~~~~~~i~~~~w~r~----~~~~~l~i~~~~--~~~~~~~gf~~~d~~~l~~~~~~~ 92 (642)
..|-|-....+|.|=-.+ -.+.|+-+||..+...|+ .|.+-|.|.+|+ +..+.|.+...++++.|.+|+++.
T Consensus 11 ~~g~L~pl~~~l~f~~~k--P~~~i~~~dI~~v~feRv~~~~~ktFDl~v~~k~~~~~~~~fs~I~~~e~~~l~~~l~~~ 88 (95)
T PF08512_consen 11 NEGFLYPLEKCLLFGLEK--PPFVIPLDDIESVEFERVSSFSSKTFDLVVILKDYEGPPHEFSSIDREEYDNLKDFLKSK 88 (95)
T ss_dssp EEEEEEEESSEEEEECSS--S-EEEEGGGEEEEEEE--ESSSSSEEEEEEEETT-TS-EEEEEEEEGGGHHHHHHHHHHC
T ss_pred cCEEEEEccceEEEecCC--CeEEEEhhHeeEEEEEecccCcceEEEEEEEEecCCCCcEEEeeECHHHHHHHHHHHHHC
Confidence 679999999999992221 368999999999999997 399999999998 899999999999999999999876
No 27
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=95.30 E-value=0.013 Score=58.26 Aligned_cols=68 Identities=16% Similarity=0.332 Sum_probs=62.5
Q ss_pred CCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHHHHHHHHHHhcc
Q 006512 557 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISG 624 (642)
Q Consensus 557 ~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~~k~~y~~e~~~ 624 (642)
++++|.-+|.-+-.+.|+.+...+|.....+++++++..|++|++.-|.+|.+.+++++..|...|+.
T Consensus 143 ~~~~~~~~~~e~~~~~r~~~~~~~~~~~~~e~~k~~~~~w~el~~skK~~~~~~~Kk~k~~~~~~~~~ 210 (211)
T COG5648 143 PNKAPIGPFIENEPKIRPKVEGPSPDKALVEETKIISKAWSELDESKKKKYIDKYKKLKEEYDSFYPE 210 (211)
T ss_pred CCCCCCchhhhccHHhccccCCCCcchhhhHHhhhhhhhhhhhChhhhhHHHHHHHHHHHHHhhhccc
Confidence 46778888888899999999999999999999999999999999999999999999999999988763
No 28
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=94.89 E-value=0.019 Score=64.85 Aligned_cols=44 Identities=14% Similarity=0.101 Sum_probs=26.1
Q ss_pred cccccccccchHHHHHHHHhhhcCCeeccCC-CcccCCCcceEEEe
Q 006512 310 DKLEPSYKGLIHEVFTTILRGLSGAKITKPG-KFRSAQDGYAVKSS 354 (642)
Q Consensus 310 ~~l~~~~~g~~~~v~~~~~k~l~~~ki~~P~-~F~s~~~~~~v~c~ 354 (642)
..|.+++...+ ..++..-.+....++.+|. .|.++....+|-|.
T Consensus 772 aald~eFksFa-~~Iaeas~gri~~~~~fr~lgF~GVPfRs~V~~~ 816 (1001)
T COG5406 772 AALDQEFKSFA-SSIAEASEGRIEFKVQFRKLGFYGVPFRSSVMIK 816 (1001)
T ss_pred HHHHHHHHHHH-HHHHHhhcCceEEeeechhccccCCccccceeee
Confidence 34555555433 3445555566567777776 77777666666654
No 29
>PF06382 DUF1074: Protein of unknown function (DUF1074); InterPro: IPR024460 This family consists of several proteins which appear to be specific to Insecta. The function of this family is unknown.
Probab=94.64 E-value=0.032 Score=54.20 Aligned_cols=48 Identities=19% Similarity=0.333 Sum_probs=42.4
Q ss_pred cceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHH
Q 006512 562 MSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARA 613 (642)
Q Consensus 562 ~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~ 613 (642)
-+||+-|+.+.|. .|.+++..|+....+.+|..|++.+|..|..++..
T Consensus 83 nnaYLNFLReFRr----kh~~L~p~dlI~~AAraW~rLSe~eK~rYrr~~~~ 130 (183)
T PF06382_consen 83 NNAYLNFLREFRR----KHCGLSPQDLIQRAARAWCRLSEAEKNRYRRMAPS 130 (183)
T ss_pred chHHHHHHHHHHH----HccCCCHHHHHHHHHHHHHhCCHHHHHHHHhhcch
Confidence 4789999988775 57899999999999999999999999999997653
No 30
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=92.39 E-value=0.11 Score=58.01 Aligned_cols=45 Identities=16% Similarity=0.257 Sum_probs=35.8
Q ss_pred Ccceeeeeee-eeeeeeeecCceEEEEeCCE-eEEEEeccccccccc
Q 006512 97 PEEKQLSVSG-RNWGEVDLNGNMLTFMVGQK-QAFEVSLADVSQTQL 141 (642)
Q Consensus 97 ~~~~e~~~~G-~nwG~~~~~~~~l~f~~~~k-~~feip~~~is~~~~ 141 (642)
....-|..+| -|-|++.+..+.|.|....- -+|.||.++|..+..
T Consensus 7 fn~iyl~~~G~~~~G~lkit~~gi~~K~~~ggk~~~v~~sei~~~~w 53 (615)
T KOG0526|consen 7 FNDIYLEVSGHLKPGTLKITESGIGFKNSKGGKVVTVPASEIDKVKW 53 (615)
T ss_pred cCceEEecccccccceEEEccCceeEeeCCCCceEEeehHHhhhhhh
Confidence 4455567777 89999999999999984432 579999999998765
No 31
>PF05764 YL1: YL1 nuclear protein; InterPro: IPR008895 The proteins in this family are designated YL1 []. They have been shown to be DNA-binding and may be transcription factors [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=91.85 E-value=0.16 Score=52.54 Aligned_cols=9 Identities=33% Similarity=0.844 Sum_probs=5.7
Q ss_pred CccCccccc
Q 006512 479 DEEDSDFVA 487 (642)
Q Consensus 479 eeeDedf~~ 487 (642)
+++|++|+.
T Consensus 38 ee~D~ef~~ 46 (240)
T PF05764_consen 38 EEDDEEFES 46 (240)
T ss_pred cCCCccccC
Confidence 455777764
No 32
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=90.37 E-value=0.16 Score=51.93 Aligned_cols=8 Identities=13% Similarity=0.476 Sum_probs=3.8
Q ss_pred CCcccceE
Q 006512 276 GQTLYPHI 283 (642)
Q Consensus 276 Gqtky~~l 283 (642)
-+.+|-.|
T Consensus 46 ANSrYATV 53 (303)
T KOG3064|consen 46 ANSRYATV 53 (303)
T ss_pred ccccceeE
Confidence 34555444
No 33
>PF14470 bPH_3: Bacterial PH domain
Probab=90.03 E-value=2 Score=37.02 Aligned_cols=74 Identities=20% Similarity=0.324 Sum_probs=64.7
Q ss_pred CCCCeeEEEecCceeEeeCC---CCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHh
Q 006512 17 GTNPGQLKIYSGKISWKKLG---GGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQS 91 (642)
Q Consensus 17 ~~~~G~~~~~~~g~~~k~~~---~~~~~~~~~~~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~ 91 (642)
...+|.|-+++.-|-+...+ +.....|+-++|.++.|.+.--+..+.|.+ ++..++|.-+...+++.+-+++++
T Consensus 20 ~~~~g~l~~TnkRlif~~~~~~~~~~~~~i~y~~I~~v~~~~g~~~~~i~i~~-~~~~~~i~~i~k~~~~~~~~~i~~ 96 (96)
T PF14470_consen 20 TSFPGVLVLTNKRLIFYSKGMFGGKKFESIPYDDITSVSFKKGILGGKITIET-NGEKIKIDNIQKGDVKEFYEYIKE 96 (96)
T ss_pred cCceeEEEEeCCEEEEEEcccCCCceEEEEEhhheEEEEEEccccccEEEEEE-CCEEEEEEEcCHHHHHHHHHHHhC
Confidence 56789999999999988765 246799999999999999988888899998 888999999999999999888763
No 34
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=89.01 E-value=0.18 Score=40.07 Aligned_cols=39 Identities=23% Similarity=0.508 Sum_probs=35.0
Q ss_pred cceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCC
Q 006512 562 MSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMS 600 (642)
Q Consensus 562 ~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls 600 (642)
.+.|-+|.+-.|+.|.+.||++....+...++.+||+-+
T Consensus 13 lt~yK~Fsq~vRP~l~~~NPk~~~sKl~~l~~AKwrEF~ 51 (55)
T PF08073_consen 13 LTNYKAFSQHVRPLLAKANPKAPMSKLMMLLQAKWREFQ 51 (55)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHH
Confidence 355778999999999999999999999999999999754
No 35
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=87.03 E-value=0.66 Score=54.91 Aligned_cols=9 Identities=22% Similarity=0.183 Sum_probs=4.1
Q ss_pred eeEEEEEEe
Q 006512 384 IDYVEFERH 392 (642)
Q Consensus 384 I~~V~f~Rv 392 (642)
+..||-.|+
T Consensus 1326 ~sdvh~~r~ 1334 (1516)
T KOG1832|consen 1326 MSDVHTRRV 1334 (1516)
T ss_pred hhhhccccc
Confidence 344444444
No 36
>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT). MAT alpha 1 is a transcription activator that activates mating-type alpha-specific genes with the help of the MADS-box containing MCM1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation []. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (IPR006742 from INTERPRO) response pathway [].; GO: 0000772 mating pheromone activity, 0003677 DNA binding, 0045895 positive regulation of transcription, mating-type specific, 0005634 nucleus
Probab=86.36 E-value=0.6 Score=46.96 Aligned_cols=56 Identities=25% Similarity=0.494 Sum_probs=42.1
Q ss_pred cCCCCCCCCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCChhhhhhhHHHHHH
Q 006512 552 KKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARA 613 (642)
Q Consensus 552 kkd~~~PKRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~eeK~~y~~~A~~ 613 (642)
+.....+|||+|+||+| |.-+....|+...++++..|+..|..= --|..|.-.|+.
T Consensus 38 ~~~~~~~kr~lN~Fm~F----Rsyy~~~~~~~~Qk~~S~~l~~lW~~d--p~k~~W~l~ak~ 93 (201)
T PF04769_consen 38 KRSPEKAKRPLNGFMAF----RSYYSPIFPPLPQKELSGILTKLWEKD--PFKNKWSLMAKA 93 (201)
T ss_pred cccccccccchhHHHHH----HHHHHhhcCCcCHHHHHHHHHHHHhCC--ccHhHHHHHhhh
Confidence 33445679999999999 444556678888999999999999863 236667666643
No 37
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=86.09 E-value=7.2 Score=37.63 Aligned_cols=89 Identities=20% Similarity=0.406 Sum_probs=69.9
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCC-----Ccceeeeeee---------------
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGIS-----PEEKQLSVSG--------------- 106 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~~~-----~~~~e~~~~G--------------- 106 (642)
++-.++|.+.+|++-|||+..+- .|..-+|-+.++..+...+++. -+.=|+|..|
T Consensus 24 ELv~ve~~~~~~~~~lrI~id~~-----g~v~lddC~~vSr~is~~LD~edpi~~~Y~LEVSSPGldRpL~~~~~f~r~~ 98 (153)
T COG0779 24 ELVDVEFVKEGRDSVLRIYIDKE-----GGVTLDDCADVSRAISALLDVEDPIEGAYFLEVSSPGLDRPLKTAEHFARFI 98 (153)
T ss_pred EEEEEEEEEcCCCcEEEEEeCCC-----CCCCHHHHHHHHHHHHHHhccCCcccccEEEEeeCCCCCCCcCCHHHHHHhc
Confidence 56789999999999999998654 7888999999999999998844 2334556655
Q ss_pred ---------------eee-ee-eeecCceEEEEeCCEeEEEEeccccccccc
Q 006512 107 ---------------RNW-GE-VDLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (642)
Q Consensus 107 ---------------~nw-G~-~~~~~~~l~f~~~~k~~feip~~~is~~~~ 141 (642)
-+| |. +.+++..+++.+++|+ .+||+++|+.+++
T Consensus 99 G~~Vkv~l~~~~~~~k~~~G~i~~~d~~~v~~~~~~k~-v~Ip~~~i~kArl 149 (153)
T COG0779 99 GEKVKVKLRLPIEGRKKFEGKIVAVDGETVTLEVDGKE-VEIPFSDIAKARL 149 (153)
T ss_pred CcEEEEEEecccCCceEEEEEEEEEcCCeEEEEECCEE-EEEEcccchhhee
Confidence 223 22 2456777999999999 9999999999876
No 38
>PF04283 CheF-arch: Chemotaxis signal transduction system protein F from archaea; InterPro: IPR007381 This is an archaeal protein of unknown function.
Probab=85.96 E-value=16 Score=37.46 Aligned_cols=149 Identities=14% Similarity=0.191 Sum_probs=101.9
Q ss_pred CCCCCeeEEEecCceeEeeCCCCceEEeecCCcceeEE--------EEecCcceEEEEEeCCcEEEEcCCChhhHHHHHH
Q 006512 16 GGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTW--------MKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTN 87 (642)
Q Consensus 16 g~~~~G~~~~~~~g~~~k~~~~~~~~~~~~~~i~~~~w--------~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~ 87 (642)
+.+..|++-|+...|.+... +...+|+-+.|..+.- ..+.....+++...++..+-.-..... ..+..
