Query 008035
Match_columns 580
No_of_seqs 294 out of 615
Neff 5.5
Searched_HMMs 46136
Date Thu Mar 28 18:37:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008035.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008035hhsearch_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-165 3E-170 1305.8 44.7 552 1-577 1-555 (615)
2 COG5165 POB3 Nucleosome-bindin 100.0 7E-132 2E-136 1009.9 36.2 488 5-503 3-496 (508)
3 PF03531 SSrecog: Structure-sp 100.0 2.1E-83 4.5E-88 634.1 9.4 222 74-295 1-222 (222)
4 KOG1189 Global transcriptional 100.0 1.2E-32 2.6E-37 302.1 17.1 218 211-440 607-841 (960)
5 COG5406 Nucleosome binding fac 100.0 4.5E-29 9.6E-34 269.4 24.8 233 195-441 637-894 (1001)
6 PF08512 Rtt106: Histone chape 99.9 4.7E-28 1E-32 211.7 9.1 92 348-441 1-95 (95)
7 PTZ00199 high mobility group p 98.5 2.3E-08 5E-13 87.5 1.2 33 545-577 10-42 (94)
8 COG5648 NHP6B Chromatin-associ 97.8 2.3E-06 5E-11 84.3 -1.2 31 547-577 60-90 (211)
9 KOG0381 HMG box-containing pro 96.8 0.0004 8.6E-09 60.2 0.4 25 554-578 17-43 (96)
10 PF09011 HMG_box_2: HMG-box do 96.5 0.0005 1.1E-08 57.1 -0.5 23 555-577 1-23 (73)
11 PF14470 bPH_3: Bacterial PH d 96.1 0.05 1.1E-06 46.5 9.4 77 350-433 10-96 (96)
12 cd01390 HMGB-UBF_HMG-box HMGB- 95.8 0.002 4.2E-08 51.6 -0.5 20 558-577 1-20 (66)
13 KOG0526 Nucleosome-binding fac 95.7 0.013 2.7E-07 65.2 5.0 46 96-141 6-53 (615)
14 PF08512 Rtt106: Histone chape 95.6 0.045 9.7E-07 48.1 7.1 73 18-92 10-88 (95)
15 PF00505 HMG_box: HMG (high mo 95.5 0.0026 5.7E-08 51.4 -0.7 20 558-577 1-20 (69)
16 cd00084 HMG-box High Mobility 95.2 0.0045 9.8E-08 49.1 -0.5 20 558-577 1-20 (66)
17 PF05764 YL1: YL1 nuclear prot 95.0 0.018 3.9E-07 58.8 3.2 10 478-487 37-46 (240)
18 smart00398 HMG high mobility g 95.0 0.0056 1.2E-07 49.2 -0.4 21 557-577 1-21 (70)
19 cd01388 SOX-TCF_HMG-box SOX-TC 94.1 0.011 2.3E-07 49.0 -0.6 20 558-577 2-21 (72)
20 PF14470 bPH_3: Bacterial PH d 90.7 1.8 3.9E-05 36.8 8.6 74 17-91 20-96 (96)
21 KOG3064 RNA-binding nuclear pr 90.1 0.16 3.5E-06 52.1 1.9 16 490-505 236-251 (303)
22 COG0779 Uncharacterized protei 87.7 5.7 0.00012 38.2 10.5 89 47-141 24-149 (153)
23 KOG3064 RNA-binding nuclear pr 86.8 0.2 4.4E-06 51.4 0.0 10 493-502 245-254 (303)
24 PF08567 TFIIH_BTF_p62_N: TFII 85.9 1.8 4E-05 36.9 5.4 52 18-69 11-67 (79)
25 PF04283 CheF-arch: Chemotaxis 82.4 30 0.00064 35.2 13.3 149 16-174 23-197 (221)
26 PRK14646 hypothetical protein; 78.3 21 0.00046 34.3 10.2 91 47-142 23-151 (155)
27 COG5165 POB3 Nucleosome-bindin 76.4 9.1 0.0002 41.5 7.6 54 39-92 376-435 (508)
28 PF04931 DNA_pol_phi: DNA poly 76.3 3.6 7.8E-05 49.0 5.3 17 418-434 619-635 (784)
29 PF08644 SPT16: FACT complex s 75.0 5.6 0.00012 38.2 5.2 30 206-235 118-152 (152)
30 PRK14630 hypothetical protein; 71.6 35 0.00075 32.4 9.6 89 47-141 24-142 (143)
31 PF04147 Nop14: Nop14-like fam 69.8 3.4 7.3E-05 49.7 3.0 12 419-430 276-287 (840)
32 PRK14637 hypothetical protein; 69.0 54 0.0012 31.5 10.4 90 46-141 23-145 (151)
33 PF02893 GRAM: GRAM domain; I 65.8 11 0.00023 30.6 4.3 38 351-388 19-66 (69)
34 PF08567 TFIIH_BTF_p62_N: TFII 65.4 30 0.00065 29.5 7.1 55 352-411 6-67 (79)
35 PF10446 DUF2457: Protein of u 64.4 2.7 5.9E-05 46.4 0.7 19 560-578 204-222 (458)
36 smart00568 GRAM domain in gluc 60.0 15 0.00032 28.9 4.1 38 351-388 12-58 (61)
37 KOG2573 Ribosome biogenesis pr 59.9 3.8 8.1E-05 44.9 0.8 10 425-434 368-377 (498)
38 PTZ00449 104 kDa microneme/rho 59.7 22 0.00047 40.6 6.5 41 28-70 79-123 (943)
39 KOG2038 CAATT-binding transcri 59.4 9.6 0.00021 45.0 3.9 11 188-198 574-584 (988)
40 PRK14634 hypothetical protein; 58.0 89 0.0019 30.0 9.7 91 47-142 23-151 (155)
41 PF07622 DUF1583: Protein of u 56.7 93 0.002 34.4 10.5 44 98-141 83-126 (399)
42 PF06524 NOA36: NOA36 protein; 56.5 13 0.00028 38.7 3.9 10 400-409 221-230 (314)
43 KOG0527 HMG-box transcription 56.2 4.4 9.6E-05 43.6 0.6 24 553-576 58-81 (331)
44 KOG3248 Transcription factor T 55.0 3.6 7.8E-05 44.0 -0.3 19 558-576 192-210 (421)
45 KOG1832 HIV-1 Vpr-binding prot 51.6 13 0.00028 44.7 3.3 13 379-391 1348-1360(1516)
46 PRK14640 hypothetical protein; 51.0 1.6E+02 0.0034 28.2 10.2 89 47-141 22-147 (152)
47 PRK14638 hypothetical protein; 50.8 1.1E+02 0.0024 29.3 9.0 89 47-141 24-146 (150)
48 PRK14631 hypothetical protein; 49.7 1.1E+02 0.0024 30.1 9.0 95 47-141 24-170 (174)
49 KOG0528 HMG-box transcription 49.4 6.2 0.00013 44.1 0.4 23 554-576 322-344 (511)
50 PF02893 GRAM: GRAM domain; I 49.2 30 0.00064 27.9 4.3 36 105-140 27-66 (69)
51 PF03703 bPH_2: Bacterial PH d 48.3 30 0.00065 28.0 4.3 57 374-431 22-80 (80)
52 PRK14647 hypothetical protein; 48.0 1.3E+02 0.0028 29.0 9.1 90 47-141 24-155 (159)
53 PF13619 KTSC: KTSC domain 47.9 45 0.00097 26.7 5.0 42 44-87 2-43 (60)
54 PF02724 CDC45: CDC45-like pro 47.8 12 0.00027 43.4 2.5 9 433-441 96-104 (622)
55 PF14317 YcxB: YcxB-like prote 46.4 38 0.00083 25.9 4.4 62 25-90 1-62 (62)
56 PF14844 PH_BEACH: PH domain a 45.2 67 0.0015 28.1 6.3 59 18-77 16-92 (106)
57 PF10446 DUF2457: Protein of u 45.0 19 0.00041 40.1 3.2 10 555-564 184-193 (458)
58 PF09073 BUD22: BUD22; InterP 43.9 32 0.0007 38.2 4.9 19 422-440 132-151 (432)
59 PF14844 PH_BEACH: PH domain a 43.4 1.2E+02 0.0026 26.5 7.6 69 355-428 14-102 (106)
60 KOG0127 Nucleolar protein fibr 42.7 18 0.0004 41.2 2.7 14 423-436 170-183 (678)
61 KOG3241 Uncharacterized conser 41.7 21 0.00046 35.2 2.6 25 478-502 190-214 (227)
62 COG4687 Uncharacterized protei 40.4 50 0.0011 30.4 4.6 74 18-94 22-98 (122)
63 PF12462 Helicase_IV_N: DNA he 40.3 1.1E+02 0.0023 29.7 7.2 70 22-93 19-89 (166)
64 PF08000 bPH_1: Bacterial PH d 40.2 2.2E+02 0.0048 26.5 9.0 78 351-431 33-119 (124)
65 PF03517 Voldacs: Regulator of 38.9 1.4E+02 0.0031 27.8 7.6 84 110-201 1-105 (135)
66 COG5406 Nucleosome binding fac 37.0 24 0.00052 41.0 2.5 25 369-393 713-738 (1001)
67 KOG2270 Serine/threonine prote 36.8 7.9 0.00017 42.8 -1.2 42 191-233 135-180 (520)
68 KOG1189 Global transcriptional 35.4 26 0.00057 41.4 2.6 25 476-500 883-907 (960)
69 PF06524 NOA36: NOA36 protein; 33.8 58 0.0013 34.1 4.4 14 379-392 121-134 (314)
70 PRK14636 hypothetical protein; 32.6 2.8E+02 0.0061 27.3 8.9 92 47-141 21-149 (176)
71 PHA02664 hypothetical protein; 31.7 46 0.00099 35.8 3.4 26 80-105 60-85 (534)
72 PF10756 bPH_6: Bacterial PH d 31.7 68 0.0015 26.4 3.8 56 22-81 3-58 (73)
73 PF02576 DUF150: Uncharacteris 31.4 3.6E+02 0.0078 25.1 9.1 90 47-141 12-141 (141)
74 KOG2038 CAATT-binding transcri 30.6 44 0.00095 39.8 3.3 16 419-434 831-847 (988)
75 KOG2422 Uncharacterized conser 30.4 29 0.00062 40.1 1.8 6 553-558 135-140 (665)
76 KOG0296 Angio-associated migra 30.3 1.2E+02 0.0025 33.4 6.2 61 5-75 114-176 (399)
77 KOG0127 Nucleolar protein fibr 29.2 41 0.00089 38.5 2.7 7 563-569 336-342 (678)
78 TIGR02888 spore_YlmC_YmxH spor 28.5 1.5E+02 0.0033 25.2 5.4 51 202-252 12-67 (76)
79 KOG4264 Nucleo-cytoplasmic pro 27.6 44 0.00095 38.1 2.6 14 488-501 85-98 (694)
80 COG4909 PduC Propanediol dehyd 27.5 52 0.0011 35.9 3.0 45 56-101 33-77 (554)
81 KOG0943 Predicted ubiquitin-pr 26.8 38 0.00083 42.2 2.0 21 124-144 1230-1250(3015)
82 PF06115 DUF956: Domain of unk 26.6 1.9E+02 0.0042 26.8 6.1 76 18-96 22-101 (118)
83 PF03115 Astro_capsid: Astrovi 25.6 23 0.0005 42.3 0.0 19 400-418 574-592 (787)
84 COG4343 CRISPR-associated prot 25.1 21 0.00046 37.1 -0.4 31 99-138 21-51 (281)
85 PF13619 KTSC: KTSC domain 24.8 84 0.0018 25.1 3.1 27 403-429 17-43 (60)
86 PF08208 RNA_polI_A34: DNA-dir 24.4 25 0.00055 34.7 0.0 7 284-290 9-15 (198)
87 TIGR00648 recU recombination p 23.9 1.1E+02 0.0025 30.0 4.4 76 363-438 16-106 (169)
88 PF14317 YcxB: YcxB-like prote 23.7 1.6E+02 0.0034 22.3 4.5 30 228-257 1-30 (62)
89 PRK00092 ribosome maturation p 22.8 6.6E+02 0.014 23.8 9.8 90 47-141 23-150 (154)
90 cd01201 Neurobeachin Neurobeac 22.7 62 0.0013 29.6 2.1 61 17-78 16-93 (108)
91 PF15406 PH_6: Pleckstrin homo 22.7 1.5E+02 0.0032 27.3 4.5 49 375-433 63-111 (112)
92 cd01794 DC_UbP_C dendritic cel 22.3 1.3E+02 0.0028 24.7 3.9 46 62-107 1-46 (70)