T Consensus 23 ~~W~~~rIiLs~~rlvl~~~--~~k~~Ipls~I~Di~~~~~~~~~~~~~~~~~si~~~~~~~~~v~~i~~~~~--~~~e~ 98 (221)
T PF04283_consen 23 GKWVKGRIILSNDRLVLAFN--DGKITIPLSSIEDIGVRLPPNQLLAFFSDYVSIKYKSDEGERVILISPEDS--KTIEK 98 (221)
T ss_pred CCcEEEEEEEecCEEEEEcC--CCeEEEecceeEecccccCccccccccCceEEEEEecCCCcEEEEEEcCCc--ccHHH
Confidence 46788999999999999974 4566999999988776 233344444444443333333233332 56667
Q ss_pred HHHhhcCCCCcceee-----eeee--------eeeeeeeecCceEEEEeCCEeEEEEecccccccc-----ccCCceEEE
Q 006512 88 FFQSNFGISPEEKQL-----SVSG--------RNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQ-----LQGKNDVIL 149 (642)
Q Consensus 88 ~~~~~~~~~~~~~e~-----~~~G--------~nwG~~~~~~~~l~f~~~~k~~feip~~~is~~~-----~~~knev~~ 149 (642)
|....|+..|..+.+ +++| |==|.+.|....+.|...++..+.|++++|..+- +.||.--+|
T Consensus 99 F~~~lf~~lL~~~~v~v~hpAi~GGvV~~d~~Wekg~l~v~~~~i~~~~~~~~~~~I~l~~V~~ve~~~r~V~g~~r~VL 178 (221)
T PF04283_consen 99 FETKLFRALLNGKEVLVKHPAIVGGVVQQDAEWEKGKLKVTKKGIWFASSSGQFVSIDLDDVGDVEREERTVNGKERPVL 178 (221)
T ss_pred HHHHHHHHhhCCeEEEEECCceecceeccCCccccceEEEeccceEEEecCCceeEEEecccceeeeeeeecCCccceEE
Confidence 777777766666544 3333 5558999999999999999999999999998874 346677788
Q ss_pred EEecCCCCCCCCCCceeEEEEEecC
Q 006512 150 EFHVDDTTGANEKDSLMEISFHIPN 174 (642)
Q Consensus 150 ef~~~~~~~~~~~~~l~e~rf~iP~ 174 (642)
+..+-++ .+-|+=-+|+|+
T Consensus 179 ~I~H~~~------g~sVtSyi~~~~ 197 (221)
T PF04283_consen 179 EIEHVED------GESVTSYISIGP 197 (221)
T ss_pred EEEEecC------CcEEEEEEecCC
Confidence 8844222 445777777775
No 39
>PF08567 TFIIH_BTF_p62_N: TFIIH p62 subunit, N-terminal domain; InterPro: IPR013876 The N-terminal region of the TFIIH basal transcription factor complex p62 subunit (BTF2-p62) forms an interaction with the 3' endonuclease XPG, which is essential for activity. The 3' endonuclease XPG is a major component of the nucleotide excision repair machinery. The structure of the N-terminal region reveals that it adopts a pleckstrin homology (PH) fold [, ]. ; PDB: 1Y5O_A 2LOX_A 2GS0_A 2L2I_A 2K2U_A 1PFJ_A 2RNR_B.
Probab=85.84 E-value=1.8 Score=37.01 Aligned_cols=52 Identities=17% Similarity=0.262 Sum_probs=43.7
Q ss_pred CCCeeEEEecCc--eeEeeCCCCc--eEEeecCCcceeEEEEec-CcceEEEEEeCC
Q 006512 18 TNPGQLKIYSGK--ISWKKLGGGK--AVEVDKVDIAGVTWMKVP-RTNQLGVRTKDG 69 (642)
Q Consensus 18 ~~~G~~~~~~~g--~~~k~~~~~~--~~~~~~~~i~~~~w~r~~-~~~~l~i~~~~~ 69 (642)
+..|.|-|+++. +.|....++. +++|+-++|...+-+.-+ -..+|||.++++
T Consensus 11 K~~G~L~l~~d~~~~~W~~~~~~~~~~v~i~~~~I~~lq~Sp~~s~Kv~Lki~~~~~ 67 (79)
T PF08567_consen 11 KKDGTLTLTEDRKPLEWTPKASDGPSTVSIPLNDIKNLQQSPEGSPKVMLKIVLKDD 67 (79)
T ss_dssp TEEEEEEEETTCSSEEEEECCSSSSSEEEEETTTEEEEEE--TTSSTEEEEEEETTS
T ss_pred cCCcEEEEecCCceEEEeecCCCCCceEEEEHHHhhhhccCCCCCcceEEEEEEecC
Confidence 567999999999 9999965543 499999999999988886 899999999877
No 40
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=84.34 E-value=3.8 Score=49.86 Aligned_cols=15 Identities=7% Similarity=0.047 Sum_probs=7.1
Q ss_pred cCChhhhhhhHHHHH
Q 006512 598 KMSVEEREPYESKAR 612 (642)
Q Consensus 598 ~ls~eeK~~y~~~A~ 612 (642)
.|.+.-|.+....+.
T Consensus 457 sLa~~NK~Kl~~f~~ 471 (840)
T PF04147_consen 457 SLAEGNKEKLQVFFG 471 (840)
T ss_pred CCCcchHHHHHHHHH
Confidence 355555555444433
No 41
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=84.08 E-value=1.1 Score=54.04 Aligned_cols=15 Identities=13% Similarity=0.359 Sum_probs=7.9
Q ss_pred echhhhhhHHHHHhc
Q 006512 419 IQRNEYHNLFDFISG 433 (642)
Q Consensus 419 I~~~e~~~l~~fl~~ 433 (642)
|..+.++.|.+-|..
T Consensus 620 ~t~~~l~~ll~vl~~ 634 (784)
T PF04931_consen 620 LTESGLQLLLDVLDA 634 (784)
T ss_pred cCHHHHHHHHHHhcc
Confidence 444555555555543
No 42
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=80.59 E-value=1.9 Score=44.45 Aligned_cols=7 Identities=14% Similarity=0.207 Sum_probs=2.8
Q ss_pred HHHHHHh
Q 006512 323 VFTTILR 329 (642)
Q Consensus 323 v~~~~~k 329 (642)
+-.++|.
T Consensus 162 AsCQvLe 168 (314)
T PF06524_consen 162 ASCQVLE 168 (314)
T ss_pred hhhhhhh
Confidence 3334443
No 43
>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=78.94 E-value=6.8 Score=42.36 Aligned_cols=53 Identities=23% Similarity=0.378 Sum_probs=49.9
Q ss_pred eEEeecCCcceeEEEEec------CcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhh
Q 006512 40 AVEVDKVDIAGVTWMKVP------RTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSN 92 (642)
Q Consensus 40 ~~~~~~~~i~~~~w~r~~------~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~ 92 (642)
++.++-+||..+..+|++ |.|-|.+.+.+++.|+|.|....++..|.+||+.-
T Consensus 377 tl~l~~sdis~V~~SRig~ss~~arTFDlt~~lrs~~sytF~nisk~Eq~aLeqfl~sK 435 (508)
T COG5165 377 TLRLDLSDISLVEFSRIGLSSMQARTFDLTLFLRSPGSYTFNNISKDEQGALEQFLHSK 435 (508)
T ss_pred eEEeecccceEEEEeecccchhhhceeeEEEEEecCCceeecCcCHHHHHHHHHHHhcc
Confidence 788899999999999996 99999999999999999999999999999999865
No 44
>PRK14646 hypothetical protein; Provisional
Probab=76.78 E-value=22 Score=34.30 Aligned_cols=91 Identities=12% Similarity=0.024 Sum_probs=64.6
Q ss_pred CcceeEEEEecCcceEEEEEeC-CcEEEEcCCChhhHHHHHHHHHhhcCCC-C----cceeeeee---------------
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKD-GLYYKFTGFRDQDVATLTNFFQSNFGIS-P----EEKQLSVS--------------- 105 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~-~~~~~~~gf~~~d~~~l~~~~~~~~~~~-~----~~~e~~~~--------------- 105 (642)
++-.++|.+-++.+-|||++-. ++ .|..-+|-+.++..+...++.. + +.=|+|..
T Consensus 23 eLvdve~~~~~~~~~LrV~IDk~~g----~gVtldDC~~vSr~is~~LD~~D~i~~~Y~LEVSSPGldRpL~~~~df~r~ 98 (155)
T PRK14646 23 KICSLNIQTNQNPIVIKIIIKKTNG----DDISLDDCALFNTPASEEIENSNLLNCSYVLEISSQGVSDELTSERDFKTF 98 (155)
T ss_pred EEEEEEEEeCCCCeEEEEEEECCCC----CCccHHHHHHHHHHHHHHhCcCCCCCCCeEEEEcCCCCCCcCCCHHHHHHh
Confidence 4667889999999999999842 11 2578899999999999888753 1 11122222
Q ss_pred ----------eeeeeeee-------ecCceEEEEeCCEeEEEEecccccccccc
Q 006512 106 ----------GRNWGEVD-------LNGNMLTFMVGQKQAFEVSLADVSQTQLQ 142 (642)
Q Consensus 106 ----------G~nwG~~~-------~~~~~l~f~~~~k~~feip~~~is~~~~~ 142 (642)
.-..|.-. +++..+++.++|++ ++||+++|+.+++.
T Consensus 99 ~G~~v~V~l~~~~~~~~~~~G~L~~~~~~~v~l~~~g~~-~~i~~~~I~ka~L~ 151 (155)
T PRK14646 99 KGFPVNVELNQKNSKIKFLNGLLYEKSKDYLAINIKGKI-KKIPFNEVLKISLC 151 (155)
T ss_pred CCCEEEEEEecCcCCeEEEEEEEEEEeCCEEEEEECCEE-EEEEHHHeeeEEeC
Confidence 22233333 57788999998875 79999999998873
No 45
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=76.54 E-value=2.1 Score=51.03 Aligned_cols=36 Identities=14% Similarity=0.123 Sum_probs=17.8
Q ss_pred EEcCceeEEEEEEecCCCcceeeEEEEEEEcCCceEEEeeechh
Q 006512 379 ILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRN 422 (642)
Q Consensus 379 I~~~dI~~V~f~Rv~~~~~~~rtFDl~i~~K~~~~~~Fs~I~~~ 422 (642)
+.|++|..+..-| --|||.-..++..--.|.|..++
T Consensus 1348 ~dYs~iaTi~v~R--------~~~Dlct~~~D~~l~vIe~~~~~ 1383 (1516)
T KOG1832|consen 1348 IDYSDIATIPVDR--------CLLDLCTEPTDSFLGVIEMEDQE 1383 (1516)
T ss_pred cccccceeeeccc--------chhhhhcCCccceEEEEeccChh
Confidence 4556666666665 22566555555332233333333
No 46
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=70.26 E-value=4.3 Score=45.08 Aligned_cols=8 Identities=25% Similarity=0.181 Sum_probs=5.1
Q ss_pred HHHHHhcC
Q 006512 427 LFDFISGK 434 (642)
Q Consensus 427 l~~fl~~k 434 (642)
..+|++.-
T Consensus 12 ~ddWi~~~ 19 (458)
T PF10446_consen 12 EDDWIRQD 19 (458)
T ss_pred hhhhhhcc
Confidence 46787654
No 47
>PRK14630 hypothetical protein; Provisional
Probab=67.94 E-value=43 Score=31.88 Aligned_cols=89 Identities=15% Similarity=0.237 Sum_probs=61.4
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCCCc---ceeeeeeeee---------------
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPE---EKQLSVSGRN--------------- 108 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~~~~~---~~e~~~~G~n--------------- 108 (642)
+|-.++|.+-.++..|||++-.. +|..-+|-+.++..+.....-.+. .=|+|..|.+
T Consensus 24 eLvdve~~~~~~~~~lrV~Id~~-----~gV~idDC~~vSr~i~~~ld~~i~~~Y~LEVSSPGldRpL~~~~df~r~~G~ 98 (143)
T PRK14630 24 EIIEINTFRNRNEGKIQIVLYKK-----DSFGVDTLCDLHKMILLILEAVLKYNFSLEISTPGINRKIKSDREFKIFEGK 98 (143)
T ss_pred EEEEEEEEecCCCcEEEEEEECC-----CCCCHHHHHHHHHHHHHHhcccCCCCeEEEEeCCCCCCcCCCHHHHHHhCCC
Confidence 45678898888888899998532 578899999999988666543222 2345555543
Q ss_pred -----------eeee-eecCceEEEEeCCEeEEEEeccccccccc
Q 006512 109 -----------WGEV-DLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (642)
Q Consensus 109 -----------wG~~-~~~~~~l~f~~~~k~~feip~~~is~~~~ 141 (642)
-|.+ .++++.+.+.+++++ ++||+++|+.+++
T Consensus 99 ~v~V~l~~~~~~G~L~~~~d~~i~l~~~~~~-~~i~~~~I~ka~l 142 (143)
T PRK14630 99 KIKLMLDNDFEEGFILEAKADSFIFKTDSKE-VNVLYSDVKKAKL 142 (143)
T ss_pred EEEEEEcCcceEEEEEEEeCCEEEEEECCEE-EEEEhHhcceEEE
Confidence 2332 345677888887764 8899999988765
No 48
>PRK14637 hypothetical protein; Provisional
Probab=65.40 E-value=61 Score=31.17 Aligned_cols=89 Identities=11% Similarity=0.219 Sum_probs=62.5
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCCCc----ceeeeeee----------------
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPE----EKQLSVSG---------------- 106 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~~~~~----~~e~~~~G---------------- 106 (642)
+|-.++|.+-++++.|||++-.. +|..-+|-+.++..+....+..+. .=|+|..|
T Consensus 24 eLvdve~~~~~~~~~lrV~ID~~-----~gV~iddC~~vSr~Is~~LD~~~~~~~y~LEVSSPGldRpL~~~~~f~r~~G 98 (151)
T PRK14637 24 KLVDLSRRVQQAQGRVRAVIYSA-----GGVGLDDCARVHRILVPRLEALGGVRDVFLEVSSPGIERVIKNAAEFSIFVG 98 (151)
T ss_pred EEEEEEEEecCCCcEEEEEEECC-----CCCCHHHHHHHHHHHHHHhcccccccCcEEEEeCCCCCCCCCCHHHHHHhCC
Confidence 56778999999999999998422 578889999999988777653221 11222211
Q ss_pred ----------eee--eee-eecCceEEEEeCCEeEEEEeccccccccc
Q 006512 107 ----------RNW--GEV-DLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (642)
Q Consensus 107 ----------~nw--G~~-~~~~~~l~f~~~~k~~feip~~~is~~~~ 141 (642)
-+| |.+ .++++.+.+.+++++ .+||+++|..+++
T Consensus 99 ~~V~V~l~~~~~~~~G~L~~~~d~~v~l~~~~~~-~~i~~~~I~ka~L 145 (151)
T PRK14637 99 ETVKVWFECTGQWQVGTIAEADETCLVLTSDGVP-VTIPYVQITKAQL 145 (151)
T ss_pred CEEEEEECCCCcEEEEEEEEEeCCEEEEEECCEE-EEEEHHHeeeEEE
Confidence 233 554 357778888887765 8899999998876
No 49
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=65.31 E-value=2.8 Score=38.85 Aligned_cols=45 Identities=22% Similarity=0.524 Sum_probs=39.4
Q ss_pred CC-CCCcceeEeeehHHHHHHHHhCCCCCchhhhHHHHHHhhcCCh
Q 006512 557 AP-KRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSV 601 (642)
Q Consensus 557 ~P-KRP~sAy~lF~~e~R~~ik~~~P~~~~~eisk~lge~Wk~ls~ 601 (642)
+| ||-.-||.-|...+-+.|++++|++....+-..|-++|..-|+
T Consensus 71 HPErR~KAAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPe 116 (122)
T PF06244_consen 71 HPERRMKAAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPE 116 (122)
T ss_pred CcchhHHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCC
Confidence 44 4555789999999999999999999999999999999987664
No 50
>TIGR03481 HpnM hopanoid biosynthesis associated membrane protein HpnM. The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins are members of the pfam05494 family of putative transporters known as "toluene tolerance protein Ttg2D", although it is unlikely that the members included here have anything to do with toluene per-se.
Probab=64.82 E-value=8.4 Score=38.64 Aligned_cols=48 Identities=21% Similarity=0.473 Sum_probs=41.3
Q ss_pred CCCCchhhhH-HHHHHhhcCChhhhhhhHHHHHH-HHHHHHHHhcccCCC
Q 006512 581 PGIAFTDVGR-VLGERWKKMSVEEREPYESKARA-DKKRYKDEISGYKNP 628 (642)
Q Consensus 581 P~~~~~eisk-~lge~Wk~ls~eeK~~y~~~A~~-~k~~y~~e~~~yk~~ 628 (642)
|.+.+..+++ .||..|+.+|+++|+.|.+.... ....|-..+..|...
T Consensus 62 ~~~Df~~mar~vLG~~W~~~s~~Qr~~F~~~F~~~l~~tY~~~l~~y~~~ 111 (198)
T TIGR03481 62 EAFDLPAMARLTLGSSWTSLSPEQRRRFIGAFRELSIATYASQFKSYAGE 111 (198)
T ss_pred HhCCHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhcCc
Confidence 4567788877 78999999999999999998888 788899999988763
No 51
>PF08567 TFIIH_BTF_p62_N: TFIIH p62 subunit, N-terminal domain; InterPro: IPR013876 The N-terminal region of the TFIIH basal transcription factor complex p62 subunit (BTF2-p62) forms an interaction with the 3' endonuclease XPG, which is essential for activity. The 3' endonuclease XPG is a major component of the nucleotide excision repair machinery. The structure of the N-terminal region reveals that it adopts a pleckstrin homology (PH) fold [, ]. ; PDB: 1Y5O_A 2LOX_A 2GS0_A 2L2I_A 2K2U_A 1PFJ_A 2RNR_B.
Probab=62.19 E-value=41 Score=28.74 Aligned_cols=55 Identities=27% Similarity=0.329 Sum_probs=42.3
Q ss_pred EEeecCceeEEEecCcc--eeeccC----CC-eEEEcCceeEEEEEEecCCCcceeeEEEEEEEcCC
Q 006512 352 KSSLKAEDGVLYPLEKS--FFFLPK----PP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTE 411 (642)
Q Consensus 352 ~c~~ka~~G~LypL~~~--llf~~K----Pp-~~I~~~dI~~V~f~Rv~~~~~~~rtFDl~i~~K~~ 411 (642)
.|.||..+|.||..++. +.|..+ |. +-|+|++|...--+-.+. ----|.|+.+++
T Consensus 6 ~~~yKK~~G~L~l~~d~~~~~W~~~~~~~~~~v~i~~~~I~~lq~Sp~~s-----~Kv~Lki~~~~~ 67 (79)
T PF08567_consen 6 AASYKKKDGTLTLTEDRKPLEWTPKASDGPSTVSIPLNDIKNLQQSPEGS-----PKVMLKIVLKDD 67 (79)
T ss_dssp EEEETTEEEEEEEETTCSSEEEEECCSSSSSEEEEETTTEEEEEE--TTS-----STEEEEEEETTS
T ss_pred eEEEEcCCcEEEEecCCceEEEeecCCCCCceEEEEHHHhhhhccCCCCC-----cceEEEEEEecC
Confidence 58999999999999999 999775 44 779999999976665432 235677888876
No 52
>PF02893 GRAM: GRAM domain; InterPro: IPR004182 The GRAM domain is found in glucosyltransferases, myotubularins and other putative membrane-associated proteins. It is normally about 70 amino acids in length. It is thought to be an intracellular protein-binding or lipid-binding signalling domain, which has an important function in membrane-associated processes. Mutations in the GRAM domain of myotubularins cause a muscle disease, which suggests that the domain is essential for the full function of the enzyme []. Myotubularin-related proteins are a large subfamily of protein tyrosine phosphatases (PTPs) that dephosphorylate D3-phosphorylated inositol lipids [].; PDB: 1M7R_B 1LW3_A 1ZVR_A 1ZSQ_A.
Probab=61.67 E-value=12 Score=30.39 Aligned_cols=38 Identities=24% Similarity=0.300 Sum_probs=30.0
Q ss_pred EEEeecC----ceeEEEecCcceeecc-C---C--CeEEEcCceeEEE
Q 006512 351 VKSSLKA----EDGVLYPLEKSFFFLP-K---P--PTLILHEEIDYVE 388 (642)
Q Consensus 351 v~c~~ka----~~G~LypL~~~llf~~-K---P--p~~I~~~dI~~V~ 388 (642)
..|.+.. ..|.||-+++-|.|.. . + -+.||+.+|..|+
T Consensus 19 ~~c~l~~~~~~~~G~LyiT~~~lcF~s~~~~~~~~~~~ipl~~I~~i~ 66 (69)
T PF02893_consen 19 YSCALFKSKIPVQGRLYITNNYLCFYSNKFGSKTCKFVIPLSDIKSIE 66 (69)
T ss_dssp EEETTTEE---EEEEEEEESSEEEEEESSSSS-E-EEEEEGGGEEEEE
T ss_pred EEEEEECCccceeeEEEECCCEEEEEECCCCCceEEEEEEhHheeEEE
Confidence 5566666 7999999999999965 2 2 2669999999886
No 53
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=59.68 E-value=12 Score=38.81 Aligned_cols=14 Identities=21% Similarity=0.185 Sum_probs=8.4
Q ss_pred EEcCceeEEEEEEe
Q 006512 379 ILHEEIDYVEFERH 392 (642)
Q Consensus 379 I~~~dI~~V~f~Rv 392 (642)
-||.+-..|+-+|.
T Consensus 121 Cpl~da~C~EC~R~ 134 (314)
T PF06524_consen 121 CPLQDAVCIECERG 134 (314)
T ss_pred CcCCCcEeeeeecc
Confidence 35566666666664
No 54
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=59.27 E-value=16 Score=28.96 Aligned_cols=38 Identities=21% Similarity=0.240 Sum_probs=29.9
Q ss_pred EEEeec---CceeEEEecCcceeecc-C--C---CeEEEcCceeEEE
Q 006512 351 VKSSLK---AEDGVLYPLEKSFFFLP-K--P---PTLILHEEIDYVE 388 (642)
Q Consensus 351 v~c~~k---a~~G~LypL~~~llf~~-K--P---p~~I~~~dI~~V~ 388 (642)
..|.+. ...|.||.+++.|.|.. . . .+.|++.+|.+|+
T Consensus 12 ~~C~l~~~~~~~G~lyiT~~~l~F~S~~~~~~~~~~~ipl~~I~~i~ 58 (61)
T smart00568 12 YSCYLSRDGPVQGRLYISNYRLCFRSDLPGKLTPKVVIPLADITRIE 58 (61)
T ss_pred EEeEECCCccccEEEEEECCEEEEEccCCCCeeEEEEEEHHHeeEEE
Confidence 567775 67999999999999955 2 2 3568999999885
No 55
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=58.91 E-value=13 Score=37.59 Aligned_cols=49 Identities=27% Similarity=0.412 Sum_probs=41.5
Q ss_pred CCCCCchhhhH-HHHHHhhcCChhhhhhhHHHHHH-HHHHHHHHhcccCCC
Q 006512 580 NPGIAFTDVGR-VLGERWKKMSVEEREPYESKARA-DKKRYKDEISGYKNP 628 (642)
Q Consensus 580 ~P~~~~~eisk-~lge~Wk~ls~eeK~~y~~~A~~-~k~~y~~e~~~yk~~ 628 (642)
.|.+.+..+++ .||..|+.+|+++|+.|.+.-.. ...-|-..+..|...
T Consensus 65 ~p~~Df~~~s~~vLG~~wr~as~eQr~~F~~~F~~~Lv~tYa~~l~~y~~q 115 (211)
T PRK15117 65 LPYVQVKYAGALVLGRYYKDATPAQREAYFAAFREYLKQAYGQALAMYHGQ 115 (211)
T ss_pred cccCCHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 47788888877 78999999999999999987766 567888999999764
No 56
>KOG2897 consensus DNA-binding protein YL1 and related proteins [General function prediction only]
Probab=57.58 E-value=7.1 Score=42.47 Aligned_cols=14 Identities=0% Similarity=-0.374 Sum_probs=9.6
Q ss_pred CchhhhHHHHHHhh
Q 006512 584 AFTDVGRVLGERWK 597 (642)
Q Consensus 584 ~~~eisk~lge~Wk 597 (642)
...+......+.|.
T Consensus 188 TQeE~l~eAk~TE~ 201 (390)
T KOG2897|consen 188 TQEERLLEAKKTEA 201 (390)
T ss_pred cHHHHHHHHHHHHH
Confidence 56677777777773
No 57
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=57.23 E-value=10 Score=43.08 Aligned_cols=20 Identities=20% Similarity=0.396 Sum_probs=11.4
Q ss_pred cceeEeeehHH--HHHHHHhCC
Q 006512 562 MSGFIFFSQME--RENIKKSNP 581 (642)
Q Consensus 562 ~sAy~lF~~e~--R~~ik~~~P 581 (642)
-+||+-|.... ..-|....|
T Consensus 335 GtAFv~Fkt~~~~~~ci~~Asp 356 (678)
T KOG0127|consen 335 GTAFVKFKTQIAAQNCIEAASP 356 (678)
T ss_pred cceEEEeccHHHHHHHHHhcCc
Confidence 48898887433 333444434
No 58
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=56.85 E-value=10 Score=46.25 Aligned_cols=10 Identities=20% Similarity=0.209 Sum_probs=4.4
Q ss_pred chhhhhhHHH
Q 006512 420 QRNEYHNLFD 429 (642)
Q Consensus 420 ~~~e~~~l~~ 429 (642)
-++|-+.|..
T Consensus 277 a~ee~erLek 286 (840)
T PF04147_consen 277 AKEEKERLEK 286 (840)
T ss_pred HHHHHHHHHH
Confidence 3444444433
No 59
>PF07622 DUF1583: Protein of unknown function (DUF1583); InterPro: IPR011475 Most of the Rhodopirellula baltica hypothetical proteins that have this domain also match PF07619 from PFAM.
Probab=55.02 E-value=1.1e+02 Score=33.91 Aligned_cols=75 Identities=13% Similarity=0.116 Sum_probs=52.3
Q ss_pred ceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCCCcceeeeeeeeeeeeeeecCceEEEEeCCEeE
Q 006512 49 AGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQA 128 (642)
Q Consensus 49 ~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~~~~~~~e~~~~G~nwG~~~~~~~~l~f~~~~k~~ 128 (642)
...+|.+.+ .|+-..+..++.+..++ +.-..-...+-..+||-.++.+.|+.+.+..|++++
T Consensus 52 v~~hw~tdg-~~~~t~l~pdn~~~~~~-----------------~~~~~~~~~l~~~~wN~v~l~~~g~~v~l~LN~~~i 113 (399)
T PF07622_consen 52 VSEHWITDG-CHDRTELRPDNRERRSD-----------------AQRHSPTLPLKVNAWNRVRLQRRGDKVQLHLNGQLI 113 (399)
T ss_pred ceeeEeecc-cccccccCCCccccccc-----------------cccCCCCCCCCccccceEEEEEeCCEEEEEeCCcee
Confidence 345677665 45544444444443332 122334456778999999999999999999999999
Q ss_pred EEEeccccccccc
Q 006512 129 FEVSLADVSQTQL 141 (642)
Q Consensus 129 feip~~~is~~~~ 141 (642)
++-|+..=+.-+.
T Consensus 114 ~~~~~~~~~~~~f 126 (399)
T PF07622_consen 114 YERPLEPGSSRQF 126 (399)
T ss_pred EecccCCCCCCcc
Confidence 9999988665443
No 60
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=54.60 E-value=8 Score=45.53 Aligned_cols=19 Identities=16% Similarity=0.120 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHhcccCCC
Q 006512 610 KARADKKRYKDEISGYKNP 628 (642)
Q Consensus 610 ~A~~~k~~y~~e~~~yk~~ 628 (642)
.+......++.+.......
T Consensus 258 ~Y~~~~~~L~~eV~rl~~~ 276 (622)
T PF02724_consen 258 RYDRYVPLLQDEVSRLNPS 276 (622)
T ss_pred hHHHHHHHHHHHHHhcCCc
Confidence 3333334444444444333
No 61
>KOG3241 consensus Uncharacterized conserved protein [Function unknown]
Probab=54.25 E-value=10 Score=37.24 Aligned_cols=24 Identities=25% Similarity=0.397 Sum_probs=10.6
Q ss_pred CCccCcccccCCCCCCCCCCCCCC
Q 006512 478 SDEEDSDFVADKDDGGSPTDDSGE 501 (642)
Q Consensus 478 deeeDedf~~~~sd~~ee~ds~~e 501 (642)
|+++|+||..++++++.++|++.+
T Consensus 190 de~~DDd~d~d~D~eD~~gD~e~~ 213 (227)
T KOG3241|consen 190 DEAHDDDSDPDSDEEDNVGDDEHD 213 (227)
T ss_pred ccccccccCCccccccccCccccc
Confidence 333444554444444444554433
No 62
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=54.20 E-value=8 Score=45.50 Aligned_cols=14 Identities=14% Similarity=0.389 Sum_probs=5.8
Q ss_pred HHhhcCChhhhhhh
Q 006512 594 ERWKKMSVEEREPY 607 (642)
Q Consensus 594 e~Wk~ls~eeK~~y 607 (642)
+.|..|+.+-|...
T Consensus 355 Q~y~~Md~~~K~~L 368 (622)
T PF02724_consen 355 QKYSYMDMELKREL 368 (622)
T ss_pred CCchhCCHHHHHHH
Confidence 33444444444333
No 63
>PF05285 SDA1: SDA1; InterPro: IPR007949 This domain consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus [].