93 PF10278 Med19: Mediator of RN 21.4 55 0.0012 32.4 1.7 6 372-377 69-74 (178)
94 PF04683 Proteasom_Rpn13: Prot 21.0 3.1E+02 0.0067 23.7 6.1 39 18-59 14-61 (85)
95 PF01867 Cas_Cas1: CRISPR asso 20.6 1.4E+02 0.0031 30.9 4.7 36 109-144 7-43 (282)
96 cd00836 FERM_C FERM_C domain. 20.6 3.2E+02 0.007 23.2 6.2 50 375-432 34-85 (92)
97 PTZ00449 104 kDa microneme/rho 20.5 2.9E+02 0.0063 32.0 7.1 20 51-70 81-101 (943)
98 KOG3540 Beta amyloid precursor 20.0 78 0.0017 35.9 2.6 17 426-442 155-171 (615)
No 1
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=100.00 E-value=1.5e-165 Score=1305.84 Aligned_cols=552 Identities=47% Similarity=0.756 Sum_probs=490.1
Q ss_pred CCCCCcccceEecCCCCCCCeeEEEecCceeEEeCCCCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChh
Q 008035 1 MTDGPSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQ 80 (580)
Q Consensus 1 M~~~~~f~~I~~~~~g~~~~G~lk~~~~gl~wK~~~~g~~~~i~~~di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~ 80 (580)
||++++|++||++++|+..+|+|||+++||+||+++||++++|+++||..+.|+|++|+|+|||.+++|++|+|+||+++
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 hHHHHHHHHHhhcCCCCceeeeeeeeeeeeeeEecCceEEEEeCCEEEEEEecccccccccccCCeEEEEEecCCCCCCC
Q 008035 81 DVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGAN 160 (580)
Q Consensus 81 d~~~l~~~~~~~~~~~l~~~els~~GwNwG~~~~~~~~l~f~v~~k~~feip~~~is~~~~~~KnEv~lef~~~d~~~~~ 160 (580)
|++.|++||+++|++++++++||++|||||++.|.|+.|+|.+++||+|||||++|||| ++|||||+||||++|++
T Consensus 81 d~~~L~~ff~~~~~~~i~qkel~ikGwNwGea~~~G~~l~F~~~skpiFEIP~s~Vsn~-l~gKNEv~LEFh~nDda--- 156 (615)
T KOG0526|consen 81 DLEKLKSFFSSNFSITIEQKELSIKGWNWGEADFKGQELVFDVNSKPIFEIPLSDVSNT-LTGKNEVTLEFHQNDDA--- 156 (615)
T ss_pred HHHHHHHHHHHhhccchhhheeeecccccccccccCcEEEEeeCCceeEEeehhhhhhh-hcCCceEEEEEeccCCC---
Confidence 99999999999999999999999999999999999999999999999999999999999 77999999999999984
Q ss_pred CCCceEEEEEEecCCCCcCCCCCCCChHHHHHHHHHhhccccccCCceeEEecCceeeCCCcceEEEEecccEEEecccc
Q 008035 161 EKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQAN 240 (580)
Q Consensus 161 ~~d~L~EmRF~vP~~~~~~~~de~~~~a~~f~~~i~~kA~i~~~~gd~i~~f~dI~~~tPRGRydie~~~~~lrl~gkt~ 240 (580)
+.+|||||||||.+.. .| |+++++++|+++|+++|++++++|++||+|++|+|+||||||+|+||+++||||||||
T Consensus 157 -~~~LmEmRF~iP~d~~--~g-ed~~~~e~F~~~v~~kAdv~~~~gdaI~~f~~i~~lTPRGRYdI~iy~t~lrL~GkTy 232 (615)
T KOG0526|consen 157 -PVGLMEMRFHIPEDQE--DG-EDRDKVEAFYENVLAKADVSSAVGDAIVSFEEILCLTPRGRYDIKIYPTFLRLHGKTY 232 (615)
T ss_pred -CcceEEEEEecCcccc--cc-ccccHHHHHHHHHHHhcCcccccCCceEEeeeeeeecCCccceeEEehhhhhhccccc
Confidence 6779999999996543 22 4579999999999999999999999999999999999999999999999999999999
Q ss_pred eeEeecCceeEEEecccCCCCcEEEEEecCCcccCCCccCceEEEEEeccceeeecccCCHHHHhhHhhhccccccccch
Q 008035 241 DFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLI 320 (580)
Q Consensus 241 dykI~y~~I~rlFlLP~pd~~~~~~vi~Ld~PIrqGqTry~~lV~qF~~ee~~~~elnl~eeeleeky~~~L~~~~~g~~ 320 (580)
||||||++|.|||+||++|++|+||||+|+||||||||||||||+||.++++++++|++++|+|+++|+++|+++|+||+
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 HHHHHHHHhhhcCCeeeccCCcccCCCCceeEeeccCceeEEEeccCceeeccCCcEEEEcCceeEEEEEEecCCCccee
Q 008035 321 HEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMH 400 (580)
Q Consensus 321 ~ev~~~v~k~l~~~ki~~P~~F~s~~g~~~VkCs~KA~~G~LyPLe~~flfl~KPp~~I~~~eI~~V~f~Rv~~~~~~~r 400 (580)
||||++||++|||+|||+||.|.|+.|++||+|++||++|+||||++|||||||||+||+|+||++|+|+|++.+++++|
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 99999999999999999999999999999999999999999999999999999999999999999999999986666779
Q ss_pred eEEEEEEEeCCceEEEeecChhhhhhHHHHHhcCCceEeeCCCcccccch-hhccccCCCCCCChhHHHhhccCCCCCCC
Q 008035 401 YFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGV-AAVLQEDDDDAVDPHLERIKNEAGGDESD 479 (580)
Q Consensus 401 TFDl~V~~K~g~~~~Fs~I~reE~~~L~~fl~~k~lki~n~~~~~~~~~~-~~~~~~~~d~~~d~~~~~~~~~~~dddd~ 479 (580)
||||+|++|+|++|+|++|+|+||..|++||++|+|+|+|++.+.+...+ +.+.+++.++++| .+.++.||++
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 99999999999999999999999999999999999999999653221122 2222333222221 1223446778
Q ss_pred ccCCCCcC--CCCCCCCCCCCCCCCCCCCCcCCCCCCccccccccccccccccccccccCCCCCcccccccccCCCCCCC
Q 008035 480 EEDSDFVA--DKDDGGSPTDDSGEEDSDASESGGEKEKPAKKESKKESSSVKASTSKKKSRDGDEDGKKKKQKKKKDPNA 557 (580)
Q Consensus 480 eeDedF~~--s~sd~~ee~Ds~~~~~~~~~~~~~~~~~~~~k~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~kk~kdp~a 557 (580)
|+||||+. +++||+|||||+ +.+|++++.+++ ++++++++. +|| |.+++.+ +++++|+.||+|||||
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 EEDEDFKPGEEDDDVAEEFDSD-EADSSDEEGDSD--EPKKERSSE----KKP-KREKKEK---EKEKKKKGKKKKDPNA 535 (615)
T ss_pred hhhhhcccCccccccccccCCc-ccccccccCCcc--ccccccccc----ccc-hhhhHhh---hhccccCcccCCCCCC
Confidence 99999996 456799999993 333333332222 232222221 111 1122222 1234467788899999
Q ss_pred CCCCCchhhhcccccccccc
Q 008035 558 PKRAMSGFIFFSQMEREVGS 577 (580)
Q Consensus 558 PKr~~sa~~~f~~~~r~~~~ 577 (580)
||||+||||||+++.|.+||
T Consensus 536 pkra~sa~m~w~~~~r~~ik 555 (615)
T KOG0526|consen 536 PKRATSAYMLWLNASRESIK 555 (615)
T ss_pred CccchhHHHHHHHhhhhhHh
Confidence 99999999999999999987
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=6.9e-132 Score=1009.85 Aligned_cols=488 Identities=33% Similarity=0.598 Sum_probs=455.3
Q ss_pred CcccceEecCCCCCCCeeEEEecCceeEEeCC-CCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHH
Q 008035 5 PSFNNISLGGRGGTNPGQLKIYSGKISWKKLG-GGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVA 83 (580)
Q Consensus 5 ~~f~~I~~~~~g~~~~G~lk~~~~gl~wK~~~-~g~~~~i~~~di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~ 83 (580)
..|++||+++ +.-+|++||+.+|||||.+. .-+++|++.++|+.++|+|++|||.|+|.+++..+|.+|||.++|++
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 89999999999999999543 34799999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCceeeeeeeeeeeeeeEecCceEEEEeCCEEEEEEecccccccccccCCeEEEEEecCCCCCCCCCC
Q 008035 84 TLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKD 163 (580)
Q Consensus 84 ~l~~~~~~~~~~~l~~~els~~GwNwG~~~~~~~~l~f~v~~k~~feip~~~is~~~~~~KnEv~lef~~~d~~~~~~~d 163 (580)
.|++.|+++|+|.+++||||++|||||++.|.|+.++|.+|+||+||||+++|.|+|+++||||+|||...|.....++|
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 99999999999999999999999999999999999999999999999999999999999999999999877776778899
Q ss_pred ceEEEEEEecCCCCcCCC---C-CCCChHHHHHHHHHhhccccccCCceeEEecCceeeCCCcceEEEEecccEEEeccc
Q 008035 164 SLMEISFHIPNSNTQFVG---D-ENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQA 239 (580)
Q Consensus 164 ~L~EmRF~vP~~~~~~~~---d-e~~~~a~~f~~~i~~kA~i~~~~gd~i~~f~dI~~~tPRGRydie~~~~~lrl~gkt 239 (580)
+|||||||+|++.+++++ + -+++.|++||+.|+++|+||+++||+|++|++|+++||||||+|+||.++|||+|||
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 999999999997655432 1 246899999999999999999999999999999999999999999999999999999
Q ss_pred ceeEeecCceeEEEecccCCCCcEEEEEecCCcccCCCccCceEEEEEeccceeeecccCCHHHHhhHhhhccccccccc
Q 008035 240 NDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGL 319 (580)
Q Consensus 240 ~dykI~y~~I~rlFlLP~pd~~~~~~vi~Ld~PIrqGqTry~~lV~qF~~ee~~~~elnl~eeeleeky~~~L~~~~~g~ 319 (580)
|||||.|++|+++|+||++++.|+++||+++||||||||||||||+||.++++++++||+.++.++++|+++|+.+|.|+
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 hHHHHHHHHhhhcCCeeeccCCcccCCCCceeEeeccCceeEEEeccCceeeccCCcEEEEcCceeEEEEEEecCCCcce
Q 008035 320 IHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNM 399 (580)
Q Consensus 320 ~~ev~~~v~k~l~~~ki~~P~~F~s~~g~~~VkCs~KA~~G~LyPLe~~flfl~KPp~~I~~~eI~~V~f~Rv~~~~~~~ 399 (580)
+++||+++|++||++|+++|+.|.|+.|+.||+|++|||+|+||||++||+|++||+++++++||+.|+|+|+|.+++++
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 99999999999999999999999999999999999999999999999999999999999999999999999999888888
Q ss_pred eeEEEEEEEeCCceEEEeecChhhhhhHHHHHhcCCceEeeCCCcccccchhhccccCCCCCCChhHHHhhccCCCCCCC
Q 008035 400 HYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGDESD 479 (580)
Q Consensus 400 rTFDl~V~~K~g~~~~Fs~I~reE~~~L~~fl~~k~lki~n~~~~~~~~~~~~~~~~~~d~~~d~~~~~~~~~~~dddd~ 479 (580)
|||||++++++++.++|++|+|+|+..|.+||.+|||+++|+ +.++ +...++.+..|++ ++.++++.++|+
T Consensus 401 rTFDlt~~lrs~~sytF~nisk~Eq~aLeqfl~sK~ik~~ne-~~~e--~~qt~lgs~sD~E------d~~~~~~~eede 471 (508)
T COG5165 401 RTFDLTLFLRSPGSYTFNNISKDEQGALEQFLHSKGIKARNE-EVQE--RLQTDLGSISDSE------DINMGSAGEEDE 471 (508)
T ss_pred ceeeEEEEEecCCceeecCcCHHHHHHHHHHHhccCceecch-hhhh--hhhhccccccchh------hhcccccccccc
Confidence 999999999999999999999999999999999999999998 2122 2333343322221 255677788999
Q ss_pred ccCCCCcC-CCCCCCCCCCCCCCCC
Q 008035 480 EEDSDFVA-DKDDGGSPTDDSGEED 503 (580)
Q Consensus 480 eeDedF~~-s~sd~~ee~Ds~~~~~ 503 (580)
++|||||. ++||||||||+++..+
T Consensus 472 sedEdfq~~sdsDvaeEyD~~a~~s 496 (508)
T COG5165 472 SEDEDFQMVSDSDVAEEYDLQAALS 496 (508)
T ss_pred ccccccceeeccchhhhhccchhhc
Confidence 99999996 8999999999998653
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=2.1e-83 Score=634.09 Aligned_cols=222 Identities=49% Similarity=0.863 Sum_probs=111.6
Q ss_pred EcCCChhhHHHHHHHHHhhcCCCCceeeeeeeeeeeeeeEecCceEEEEeCCEEEEEEecccccccccccCCeEEEEEec
Q 008035 74 FTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHV 153 (580)
Q Consensus 74 fdGF~~~d~~~l~~~~~~~~~~~l~~~els~~GwNwG~~~~~~~~l~f~v~~k~~feip~~~is~~~~~~KnEv~lef~~ 153 (580)
||||+++|+++|++||++||+++|+++|||++|||||+++|+|++|+|.|+|||||||||++|||||++|||||+||||+
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 CCCCCCCCCCceEEEEEEecCCCCcCCCCCCCChHHHHHHHHHhhccccccCCceeEEecCceeeCCCcceEEEEecccE
Q 008035 154 DDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFL 233 (580)
Q Consensus 154 ~d~~~~~~~d~L~EmRF~vP~~~~~~~~de~~~~a~~f~~~i~~kA~i~~~~gd~i~~f~dI~~~tPRGRydie~~~~~l 233 (580)
+|++..+++|+|||||||||+++.+..+|++.++|++|+++||++|+|++++|++||+|++|+|+||||||+|+||+++|
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 99876557899999999999986555556778999999999999999999999999999999999999999999999999
Q ss_pred EEecccceeEeecCceeEEEecccCCCCcEEEEEecCCcccCCCccCceEEEEEeccceeee
Q 008035 234 RLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQS 295 (580)
Q Consensus 234 rl~gkt~dykI~y~~I~rlFlLP~pd~~~~~~vi~Ld~PIrqGqTry~~lV~qF~~ee~~~~ 295 (580)
|||||||||||+|++|.|+|+||+||++|++|||+|+|||||||||||||||||.+++++++
T Consensus 161 rl~GktyDykI~y~~I~rlflLpk~d~~~~~~Vi~LdpPiRQGQT~Y~~lV~qf~~de~~~~ 222 (222)
T PF03531_consen 161 RLHGKTYDYKIQYSSISRLFLLPKPDDRHVFFVISLDPPIRQGQTRYPFLVMQFSKDEEVEV 222 (222)
T ss_dssp EEEESSBEEEEEGGGEEEEEEEE-TTSSEEEEEEEEEEEEEETTEEEEEEEEEEETT-EEE-
T ss_pred ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCC
Confidence 99999999999999999999999999999999999999999999999999999999987753
No 4
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=100.00 E-value=1.2e-32 Score=302.12 Aligned_cols=218 Identities=16% Similarity=0.225 Sum_probs=167.2
Q ss_pred EecCceeeCC-Ccc---eEEEEecccEEEecc-cceeEeecCceeEEEecccCCCCcEEEEEecCCcccCCCccCceEEE
Q 008035 211 TFEGIAILTP-RGR---YSVELHLSFLRLQGQ-ANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVL 285 (580)
Q Consensus 211 ~f~dI~~~tP-RGR---ydie~~~~~lrl~gk-t~dykI~y~~I~rlFlLP~pd~~~~~~vi~Ld~PIrqGqTry~~lV~ 285 (580)
.|.||.+-+| +|| ..|++|.||||+.+- .-.++|+|+||+|+|||||..++.+++||||.+||+.|++++. .+
T Consensus 607 ~L~dlyiRp~i~~Kr~~G~lEaH~NGfRy~s~R~~~vdiLfsNIKhafFqpc~~Emi~llHfHLknpIm~GkkK~~--dV 684 (960)
T KOG1189|consen 607 KLKDLYIRPNIDTKRIPGSLEAHENGFRYQSLRDERVDILFSNIKHAFFQPCEGEMIILLHFHLKNPIMVGKKKTK--DV 684 (960)
T ss_pred chhheEecCCccccccccceeeecCceeeeeccccchhhhhhhhhhhhcCccccceeeEeeehhccceeeccccee--ee
Confidence 8999999776 544 999999999999983 2479999999999999999999999999999999999999986 99
Q ss_pred EEeccc-eeeeccc-----CCHHHHhh-HhhhccccccccchHHHHHHHHhhhcCCee--eccCCcccCCCCceeEeecc
Q 008035 286 QFETDY-VVQSELL-----MSEELLNT-KYKDKLEPSYKGLIHEVFTTILRGLSGAKI--TKPGKFRSAQDGYAVKSSLK 356 (580)
Q Consensus 286 qF~~ee-~~~~eln-----l~eeelee-ky~~~L~~~~~g~~~ev~~~v~k~l~~~ki--~~P~~F~s~~g~~~VkCs~K 356 (580)
||+++. ++.-++. .++++|+. +.++..+..++. .|.-|+.....++.-.+ .+|-.=.+.+|.| ++
T Consensus 685 QFY~Ev~div~dlg~~~~~~D~del~~EQ~Er~rr~~ln~-~FksF~~kv~~~~~~~~efd~pfr~lGF~GvP-----~r 758 (960)
T KOG1189|consen 685 QFYREVGDIVTDLGKRRRMGDRDELEQEQEERDRRAKLNM-AFKSFAEKVAEATESELEFDVPFRELGFNGVP-----FR 758 (960)
T ss_pred eeeehhhhHHHhhccCccccchHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhccceeeccchhhcCcCCCC-----cc
Confidence 999984 3333332 25555543 222222222221 23344444444443333 2344333444443 33
Q ss_pred CceeEEEeccCceeeccCCc-EEEEcCceeEEEEEEecCCCcceeeEEEEEEEeC--CceEEEeecChhhhhhHHHHHhc
Q 008035 357 AEDGVLYPLEKSFFFLPKPP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT--EQEHLFRNIQRNEYHNLFDFISG 433 (580)
Q Consensus 357 A~~G~LyPLe~~flfl~KPp-~~I~~~eI~~V~f~Rv~~~~~~~rTFDl~V~~K~--g~~~~Fs~I~reE~~~L~~fl~~ 433 (580)
+ ..+|.|+..||+.+..+| ++|.++||+.|+|+||+++. |||||++++|+ ..+.++++||.+.+++|++||.+
T Consensus 759 s-sv~i~pTs~cLV~LtE~P~~VvtL~eVEiv~~ERV~f~l---KnfDmvfIfKd~~k~v~~i~svp~~sLd~iKEWLds 834 (960)
T KOG1189|consen 759 S-SVFIQPTSSCLVNLTEWPFFVVTLEEVEIVNLERVQFGL---KNFDMVFIFKDFKKKVTMINSVPMESLDKLKEWLDS 834 (960)
T ss_pred c-eeeeecchhhhhccccCCceEEeecceeeeeeeeeeecc---ccceEEEEeccccccceeeeccchhhhhHHHHhhhc
Confidence 3 678899999999999866 58999999999999999877 99999999998 46899999999999999999999
Q ss_pred CCceEee
Q 008035 434 KGLKIMN 440 (580)
Q Consensus 434 k~lki~n 440 (580)
++|++.-
T Consensus 835 cDI~y~E 841 (960)
T KOG1189|consen 835 CDIKYTE 841 (960)
T ss_pred ccceeec
Confidence 9999985
No 5
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=99.97 E-value=4.5e-29 Score=269.43 Aligned_cols=233 Identities=16% Similarity=0.233 Sum_probs=173.0
Q ss_pred HHhhccccccCCceeEEecCcee-eCCCcc---eEEEEecccEEEeccc---ceeEeecCceeEEEecccCCCCcEEEEE
Q 008035 195 IMSMADVGAGGEEAVVTFEGIAI-LTPRGR---YSVELHLSFLRLQGQA---NDFKIQYSSVVRLFLLPKSNQPHTFVVV 267 (580)
Q Consensus 195 i~~kA~i~~~~gd~i~~f~dI~~-~tPRGR---ydie~~~~~lrl~gkt---~dykI~y~~I~rlFlLP~pd~~~~~~vi 267 (580)
++++-.+++..-..-..+.++.+ .-|+|| ..|++|+|+||+++.- ..++|+|+||+|+||+||..+..+++||
T Consensus 637 v~eqdKlie~k~~rt~~~~~~~vRp~~d~KR~pg~~eiHeNGiRfqsplrsds~idiLFSNikhlfFq~c~gEliviiH~ 716 (1001)
T COG5406 637 VLEQDKLIERKLSRTDVYMKTDVRPGSDGKRKPGNLEIHENGIRFQSPLRSDSHIDILFSNIKHLFFQECNGELIVIIHF 716 (1001)
T ss_pred HHhhhhhhhccccccchhhhcccccCCCcCccCccEEEecCceeecCCcccCceeEEeeccchhheeccCCceEEEEEEE
Confidence 34444444444555566677766 556766 8999999999999962 3689999999999999999999999999
Q ss_pred ecCCcccCCCccCceEEEEEeccc-eeeeccc---------CCHHHHhhHhhhccccccccchHHHHHHHHhhhc-C---
Q 008035 268 TLDPPIRKGQTLYPHIVLQFETDY-VVQSELL---------MSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLS-G--- 333 (580)
Q Consensus 268 ~Ld~PIrqGqTry~~lV~qF~~ee-~~~~eln---------l~eeeleeky~~~L~~~~~g~~~ev~~~v~k~l~-~--- 333 (580)
||.+||+.|+.+.. .+||+++. .+.+.-. -+++|+++..+.|-++.--...|.-|+..+...+ |
T Consensus 717 HLk~PIl~GkrKvq--dVQFYREasd~~vdeTg~~~rk~~ygdedElEqEqeerrrraald~eFksFa~~Iaeas~gri~ 794 (1001)
T COG5406 717 HLKSPILTGKRKVQ--DVQFYREASDTMVDETGKRGRKEHYGDEDELEQEQEERRRRAALDQEFKSFASSIAEASEGRIE 794 (1001)
T ss_pred eecCceecCCceee--eeeeeecccccchhhhccccchhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceE
Confidence 99999999998876 89999985 2322221 2455665432222111111122333444333333 2
Q ss_pred CeeeccC-CcccCCCCceeEeeccCceeEEEeccCceeeccCCcE-EEEcCceeEEEEEEecCCCcceeeEEEEEEEeC-
Q 008035 334 AKITKPG-KFRSAQDGYAVKSSLKAEDGVLYPLEKSFFFLPKPPT-LILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT- 410 (580)
Q Consensus 334 ~ki~~P~-~F~s~~g~~~VkCs~KA~~G~LyPLe~~flfl~KPp~-~I~~~eI~~V~f~Rv~~~~~~~rTFDl~V~~K~- 410 (580)
.++..|. .|.+..-..+| +|.|+..||+-+..||+ +|.+++|+.|+|+||.+|. +||||++++++
T Consensus 795 ~~~~fr~lgF~GVPfRs~V---------~~~pTtdCLVqL~e~Pf~VitLeevEi~~lERVqfgl---KnfD~vFi~~df 862 (1001)
T COG5406 795 FKVQFRKLGFYGVPFRSSV---------MIKPTTDCLVQLDEAPFFVITLEEVEIVNLERVQFGL---KNFDVVFILRDF 862 (1001)
T ss_pred EeeechhccccCCccccce---------eeecchhheeeccCCceEEEEecceeEEeeeeEEeec---ccceEEEEeccc
Confidence 2444444 56665555544 45999999999999996 8999999999999999877 99999999998
Q ss_pred -CceEEEeecChhhhhhHHHHHhcCCceEeeC
Q 008035 411 -EQEHLFRNIQRNEYHNLFDFISGKGLKIMNL 441 (580)
Q Consensus 411 -g~~~~Fs~I~reE~~~L~~fl~~k~lki~n~ 441 (580)
...+++++||.+.++.|++||.+++|-++-.