Probab=53.13 E-value=8.4 Score=41.61 Aligned_cols=18 Identities=17% Similarity=0.143 Sum_probs=9.7
Q ss_pred EEeeechhhhhhHHHHHhcC
Q 006512 415 LFRNIQRNEYHNLFDFISGK 434 (642)
Q Consensus 415 ~Fs~I~~~e~~~l~~fl~~k 434 (642)
.-+.||-.| .|..|....
T Consensus 64 ~~~~i~G~e--lL~~~~~~~ 81 (324)
T PF05285_consen 64 VADGIPGAE--LLEEWKEEE 81 (324)
T ss_pred cccCCChHH--HHHHHhhcc
Confidence 345566444 466665443
No 64
>PRK14634 hypothetical protein; Provisional
Probab=52.92 E-value=1.1e+02 Score=29.57 Aligned_cols=91 Identities=14% Similarity=0.157 Sum_probs=62.8
Q ss_pred CcceeEEEEecCcceEEEEEeC-CcEEEEcCCChhhHHHHHHHHHhhcCCC-C----cceeeeeeee-------------
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKD-GLYYKFTGFRDQDVATLTNFFQSNFGIS-P----EEKQLSVSGR------------- 107 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~-~~~~~~~gf~~~d~~~l~~~~~~~~~~~-~----~~~e~~~~G~------------- 107 (642)
++-.++|.+-+++..|||++-. ++ +|..-+|-+.++..+...++.. + +.=|+|..|-
T Consensus 23 elvdve~~~~~~~~~lrV~ID~~~g----~~v~lddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGldRpL~~~~~f~r~ 98 (155)
T PRK14634 23 ELCGIQVLTHLQPMTLQVQIRRSSG----SDVSLDDCAGFSGPMGEALEASQLLTEAYVLEISSPGIGDQLSSDRDFQTF 98 (155)
T ss_pred EEEEEEEEeCCCCcEEEEEEECCCC----CcccHHHHHHHHHHHHHHhcccccCCCCeEEEEeCCCCCCcCCCHHHHHHh
Confidence 4667889998999999999842 21 1378899999999998888753 1 2223333331
Q ss_pred -----------------e-eeee-eecCceEEEEeCCEeEEEEecccccccccc
Q 006512 108 -----------------N-WGEV-DLNGNMLTFMVGQKQAFEVSLADVSQTQLQ 142 (642)
Q Consensus 108 -----------------n-wG~~-~~~~~~l~f~~~~k~~feip~~~is~~~~~ 142 (642)
+ =|.+ .+++..+.+.++++. ++||+++|+.+++.
T Consensus 99 ~G~~V~V~l~~~~~~~k~~~G~L~~~~~~~v~l~~~~~~-~~i~~~~I~ka~l~ 151 (155)
T PRK14634 99 RGFPVEVSHRDDDGSEQRLEGLLLERNEDHLQINIRGRI-KRIPRDSVISVRLT 151 (155)
T ss_pred CCCeEEEEEecCCCCeEEEEEEEEEEeCCEEEEEECCEE-EEEEHHHeeeEEeC
Confidence 1 1322 246677888887765 89999999998773
No 65
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=50.99 E-value=69 Score=28.26 Aligned_cols=68 Identities=19% Similarity=0.256 Sum_probs=48.6
Q ss_pred cCceeEEEecCcceeeccC-------------------CC-eEEEcCceeEEEEEEecCCCcceeeEEEEEEEcCCceEE
Q 006512 356 KAEDGVLYPLEKSFFFLPK-------------------PP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHL 415 (642)
Q Consensus 356 ka~~G~LypL~~~llf~~K-------------------Pp-~~I~~~dI~~V~f~Rv~~~~~~~rtFDl~i~~K~~~~~~ 415 (642)
....|.|.-+++.+.|... |. ..+++++|..|+.-|--. |.=-|.|.+.+|..+-
T Consensus 15 ~~~~G~l~i~~~~i~F~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~I~~v~~RRyll-----r~~AlEiF~~dg~s~f 89 (106)
T PF14844_consen 15 DSIPGTLIITKSSIYFIPNDNSSENKISSENPSISISKPKSKRWPLSDIKEVHKRRYLL-----RDTALEIFFSDGRSYF 89 (106)
T ss_dssp EEEEEEEEE-SSEEEEEE--TTSHHHHCS-HHHHCC---TCEEEEGGGEEEEEEEEETT-----EEEEEEEEETTS-EEE
T ss_pred eeEEEEEEEeCCEEEEEECCcccccccccccccccccCCceEEEEHHHhHHHHHHHhcC-----cceEEEEEEcCCcEEE
Confidence 4567888888888877532 33 559999999999999653 7888999999998877
Q ss_pred EeeechhhhhhHH
Q 006512 416 FRNIQRNEYHNLF 428 (642)
Q Consensus 416 Fs~I~~~e~~~l~ 428 (642)
|+==++.+.+.+.
T Consensus 90 ~~F~~~~~R~~v~ 102 (106)
T PF14844_consen 90 FNFESKKERDEVY 102 (106)
T ss_dssp EE-SSHHHHHHHH
T ss_pred EEcCCHHHHHHHH
Confidence 7655666655543
No 66
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=50.07 E-value=48 Score=29.28 Aligned_cols=59 Identities=25% Similarity=0.224 Sum_probs=45.5
Q ss_pred CCCeeEEEecCceeEeeC-----------------CCCceEEeecCCcceeEEEEec-CcceEEEEEeCCcEEEEcCC
Q 006512 18 TNPGQLKIYSGKISWKKL-----------------GGGKAVEVDKVDIAGVTWMKVP-RTNQLGVRTKDGLYYKFTGF 77 (642)
Q Consensus 18 ~~~G~~~~~~~g~~~k~~-----------------~~~~~~~~~~~~i~~~~w~r~~-~~~~l~i~~~~~~~~~~~gf 77 (642)
..+|.|.|+.+.|-|-.. ...+...++-++|..+.|.|.- |.-.|-|++.+|.-+- -.|
T Consensus 16 ~~~G~l~i~~~~i~F~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~I~~v~~RRyllr~~AlEiF~~dg~s~f-~~F 92 (106)
T PF14844_consen 16 SIPGTLIITKSSIYFIPNDNSSENKISSENPSISISKPKSKRWPLSDIKEVHKRRYLLRDTALEIFFSDGRSYF-FNF 92 (106)
T ss_dssp EEEEEEEE-SSEEEEEE--TTSHHHHCS-HHHHCC---TCEEEEGGGEEEEEEEEETTEEEEEEEEETTS-EEE-EE-
T ss_pred eEEEEEEEeCCEEEEEECCcccccccccccccccccCCceEEEEHHHhHHHHHHHhcCcceEEEEEEcCCcEEE-EEc
Confidence 368999999999999754 2357899999999999999997 9999999999997544 445
No 67
>PHA02664 hypothetical protein; Provisional
Probab=50.02 E-value=16 Score=39.02 Aligned_cols=25 Identities=16% Similarity=0.343 Sum_probs=18.7
Q ss_pred hhHHHHHHHHHhhcCCCCcceeeee
Q 006512 80 QDVATLTNFFQSNFGISPEEKQLSV 104 (642)
Q Consensus 80 ~d~~~l~~~~~~~~~~~~~~~e~~~ 104 (642)
.|++-|..-+.-.||++--++.+-.
T Consensus 60 adveglmteihlrygmtrvhrnvhf 84 (534)
T PHA02664 60 ADVEGLMTEIHLRYGMTRVHRNVHF 84 (534)
T ss_pred chhhhhHhHHHhhhhhhhhhhccce
Confidence 5788888888888888766655443
No 68
>PRK14640 hypothetical protein; Provisional
Probab=48.78 E-value=1.6e+02 Score=28.34 Aligned_cols=89 Identities=13% Similarity=0.304 Sum_probs=63.1
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCC-----Ccceeeeeeeeee------------
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGIS-----PEEKQLSVSGRNW------------ 109 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~~~-----~~~~e~~~~G~nw------------ 109 (642)
++-.+.|.+.+++..|||++-.. +|..-+|-+.++..+...++.. -+.=|+|..|-..
T Consensus 22 el~dve~~~~~~~~~lrV~ID~~-----~gv~lddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGl~RpL~~~~~f~r~~ 96 (152)
T PRK14640 22 ELWGIEFIRAGKHSTLRVYIDGE-----NGVSVENCAEVSHQVGAIMDVEDPITEEYYLEVSSPGLDRPLFKVAQFEKYV 96 (152)
T ss_pred EEEEEEEEecCCCcEEEEEEECC-----CCCCHHHHHHHHHHHHHHhcccccCCCCeEEEEeCCCCCCcCCCHHHHHHhC
Confidence 46678899999999999998422 4678999999999998888753 2233444444211
Q ss_pred -------------eee-------eecCceEEEEeCCEeEEEEeccccccccc
Q 006512 110 -------------GEV-------DLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (642)
Q Consensus 110 -------------G~~-------~~~~~~l~f~~~~k~~feip~~~is~~~~ 141 (642)
|.- .+++..+.+.+++++ ++||+++|+.+++
T Consensus 97 G~~v~V~l~~~~~~~k~~~G~L~~v~~~~v~l~~~~~~-~~i~~~~I~ka~l 147 (152)
T PRK14640 97 GQEAAVTLRMATNNRRKFKGVIKAVQGDMITLTVDGKD-EVLAFTNIQKANI 147 (152)
T ss_pred CCeEEEEEecccCCceEEEEEEEEEeCCEEEEEECCeE-EEEEhHHeeeEEE
Confidence 112 345567888888876 7899999998876
No 69
>PRK14638 hypothetical protein; Provisional
Probab=46.89 E-value=1.5e+02 Score=28.46 Aligned_cols=89 Identities=16% Similarity=0.289 Sum_probs=60.3
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcC-CChhhHHHHHHHHHhhcCCC-----Ccceeeeeeeee------------
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTG-FRDQDVATLTNFFQSNFGIS-----PEEKQLSVSGRN------------ 108 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~~~~~~~~g-f~~~d~~~l~~~~~~~~~~~-----~~~~e~~~~G~n------------ 108 (642)
++-.+.|.+-+++..|||++-.. +| ..-+|-+.++..+...++.. -+.=|+|..|-.
T Consensus 24 elvdve~~~~~~~~~lrV~ID~~-----~G~v~lddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGldRpL~~~~~f~r~ 98 (150)
T PRK14638 24 EIFDVQYRRESRGWVLRIIIDNP-----VGYVSVRDCELFSREIERFLDREDLIEHSYTLEVSSPGLDRPLRGPKDYVRF 98 (150)
T ss_pred EEEEEEEEecCCCcEEEEEEECC-----CCCcCHHHHHHHHHHHHHHhccccccCCceEEEEeCCCCCCCCCCHHHHHHh
Confidence 46678899999999999998532 35 88899999999999888743 112344444421
Q ss_pred --------------e-eee-eecCceEEEEeCCEeEEEEeccccccccc
Q 006512 109 --------------W-GEV-DLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (642)
Q Consensus 109 --------------w-G~~-~~~~~~l~f~~~~k~~feip~~~is~~~~ 141 (642)
| |.+ .+++..+.+.++++ .++||+++|..+++
T Consensus 99 ~G~~v~V~~~~~k~~~G~L~~~~~~~i~l~~~~~-~~~i~~~~I~~a~l 146 (150)
T PRK14638 99 TGKLAKIVTKDGKTFIGRIESFVDGTITISDEKE-KYEINIDDVKRANL 146 (150)
T ss_pred CCCEEEEEECCCcEEEEEEEEEeCCEEEEEECCc-EEEEEhHHcceEEE
Confidence 1 221 23455666766544 48889999988776
No 70
>PF14317 YcxB: YcxB-like protein
Probab=46.57 E-value=36 Score=26.24 Aligned_cols=62 Identities=10% Similarity=0.097 Sum_probs=41.9
Q ss_pred EecCceeEeeCCCCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHH
Q 006512 25 IYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQ 90 (642)
Q Consensus 25 ~~~~g~~~k~~~~~~~~~~~~~~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~ 90 (642)
++++||.+++. +....+++++|.. |....+.+-|-+.-...-++-=..|..++++.+.++++
T Consensus 1 f~~~gi~~~~~--~~~~~~~w~~i~~--v~e~~~~~~l~~~~~~~~~iPk~~f~~~e~~~f~~~lk 62 (62)
T PF14317_consen 1 FDEDGIIIESG--NGSSRIPWSDIKK--VVETKDYFYLYLGKNQAFIIPKRAFSEEEKEEFREFLK 62 (62)
T ss_pred CCCCEEEEEEC--CeEEEEEchheEE--EEEeCCEEEEEECCCeEEEEEHHHCCHhHHHHHHHHhC
Confidence 35788888874 5678889999977 45555555443322222455556899999999998874
No 71
>PF13619 KTSC: KTSC domain
Probab=44.63 E-value=53 Score=26.29 Aligned_cols=42 Identities=26% Similarity=0.373 Sum_probs=32.5
Q ss_pred ecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHH
Q 006512 44 DKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTN 87 (642)
Q Consensus 44 ~~~~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~ 87 (642)
+.+-|.++.+-. ..-.|.|..++|.+|+|.|.+...++.|..
T Consensus 2 ~Ss~I~~v~Yd~--~~~~L~V~F~~G~~Y~Y~~Vp~~~~~~l~~ 43 (60)
T PF13619_consen 2 SSSNIRSVGYDP--ETRTLEVEFKSGSVYRYFGVPPEVYEALLN 43 (60)
T ss_pred ccCcccEEeECC--CCCEEEEEEcCCCEEEECCCCHHHHHHHHc
Confidence 455666666643 345788888999999999999999998864
No 72
>TIGR03503 conserved hypothetical protein TIGR03503. This set of conserved hypothetical protein has a phylogenetic range that closely matches that of TIGR03501, a putative C-terminal protein targeting signal.
Probab=44.27 E-value=2.3e+02 Score=31.46 Aligned_cols=88 Identities=13% Similarity=0.113 Sum_probs=55.9
Q ss_pred cccCCcceEEEEcCeeeecCCcceEEEEec-CcEEEEcccceeEeecCceeEEEecccCCCCeEEEEEecCCc-ccCCCc
Q 006512 201 VGAGGEEAVVTFEGIAILTPRGRYSVELHL-SFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPP-IRKGQT 278 (642)
Q Consensus 201 ~~~~~g~~i~~~~~i~~~~PRGry~i~~~~-~~lrl~gkt~d~~I~y~nI~r~F~lP~~d~~~~~~vi~L~~P-i~qGqt 278 (642)
.....||.|++ ..+.+..|=|+|.+.+.. |.+..|-.++.+.|.-.=|.--|.+|......+.++|..++. |..|.+
T Consensus 164 ~DE~p~DGvFT-~~l~l~~~~G~Y~~~v~~~n~vF~R~~~q~v~V~p~Pi~~~~~~~~~~~~~h~l~v~~d~~~i~~~s~ 242 (374)
T TIGR03503 164 LDERPGDGIFT-GEFNLDVAPGEYRPTYQSRNPVFLREVEQPVLVYPLPVSYTVIQSEDESGAHQLMVDADAGHIDPGSL 242 (374)
T ss_pred CCCCCCCceEE-EEeeccCCCceEEEEEEEcCceEEEEEEEeEEEECCCeeEEEEccCCCCCceEEEEEcccceeccccE
Confidence 44556777764 456888899999999887 555556555666666677778888886444445666666654 444444
Q ss_pred ccceEEEEEEcc
Q 006512 279 LYPHIVLQFETD 290 (642)
Q Consensus 279 ky~~lv~~f~~~ 290 (642)
.-+ +-+.++.+
T Consensus 243 ~~~-~~~~~P~g 253 (374)
T TIGR03503 243 VIH-GELVFPNG 253 (374)
T ss_pred EEE-EEEECCCC
Confidence 322 33344443
No 73
>PRK14631 hypothetical protein; Provisional
Probab=44.19 E-value=1.3e+02 Score=29.65 Aligned_cols=95 Identities=13% Similarity=0.250 Sum_probs=63.7
Q ss_pred CcceeEEEEecCcceEEEEEeC-------------CcEEEEcCCChhhHHHHHHHHHhhcCCC-----Ccceeeeeeeee
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKD-------------GLYYKFTGFRDQDVATLTNFFQSNFGIS-----PEEKQLSVSGRN 108 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~-------------~~~~~~~gf~~~d~~~l~~~~~~~~~~~-----~~~~e~~~~G~n 108 (642)
++-.+.|.+-++...|||++-. |..-.-.|..-+|-+.++..+...++.. -+.=|+|..|+.
T Consensus 24 eLvdve~~~~~~~~~LrV~ID~~~~~~~~~~~~~~~~~~~~~gvtiddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGld 103 (174)
T PRK14631 24 DLWGIEFLPQGKRSLLRIYIDRLVEENAEPVINEDGEVEQGRGIGVEDCVRVTQQVGAMLDVHDPISGEYALEVSSPGWD 103 (174)
T ss_pred EEEEEEEEeCCCceEEEEEEecCcccccccccccccccccCCCcCHHHHHHHHHHHHHHhcccccCCCCeEEEEeCCCCC
Confidence 4567788888888899999852 1111345899999999999999998854 123345554442
Q ss_pred e-------------------------------eee-eec--CceEEEEeCCEeEEEEeccccccccc
Q 006512 109 W-------------------------------GEV-DLN--GNMLTFMVGQKQAFEVSLADVSQTQL 141 (642)
Q Consensus 109 w-------------------------------G~~-~~~--~~~l~f~~~~k~~feip~~~is~~~~ 141 (642)
- |.+ .++ ++.+.+.+.++..++||+++|..+++
T Consensus 104 RpL~~~~df~r~~G~~V~V~l~~~~~~~k~~~G~L~~v~~~~~~v~l~~~~~~~~~i~~~~I~ka~L 170 (174)
T PRK14631 104 RPFFQLEQLQGYIGQQVALRLIAAVENRRKFQAKLLAVDLENEEIQVEVEGKHVLDIDSNNIDKANL 170 (174)
T ss_pred CcCCCHHHHHHhCCCeEEEEEecccCCceEEEEEEEEeecCCCEEEEEEcCCcEEEEEhHHcceEEE
Confidence 1 222 223 66777777655567888888888776
No 74
>PF02893 GRAM: GRAM domain; InterPro: IPR004182 The GRAM domain is found in glucosyltransferases, myotubularins and other putative membrane-associated proteins. It is normally about 70 amino acids in length. It is thought to be an intracellular protein-binding or lipid-binding signalling domain, which has an important function in membrane-associated processes. Mutations in the GRAM domain of myotubularins cause a muscle disease, which suggests that the domain is essential for the full function of the enzyme []. Myotubularin-related proteins are a large subfamily of protein tyrosine phosphatases (PTPs) that dephosphorylate D3-phosphorylated inositol lipids [].; PDB: 1M7R_B 1LW3_A 1ZVR_A 1ZSQ_A.
Probab=44.02 E-value=38 Score=27.46 Aligned_cols=36 Identities=19% Similarity=0.282 Sum_probs=27.7
Q ss_pred eeeeeeeeeecCceEEEEe--CCEe--EEEEecccccccc
Q 006512 105 SGRNWGEVDLNGNMLTFMV--GQKQ--AFEVSLADVSQTQ 140 (642)
Q Consensus 105 ~G~nwG~~~~~~~~l~f~~--~~k~--~feip~~~is~~~ 140 (642)
++..+|++-+..+-|.|.. .+.. .+.||+.+|..+.
T Consensus 27 ~~~~~G~LyiT~~~lcF~s~~~~~~~~~~~ipl~~I~~i~ 66 (69)
T PF02893_consen 27 KIPVQGRLYITNNYLCFYSNKFGSKTCKFVIPLSDIKSIE 66 (69)
T ss_dssp ---EEEEEEEESSEEEEEESSSSS-E-EEEEEGGGEEEEE
T ss_pred ccceeeEEEECCCEEEEEECCCCCceEEEEEEhHheeEEE
Confidence 6678999999999999998 3333 6999999998864
No 75
>PF12462 Helicase_IV_N: DNA helicase IV / RNA helicase N terminal; InterPro: IPR022161 This domain family is found in bacteria and eukaryotes, and is approximately 170 amino acids in length. The family is found in association with PF00580 from PFAM. Nucleolin unwinds nucleic acid strands in the 5' to 3' direction with respect to the bound strand. It can unwind RNA-RNA duplexes, as well as DNA-DNA and DNA-RNA duplexes. Nucleolin is modulated by phosphorylation of serine and threonine residues in its N-terminal region.
Probab=43.94 E-value=81 Score=30.70 Aligned_cols=71 Identities=6% Similarity=0.100 Sum_probs=58.9
Q ss_pred eeEEEecCceeEeeCCCCceEEeecCCcc-eeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhc
Q 006512 21 GQLKIYSGKISWKKLGGGKAVEVDKVDIA-GVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNF 93 (642)
Q Consensus 21 G~~~~~~~g~~~k~~~~~~~~~~~~~~i~-~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~ 93 (642)
=+++|.++||..-+. |..+.|+-+++. .+.-.|+-=.-.|.+.+.++.++++.|.+-++-..+..++...|
T Consensus 18 ~~v~L~~~~l~ls~~--~~~~~Ipf~~~~g~i~~krGl~Wg~L~f~~~~~~~v~l~Gl~w~e~~~Fa~~l~~~w 89 (166)
T PF12462_consen 18 NRVELDNAGLELSSD--GHEYRIPFNQLSGSIQVKRGLFWGELEFFLPDQKVVRLHGLPWSEAQRFAHHLNQAW 89 (166)
T ss_pred ceEEEcCCEEEEEeC--CeEEEecHHHhccceeeecceeEEEEEEEcCCCcEEEEcCCccHHHHHHHHHHHHHH
Confidence 356666677765544 789999999999 88888887778899999999999999999999888888877665
No 76
>PRK14647 hypothetical protein; Provisional
Probab=42.88 E-value=1.5e+02 Score=28.64 Aligned_cols=90 Identities=14% Similarity=0.221 Sum_probs=60.4
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCC-----Ccceeeeeeee--------------
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGIS-----PEEKQLSVSGR-------------- 107 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~~~-----~~~~e~~~~G~-------------- 107 (642)
++-.+.|.+-++...|||++-. =.|..-+|-+.++..+...++.. -+.=|+|..|-
T Consensus 24 ~L~dv~~~~~~~~~~lrV~ID~-----~~gvslddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPG~~RpL~~~~~f~r~~ 98 (159)
T PRK14647 24 ELVELEYKREGREMVLRLFIDK-----EGGVNLDDCAEVSRELSEILDVEDFIPERYTLEVSSPGLDRPLKKEADYERYA 98 (159)
T ss_pred EEEEEEEEecCCCeEEEEEEeC-----CCCCCHHHHHHHHHHHHHHHcccccCCCCeEEEEcCCCCCCcCCCHHHHHHhC
Confidence 4566788888888889999842 25788999999999999888753 11234444441
Q ss_pred --------------eee--eee-------ecCceEEEEeCCEeEEEEeccccccccc
Q 006512 108 --------------NWG--EVD-------LNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (642)
Q Consensus 108 --------------nwG--~~~-------~~~~~l~f~~~~k~~feip~~~is~~~~ 141 (642)
+|| .-. ++++.+.+.+.+...++||+++|+.+++
T Consensus 99 G~~v~V~l~~~~~~~~~~~~~~~~G~L~~~~~~~v~l~~~~~~~~~i~~~~I~ka~l 155 (159)
T PRK14647 99 GRLVKVRTFELLADEAGNKRKTFLGELEGLADGVVTIALKEGQQARIPLDKIAKANL 155 (159)
T ss_pred CcEEEEEEeccccccccCCceEEEEEEEeecCCEEEEEEcCCcEEEEEHHHCCEEEE
Confidence 233 222 3455666766433457888888888765
No 77
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=42.47 E-value=20 Score=42.31 Aligned_cols=26 Identities=8% Similarity=-0.070 Sum_probs=17.4
Q ss_pred CCchhhhHHHHHHhhcCChhhhhhhH
Q 006512 583 IAFTDVGRVLGERWKKMSVEEREPYE 608 (642)
Q Consensus 583 ~~~~eisk~lge~Wk~ls~eeK~~y~ 608 (642)
....-|..-+++.|.+.|......+.
T Consensus 333 aNi~~I~~~i~~Ly~~~sr~~v~~sL 358 (822)
T KOG2141|consen 333 ANIIKIIAGIAELYMNNSRYDVTSSL 358 (822)
T ss_pred HHHHHHHHHHHHHHHhcchhhHHHHH
Confidence 34556777788899988865554443
No 78
>PF03703 bPH_2: Bacterial PH domain; InterPro: IPR005182 A domain that is found in uncharacterised family of membrane proteins. 1-3 copies found in each protein, with each copy flanked by transmembrane helices.
Probab=40.25 E-value=41 Score=27.46 Aligned_cols=57 Identities=14% Similarity=0.165 Sum_probs=41.3
Q ss_pred CCCeEEEcCceeEEEEEEecCCCcceeeEEEEEEEcCCce--EEEeeechhhhhhHHHHH
Q 006512 374 KPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQE--HLFRNIQRNEYHNLFDFI 431 (642)
Q Consensus 374 KPp~~I~~~dI~~V~f~Rv~~~~~~~rtFDl~i~~K~~~~--~~Fs~I~~~e~~~l~~fl 431 (642)
+-..+|+++.|..|...+--..-. .+.-++.|...++.. ..+..++.++.+.|.+||
T Consensus 22 ~~~~~i~~~~Iq~v~~~q~~~~r~-~g~~~i~i~~~~~~~~~~~i~~~~~~~a~~i~~~i 80 (80)
T PF03703_consen 22 KRTTIIPLDRIQSVSIKQNPLQRL-FGLGTIKIDTAGGSGEKIEIPFLSIEDAEEIYDWI 80 (80)
T ss_pred EEEEEEEhhHeEEEEEEcCHHHHh-CccEEEEEEECCCCCceeEEecCCHHHHHHHHhhC
Confidence 345779999999999976321110 155678888887653 778888988999988875
No 79
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=39.37 E-value=18 Score=43.61 Aligned_cols=13 Identities=15% Similarity=0.197 Sum_probs=5.8
Q ss_pred ChhhhhhhHHHHH
Q 006512 600 SVEEREPYESKAR 612 (642)
Q Consensus 600 s~eeK~~y~~~A~ 612 (642)
.+..+.-|...|.
T Consensus 203 ~p~d~e~W~~lad 215 (895)
T KOG2076|consen 203 NPKDYELWKRLAD 215 (895)
T ss_pred CCCChHHHHHHHH
Confidence 3444444544443
No 80
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=39.29 E-value=9.9 Score=33.66 Aligned_cols=13 Identities=23% Similarity=0.296 Sum_probs=5.2
Q ss_pred CCCCcceeEeeeh
Q 006512 558 PKRAMSGFIFFSQ 570 (642)
Q Consensus 558 PKRP~sAy~lF~~ 570 (642)
++|-+++|.++-+
T Consensus 56 v~rYltSf~id~~ 68 (101)
T PF09026_consen 56 VKRYLTSFPIDDK 68 (101)
T ss_dssp HHHHHCTS---HH
T ss_pred HhhhhhccchhHh
Confidence 3455666666544
No 81
>COG4687 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.08 E-value=50 Score=30.14 Aligned_cols=73 Identities=14% Similarity=0.129 Sum_probs=53.6
Q ss_pred CCeeEEEecCceeEeeCC-CCceEEeecCCcceeEEEEecC--cceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcC
Q 006512 19 NPGQLKIYSGKISWKKLG-GGKAVEVDKVDIAGVTWMKVPR--TNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFG 94 (642)
Q Consensus 19 ~~G~~~~~~~g~~~k~~~-~~~~~~~~~~~i~~~~w~r~~~--~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~ 94 (642)
..|++-|.+.|+-|=|+. -++-++|++++|..+.-+-..+ +-+..|.+++++-++|.- .|--.+-..++.|.|
T Consensus 23 ~~GkiliGDkgfEFYn~~nv~k~iqipWs~i~~v~vsvs~KK~~~~f~i~td~~gk~~FaS---kdsg~iLk~ir~yvg 98 (122)
T COG4687 23 EYGKILIGDKGFEFYNDRNVEKFIQIPWSEINEVDVSVSLKKWGRQFSIFTDTQGKVRFAS---KDSGKILKKIREYVG 98 (122)
T ss_pred hcCeEEEcccceeecCCCChhheeEecHHHhheeheeehhhhhcceEEEEEcCCceEEEEe---CCchhHHHHHHHHhC
Confidence 789999999999997754 4788999999999776655543 445667777777888753 445556666666655
No 82
>PF10756 bPH_6: Bacterial PH domain; InterPro: IPR019692 Proteins in this entry are conserved in the Actinomycetales. Although several members are annotated as RbiX homologues, RbiX being a putative regulator of riboflavin biosynthesis, the function could not be confirmed. This entry also includes low molecular weight protein antigen 6.