T Consensus 863 ~rp~vhIntvpvesld~lKewLds~di~f~e~ 894 (1001)
T COG5406 863 YRPLVHINTVPVESLDKLKEWLDSNDILFMET 894 (1001)
T ss_pred cCCcceeccccHHHHHHHHHHhhhcCceeEec
Confidence 5788999999999999999999999998853
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=99.95 E-value=4.7e-28 Score=211.71 Aligned_cols=92 Identities=48% Similarity=0.752 Sum_probs=81.6
Q ss_pred CceeEeeccCceeEEEeccCceee-ccCCcEEEEcCceeEEEEEEecCCCcceeeEEEEEEEeC--CceEEEeecChhhh
Q 008035 348 GYAVKSSLKAEDGVLYPLEKSFFF-LPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT--EQEHLFRNIQRNEY 424 (580)
Q Consensus 348 ~~~VkCs~KA~~G~LyPLe~~flf-l~KPp~~I~~~eI~~V~f~Rv~~~~~~~rTFDl~V~~K~--g~~~~Fs~I~reE~ 424 (580)
++||+|++||++|+||||++||+| ++||+++|+++||+.|+|+|++ +.++|||||+|++|+ +++++|+||+++|+
T Consensus 1 f~~V~c~~ka~~g~L~pl~~~l~f~~~kP~~~i~~~dI~~v~feRv~--~~~~ktFDl~v~~k~~~~~~~~fs~I~~~e~ 78 (95)
T PF08512_consen 1 FYGVKCSYKANEGFLYPLEKCLLFGLEKPPFVIPLDDIESVEFERVS--SFSSKTFDLVVILKDYEGPPHEFSSIDREEY 78 (95)
T ss_dssp -EEEEEEETTEEEEEEEESSEEEEECSSS-EEEEGGGEEEEEEE--E--SSSSSEEEEEEEETT-TS-EEEEEEEEGGGH
T ss_pred CCceeEeccccCEEEEEccceEEEecCCCeEEEEhhHeeEEEEEecc--cCcceEEEEEEEEecCCCCcEEEeeECHHHH
Confidence 368999999999999999999999 8999999999999999999982 223499999999999 89999999999999
Q ss_pred hhHHHHHhcCCceEeeC
Q 008035 425 HNLFDFISGKGLKIMNL 441 (580)
Q Consensus 425 ~~L~~fl~~k~lki~n~ 441 (580)
+.|++||+++||+++|+
T Consensus 79 ~~l~~~l~~~~i~~~~~ 95 (95)
T PF08512_consen 79 DNLKDFLKSKNIKIKNE 95 (95)
T ss_dssp HHHHHHHHHCCHHCCCH
T ss_pred HHHHHHHHHCCCEeecC
Confidence 99999999999999984
No 7
>PTZ00199 high mobility group protein; Provisional
Probab=98.54 E-value=2.3e-08 Score=87.50 Aligned_cols=33 Identities=48% Similarity=0.814 Sum_probs=27.9
Q ss_pred ccccccCCCCCCCCCCCCchhhhcccccccccc
Q 008035 545 KKKKQKKKKDPNAPKRAMSGFIFFSQMEREVGS 577 (580)
Q Consensus 545 ~~~~~kk~kdp~aPKr~~sa~~~f~~~~r~~~~ 577 (580)
+++++|+++|||+||||+|||||||+++|+.|+
T Consensus 10 ~k~~~k~~kdp~~PKrP~sAY~~F~~~~R~~i~ 42 (94)
T PTZ00199 10 VRKNKRKKKDPNAPKRALSAYMFFAKEKRAEII 42 (94)
T ss_pred ccccCCCCCCCCCCCCCCcHHHHHHHHHHHHHH
Confidence 344556679999999999999999999998764
No 8
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=97.84 E-value=2.3e-06 Score=84.32 Aligned_cols=31 Identities=39% Similarity=0.691 Sum_probs=27.6
Q ss_pred ccccCCCCCCCCCCCCchhhhcccccccccc
Q 008035 547 KKQKKKKDPNAPKRAMSGFIFFSQMEREVGS 577 (580)
Q Consensus 547 ~~~kk~kdp~aPKr~~sa~~~f~~~~r~~~~ 577 (580)
...++++|||+||||+||||+||+++|..|+
T Consensus 60 ~~~r~k~dpN~PKRp~sayf~y~~~~R~ei~ 90 (211)
T COG5648 60 RLVRKKKDPNGPKRPLSAYFLYSAENRDEIR 90 (211)
T ss_pred HHHHHhcCCCCCCCchhHHHHHHHHHHHHHH
Confidence 4466789999999999999999999998875
No 9
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=96.76 E-value=0.0004 Score=60.23 Aligned_cols=25 Identities=48% Similarity=0.739 Sum_probs=22.6
Q ss_pred CCC--CCCCCCchhhhccccccccccc
Q 008035 554 DPN--APKRAMSGFIFFSQMEREVGSF 578 (580)
Q Consensus 554 dp~--aPKr~~sa~~~f~~~~r~~~~~ 578 (580)
||+ +||||+||||+||++.|.+++.
T Consensus 17 ~p~~~~pkrp~sa~~~f~~~~~~~~k~ 43 (96)
T KOG0381|consen 17 DPNAQAPKRPLSAFFLFSSEQRSKIKA 43 (96)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHH
Confidence 885 9999999999999999988764
No 10
>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=96.54 E-value=0.0005 Score=57.08 Aligned_cols=23 Identities=30% Similarity=0.469 Sum_probs=19.3
Q ss_pred CCCCCCCCchhhhcccccccccc
Q 008035 555 PNAPKRAMSGFIFFSQMEREVGS 577 (580)
Q Consensus 555 p~aPKr~~sa~~~f~~~~r~~~~ 577 (580)
||.||||+|||+||+.++|.+++
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k 23 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVK 23 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHH
T ss_pred CcCCCCCCCHHHHHHHHHHHHHH
Confidence 89999999999999999998765
No 11
>PF14470 bPH_3: Bacterial PH domain
Probab=96.07 E-value=0.05 Score=46.50 Aligned_cols=77 Identities=22% Similarity=0.342 Sum_probs=60.5
Q ss_pred eeEeecc----CceeEEEeccCceeeccCCc------EEEEcCceeEEEEEEecCCCcceeeEEEEEEEeCCceEEEeec
Q 008035 350 AVKSSLK----AEDGVLYPLEKSFFFLPKPP------TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNI 419 (580)
Q Consensus 350 ~VkCs~K----A~~G~LyPLe~~flfl~KPp------~~I~~~eI~~V~f~Rv~~~~~~~rTFDl~V~~K~g~~~~Fs~I 419 (580)
.+.|.++ ...|+|+.+++=++|+.+.+ .-|++++|.+|++...-.+ .+ +.|.+ ++..++|.+|
T Consensus 10 ~~~~~~~~~~~~~~g~l~~TnkRlif~~~~~~~~~~~~~i~y~~I~~v~~~~g~~~----~~--i~i~~-~~~~~~i~~i 82 (96)
T PF14470_consen 10 VAVGSYNYFFTSFPGVLVLTNKRLIFYSKGMFGGKKFESIPYDDITSVSFKKGILG----GK--ITIET-NGEKIKIDNI 82 (96)
T ss_pred EEEEEEeecccCceeEEEEeCCEEEEEEcccCCCceEEEEEhhheEEEEEEccccc----cE--EEEEE-CCEEEEEEEc
Confidence 4567766 88999999999999985431 3799999999999862211 22 66666 7789999999
Q ss_pred ChhhhhhHHHHHhc
Q 008035 420 QRNEYHNLFDFISG 433 (580)
Q Consensus 420 ~reE~~~L~~fl~~ 433 (580)
++.+.+.+.++++.
T Consensus 83 ~k~~~~~~~~~i~~ 96 (96)
T PF14470_consen 83 QKGDVKEFYEYIKE 96 (96)
T ss_pred CHHHHHHHHHHHhC
Confidence 99999999998863
No 12
>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=95.81 E-value=0.002 Score=51.59 Aligned_cols=20 Identities=40% Similarity=0.654 Sum_probs=18.7
Q ss_pred CCCCCchhhhcccccccccc
Q 008035 558 PKRAMSGFIFFSQMEREVGS 577 (580)
Q Consensus 558 PKr~~sa~~~f~~~~r~~~~ 577 (580)
||||++|||+||++.|.+++
T Consensus 1 Pkrp~saf~~f~~~~r~~~~ 20 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLK 20 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHH
Confidence 89999999999999998874
No 13
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=95.71 E-value=0.013 Score=65.17 Aligned_cols=46 Identities=15% Similarity=0.253 Sum_probs=36.4
Q ss_pred CCceeeeeeee-eeeeeeEecCceEEEEeCCE-EEEEEeccccccccc
Q 008035 96 SPEEKQLSVSG-RNWGEVDLNGNMLTFMVGQK-QAFEVSLADVSQTQL 141 (580)
Q Consensus 96 ~l~~~els~~G-wNwG~~~~~~~~l~f~v~~k-~~feip~~~is~~~~ 141 (580)
+...--|..+| -|-|++.+..+.|.|..+.- -+|.||.++|..+..
T Consensus 6 ~fn~iyl~~~G~~~~G~lkit~~gi~~K~~~ggk~~~v~~sei~~~~w 53 (615)
T KOG0526|consen 6 EFNDIYLEVSGHLKPGTLKITESGIGFKNSKGGKVVTVPASEIDKVKW 53 (615)
T ss_pred ccCceEEecccccccceEEEccCceeEeeCCCCceEEeehHHhhhhhh
Confidence 34455567777 89999999999999985432 689999999998765
No 14
>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=95.57 E-value=0.045 Score=48.13 Aligned_cols=73 Identities=23% Similarity=0.278 Sum_probs=61.2
Q ss_pred CCCeeEEEecCceeEEeCCCCceEEeecCCcceeEEEEe----cCcceEEEEEeC--CcEEEEcCCChhhHHHHHHHHHh
Q 008035 18 TNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKV----PRTNQLGVRTKD--GLYYKFTGFRDQDVATLTNFFQS 91 (580)
Q Consensus 18 ~~~G~lk~~~~gl~wK~~~~g~~~~i~~~di~~~~w~r~----~~~~~Lri~~k~--~~~~~fdGF~~~d~~~l~~~~~~ 91 (580)
...|-|-..+.+|.|=-.+ -.+.|+-+||..+...|+ .|.+-|.|.+|+ +..++|.+...++++.|.+|+++
T Consensus 10 a~~g~L~pl~~~l~f~~~k--P~~~i~~~dI~~v~feRv~~~~~ktFDl~v~~k~~~~~~~~fs~I~~~e~~~l~~~l~~ 87 (95)
T PF08512_consen 10 ANEGFLYPLEKCLLFGLEK--PPFVIPLDDIESVEFERVSSFSSKTFDLVVILKDYEGPPHEFSSIDREEYDNLKDFLKS 87 (95)
T ss_dssp TEEEEEEEESSEEEEECSS--S-EEEEGGGEEEEEEE--ESSSSSEEEEEEEETT-TS-EEEEEEEEGGGHHHHHHHHHH
T ss_pred ccCEEEEEccceEEEecCC--CeEEEEhhHeeEEEEEecccCcceEEEEEEEEecCCCCcEEEeeECHHHHHHHHHHHHH
Confidence 3679999999999993221 368999999999999997 399999999998 89999999999999999999987
Q ss_pred h
Q 008035 92 N 92 (580)
Q Consensus 92 ~ 92 (580)
.
T Consensus 88 ~ 88 (95)
T PF08512_consen 88 K 88 (95)
T ss_dssp C
T ss_pred C
Confidence 6
No 15
>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=95.53 E-value=0.0026 Score=51.37 Aligned_cols=20 Identities=30% Similarity=0.547 Sum_probs=16.6
Q ss_pred CCCCCchhhhcccccccccc
Q 008035 558 PKRAMSGFIFFSQMEREVGS 577 (580)
Q Consensus 558 PKr~~sa~~~f~~~~r~~~~ 577 (580)
||||++||++||.++|..++
T Consensus 1 PkrP~~af~lf~~~~~~~~k 20 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLK 20 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHH
T ss_pred CcCCCCHHHHHHHHHHHHHH
Confidence 89999999999999998775
No 16
>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=95.15 E-value=0.0045 Score=49.10 Aligned_cols=20 Identities=40% Similarity=0.655 Sum_probs=18.3
Q ss_pred CCCCCchhhhcccccccccc
Q 008035 558 PKRAMSGFIFFSQMEREVGS 577 (580)
Q Consensus 558 PKr~~sa~~~f~~~~r~~~~ 577 (580)
||||++|||+||+++|.+++
T Consensus 1 pkrp~~af~~f~~~~~~~~~ 20 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVK 20 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHH
Confidence 89999999999999998764
No 17
>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=95.00 E-value=0.018 Score=58.84 Aligned_cols=10 Identities=30% Similarity=0.767 Sum_probs=7.3
Q ss_pred CCccCCCCcC
Q 008035 478 SDEEDSDFVA 487 (580)
Q Consensus 478 d~eeDedF~~ 487 (580)
++++|+||+.
T Consensus 37 Eee~D~ef~~ 46 (240)
T PF05764_consen 37 EEEDDEEFES 46 (240)
T ss_pred ccCCCccccC
Confidence 4567889985
No 18
>smart00398 HMG high mobility group.
Probab=94.99 E-value=0.0056 Score=49.16 Aligned_cols=21 Identities=48% Similarity=0.687 Sum_probs=19.0
Q ss_pred CCCCCCchhhhcccccccccc
Q 008035 557 APKRAMSGFIFFSQMEREVGS 577 (580)
Q Consensus 557 aPKr~~sa~~~f~~~~r~~~~ 577 (580)
+||||++|||+||++.|+.++
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~ 21 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIK 21 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHH
Confidence 599999999999999998764
No 19
>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=94.14 E-value=0.011 Score=48.97 Aligned_cols=20 Identities=35% Similarity=0.504 Sum_probs=17.8
Q ss_pred CCCCCchhhhcccccccccc
Q 008035 558 PKRAMSGFIFFSQMEREVGS 577 (580)
Q Consensus 558 PKr~~sa~~~f~~~~r~~~~ 577 (580)
-|||++|||+||+++|++++
T Consensus 2 iKrP~naf~~F~~~~r~~~~ 21 (72)
T cd01388 2 IKRPMNAFMLFSKRHRRKVL 21 (72)
T ss_pred CCCCCcHHHHHHHHHHHHHH
Confidence 48999999999999998764
No 20
>PF14470 bPH_3: Bacterial PH domain
Probab=90.67 E-value=1.8 Score=36.83 Aligned_cols=74 Identities=20% Similarity=0.324 Sum_probs=64.9
Q ss_pred CCCCeeEEEecCceeEEeCC---CCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHh
Q 008035 17 GTNPGQLKIYSGKISWKKLG---GGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQS 91 (580)
Q Consensus 17 ~~~~G~lk~~~~gl~wK~~~---~g~~~~i~~~di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~ 91 (580)
...+|.+-+++.-|-+...+ +.....++-++|.++.|.+.--+..+.|.+ ++..++|+-+...+++.+-+++++
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 888999999999999999888764
No 21
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=90.10 E-value=0.16 Score=52.08 Aligned_cols=16 Identities=31% Similarity=0.582 Sum_probs=6.9
Q ss_pred CCCCCCCCCCCCCCCC
Q 008035 490 DDGGSPTDDSGEEDSD 505 (580)
Q Consensus 490 sd~~ee~Ds~~~~~~~ 505 (580)
+++++.+||+++++++
T Consensus 236 ~~~~~~~~s~~d~d~e 251 (303)
T KOG3064|consen 236 DDSDESDDSDEDSDSE 251 (303)
T ss_pred chhhhhhhcccccccc
Confidence 3344444444443333
No 22
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=87.75 E-value=5.7 Score=38.22 Aligned_cols=89 Identities=20% Similarity=0.406 Sum_probs=70.1
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCC-----Cceeeeeeee---------------
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGIS-----PEEKQLSVSG--------------- 106 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~~~-----l~~~els~~G--------------- 106 (580)
++-.++|.+.+|++-|||+..+- .|..-+|-++++..+...+++. -+.=|+|..|
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 7888999999999999988843 2334556655
Q ss_pred ---------------eee-ee-eEecCceEEEEeCCEEEEEEeccccccccc
Q 008035 107 ---------------RNW-GE-VDLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (580)
Q Consensus 107 ---------------wNw-G~-~~~~~~~l~f~v~~k~~feip~~~is~~~~ 141 (580)
-+| |. +.+++..+++.+++|+ .+||+++|+.+++
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 2346778999999999 9999999999876
No 23
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=86.78 E-value=0.2 Score=51.44 Aligned_cols=10 Identities=20% Similarity=0.348 Sum_probs=4.0
Q ss_pred CCCCCCCCCC
Q 008035 493 GSPTDDSGEE 502 (580)
Q Consensus 493 ~ee~Ds~~~~ 502 (580)
+++.||++++
T Consensus 245 ~~d~d~e~es 254 (303)
T KOG3064|consen 245 DEDSDSEDES 254 (303)
T ss_pred ccccccccCC
Confidence 3333444433
No 24
>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=85.86 E-value=1.8 Score=36.93 Aligned_cols=52 Identities=17% Similarity=0.262 Sum_probs=43.7
Q ss_pred CCCeeEEEecCc--eeEEeCCCCc--eEEeecCCcceeEEEEec-CcceEEEEEeCC
Q 008035 18 TNPGQLKIYSGK--ISWKKLGGGK--AVEVDKVDIAGVTWMKVP-RTNQLGVRTKDG 69 (580)
Q Consensus 18 ~~~G~lk~~~~g--l~wK~~~~g~--~~~i~~~di~~~~w~r~~-~~~~Lri~~k~~ 69 (580)
+..|.|-|+++. +.|....++. +++|+-++|...+-+.-+ -..+|||.++++
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 499999999999998886 899999999987
No 25
>PF04283 CheF-arch: Chemotaxis signal transduction system protein F from archaea; InterPro: IPR007381 This is an archaeal protein of unknown function.
Probab=82.41 E-value=30 Score=35.23 Aligned_cols=149 Identities=14% Similarity=0.192 Sum_probs=102.6
Q ss_pred CCCCCeeEEEecCceeEEeCCCCceEEeecCCcceeEE--------EEecCcceEEEEEeCCcEEEEcCCChhhHHHHHH
Q 008035 16 GGTNPGQLKIYSGKISWKKLGGGKAVEVDKVDIAGVTW--------MKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTN 87 (580)
Q Consensus 16 g~~~~G~lk~~~~gl~wK~~~~g~~~~i~~~di~~~~w--------~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~ 87 (580)
+....|++-|+...|.+... +...+|+-+.|..+.- ..+.....+++...++..+-.-...+. ..+..
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 45688999999999999973 4566999999988776 233344445555443433333333333 56667
Q ss_pred HHHhhcCCCCceeee-----eeee--------eeeeeeEecCceEEEEeCCEEEEEEecccccccc-----cccCCeEEE
Q 008035 88 FFQSNFGISPEEKQL-----SVSG--------RNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQ-----LQGKNDVIL 149 (580)
Q Consensus 88 ~~~~~~~~~l~~~el-----s~~G--------wNwG~~~~~~~~l~f~v~~k~~feip~~~is~~~-----~~~KnEv~l 149 (580)
|....|+..|..+.. +++| |==|.+.+....+.|...++..+.|++++|..+- +.|+.--+|
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 777777766666554 3333 5568999999999999999999999999998874 346777788
Q ss_pred EEecCCCCCCCCCCceEEEEEEecC
Q 008035 150 EFHVDDTTGANEKDSLMEISFHIPN 174 (580)
Q Consensus 150 ef~~~d~~~~~~~d~L~EmRF~vP~ 174 (580)
+..+-+ ..+-|+=-+|+|+
T Consensus 179 ~I~H~~------~g~sVtSyi~~~~ 197 (221)
T PF04283_consen 179 EIEHVE------DGESVTSYISIGP 197 (221)
T ss_pred EEEEec------CCcEEEEEEecCC
Confidence 884422 2456777778775
No 26
>PRK14646 hypothetical protein; Provisional
Probab=78.32 E-value=21 Score=34.28 Aligned_cols=91 Identities=12% Similarity=0.019 Sum_probs=64.7
Q ss_pred CcceeEEEEecCcceEEEEEeCC-cEEEEcCCChhhHHHHHHHHHhhcCCC-C----ceeeeeee---------------
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKDG-LYYKFTGFRDQDVATLTNFFQSNFGIS-P----EEKQLSVS--------------- 105 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~~-~~~~fdGF~~~d~~~l~~~~~~~~~~~-l----~~~els~~--------------- 105 (580)
++-.++|.+-++.+-|||++-.- + .|..-+|-+.++..+...++.. + +.=|+|.-
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 56778999999999999998421 1 2578899999999999888743 1 11122222
Q ss_pred ----------eeeeeeeE-------ecCceEEEEeCCEEEEEEecccccccccc
Q 008035 106 ----------GRNWGEVD-------LNGNMLTFMVGQKQAFEVSLADVSQTQLQ 142 (580)
Q Consensus 106 ----------GwNwG~~~-------~~~~~l~f~v~~k~~feip~~~is~~~~~ 142 (580)
.-..|.-. +++..+++.++|++ ++||+++|+.+++.
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 79999999999873
No 27
>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=76.36 E-value=9.1 Score=41.52 Aligned_cols=54 Identities=22% Similarity=0.367 Sum_probs=50.2
Q ss_pred ceEEeecCCcceeEEEEec------CcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhh
Q 008035 39 KAVEVDKVDIAGVTWMKVP------RTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSN 92 (580)
Q Consensus 39 ~~~~i~~~di~~~~w~r~~------~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~ 92 (580)
-++.++-+||..+..+|++ |.|-|.+.+++++.|+|.|....++..|.+||+.-
T Consensus 376 ptl~l~~sdis~V~~SRig~ss~~arTFDlt~~lrs~~sytF~nisk~Eq~aLeqfl~sK 435 (508)
T COG5165 376 PTLRLDLSDISLVEFSRIGLSSMQARTFDLTLFLRSPGSYTFNNISKDEQGALEQFLHSK 435 (508)
T ss_pred ceEEeecccceEEEEeecccchhhhceeeEEEEEecCCceeecCcCHHHHHHHHHHHhcc
Confidence 3788999999999999986 99999999999999999999999999999999864
No 28
>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=76.34 E-value=3.6 Score=48.96 Aligned_cols=17 Identities=18% Similarity=0.403 Sum_probs=11.9
Q ss_pred ecChhhhhhHHHHHhcC
Q 008035 418 NIQRNEYHNLFDFISGK 434 (580)
Q Consensus 418 ~I~reE~~~L~~fl~~k 434 (580)
.|..+.++.|.+-|..+
T Consensus 619 ~~t~~~l~~ll~vl~~~ 635 (784)
T PF04931_consen 619 HLTESGLQLLLDVLDAK 635 (784)
T ss_pred hcCHHHHHHHHHHhccC
Confidence 36667777888877754
No 29
>PF08644 SPT16: FACT complex subunit (SPT16/CDC68); InterPro: IPR013953 Proteins in this entry are subunits the FACT complex; the FACT complex is a stable heterodimer in Saccharomyces cerevisiae (Baker's yeast) comprising Spt16p and Pob3p. The complex plays a role in transcription initiation and promotes binding of TATA-binding protein (TBP) to a TATA box in chromatin []; it also facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. The proteins in this entry are non-peptidase homologues belonging to MEROPS peptidase family M24 (clan MG).
Probab=75.05 E-value=5.6 Score=38.25 Aligned_cols=30 Identities=17% Similarity=0.225 Sum_probs=22.9
Q ss_pred CceeEEecCceeeCC-Cc-c---eEEEEecccEEE
Q 008035 206 EEAVVTFEGIAILTP-RG-R---YSVELHLSFLRL 235 (580)
Q Consensus 206 gd~i~~f~dI~~~tP-RG-R---ydie~~~~~lrl 235 (580)
+.....|.||.+-++ -| | +.||+|.|||||
T Consensus 118 ~~~~~~L~dl~iRP~~~g~kr~~G~LEaH~NGfRy 152 (152)
T PF08644_consen 118 NRRPPRLKDLYIRPAIGGRKRVPGTLEAHTNGFRY 152 (152)
T ss_pred CCCCCccCCceECCCCccccccCceEEEecCcccC
Confidence 345557899998444 55 3 999999999996
No 30
>PRK14630 hypothetical protein; Provisional
Probab=71.60 E-value=35 Score=32.41 Aligned_cols=89 Identities=15% Similarity=0.237 Sum_probs=61.9
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCCCc---eeeeeeeeee---------------
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPE---EKQLSVSGRN--------------- 108 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~~~l~---~~els~~GwN--------------- 108 (580)
+|-.++|.+-.++.-|||++-.. +|..-+|-+.++..+.....-.+. .=|+|..|.+
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 56678898888888899998532 568899999999988666543222 2345555543
Q ss_pred -----------eeee-EecCceEEEEeCCEEEEEEeccccccccc
Q 008035 109 -----------WGEV-DLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (580)
Q Consensus 109 -----------wG~~-~~~~~~l~f~v~~k~~feip~~~is~~~~ 141 (580)
-|.+ .++++.+.+.+++++ ++||+++|+.+++
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 245678888887764 8899999988765
No 31
>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=69.75 E-value=3.4 Score=49.68 Aligned_cols=12 Identities=25% Similarity=0.340 Sum_probs=6.6
Q ss_pred cChhhhhhHHHH
Q 008035 419 IQRNEYHNLFDF 430 (580)
Q Consensus 419 I~reE~~~L~~f 430 (580)
|-++|-+.|..-
T Consensus 276 ~a~ee~erLekl 287 (840)
T PF04147_consen 276 IAKEEKERLEKL 287 (840)
T ss_pred HHHHHHHHHHHH
Confidence 445666665543
No 32
>PRK14637 hypothetical protein; Provisional
Probab=69.02 E-value=54 Score=31.45 Aligned_cols=90 Identities=11% Similarity=0.217 Sum_probs=63.0
Q ss_pred CCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCCCc----eeeeeeee---------------
Q 008035 46 VDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPE----EKQLSVSG--------------- 106 (580)
Q Consensus 46 ~di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~~~l~----~~els~~G--------------- 106 (580)
=+|-.++|.+-++++.|||++-.. +|..-+|-+.++..+....+..+. .=|+|.-|
T Consensus 23 ~eLvdve~~~~~~~~~lrV~ID~~-----~gV~iddC~~vSr~Is~~LD~~~~~~~y~LEVSSPGldRpL~~~~~f~r~~ 97 (151)
T PRK14637 23 CKLVDLSRRVQQAQGRVRAVIYSA-----GGVGLDDCARVHRILVPRLEALGGVRDVFLEVSSPGIERVIKNAAEFSIFV 97 (151)
T ss_pred CEEEEEEEEecCCCcEEEEEEECC-----CCCCHHHHHHHHHHHHHHhcccccccCcEEEEeCCCCCCCCCCHHHHHHhC
Confidence 356788999999999999998522 478889999999987776643221 11222211
Q ss_pred -----------eee--eee-EecCceEEEEeCCEEEEEEeccccccccc
Q 008035 107 -----------RNW--GEV-DLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (580)
Q Consensus 107 -----------wNw--G~~-~~~~~~l~f~v~~k~~feip~~~is~~~~ 141 (580)
-+| |.+ .++++.+.+.+++++ .+||+++|..+++
T Consensus 98 G~~V~V~l~~~~~~~~G~L~~~~d~~v~l~~~~~~-~~i~~~~I~ka~L 145 (151)
T PRK14637 98 GETVKVWFECTGQWQVGTIAEADETCLVLTSDGVP-VTIPYVQITKAQL 145 (151)
T ss_pred CCEEEEEECCCCcEEEEEEEEEeCCEEEEEECCEE-EEEEHHHeeeEEE
Confidence 133 554 357778888887765 8899999998876
No 33
>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=65.77 E-value=11 Score=30.56 Aligned_cols=38 Identities=21% Similarity=0.273 Sum_probs=29.9
Q ss_pred eEeeccC----ceeEEEeccCceeecc----CC--cEEEEcCceeEEE
Q 008035 351 VKSSLKA----EDGVLYPLEKSFFFLP----KP--PTLILHEEIDYVE 388 (580)
Q Consensus 351 VkCs~KA----~~G~LyPLe~~flfl~----KP--p~~I~~~eI~~V~ 388 (580)
..|++.. ..|.||.+++-+.|-+ .+ .+.||+.+|.+|+
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 4566655 6999999999999975 23 3689999999986
No 34
>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=65.42 E-value=30 Score=29.55 Aligned_cols=55 Identities=27% Similarity=0.329 Sum_probs=43.0
Q ss_pred EeeccCceeEEEeccCc--eeeccC----Cc-EEEEcCceeEEEEEEecCCCcceeeEEEEEEEeCC
Q 008035 352 KSSLKAEDGVLYPLEKS--FFFLPK----PP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTE 411 (580)
Q Consensus 352 kCs~KA~~G~LyPLe~~--flfl~K----Pp-~~I~~~eI~~V~f~Rv~~~~~~~rTFDl~V~~K~g 411 (580)
.|.||-.+|.||..++. +.|.++ |. +-|++++|...--+-.+. ----|.|.++++
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 999865 54 789999999987766542 235677888876
No 35
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=64.40 E-value=2.7 Score=46.43 Aligned_cols=19 Identities=11% Similarity=0.046 Sum_probs=13.5
Q ss_pred CCCchhhhccccccccccc
Q 008035 560 RAMSGFIFFSQMEREVGSF 578 (580)
Q Consensus 560 r~~sa~~~f~~~~r~~~~~ 578 (580)
||+-+.-+-|.+.|..-|.