Probab=37.38 E-value=47 Score=27.44 Aligned_cols=56 Identities=18% Similarity=0.251 Sum_probs=44.8
Q ss_pred eEEEecCceeEeeCCCCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhh
Q 006512 22 QLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQD 81 (642)
Q Consensus 22 ~~~~~~~g~~~k~~~~~~~~~~~~~~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d 81 (642)
++.++++||.-++- ..+..|++++|..+.-....+- +.+.+.+|..+.|.|..-.+
T Consensus 3 rv~v~~~Gl~vr~~--~rt~~vpW~~I~~v~~~~~~~~--v~~~~~dg~~~~l~~~~~~~ 58 (73)
T PF10756_consen 3 RVEVDPDGLRVRNL--FRTRRVPWSEIAGVRFRRGRRW--VRLDLRDGRLVPLPAVQLGD 58 (73)
T ss_pred eEEEcCCcEEEEcC--ceeEEEChHHeEEEEccCCceE--EEEECCCCCEEEEeeEEcCC
Confidence 57889999999986 4799999999999884333222 88888999999999887764
No 83
>PF08000 bPH_1: Bacterial PH domain; InterPro: IPR012544 This family contains many bacterial hypothetical proteins.; PDB: 3DCX_E 3HSA_C 3B77_D.
Probab=36.33 E-value=2.9e+02 Score=25.74 Aligned_cols=63 Identities=13% Similarity=0.033 Sum_probs=46.0
Q ss_pred eEEEeecCceeEEEecCcceeeccC-------CC-eEEEcCceeEEEEEEecCCCcceeeEEEEEEEcCC-ceEE
Q 006512 350 AVKSSLKAEDGVLYPLEKSFFFLPK-------PP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTE-QEHL 415 (642)
Q Consensus 350 ~v~c~~ka~~G~LypL~~~llf~~K-------Pp-~~I~~~dI~~V~f~Rv~~~~~~~rtFDl~i~~K~~-~~~~ 415 (642)
.|-+.++.....+.+|++-||++-+ -- .-|||..|..+++|-.|..- ....|.|.+.+. .+..
T Consensus 32 ~I~~ayk~iRD~~vFTnkRlI~vD~QG~TGkK~~~~siPY~~I~~~siETAG~~D---lD~Elki~i~~~~~~i~ 103 (124)
T PF08000_consen 32 EIEAAYKLIRDEIVFTNKRLILVDKQGITGKKVEYKSIPYSSITHFSIETAGTFD---LDSELKIWISGQGFPIE 103 (124)
T ss_dssp -EEEEEEESSEEEEEESSEEEEEEEESSSSSEEEEEEEEGGGEEEEEEEECSSTT---SEEEEEEEETTESSEEE
T ss_pred eeeeeehhhceeEEEecChheEEecccCccceEEEEEEehhhccEEEEEeCCccc---CcccEEEEECCCcEEEE
Confidence 4778888889999999999999652 22 34999999999999854322 556677777663 2444
No 84
>KOG4264 consensus Nucleo-cytoplasmic protein MLN51 [General function prediction only]
Probab=35.77 E-value=28 Score=39.49 Aligned_cols=15 Identities=20% Similarity=0.424 Sum_probs=6.8
Q ss_pred CCCCCCCCCCCCCCC
Q 006512 488 DKDDGGSPTDDSGEE 502 (642)
Q Consensus 488 ~~sd~~ee~ds~~e~ 502 (642)
+.+|++|+.|+++|+
T Consensus 85 sgsdsEe~ed~~~Ed 99 (694)
T KOG4264|consen 85 SGSDSEEKEDEAAED 99 (694)
T ss_pred ccCCccccccccccc
Confidence 444444444444443
No 85
>PF05494 Tol_Tol_Ttg2: Toluene tolerance, Ttg2 ; InterPro: IPR008869 Toluene tolerance is mediated by increased cell membrane rigidity resulting from changes in fatty acid and phospholipid compositions, exclusion of toluene from the cell membrane, and removal of intracellular toluene by degradation []. Many proteins are involved in these processes. This family is a transporter which shows similarity to ABC transporters [].; PDB: 2QGU_A.
Probab=34.45 E-value=37 Score=32.73 Aligned_cols=47 Identities=26% Similarity=0.543 Sum_probs=35.5
Q ss_pred CCCCchhhhH-HHHHHhhcCChhhhhhhHHHHHH-HHHHHHHHhcccCC
Q 006512 581 PGIAFTDVGR-VLGERWKKMSVEEREPYESKARA-DKKRYKDEISGYKN 627 (642)
Q Consensus 581 P~~~~~eisk-~lge~Wk~ls~eeK~~y~~~A~~-~k~~y~~e~~~yk~ 627 (642)
|-+.+..+++ .||..|+.||+++|+.|.+...+ ....|-..+..|..
T Consensus 36 ~~~D~~~~ar~~LG~~w~~~s~~q~~~F~~~f~~~l~~~Y~~~l~~y~~ 84 (170)
T PF05494_consen 36 PYFDFERMARRVLGRYWRKASPAQRQRFVEAFKQLLVRTYAKRLDEYSG 84 (170)
T ss_dssp GGB-HHHHHHHHHGGGTTTS-HHHHHHHHHHHHHHHHHHHHHHHHT-SS
T ss_pred HhCCHHHHHHHHHHHhHhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 5566666665 57889999999999999987766 56778888998875
No 86
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 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. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=33.43 E-value=37 Score=34.79 Aligned_cols=6 Identities=33% Similarity=1.027 Sum_probs=3.2
Q ss_pred cccceE
Q 006512 278 TLYPHI 283 (642)
Q Consensus 278 tky~~l 283 (642)
..||.+
T Consensus 34 ~lfP~~ 39 (233)
T PF11705_consen 34 PLFPPL 39 (233)
T ss_pred CCCCCC
Confidence 455655
No 87
>TIGR02888 spore_YlmC_YmxH sporulation protein, YlmC/YmxH family. Members of this family belong to the broader family of PRC-barrel domain proteins (see Pfam model pfam05239), but are found only in endospore-forming bacteria of the Firmicutes lineage. Most such species have exactly two members of this family and all have at least one; the function is unknown. One of two members from Bacillus subtilis, YmxH, is strongly induced by the mother cell-specific sigma-E factor.
Probab=32.13 E-value=1.1e+02 Score=25.94 Aligned_cols=49 Identities=12% Similarity=0.196 Sum_probs=36.9
Q ss_pred CCcceEEEE--cCeeeecCCcceEEEEecC---cEEEEcccceeEeecCceeEE
Q 006512 204 GGEEAVVTF--EGIAILTPRGRYSVELHLS---FLRLQGQANDFKIQYSSVVRL 252 (642)
Q Consensus 204 ~~g~~i~~~--~~i~~~~PRGry~i~~~~~---~lrl~gkt~d~~I~y~nI~r~ 252 (642)
.+|..+-.+ .||.+-.-.|+..--+-+. ++.|.|+..++.|||++|+++
T Consensus 14 ~~G~~lG~v~~~Dl~iD~~~G~I~aiIi~~~~~~~~~~~~~~~~~Ipw~~I~kI 67 (76)
T TIGR02888 14 NDGERLGVIGNIDLEIDEEDGRILSLIIPGKGKKFGLFSKGEEIEIPWDAIKKI 67 (76)
T ss_pred CCCcEeeccccceEEEECCCCEEEEEEEeCCCcEEEeecCCcEEEEEhhhccEE
Confidence 467777777 6777776677776555554 566778888999999999986
No 88
>PF02576 DUF150: Uncharacterised BCR, YhbC family COG0779; InterPro: IPR003728 The RimP protein facilitates maturation of the 30S ribsomal subunit, and is required for the efficient production of translationally competent ribosmomes [].; PDB: 1IB8_A.
Probab=32.07 E-value=2.5e+02 Score=26.31 Aligned_cols=90 Identities=17% Similarity=0.249 Sum_probs=54.4
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCC--C---cceeeeeeeee-------------
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGIS--P---EEKQLSVSGRN------------- 108 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~~~--~---~~~e~~~~G~n------------- 108 (642)
+|-.+.|.+-+++..|+|++-. =.|..-+|.+.++..+...++.. + ..=|+|..|-.
T Consensus 12 ~l~~v~~~~~~~~~~l~V~id~-----~~gv~lddc~~~sr~i~~~LD~~d~i~~~y~LEVSSPG~~r~L~~~~~~~~~i 86 (141)
T PF02576_consen 12 ELVDVEVVKEGGNRILRVFIDK-----DGGVSLDDCEKVSRAISALLDAEDPIPEDYTLEVSSPGIDRPLKSPRDFERFI 86 (141)
T ss_dssp EEEEEEEEEETTEEEEEEEEE------SS---HHHHHHHHHHHGGGTTTS----S-EEEEEE--SSSS--SSHHHHHHH-
T ss_pred EEEEEEEEECCCCEEEEEEEEe-----CCCCCHHHHHHHHHHHHHHHccccccCcceEEEEeCCCCCCcCCCHHHHHHhc
Confidence 4567889999989999999742 25677889999999999888762 1 13344444421
Q ss_pred ------------------eee-eeecCceEEEEeCCE---eEEEEeccccccccc
Q 006512 109 ------------------WGE-VDLNGNMLTFMVGQK---QAFEVSLADVSQTQL 141 (642)
Q Consensus 109 ------------------wG~-~~~~~~~l~f~~~~k---~~feip~~~is~~~~ 141 (642)
.|. ..++++.+++.+.++ ..++||+++|..+++
T Consensus 87 G~~v~v~~~~~~~~~~~~~G~L~~~~~~~i~l~~~~~~~~~~~~I~~~~I~ka~L 141 (141)
T PF02576_consen 87 GRKVKVKLKQPVNGRKEFEGKLLEVDEDEITLEVEGKGKKKEVEIPFSDIKKARL 141 (141)
T ss_dssp SEEEEEE-SS-SSS-SEEEEEEEEEETTEEEEEEE-SS-EEEEEE-SS--SS-EE
T ss_pred CCeEEEEEeccCCCcEEEEEEEEEEeCCEEEEEECCccceEEEEEEHHHCceEeC
Confidence 122 346666777777766 478888888877653
No 89
>PTZ00449 104 kDa microneme/rhoptry antigen; Provisional
Probab=31.55 E-value=1e+02 Score=35.37 Aligned_cols=41 Identities=15% Similarity=0.153 Sum_probs=23.8
Q ss_pred CceeEeeCCC----CceEEeecCCcceeEEEEecCcceEEEEEeCCc
Q 006512 28 GKISWKKLGG----GKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGL 70 (642)
Q Consensus 28 ~g~~~k~~~~----~~~~~~~~~~i~~~~w~r~~~~~~l~i~~~~~~ 70 (642)
+-+.|-|..+ +.+ +...|.--..+..+-....|.+++|.|.
T Consensus 79 ~iviwen~~~plyt~ai--vt~n~~pymayve~l~dp~l~ffik~gd 123 (943)
T PTZ00449 79 DIVIWENAEMPLYTCAI--VTNNDGPYMAYVELLEDPDLIFFIKEGD 123 (943)
T ss_pred cEEEEecCCCcceeEEE--EecCCCCeeeeeeeccCCceEEEeccCc
Confidence 3456777653 222 2344555555666666777777777764
No 90
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.50 E-value=36 Score=37.52 Aligned_cols=41 Identities=17% Similarity=0.288 Sum_probs=34.7
Q ss_pred cCChhhhhhhHHHHHHHHHHHHHHhcccCCCCCCCCCCCCC
Q 006512 598 KMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSGNE 638 (642)
Q Consensus 598 ~ls~eeK~~y~~~A~~~k~~y~~e~~~yk~~~~~~~~~~~~ 638 (642)
+|.+.+|++|.+..+.....|+++..+|++.+++...++++
T Consensus 268 E~qe~ek~kyqeEfe~~q~elek~k~efkk~hpd~~~e~ee 308 (497)
T KOG3838|consen 268 EMQELEKAKYQEEFEWAQLELEKRKDEFKKSHPDAQGEGEE 308 (497)
T ss_pred hhhHHHHHHHHHHHHHHHHHHhhhHhhhccCCchhhcchhh
Confidence 34556899999999999999999999999999987666443
No 91
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=31.45 E-value=41 Score=39.77 Aligned_cols=17 Identities=18% Similarity=0.200 Sum_probs=8.4
Q ss_pred hhhhHHHHHHhhcCChh
Q 006512 586 TDVGRVLGERWKKMSVE 602 (642)
Q Consensus 586 ~eisk~lge~Wk~ls~e 602 (642)
..+.+++.---+.||+.
T Consensus 317 ~rl~rkv~g~LNKLSda 333 (822)
T KOG2141|consen 317 QRLRRKVNGSLNKLSDA 333 (822)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444444445555554
No 92
>PF03517 Voldacs: Regulator of volume decrease after cellular swelling; InterPro: IPR003521 The nucleotide-sensitive chloride conductance regulatory protein (ICln) is found ubiquitously in mammalian (and other) cell types and is postulated to play a critical role in cell volume regulation. Initial studies proposed that ICln was itself a swelling-activated anion channel; however, further studies demonstrated that it is localised primarily to the cell cytoplasm. It has therefore been postulated that activation of cell volume regulation may involve reversible translocation of ICln from the cytoplasm, and its insertion into the plasma membrane. It is not resolved whether the anionic channel involved in cell volume regulation after cell-swelling comprises one or more subunits, and if it does, whether ICln is in fact one of them [].; GO: 0006821 chloride transport, 0006884 cell volume homeostasis; PDB: 1ZYI_A.
Probab=31.10 E-value=1.8e+02 Score=27.17 Aligned_cols=85 Identities=9% Similarity=0.235 Sum_probs=44.4
Q ss_pred eeeeecCceEEEEeC--CEeEEEEeccccccccccCCc-------eEEEEEec------------CCCCCCCCCCceeEE
Q 006512 110 GEVDLNGNMLTFMVG--QKQAFEVSLADVSQTQLQGKN-------DVILEFHV------------DDTTGANEKDSLMEI 168 (642)
Q Consensus 110 G~~~~~~~~l~f~~~--~k~~feip~~~is~~~~~~kn-------ev~~ef~~------------~~~~~~~~~~~l~e~ 168 (642)
|++.+....|.+.-+ ....|+|||..|+==.++.-. =|-|++.. ............+||
T Consensus 1 g~L~Vt~~~l~w~~~~~~~~G~~ipY~sI~lHAisr~~~~~~~~~~lY~qld~~~~~~~~~~~~~~~~~~~~~~~~~~El 80 (135)
T PF03517_consen 1 GTLYVTESRLIWFSNEDSSKGFSIPYPSISLHAISRDPSGSFPEPCLYLQLDSDLEEDEEGDDEDDEEDDEEDDESSVEL 80 (135)
T ss_dssp EEEEEETTEEEEEET--TTEEEEESS---SEEE--SS-S-S--S--EEEEEE----SS-SSS---S--S-S--S-SEEEE
T ss_pred CEEEEecCEEEEECCCcCCcceeecCCeEEEEEeecCCCCCCCCceEEEEEecccCccccccccccccccccccccceEE
Confidence 667777887777653 688999999999865553211 25555521 111123446889999
Q ss_pred EEEecCCCCCCCCCCCCCHHHHHHHHHHhhcccc
Q 006512 169 SFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVG 202 (642)
Q Consensus 169 rf~iP~~~~~~~~~~~~~~~~~~~~~i~~~a~~~ 202 (642)
||.-+.. ..+.++.++++|-.-+.+.
T Consensus 81 ~l~P~~~--------~~~~l~~if~Als~C~~Lh 106 (135)
T PF03517_consen 81 RLVPSDP--------SSDMLDEIFEALSECQELH 106 (135)
T ss_dssp EEEES-H--------HH--HHHHHHHHHHHHH--
T ss_pred EEecCcc--------cchHHHHHHHHHHHHHHhC
Confidence 9954421 0123788888877666553
No 93
>PF09073 BUD22: BUD22; InterPro: IPR015158 BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal [].
Probab=29.92 E-value=74 Score=35.78 Aligned_cols=19 Identities=5% Similarity=0.004 Sum_probs=9.0
Q ss_pred hhhhhhHHHHHhc-CCceEe
Q 006512 421 RNEYHNLFDFISG-KGLKIM 439 (642)
Q Consensus 421 ~~e~~~l~~fl~~-k~l~~~ 439 (642)
++.+..|..+|.. -|+...
T Consensus 131 k~~~~~~~~~~~~~lg~~~~ 150 (432)
T PF09073_consen 131 KEVVPGIEEGLRQVLGIPKP 150 (432)
T ss_pred HHHHHHHHHHHHHHhCCCcc
Confidence 3445566555533 344443
No 94
>PRK14636 hypothetical protein; Provisional
Probab=29.10 E-value=3.1e+02 Score=27.07 Aligned_cols=92 Identities=17% Similarity=0.231 Sum_probs=58.5
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCC-C----cceeeeeeeee-------------
Q 006512 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGIS-P----EEKQLSVSGRN------------- 108 (642)
Q Consensus 47 ~i~~~~w~r~~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~~~-~----~~~e~~~~G~n------------- 108 (642)
++-.+.|.+-++...|||++.... =.|..-+|-+.++..+...++.. + +.=|+|..|..
T Consensus 21 eLvdve~~~~~~~~~lrV~ID~~~---~ggV~lDDC~~vSr~Is~~LD~~d~i~~~Y~LEVSSPGldRpL~~~~df~r~~ 97 (176)
T PRK14636 21 DLVRVAMFGGKSDPTLQIMAERPD---TRQLVIEDCAALSRRLSDVFDELDPIEDAYRLEVSSPGIDRPLTRPKDFADWA 97 (176)
T ss_pred EEEEEEEEcCCCCeEEEEEEECCC---CCCcCHHHHHHHHHHHHHHhccCcCCCCCeEEEEeCCCCCCCCCCHHHHHHhC
Confidence 356788888888899999984210 03588999999999999998843 1 22344444431
Q ss_pred ------------e------eee-eecCceEEEEeCCEeEEEEeccccccccc
Q 006512 109 ------------W------GEV-DLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (642)
Q Consensus 109 ------------w------G~~-~~~~~~l~f~~~~k~~feip~~~is~~~~ 141 (642)
= |.+ .+++..+.+.+.++..+.||+++|+.+++
T Consensus 98 G~~V~V~l~~~~~g~k~~~G~L~~v~~~~v~l~~~~~~~~~i~~~~I~kA~l 149 (176)
T PRK14636 98 GHEARIALSEPLDGRKQFRGELKGIDGDTVTIADNKAGEVILPFAAIESAKL 149 (176)
T ss_pred CCeEEEEEecccCCeEEEEEEEEEEeCCEEEEEEcCCcEEEEEhHHcceEEE
Confidence 1 222 23445566666433346778888777766
No 95
>cd01201 Neurobeachin Neurobeachin Pleckstrin homology-like domain. Neurobeachin Pleckstrin homology-like domain. This domain is found in the large multi-domain eukaryotic protein Nerubeachin, N-terminal to the BEACH domain. This PH-like domain interacts with the BEACH domain in the same manner used by other PH-like domains to bind peptides.
Probab=27.98 E-value=42 Score=30.55 Aligned_cols=61 Identities=13% Similarity=0.077 Sum_probs=45.8
Q ss_pred CCCCeeEEEecCceeEeeCCC-------C-ceE--------EeecCCcceeEEEEec-CcceEEEEEeCCcEEEEcCCC
Q 006512 17 GTNPGQLKIYSGKISWKKLGG-------G-KAV--------EVDKVDIAGVTWMKVP-RTNQLGVRTKDGLYYKFTGFR 78 (642)
Q Consensus 17 ~~~~G~~~~~~~g~~~k~~~~-------~-~~~--------~~~~~~i~~~~w~r~~-~~~~l~i~~~~~~~~~~~gf~ 78 (642)
...+|+|.|+...|-|-.+.+ + .+. ..+=++|+.+.|.|.- |...|.|++.++.-+.| .|.
T Consensus 16 ~vvpG~l~ITt~~lyF~~d~~~~~~~~~~~~vl~~~~~~~~~w~ls~Ir~v~~RRylLr~~alEiF~~d~~~~f~-~F~ 93 (108)
T cd01201 16 VVVKGTLSITTTEIFFEVDERDSQFKKIDDEVLSYCEELHGKWPFSEIRAIFSRRYLLQNTALELFLASRTSIFF-AFP 93 (108)
T ss_pred EEeccEEEEecCEEEEEECCccccccccCccceeccccccceeeHHHHHHHHHHhhhcccceEEEEEeCCceEEE-EeC
Confidence 457999999999999997421 1 122 6677888899998886 89999999999855544 455
No 96
>PF06115 DUF956: Domain of unknown function (DUF956); InterPro: IPR010360 This is a family of bacterial sequences with undetermined function.
Probab=27.88 E-value=1.8e+02 Score=26.97 Aligned_cols=75 Identities=12% Similarity=0.089 Sum_probs=54.7
Q ss_pred CCCeeEEEecCceeEeeCC-CCceEEeecCCcceeEEEEe--c-CcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhc
Q 006512 18 TNPGQLKIYSGKISWKKLG-GGKAVEVDKVDIAGVTWMKV--P-RTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNF 93 (642)
Q Consensus 18 ~~~G~~~~~~~g~~~k~~~-~~~~~~~~~~~i~~~~w~r~--~-~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~ 93 (642)
...|.+-+.+.++-|-|++ ...-++||+++|..+.=+-. + .-....|.++.++.+.|.. .|--++-..+++|.
T Consensus 22 ~~yGkimiGDkaFEFyn~~n~~dyIQIPW~eI~~V~a~V~fkgk~I~RF~I~Tk~~G~f~Fss---kd~k~~Lk~~r~yv 98 (118)
T PF06115_consen 22 GKYGKIMIGDKAFEFYNDRNVEDYIQIPWEEIDYVIASVSFKGKWIPRFAIFTKKNGKFTFSS---KDSKKVLKAIRKYV 98 (118)
T ss_pred cccCeEEEcccceEeecCCChhhcEEeChhheeEEEEEEEECCCEEeeEEEEECCCCEEEEEE---CChHHHHHHHHHhc
Confidence 3789999999999998764 45779999999987765433 1 2223667888877888765 45566777777776
Q ss_pred CC
Q 006512 94 GI 95 (642)
Q Consensus 94 ~~ 95 (642)
+-
T Consensus 99 ~~ 100 (118)
T PF06115_consen 99 GN 100 (118)
T ss_pred CH
Confidence 53
No 97
>KOG2270 consensus Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms; Cell cycle control, cell division, chromosome partitioning]
Probab=27.39 E-value=15 Score=40.83 Aligned_cols=17 Identities=0% Similarity=0.180 Sum_probs=12.6
Q ss_pred cCCcceEEEEecCcEEE
Q 006512 219 TPRGRYSVELHLSFLRL 235 (642)
Q Consensus 219 ~PRGry~i~~~~~~lrl 235 (642)
+|-..|-|.||.++|-.
T Consensus 166 ~dG~~~AIKIYKTSILv 182 (520)
T KOG2270|consen 166 EDGSEFAIKIYKTSILV 182 (520)
T ss_pred CCCceEEEEEEeeeEEE
Confidence 45556899999987653
No 98
>KOG0296 consensus Angio-associated migratory cell protein (contains WD40 repeats) [Function unknown]
Probab=26.80 E-value=1.4e+02 Score=32.79 Aligned_cols=61 Identities=23% Similarity=0.394 Sum_probs=42.3
Q ss_pred CcccceEecCCCCCCCeeEEEecCceeEeeCCCCceEEe--ecCCcceeEEEEecCcceEEEEEeCCcEEEEc
Q 006512 5 PSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEV--DKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFT 75 (642)
Q Consensus 5 ~~f~~i~~~~~g~~~~G~~~~~~~g~~~k~~~~~~~~~~--~~~~i~~~~w~r~~~~~~l~i~~~~~~~~~~~ 75 (642)
.+++..||.- +--.|.+ +.||.+.++....| +.+||.+..|.+ |+.-|-...++|.+..|.
T Consensus 114 FshdgtlLAT--GdmsG~v------~v~~~stg~~~~~~~~e~~dieWl~WHp--~a~illAG~~DGsvWmw~ 176 (399)
T KOG0296|consen 114 FSHDGTLLAT--GDMSGKV------LVFKVSTGGEQWKLDQEVEDIEWLKWHP--RAHILLAGSTDGSVWMWQ 176 (399)
T ss_pred EccCceEEEe--cCCCccE------EEEEcccCceEEEeecccCceEEEEecc--cccEEEeecCCCcEEEEE
Confidence 3455555544 2234444 45888877777777 788999999998 677777888888776664
No 99
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=26.69 E-value=48 Score=38.02 Aligned_cols=14 Identities=14% Similarity=0.553 Sum_probs=6.3
Q ss_pred hhhhHHHHHhcCCc
Q 006512 423 EYHNLFDFISGKGL 436 (642)
Q Consensus 423 e~~~l~~fl~~k~l 436 (642)
+...-.++++.+.|
T Consensus 170 dA~~Al~~~N~~~i 183 (678)
T KOG0127|consen 170 DAEKALEFFNGNKI 183 (678)
T ss_pred HHHHHHHhccCcee
Confidence 33444445555444
No 100
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=26.55 E-value=38 Score=42.19 Aligned_cols=22 Identities=14% Similarity=0.191 Sum_probs=15.8
Q ss_pred eCCEeEEEEeccccccccccCC
Q 006512 123 VGQKQAFEVSLADVSQTQLQGK 144 (642)
Q Consensus 123 ~~~k~~feip~~~is~~~~~~k 144 (642)
.+.-|.|-+-++++..-+-+|-
T Consensus 1229 aDDSPLfiLC~NDtCSFTWTGa 1250 (3015)
T KOG0943|consen 1229 ADDSPLFILCCNDTCSFTWTGA 1250 (3015)
T ss_pred CCCCceEEEEecCccceeecch
Confidence 3457888888888877776653
No 101
>COG4909 PduC Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.54 E-value=57 Score=35.44 Aligned_cols=44 Identities=20% Similarity=0.471 Sum_probs=34.9
Q ss_pred cCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCCCccee
Q 006512 57 PRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQ 101 (642)
Q Consensus 57 ~~~~~l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~~~~~~~e 101 (642)
+...--.|.+++|.++.+||-.+.||+-|-.|+.+ |+|+++.-+
T Consensus 34 pndpkpsiki~ng~v~eldgk~~~dfdlidhfiar-ygidl~rae 77 (554)
T COG4909 34 PNDPKPSIKIKNGRVIELDGKLEHDFDLIDHFIAR-YGIDLERAE 77 (554)
T ss_pred CCCCCCcceeccCeEEeecCccccchhHHHHHHHH-hCCChhhhH
Confidence 34555567788999999999999999988777765 599887554
No 102
>KOG2270 consensus Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms; Cell cycle control, cell division, chromosome partitioning]
Probab=26.37 E-value=18 Score=40.10 Aligned_cols=15 Identities=20% Similarity=0.193 Sum_probs=9.6
Q ss_pred chHHHHHHHHhhhcC
Q 006512 319 LIHEVFTTILRGLSG 333 (642)
Q Consensus 319 ~~~~v~~~~~k~l~~ 333 (642)
.+|.-++++|+.|..
T Consensus 268 ~~Y~~~v~~MR~lY~ 282 (520)
T KOG2270|consen 268 ELYQQCVRIMRRLYQ 282 (520)
T ss_pred HHHHHHHHHHHHHHH
Confidence 456667777776653
No 103
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.94 E-value=92 Score=31.49 Aligned_cols=45 Identities=24% Similarity=0.317 Sum_probs=37.2
Q ss_pred hHHHHHHhhcCChhhhhhhHHHHHH-HHHHHHHHhcccCCCCCCCC
Q 006512 589 GRVLGERWKKMSVEEREPYESKARA-DKKRYKDEISGYKNPKPMDI 633 (642)
Q Consensus 589 sk~lge~Wk~ls~eeK~~y~~~A~~-~k~~y~~e~~~yk~~~~~~~ 633 (642)
...||.-||.+|+++++.|...... ....|-..+..|+.....-.