T Consensus 204 RPLE~AY~Scle~Rr~~K~ 222 (458)
T PF10446_consen 204 RPLEAAYISCLEARRREKH 222 (458)
T ss_pred chHHHHHHHHHHHHHHcCC
Confidence 7777777788887765553
No 36
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=60.04 E-value=15 Score=28.93 Aligned_cols=38 Identities=21% Similarity=0.225 Sum_probs=29.6
Q ss_pred eEeecc---CceeEEEeccCceeecc-C---C--cEEEEcCceeEEE
Q 008035 351 VKSSLK---AEDGVLYPLEKSFFFLP-K---P--PTLILHEEIDYVE 388 (580)
Q Consensus 351 VkCs~K---A~~G~LyPLe~~flfl~-K---P--p~~I~~~eI~~V~ 388 (580)
..|.+. ...|.||.+++.+.|-. . + .+.||+.+|.+|+
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 456664 56999999999999965 2 2 4689999999886
No 37
>KOG2573 consensus Ribosome biogenesis protein - Nop56p/Sik1p [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=59.88 E-value=3.8 Score=44.91 Aligned_cols=10 Identities=10% Similarity=0.375 Sum_probs=6.6
Q ss_pred hhHHHHHhcC
Q 008035 425 HNLFDFISGK 434 (580)
Q Consensus 425 ~~L~~fl~~k 434 (580)
..|..||..|
T Consensus 368 GRISRyLAnK 377 (498)
T KOG2573|consen 368 GRISRYLANK 377 (498)
T ss_pred chHHHHHHhh
Confidence 3677777655
No 38
>PTZ00449 104 kDa microneme/rhoptry antigen; Provisional
Probab=59.68 E-value=22 Score=40.58 Aligned_cols=41 Identities=15% Similarity=0.153 Sum_probs=23.1
Q ss_pred CceeEEeCCC----CceEEeecCCcceeEEEEecCcceEEEEEeCCc
Q 008035 28 GKISWKKLGG----GKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGL 70 (580)
Q Consensus 28 ~gl~wK~~~~----g~~~~i~~~di~~~~w~r~~~~~~Lri~~k~~~ 70 (580)
+-+.|-|..+ +.+ +...|.--..+..+-....|.+++|.|.
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 3456776553 222 2344555555666666677777777663
No 39
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=59.40 E-value=9.6 Score=45.00 Aligned_cols=11 Identities=9% Similarity=0.525 Sum_probs=4.4
Q ss_pred HHHHHHHHHhh
Q 008035 188 AQVFRDKIMSM 198 (580)
Q Consensus 188 a~~f~~~i~~k 198 (580)
+.+|..+|+..
T Consensus 574 V~AFvKRlLQV 584 (988)
T KOG2038|consen 574 VRAFVKRLLQV 584 (988)
T ss_pred HHHHHHHHHHH
Confidence 33444444433
No 40
>PRK14634 hypothetical protein; Provisional
Probab=57.99 E-value=89 Score=30.04 Aligned_cols=91 Identities=14% Similarity=0.157 Sum_probs=63.1
Q ss_pred CcceeEEEEecCcceEEEEEeC-CcEEEEcCCChhhHHHHHHHHHhhcCCC-C----ceeeeeeeee-------------
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKD-GLYYKFTGFRDQDVATLTNFFQSNFGIS-P----EEKQLSVSGR------------- 107 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~-~~~~~fdGF~~~d~~~l~~~~~~~~~~~-l----~~~els~~Gw------------- 107 (580)
++-.++|.+-++++.|||++-. ++ +|..-+|-+.++..+...++.. + +.=|+|..|-
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 4677899999999999999842 21 1378899999999998888743 1 2223333331
Q ss_pred -----------------e-eeee-EecCceEEEEeCCEEEEEEecccccccccc
Q 008035 108 -----------------N-WGEV-DLNGNMLTFMVGQKQAFEVSLADVSQTQLQ 142 (580)
Q Consensus 108 -----------------N-wG~~-~~~~~~l~f~v~~k~~feip~~~is~~~~~ 142 (580)
+ -|.+ .+++..+.+.++++. ++||+++|+.+++.
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 245678888887765 89999999998873
No 41
>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=56.71 E-value=93 Score=34.39 Aligned_cols=44 Identities=18% Similarity=0.219 Sum_probs=38.0
Q ss_pred ceeeeeeeeeeeeeeEecCceEEEEeCCEEEEEEeccccccccc
Q 008035 98 EEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (580)
Q Consensus 98 ~~~els~~GwNwG~~~~~~~~l~f~v~~k~~feip~~~is~~~~ 141 (580)
-..-+-..+||-.++.+.|+.+....|++++++-|+..=+.-+.
T Consensus 83 ~~~~l~~~~wN~v~l~~~g~~v~l~LN~~~i~~~~~~~~~~~~f 126 (399)
T PF07622_consen 83 PTLPLKVNAWNRVRLQRRGDKVQLHLNGQLIYERPLEPGSSRQF 126 (399)
T ss_pred CCCCCCccccceEEEEEeCCEEEEEeCCceeEecccCCCCCCcc
Confidence 34567788999999999999999999999999999988765444
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=56.51 E-value=13 Score=38.70 Aligned_cols=10 Identities=20% Similarity=0.185 Sum_probs=4.9
Q ss_pred eeEEEEEEEe
Q 008035 400 HYFDLLIRLK 409 (580)
Q Consensus 400 rTFDl~V~~K 409 (580)
-|=||.+.++
T Consensus 221 eTkdLSmStR 230 (314)
T PF06524_consen 221 ETKDLSMSTR 230 (314)
T ss_pred ccccceeeee
Confidence 4445555543
No 43
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=56.24 E-value=4.4 Score=43.59 Aligned_cols=24 Identities=29% Similarity=0.403 Sum_probs=20.0
Q ss_pred CCCCCCCCCCchhhhccccccccc
Q 008035 553 KDPNAPKRAMSGFIFFSQMEREVG 576 (580)
Q Consensus 553 kdp~aPKr~~sa~~~f~~~~r~~~ 576 (580)
+...-=||||-|||+|++..|.+|
T Consensus 58 ~~~~hIKRPMNAFMVWSq~~RRkm 81 (331)
T KOG0527|consen 58 TSTDRIKRPMNAFMVWSQGQRRKL 81 (331)
T ss_pred CCccccCCCcchhhhhhHHHHHHH
Confidence 344456899999999999999876
No 44
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=54.95 E-value=3.6 Score=44.01 Aligned_cols=19 Identities=16% Similarity=0.356 Sum_probs=17.1
Q ss_pred CCCCCchhhhccccccccc
Q 008035 558 PKRAMSGFIFFSQMEREVG 576 (580)
Q Consensus 558 PKr~~sa~~~f~~~~r~~~ 576 (580)
=|+|+.|||||+.|+|.++
T Consensus 192 iKKPLNAFmlyMKEmRa~v 210 (421)
T KOG3248|consen 192 IKKPLNAFMLYMKEMRAKV 210 (421)
T ss_pred ccccHHHHHHHHHHHHHHH
Confidence 4789999999999999876
No 45
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=51.62 E-value=13 Score=44.69 Aligned_cols=13 Identities=23% Similarity=0.325 Sum_probs=6.3
Q ss_pred EEcCceeEEEEEE
Q 008035 379 ILHEEIDYVEFER 391 (580)
Q Consensus 379 I~~~eI~~V~f~R 391 (580)
+.|++|..+..-|
T Consensus 1348 ~dYs~iaTi~v~R 1360 (1516)
T KOG1832|consen 1348 IDYSDIATIPVDR 1360 (1516)
T ss_pred cccccceeeeccc
Confidence 4444555555444
No 46
>PRK14640 hypothetical protein; Provisional
Probab=51.04 E-value=1.6e+02 Score=28.18 Aligned_cols=89 Identities=13% Similarity=0.300 Sum_probs=63.3
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCC-----Cceeeeeeeeee------------e
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGIS-----PEEKQLSVSGRN------------W 109 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~~~-----l~~~els~~GwN------------w 109 (580)
++-.+.|.+.+++..|||++-.. +|..-+|-+.++..+...++.. -+.=|+|.-|-. =
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 46778899999999999998422 4678899999999998887653 222334443321 1
Q ss_pred -------------eee-------EecCceEEEEeCCEEEEEEeccccccccc
Q 008035 110 -------------GEV-------DLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (580)
Q Consensus 110 -------------G~~-------~~~~~~l~f~v~~k~~feip~~~is~~~~ 141 (580)
|.- .+++..+++.+++++ ++||+++|+.+++
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 235667888888886 7899999999877
No 47
>PRK14638 hypothetical protein; Provisional
Probab=50.76 E-value=1.1e+02 Score=29.28 Aligned_cols=89 Identities=16% Similarity=0.289 Sum_probs=60.6
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcC-CChhhHHHHHHHHHhhcCCC-----Cceeeeeeeeee------------
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTG-FRDQDVATLTNFFQSNFGIS-----PEEKQLSVSGRN------------ 108 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~~~~~~fdG-F~~~d~~~l~~~~~~~~~~~-----l~~~els~~GwN------------ 108 (580)
++-.+.|.+-+++..|||++-.. +| ..-+|-+.++..+...++.. -+.=|+|..|-.
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 56678999999999999998532 34 88899999999998888743 112244444421
Q ss_pred --------------e-eee-EecCceEEEEeCCEEEEEEeccccccccc
Q 008035 109 --------------W-GEV-DLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (580)
Q Consensus 109 --------------w-G~~-~~~~~~l~f~v~~k~~feip~~~is~~~~ 141 (580)
| |.+ .+++..+.+..+++ .++||+++|..+++
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 23456677776544 48899999988876
No 48
>PRK14631 hypothetical protein; Provisional
Probab=49.65 E-value=1.1e+02 Score=30.10 Aligned_cols=95 Identities=13% Similarity=0.250 Sum_probs=64.6
Q ss_pred CcceeEEEEecCcceEEEEEeC-------------CcEEEEcCCChhhHHHHHHHHHhhcCCC-----Cceeeeeeeeee
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKD-------------GLYYKFTGFRDQDVATLTNFFQSNFGIS-----PEEKQLSVSGRN 108 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~-------------~~~~~fdGF~~~d~~~l~~~~~~~~~~~-----l~~~els~~GwN 108 (580)
++-.+.|.+-++...|||++-. |..-.-.|..-+|-+.+++.+...++.. -+.=|+|.-|+.
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 4667888888888899999852 1111345899999999999999998854 223345554542
Q ss_pred e-------------------------------eee-Eec--CceEEEEeCCEEEEEEeccccccccc
Q 008035 109 W-------------------------------GEV-DLN--GNMLTFMVGQKQAFEVSLADVSQTQL 141 (580)
Q Consensus 109 w-------------------------------G~~-~~~--~~~l~f~v~~k~~feip~~~is~~~~ 141 (580)
- |.+ .++ ++.+.+.+.++..++||+++|..+++
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 49
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=49.42 E-value=6.2 Score=44.11 Aligned_cols=23 Identities=26% Similarity=0.362 Sum_probs=19.5
Q ss_pred CCCCCCCCCchhhhccccccccc
Q 008035 554 DPNAPKRAMSGFIFFSQMEREVG 576 (580)
Q Consensus 554 dp~aPKr~~sa~~~f~~~~r~~~ 576 (580)
-++-=||||.|||.|.++.|-||
T Consensus 322 s~PHIKRPMNAFMVWAkDERRKI 344 (511)
T KOG0528|consen 322 SEPHIKRPMNAFMVWAKDERRKI 344 (511)
T ss_pred CCccccCCcchhhcccchhhhhh
Confidence 44456999999999999999886
No 50
>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=49.20 E-value=30 Score=27.91 Aligned_cols=36 Identities=19% Similarity=0.282 Sum_probs=27.7
Q ss_pred eeeeeeeeEecCceEEEEe--CCEE--EEEEecccccccc
Q 008035 105 SGRNWGEVDLNGNMLTFMV--GQKQ--AFEVSLADVSQTQ 140 (580)
Q Consensus 105 ~GwNwG~~~~~~~~l~f~v--~~k~--~feip~~~is~~~ 140 (580)
++..+|++-+..+-|.|.. .+.+ .+.||+.+|..+.