T Consensus 77 ~~vLGk~~k~aspeQ~~~F~~aF~~yl~q~Y~~aL~~Y~~q~~~v~ 122 (202)
T COG2854 77 KLVLGKYYKTASPEQRQAFFKAFRTYLEQTYGQALLDYKGQTLKVK 122 (202)
T ss_pred HHHhccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHccCCCceeC
Confidence 4578999999999999999987766 66789999999998765443
No 104
>PF03115 Astro_capsid: Astrovirus capsid protein precursor; InterPro: IPR004337 The astrovirus genome is apparently organised with nonstructural proteins encoded at the 5' end and structural proteins at the 3' end []. Proteins in this family are encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The proteins contain a viral RNA-dependent RNA polymerase motif []. The 87kDa precursor polyprotein undergoes an intracellular cleavage to form a 79kDa protein. Subsequently, extracellular trypsin cleavage yields the three proteins forming the infectious virion [].; PDB: 3QSQ_A 3TS3_D.
Probab=25.42 E-value=23 Score=42.60 Aligned_cols=20 Identities=15% Similarity=0.192 Sum_probs=12.0
Q ss_pred eeEEEEEEEcCCceEEEeee
Q 006512 400 HYFDLLIRLKTEQEHLFRNI 419 (642)
Q Consensus 400 rtFDl~i~~K~~~~~~Fs~I 419 (642)
.|....+.+..|.-|.|.++
T Consensus 574 ~Tt~~rv~l~~G~WYLl~st 593 (787)
T PF03115_consen 574 NTTQVRVRLNQGNWYLLQST 593 (787)
T ss_dssp S-EEEEEEE-TT-EEEEEEE
T ss_pred ccceeeEEecCCcEEEEEEE
Confidence 66778888887876666553
No 105
>PF14317 YcxB: YcxB-like protein
Probab=25.26 E-value=1.4e+02 Score=22.83 Aligned_cols=30 Identities=7% Similarity=0.136 Sum_probs=25.2
Q ss_pred EecCcEEEEcccceeEeecCceeEEEeccc
Q 006512 228 LHLSFLRLQGQANDFKIQYSSVVRLFLLPK 257 (642)
Q Consensus 228 ~~~~~lrl~gkt~d~~I~y~nI~r~F~lP~ 257 (642)
+++++|+++.....-.++|++|.++.--|.
T Consensus 1 f~~~gi~~~~~~~~~~~~w~~i~~v~e~~~ 30 (62)
T PF14317_consen 1 FDEDGIIIESGNGSSRIPWSDIKKVVETKD 30 (62)
T ss_pred CCCCEEEEEECCeEEEEEchheEEEEEeCC
Confidence 357889998888899999999999876665
No 106
>PF15406 PH_6: Pleckstrin homology domain
Probab=24.39 E-value=1.3e+02 Score=27.50 Aligned_cols=56 Identities=23% Similarity=0.386 Sum_probs=38.1
Q ss_pred cceeeccC------CCeEEEcCceeEEEEEEecCCCcceeeEEEEEEEcCCceEEEeeechhhhhhHHHHHh
Q 006512 367 KSFFFLPK------PPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFIS 432 (642)
Q Consensus 367 ~~llf~~K------Pp~~I~~~dI~~V~f~Rv~~~~~~~rtFDl~i~~K~~~~~~Fs~I~~~e~~~l~~fl~ 432 (642)
+||||+.| |.=+|.|.|+..|.=+ |. .-|-+.+ +|..|+|-.-+-.|.++-...|+
T Consensus 49 KGLLF~~K~~dka~P~GiinLadase~~~~----g~---~kF~f~~---~G~khtF~A~s~aERD~Wv~~lk 110 (112)
T PF15406_consen 49 KGLLFFSKAEDKASPSGIINLADASEPEKD----GS---NKFHFKI---KGHKHTFEAASAAERDNWVAQLK 110 (112)
T ss_pred ceEEEEeccccccCCcceEehhhccccccC----CC---ceEEEEe---CCceeeeecCCHHHhccHHHHhh
Confidence 45555543 7788999999887654 12 3455554 57899999988888876544443
No 107
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=23.59 E-value=1.3e+02 Score=24.85 Aligned_cols=46 Identities=26% Similarity=0.312 Sum_probs=36.0
Q ss_pred EEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCCCcceeeeeeee
Q 006512 62 LGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGR 107 (642)
Q Consensus 62 l~i~~~~~~~~~~~gf~~~d~~~l~~~~~~~~~~~~~~~e~~~~G~ 107 (642)
|+|.+.+|..+.+.=-...-...||..+.+..|+..+...|...|.
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~ 46 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGK 46 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCe
Confidence 5677778877766666667799999999999999888777766554
No 108
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=22.83 E-value=49 Score=40.02 Aligned_cols=8 Identities=13% Similarity=0.115 Sum_probs=3.6
Q ss_pred eeEeeehH
Q 006512 564 GFIFFSQM 571 (642)
Q Consensus 564 Ay~lF~~e 571 (642)
|-.+|..-
T Consensus 146 AN~lfarg 153 (895)
T KOG2076|consen 146 ANNLFARG 153 (895)
T ss_pred HHHHHHhC
Confidence 34445443
No 109
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=22.27 E-value=1.4e+02 Score=23.39 Aligned_cols=42 Identities=21% Similarity=0.426 Sum_probs=29.5
Q ss_pred EEEEcCCChhhHHHHHHHHHhhcCCCCcceeeeee-eeeeeeeeecC
Q 006512 71 YYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVS-GRNWGEVDLNG 116 (642)
Q Consensus 71 ~~~~~gf~~~d~~~l~~~~~~~~~~~~~~~e~~~~-G~nwG~~~~~~ 116 (642)
-+...||..++.+.+..+|.+ ||- +.+ +.+. +-||-.+.|.+
T Consensus 3 wI~V~Gf~~~~~~~vl~~F~~-fGe-I~~--~~~~~~~~~~~l~y~~ 45 (53)
T PF14605_consen 3 WISVSGFPPDLAEEVLEHFAS-FGE-IVD--IYVPESTNWMYLKYKS 45 (53)
T ss_pred EEEEEeECchHHHHHHHHHHh-cCC-EEE--EEcCCCCcEEEEEECC
Confidence 467789999999999999996 773 222 3333 56776666654
No 110
>PF01867 Cas_Cas1: CRISPR associated protein Cas1; InterPro: IPR002729 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents Cas1, which is a metal-dependent DNA-specific endonuclease []. Cas1 may play a role in the recognition, cleavage, and/or integration of foreign nucleic acids into CRISPRs.; PDB: 2YZS_A 3LFX_D 3PV9_E 3NKE_C 3NKD_A 3GOD_D.
Probab=21.80 E-value=1.3e+02 Score=31.54 Aligned_cols=36 Identities=17% Similarity=0.195 Sum_probs=31.0
Q ss_pred eee-eeecCceEEEEeCCEeEEEEeccccccccccCC
Q 006512 109 WGE-VDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGK 144 (642)
Q Consensus 109 wG~-~~~~~~~l~f~~~~k~~feip~~~is~~~~~~k 144 (642)
.|. +..+++.|.+..++++...||+.+|+++.+.|.
T Consensus 7 ~g~~l~~~~~~L~V~~~~~~~~~iP~~~I~~Ivi~g~ 43 (282)
T PF01867_consen 7 PGARLSKKGGRLIVEDKGEIKKSIPLSDIDSIVIFGG 43 (282)
T ss_dssp SEEEEEEETTEEEEEETTCEEEEEEGCCECEEEE-ST
T ss_pred CCeEEEEECCEEEEEECCcEEEEEchHhccEEEEcCC
Confidence 344 889999999999999999999999999998554
No 111
>PF13619 KTSC: KTSC domain
Probab=20.78 E-value=1.1e+02 Score=24.32 Aligned_cols=39 Identities=15% Similarity=0.253 Sum_probs=29.4
Q ss_pred CceeEEEEEEecCCCcceeeEEEEEEEcCCceEEEeeechhhhhhHH
Q 006512 382 EEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLF 428 (642)
Q Consensus 382 ~dI~~V~f~Rv~~~~~~~rtFDl~i~~K~~~~~~Fs~I~~~e~~~l~ 428 (642)
+.|.+|.|.. .+=-|.|.|++|..+++.++|.+.++.|.
T Consensus 4 s~I~~v~Yd~--------~~~~L~V~F~~G~~Y~Y~~Vp~~~~~~l~ 42 (60)
T PF13619_consen 4 SNIRSVGYDP--------ETRTLEVEFKSGSVYRYFGVPPEVYEALL 42 (60)
T ss_pred CcccEEeECC--------CCCEEEEEEcCCCEEEECCCCHHHHHHHH
Confidence 3456666654 22258899999999999999999988764
No 112
>cd06481 ACD_HspB9_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB9 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Human (h) HspB9 is expressed exclusively in the normal testis and in various tumor samples and is a cancer/testis antigen. hHspB9 interacts with TCTEL1 (T-complex testis expressed protein -1), a subunit of dynein. hHspB9 and TCTEL1 are co-expressed in similar cells within the testis and in tumor cells. Included in this group is Xenopus Hsp30, a developmentally-regulated heat-inducible molecular chaperone.
Probab=20.52 E-value=2.5e+02 Score=24.08 Aligned_cols=37 Identities=27% Similarity=0.378 Sum_probs=28.3
Q ss_pred cceEEEEecCcEEEEccc--------ceeEeecCceeEEEecccC
Q 006512 222 GRYSVELHLSFLRLQGQA--------NDFKIQYSSVVRLFLLPKS 258 (642)
Q Consensus 222 Gry~i~~~~~~lrl~gkt--------~d~~I~y~nI~r~F~lP~~ 258 (642)
.-.+|.+..+.|.++|+. ..|-..+.+..|.|-||.+
T Consensus 21 edI~V~v~~~~L~I~g~~~~~~~~~~~~~~~~~~~F~R~~~LP~~ 65 (87)
T cd06481 21 EDLSVRVDGRKLVVTGKREKKNEDEKGSFSYEYQEFVREAQLPEH 65 (87)
T ss_pred HHeEEEEECCEEEEEEEEeeecccCCCcEEEEeeEEEEEEECCCC
Confidence 366778888899998852 1344568999999999986
No 113
>PF04683 Proteasom_Rpn13: Proteasome complex subunit Rpn13 ubiquitin receptor; InterPro: IPR006773 This family was thought originally to be involved in cell-adhesion [, ], but the members are now known to be proteasome subunit Rpn13, a novel ubiquitin receptor. The 26S proteasome is a huge macromolecular protein-degradation machine consisting of a proteolytically active 20S core, in the form of four disc-like proteins, and one or two 19S regulatory particles. The regulatory particle(s) sit on the top and or bottom of the core, de-ubiquitinate the substrate peptides, unfold them and guide them into the narrow channel through the centre of the core. Rpn13 and its homologues dock onto the regulatory particle through the N-terminal region which binds Rpn2. The C-terminal part of the domain binds de-ubiquitinating enzyme Uch37/UCHL5 and enhances its isopeptidase activity. Rpn13 binds ubiquitin via a conserved amino-terminal region called the pleckstrin-like receptor for ubiquitin, termed Pru, domain []. The domain forms two contiguous anti-parallel beta-sheets with a configuration similar to the pleckstrin-homology domain (PHD) fold []. Rpn13's ability to bind ubiquitin and the proteasome subunit Rpn2/S1 simultaneously supports evidence of its role as a ubiquitin receptor. Finally, when complexed to di-ubiquitin, via the Pru, and Uch37 via the C-terminal part, it frees up the distal ubiquitin for de-ubiquitination by the Uch37 []. ; GO: 0005634 nucleus, 0005737 cytoplasm; PDB: 2Z4D_A 2KR0_A 2Z59_A 2R2Y_A.
Probab=20.39 E-value=3.2e+02 Score=23.64 Aligned_cols=39 Identities=26% Similarity=0.464 Sum_probs=22.2
Q ss_pred CCCeeEEEecCc-----eeEeeCCC-Cce---EEeecCCcceeEEEEecCc
Q 006512 18 TNPGQLKIYSGK-----ISWKKLGG-GKA---VEVDKVDIAGVTWMKVPRT 59 (642)
Q Consensus 18 ~~~G~~~~~~~g-----~~~k~~~~-~~~---~~~~~~~i~~~~w~r~~~~ 59 (642)
...|.|.|..+. |.|++..+ |.+ +-|.++ .+.|.+|...
T Consensus 14 ~~KG~l~l~~~~d~l~~f~W~~r~~~~~~e~d~il~pg---~~~f~~V~~c 61 (85)
T PF04683_consen 14 PRKGLLYLYKSEDGLLHFCWKPRDTTGEVEDDLILFPG---DATFKKVPQC 61 (85)
T ss_dssp SS-EEEEEEETTTS-EEEEEEETST---EEEEEEE-TT---TEEEEE-TTS
T ss_pred CCCEEEEEEECCCCeEEEEEEEcCcCCCcccceecCCC---CeEEEECCcC
Confidence 357888887653 77999887 533 233333 4678888643
No 114
>COG4343 CRISPR-associated protein, RecB family exonuclease [Defense mechanisms]
Probab=20.16 E-value=31 Score=35.92 Aligned_cols=32 Identities=22% Similarity=0.381 Sum_probs=22.7
Q ss_pred cceeeeeeeeeeeeeeecCceEEEEeCCEeEEEEecccccc
Q 006512 98 EEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQ 138 (642)
Q Consensus 98 ~~~e~~~~G~nwG~~~~~~~~l~f~~~~k~~feip~~~is~ 138 (642)
....-.++||||+..=+... +-.-+++++|.-
T Consensus 20 ~~V~eELRGWnw~~PPVkp~---------~~~~lslSdi~y 51 (281)
T COG4343 20 DPVYEELRGWNWNEPPVKPP---------RYVRLSLSDIVY 51 (281)
T ss_pred CCCcHHhcCCcCCCCCCCCc---------cccCccHHHhhc
Confidence 34445689999998765544 335678888888
No 115
>PF05285 SDA1: SDA1; InterPro: IPR007949 This domain consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus [].
Probab=20.01 E-value=41 Score=36.34 Aligned_cols=22 Identities=27% Similarity=0.431 Sum_probs=9.5
Q ss_pred cCChhhhhhhHHHHHHHHHHHH
Q 006512 598 KMSVEEREPYESKARADKKRYK 619 (642)
Q Consensus 598 ~ls~eeK~~y~~~A~~~k~~y~ 619 (642)
.++.++|-.=.....+++..|.
T Consensus 244 k~~keeRla~v~~GRe~R~kf~ 265 (324)
T PF05285_consen 244 KQDKEERLASVKEGREDREKFG 265 (324)
T ss_pred hhhHHHHHHHHHcCccchhhhc
Confidence 3444444433334444444553
Done!