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 6999999998764
No 51
>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=48.34 E-value=30 Score=28.01 Aligned_cols=57 Identities=14% Similarity=0.159 Sum_probs=42.1
Q ss_pred CCcEEEEcCceeEEEEEEecCCCcceeeEEEEEEEeCCce--EEEeecChhhhhhHHHHH
Q 008035 374 KPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQE--HLFRNIQRNEYHNLFDFI 431 (580)
Q Consensus 374 KPp~~I~~~eI~~V~f~Rv~~~~~~~rTFDl~V~~K~g~~--~~Fs~I~reE~~~L~~fl 431 (580)
+-..+|+++.|..|...+.-..- -.+.-++.|.+.++.. ..+..++.++.+.|.+||
T Consensus 22 ~~~~~i~~~~Iq~v~~~q~~~~r-~~g~~~i~i~~~~~~~~~~~i~~~~~~~a~~i~~~i 80 (80)
T PF03703_consen 22 KRTTIIPLDRIQSVSIKQNPLQR-LFGLGTIKIDTAGGSGEKIEIPFLSIEDAEEIYDWI 80 (80)
T ss_pred EEEEEEEhhHeEEEEEEcCHHHH-hCccEEEEEEECCCCCceeEEecCCHHHHHHHHhhC
Confidence 34478999999999997632111 1255778888887653 788889999999998875
No 52
>PRK14647 hypothetical protein; Provisional
Probab=48.01 E-value=1.3e+02 Score=28.98 Aligned_cols=90 Identities=14% Similarity=0.221 Sum_probs=61.2
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCC-----Cceeeeeeeee--------------
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGIS-----PEEKQLSVSGR-------------- 107 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~~~-----l~~~els~~Gw-------------- 107 (580)
++-.+.|.+-++...|||++-. =.|..-+|-+.++..+...++.. -+.=|+|..|-
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 4567888888888899999842 25788999999999999888753 11234444431
Q ss_pred --------------eee--eeE-------ecCceEEEEeCCEEEEEEeccccccccc
Q 008035 108 --------------NWG--EVD-------LNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (580)
Q Consensus 108 --------------NwG--~~~-------~~~~~l~f~v~~k~~feip~~~is~~~~ 141 (580)
+|| .-. ++++.+.+.+.+...++||+++|+.+++
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 3455677777534457889999888776
No 53
>PF13619 KTSC: KTSC domain
Probab=47.88 E-value=45 Score=26.69 Aligned_cols=42 Identities=26% Similarity=0.373 Sum_probs=32.3
Q ss_pred ecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHH
Q 008035 44 DKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTN 87 (580)
Q Consensus 44 ~~~di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~ 87 (580)
+.+.|.++.+-. ..-.|.|..++|.+|+|.|.....++.|.+
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 445566666543 345788888999999999999999998864
No 54
>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=47.76 E-value=12 Score=43.45 Aligned_cols=9 Identities=0% Similarity=0.095 Sum_probs=4.1
Q ss_pred cCCceEeeC
Q 008035 433 GKGLKIMNL 441 (580)
Q Consensus 433 ~k~lki~n~ 441 (580)
.-+|.+-..
T Consensus 96 ~~~v~v~dd 104 (622)
T PF02724_consen 96 NDQVIVFDD 104 (622)
T ss_pred CCcEEEEEC
Confidence 444444444
No 55
>PF14317 YcxB: YcxB-like protein
Probab=46.40 E-value=38 Score=25.85 Aligned_cols=62 Identities=10% Similarity=0.097 Sum_probs=41.9
Q ss_pred EecCceeEEeCCCCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHH
Q 008035 25 IYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQ 90 (580)
Q Consensus 25 ~~~~gl~wK~~~~g~~~~i~~~di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~ 90 (580)
++++||.+++. .....+++++|.. |....+.+-|-+.-...-++-=..|..++++.+.++++
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 4678889999876 55555555553322222445556899999999998874
No 56
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=45.21 E-value=67 Score=28.12 Aligned_cols=59 Identities=27% Similarity=0.282 Sum_probs=45.5
Q ss_pred CCCeeEEEecCceeEEeC-----------------CCCceEEeecCCcceeEEEEec-CcceEEEEEeCCcEEEEcCC
Q 008035 18 TNPGQLKIYSGKISWKKL-----------------GGGKAVEVDKVDIAGVTWMKVP-RTNQLGVRTKDGLYYKFTGF 77 (580)
Q Consensus 18 ~~~G~lk~~~~gl~wK~~-----------------~~g~~~~i~~~di~~~~w~r~~-~~~~Lri~~k~~~~~~fdGF 77 (580)
..+|.|.|+.+.|-|-.. ...+...++-++|..+.|.|.- |.-.|-|++.||.-+ |-.|
T Consensus 16 ~~~G~l~i~~~~i~F~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~I~~v~~RRyllr~~AlEiF~~dg~s~-f~~F 92 (106)
T PF14844_consen 16 SIPGTLIITKSSIYFIPNDNSSENKISSENPSISISKPKSKRWPLSDIKEVHKRRYLLRDTALEIFFSDGRSY-FFNF 92 (106)
T ss_dssp EEEEEEEE-SSEEEEEE--TTSHHHHCS-HHHHCC---TCEEEEGGGEEEEEEEEETTEEEEEEEEETTS-EE-EEE-
T ss_pred eEEEEEEEeCCEEEEEECCcccccccccccccccccCCceEEEEHHHhHHHHHHHhcCcceEEEEEEcCCcEE-EEEc
Confidence 378999999999999754 2357899999999999999997 999999999999754 4456
No 57
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=44.96 E-value=19 Score=40.10 Aligned_cols=10 Identities=30% Similarity=0.454 Sum_probs=5.5
Q ss_pred CCCCCCCCch
Q 008035 555 PNAPKRAMSG 564 (580)
Q Consensus 555 p~aPKr~~sa 564 (580)
|.+|-=|-|.
T Consensus 184 p~tP~LPDST 193 (458)
T PF10446_consen 184 PGTPELPDST 193 (458)
T ss_pred CCCCCCCCcc
Confidence 5555555554
No 58
>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=43.87 E-value=32 Score=38.24 Aligned_cols=19 Identities=5% Similarity=-0.088 Sum_probs=8.0
Q ss_pred hhhhhHHHHHh-cCCceEee
Q 008035 422 NEYHNLFDFIS-GKGLKIMN 440 (580)
Q Consensus 422 eE~~~L~~fl~-~k~lki~n 440 (580)
+.+..|..+|. --|+....
T Consensus 132 ~~~~~~~~~~~~~lg~~~~~ 151 (432)
T PF09073_consen 132 EVVPGIEEGLRQVLGIPKPA 151 (432)
T ss_pred HHHHHHHHHHHHHhCCCccc
Confidence 34445544333 23444444
No 59
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=43.38 E-value=1.2e+02 Score=26.53 Aligned_cols=69 Identities=20% Similarity=0.291 Sum_probs=50.0
Q ss_pred ccCceeEEEeccCceeeccC-------------------Cc-EEEEcCceeEEEEEEecCCCcceeeEEEEEEEeCCceE
Q 008035 355 LKAEDGVLYPLEKSFFFLPK-------------------PP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEH 414 (580)
Q Consensus 355 ~KA~~G~LyPLe~~flfl~K-------------------Pp-~~I~~~eI~~V~f~Rv~~~~~~~rTFDl~V~~K~g~~~ 414 (580)
....+|.|.-+++.+.|... |. ..+++++|..|+.-|-- .|.=-|+|.+.+|..+
T Consensus 14 ~~~~~G~l~i~~~~i~F~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~I~~v~~RRyl-----lr~~AlEiF~~dg~s~ 88 (106)
T PF14844_consen 14 LDSIPGTLIITKSSIYFIPNDNSSENKISSENPSISISKPKSKRWPLSDIKEVHKRRYL-----LRDTALEIFFSDGRSY 88 (106)
T ss_dssp TEEEEEEEEE-SSEEEEEE--TTSHHHHCS-HHHHCC---TCEEEEGGGEEEEEEEEET-----TEEEEEEEEETTS-EE
T ss_pred eeeEEEEEEEeCCEEEEEECCcccccccccccccccccCCceEEEEHHHhHHHHHHHhc-----CcceEEEEEEcCCcEE
Confidence 34458999999988888632 33 58999999999999864 3888899999999887
Q ss_pred EEeecChhhhhhHH
Q 008035 415 LFRNIQRNEYHNLF 428 (580)
Q Consensus 415 ~Fs~I~reE~~~L~ 428 (580)
-|+==++++.+.+.
T Consensus 89 f~~F~~~~~R~~v~ 102 (106)
T PF14844_consen 89 FFNFESKKERDEVY 102 (106)
T ss_dssp EEE-SSHHHHHHHH
T ss_pred EEEcCCHHHHHHHH
Confidence 77665666666554
No 60
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=42.66 E-value=18 Score=41.18 Aligned_cols=14 Identities=14% Similarity=0.553 Sum_probs=6.4
Q ss_pred hhhhHHHHHhcCCc
Q 008035 423 EYHNLFDFISGKGL 436 (580)
Q Consensus 423 E~~~L~~fl~~k~l 436 (580)
+.+.-..+++.+.|
T Consensus 170 dA~~Al~~~N~~~i 183 (678)
T KOG0127|consen 170 DAEKALEFFNGNKI 183 (678)
T ss_pred HHHHHHHhccCcee
Confidence 44444455554433
No 61
>KOG3241 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.74 E-value=21 Score=35.24 Aligned_cols=25 Identities=24% Similarity=0.344 Sum_probs=12.0
Q ss_pred CCccCCCCcCCCCCCCCCCCCCCCC
Q 008035 478 SDEEDSDFVADKDDGGSPTDDSGEE 502 (580)
Q Consensus 478 d~eeDedF~~s~sd~~ee~Ds~~~~ 502 (580)
|+++|+||..++++.+.++|+.++.
T Consensus 190 de~~DDd~d~d~D~eD~~gD~e~~~ 214 (227)
T KOG3241|consen 190 DEAHDDDSDPDSDEEDNVGDDEHDL 214 (227)
T ss_pred ccccccccCCccccccccCcccccc
Confidence 4444546643333444555555543
No 62
>COG4687 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.42 E-value=50 Score=30.41 Aligned_cols=74 Identities=14% Similarity=0.130 Sum_probs=54.3
Q ss_pred CCCeeEEEecCceeEEeCC-CCceEEeecCCcceeEEEEecC--cceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcC
Q 008035 18 TNPGQLKIYSGKISWKKLG-GGKAVEVDKVDIAGVTWMKVPR--TNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFG 94 (580)
Q Consensus 18 ~~~G~lk~~~~gl~wK~~~-~g~~~~i~~~di~~~~w~r~~~--~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~ 94 (580)
..-|++-|.+.|+-|=|+. -++-++|++++|..+.-+-..+ +-+..|.+++++-++|.- .|--++-+.+++|.|
T Consensus 22 ~~~GkiliGDkgfEFYn~~nv~k~iqipWs~i~~v~vsvs~KK~~~~f~i~td~~gk~~FaS---kdsg~iLk~ir~yvg 98 (122)
T COG4687 22 AEYGKILIGDKGFEFYNDRNVEKFIQIPWSEINEVDVSVSLKKWGRQFSIFTDTQGKVRFAS---KDSGKILKKIREYVG 98 (122)
T ss_pred hhcCeEEEcccceeecCCCChhheeEecHHHhheeheeehhhhhcceEEEEEcCCceEEEEe---CCchhHHHHHHHHhC
Confidence 3789999999999997754 4788999999999877665554 456667788777888753 444555566666654
No 63
>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=40.25 E-value=1.1e+02 Score=29.73 Aligned_cols=70 Identities=6% Similarity=0.119 Sum_probs=58.6
Q ss_pred eEEEecCceeEEeCCCCceEEeecCCcc-eeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhc
Q 008035 22 QLKIYSGKISWKKLGGGKAVEVDKVDIA-GVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNF 93 (580)
Q Consensus 22 ~lk~~~~gl~wK~~~~g~~~~i~~~di~-~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~ 93 (580)
+++|.+.|+..-+ .|....|+-+++. .+.-.|+-=.-+|.+.+.++.++++.|.+-++-..+..++.+.|
T Consensus 19 ~v~L~~~~l~ls~--~~~~~~Ipf~~~~g~i~~krGl~Wg~L~f~~~~~~~v~l~Gl~w~e~~~Fa~~l~~~w 89 (166)
T PF12462_consen 19 RVELDNAGLELSS--DGHEYRIPFNQLSGSIQVKRGLFWGELEFFLPDQKVVRLHGLPWSEAQRFAHHLNQAW 89 (166)
T ss_pred eEEEcCCEEEEEe--CCeEEEecHHHhccceeeecceeEEEEEEEcCCCcEEEEcCCccHHHHHHHHHHHHHH
Confidence 5566667776554 4689999999999 88888887778899999999999999999999888888877766
No 64
>PF08000 bPH_1: Bacterial PH domain; InterPro: IPR012544 This family contains many bacterial hypothetical proteins.; PDB: 3DCX_E 3HSA_C 3B77_D.
Probab=40.21 E-value=2.2e+02 Score=26.47 Aligned_cols=78 Identities=12% Similarity=0.097 Sum_probs=51.3
Q ss_pred eEeeccCceeEEEeccCceeecc-------CCc-EEEEcCceeEEEEEEecCCCcceeeEEEEEEEeCC-ceEEEeecCh
Q 008035 351 VKSSLKAEDGVLYPLEKSFFFLP-------KPP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTE-QEHLFRNIQR 421 (580)
Q Consensus 351 VkCs~KA~~G~LyPLe~~flfl~-------KPp-~~I~~~eI~~V~f~Rv~~~~~~~rTFDl~V~~K~g-~~~~Fs~I~r 421 (580)
|-+.+|.....+-++++-+|++- |-- .-|||+.|..++++-.|..- ....|.|.+.+. .+..|.=--.
T Consensus 33 I~~ayk~iRD~~vFTnkRlI~vD~QG~TGkK~~~~siPY~~I~~~siETAG~~D---lD~Elki~i~~~~~~i~~~f~k~ 109 (124)
T PF08000_consen 33 IEAAYKLIRDEIVFTNKRLILVDKQGITGKKVEYKSIPYSSITHFSIETAGTFD---LDSELKIWISGQGFPIEFEFKKK 109 (124)
T ss_dssp EEEEEEESSEEEEEESSEEEEEEEESSSSSEEEEEEEEGGGEEEEEEEECSSTT---SEEEEEEEETTESSEEEEEEGTT
T ss_pred eeeeehhhceeEEEecChheEEecccCccceEEEEEEehhhccEEEEEeCCccc---CcccEEEEECCCcEEEEEecCCC
Confidence 55778888999999999999964 233 37999999999999865322 556666666553 2444222224
Q ss_pred hhhhhHHHHH
Q 008035 422 NEYHNLFDFI 431 (580)
Q Consensus 422 eE~~~L~~fl 431 (580)
.+...|...|
T Consensus 110 ~di~~i~k~L 119 (124)
T PF08000_consen 110 TDIYEIYKAL 119 (124)
T ss_dssp SHHHHHHHHH
T ss_pred CCHHHHHHHH
Confidence 4444554444
No 65
>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=38.87 E-value=1.4e+02 Score=27.76 Aligned_cols=84 Identities=10% Similarity=0.266 Sum_probs=44.5
Q ss_pred eeeEecCceEEEEeC--CEEEEEEecccccccccccC-----Ce--EEEEEec------------CCCCCCCCCCceEEE
Q 008035 110 GEVDLNGNMLTFMVG--QKQAFEVSLADVSQTQLQGK-----ND--VILEFHV------------DDTTGANEKDSLMEI 168 (580)
Q Consensus 110 G~~~~~~~~l~f~v~--~k~~feip~~~is~~~~~~K-----nE--v~lef~~------------~d~~~~~~~d~L~Em 168 (580)
|++.+....|.+.-+ ....|+|||..|+==.++.- .+ |-|++.. .+..........+||
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 667777777777653 68999999999986544221 12 5555421 111223446889999
Q ss_pred EEEecCCCCcCCCCCCCChHHHHHHHHHhhccc
Q 008035 169 SFHIPNSNTQFVGDENHPPAQVFRDKIMSMADV 201 (580)
Q Consensus 169 RF~vP~~~~~~~~de~~~~a~~f~~~i~~kA~i 201 (580)
||.-+.. ..+.++.++++|-.-+.+
T Consensus 81 ~l~P~~~--------~~~~l~~if~Als~C~~L 105 (135)
T PF03517_consen 81 RLVPSDP--------SSDMLDEIFEALSECQEL 105 (135)
T ss_dssp EEEES-H--------HH--HHHHHHHHHHHHH-
T ss_pred EEecCcc--------cchHHHHHHHHHHHHHHh
Confidence 9965421 012378888887766655
No 66
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=36.97 E-value=24 Score=40.97 Aligned_cols=25 Identities=28% Similarity=0.437 Sum_probs=16.7
Q ss_pred eeecc-CCcEEEEcCceeEEEEEEec
Q 008035 369 FFFLP-KPPTLILHEEIDYVEFERHA 393 (580)
Q Consensus 369 flfl~-KPp~~I~~~eI~~V~f~Rv~ 393 (580)
+|.+| |.|+..-=..|..|.|-|-.
T Consensus 713 iiH~HLk~PIl~GkrKvqdVQFYREa 738 (1001)
T COG5406 713 IIHFHLKSPILTGKRKVQDVQFYREA 738 (1001)
T ss_pred EEEEeecCceecCCceeeeeeeeecc
Confidence 34444 67777766778888887753
No 67
>KOG2270 consensus Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms; Cell cycle control, cell division, chromosome partitioning]
Probab=36.78 E-value=7.9 Score=42.80 Aligned_cols=42 Identities=7% Similarity=0.098 Sum_probs=21.9
Q ss_pred HHHHHHhhccccccCCceeEEec--CceeeCC-Cc-ceEEEEecccE
Q 008035 191 FRDKIMSMADVGAGGEEAVVTFE--GIAILTP-RG-RYSVELHLSFL 233 (580)
Q Consensus 191 f~~~i~~kA~i~~~~gd~i~~f~--dI~~~tP-RG-Rydie~~~~~l 233 (580)
+.-+++...-|... ...|++=. +|...|- -| .|-|.||.++|
T Consensus 135 vLfrll~RG~i~~i-nGCiSTGKEANVYHat~~dG~~~AIKIYKTSI 180 (520)
T KOG2270|consen 135 VLFRLLNRGVIVEI-NGCISTGKEANVYHATEEDGSEFAIKIYKTSI 180 (520)
T ss_pred HHHHHHhcCeeeec-ccccccCccceeEeeecCCCceEEEEEEeeeE
Confidence 33345555444333 22344432 3443332 34 48999999988
No 68
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=35.42 E-value=26 Score=41.44 Aligned_cols=25 Identities=40% Similarity=0.622 Sum_probs=14.6
Q ss_pred CCCCccCCCCcCCCCCCCCCCCCCC
Q 008035 476 DESDEEDSDFVADKDDGGSPTDDSG 500 (580)
Q Consensus 476 ddd~eeDedF~~s~sd~~ee~Ds~~ 500 (580)
+++++||+.|+++|.|+++|.|++.
T Consensus 883 ~ese~e~~~y~psd~~v~~eS~ed~ 907 (960)
T KOG1189|consen 883 DESEEEDSAYEPSDDDVSDESDEDE 907 (960)
T ss_pred cccccccccCCccccCccccccccc
Confidence 4445566667766666666555443
No 69
>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=33.84 E-value=58 Score=34.13 Aligned_cols=14 Identities=21% Similarity=0.185 Sum_probs=7.1
Q ss_pred EEcCceeEEEEEEe
Q 008035 379 ILHEEIDYVEFERH 392 (580)
Q Consensus 379 I~~~eI~~V~f~Rv 392 (580)
-|+.+-..|+-+|.
T Consensus 121 Cpl~da~C~EC~R~ 134 (314)
T PF06524_consen 121 CPLQDAVCIECERG 134 (314)
T ss_pred CcCCCcEeeeeecc
Confidence 34555555555553
No 70
>PRK14636 hypothetical protein; Provisional
Probab=32.62 E-value=2.8e+02 Score=27.29 Aligned_cols=92 Identities=17% Similarity=0.231 Sum_probs=59.1
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCC-C----ceeeeeeeeee-------------
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGIS-P----EEKQLSVSGRN------------- 108 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~~~-l----~~~els~~GwN------------- 108 (580)
++-.+.|.+-++...|||++.... =+|..-+|-+.++..+...++.. + +.=|+|..|..
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 466788888888999999984210 03588899999999999988743 1 22344444431
Q ss_pred ------------e------eee-EecCceEEEEeCCEEEEEEeccccccccc
Q 008035 109 ------------W------GEV-DLNGNMLTFMVGQKQAFEVSLADVSQTQL 141 (580)
Q Consensus 109 ------------w------G~~-~~~~~~l~f~v~~k~~feip~~~is~~~~ 141 (580)
= |.+ .+++..+++.+.++..++||+++|+.+++
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 23445666666433346788888877766
No 71
>PHA02664 hypothetical protein; Provisional
Probab=31.74 E-value=46 Score=35.81 Aligned_cols=26 Identities=15% Similarity=0.317 Sum_probs=18.9
Q ss_pred hhHHHHHHHHHhhcCCCCceeeeeee
Q 008035 80 QDVATLTNFFQSNFGISPEEKQLSVS 105 (580)
Q Consensus 80 ~d~~~l~~~~~~~~~~~l~~~els~~ 105 (580)
.|++-|-..+.-.||++--++.+-.-
T Consensus 60 adveglmteihlrygmtrvhrnvhfv 85 (534)
T PHA02664 60 ADVEGLMTEIHLRYGMTRVHRNVHFV 85 (534)
T ss_pred chhhhhHhHHHhhhhhhhhhhcccee
Confidence 57888888888888888666654433
No 72
>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=31.72 E-value=68 Score=26.40 Aligned_cols=56 Identities=18% Similarity=0.251 Sum_probs=44.6
Q ss_pred eEEEecCceeEEeCCCCceEEeecCCcceeEEEEecCcceEEEEEeCCcEEEEcCCChhh
Q 008035 22 QLKIYSGKISWKKLGGGKAVEVDKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQD 81 (580)
Q Consensus 22 ~lk~~~~gl~wK~~~~g~~~~i~~~di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d 81 (580)
++.++++||.-+|- -.+..|++++|..+.-....+- +.+.+.+|..+.|.|..-.+
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 57889999999975 4789999999999884333222 88888999999998887764
No 73
>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=31.43 E-value=3.6e+02 Score=25.05 Aligned_cols=90 Identities=17% Similarity=0.249 Sum_probs=55.0
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCC--C---ceeeeeeeeee-------------
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGIS--P---EEKQLSVSGRN------------- 108 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~~~--l---~~~els~~GwN------------- 108 (580)
++-.+.|.+-+++..|+|.+-. =.|..-+|.++++..+....... + ..=|+|..|-.
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 5667899999999999999742 24677789999999999888762 1 13344444421
Q ss_pred ------------------eee-eEecCceEEEEeCCE---EEEEEeccccccccc
Q 008035 109 ------------------WGE-VDLNGNMLTFMVGQK---QAFEVSLADVSQTQL 141 (580)
Q Consensus 109 ------------------wG~-~~~~~~~l~f~v~~k---~~feip~~~is~~~~ 141 (580)
.|. ..++++.+++.+.++ ..++||+++|..+++
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 232 345667777777766 478888888887653
No 74
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=30.57 E-value=44 Score=39.83 Aligned_cols=16 Identities=25% Similarity=0.696 Sum_probs=7.2
Q ss_pred cChhhhh-hHHHHHhcC
Q 008035 419 IQRNEYH-NLFDFISGK 434 (580)
Q Consensus 419 I~reE~~-~L~~fl~~k 434 (580)
.+-+|++ -|..|+..-
T Consensus 831 ~~~Ee~eeel~~~~~~~ 847 (988)
T KOG2038|consen 831 VDDEEFEEELWRFEDGS 847 (988)
T ss_pred CchHHHHHHHHHhcCCc
Confidence 4444443 345555443
No 75
>KOG2422 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.38 E-value=29 Score=40.06 Aligned_cols=6 Identities=0% Similarity=-0.257 Sum_probs=3.0
Q ss_pred CCCCCC
Q 008035 553 KDPNAP 558 (580)
Q Consensus 553 kdp~aP 558 (580)
+++++|
T Consensus 135 ~~~~t~ 140 (665)
T KOG2422|consen 135 EGFFTA 140 (665)
T ss_pred ccCCcc
Confidence 445554
No 76
>KOG0296 consensus Angio-associated migratory cell protein (contains WD40 repeats) [Function unknown]
Probab=30.33 E-value=1.2e+02 Score=33.37 Aligned_cols=61 Identities=23% Similarity=0.394 Sum_probs=43.1
Q ss_pred CcccceEecCCCCCCCeeEEEecCceeEEeCCCCceEEe--ecCCcceeEEEEecCcceEEEEEeCCcEEEEc
Q 008035 5 PSFNNISLGGRGGTNPGQLKIYSGKISWKKLGGGKAVEV--DKVDIAGVTWMKVPRTNQLGVRTKDGLYYKFT 75 (580)
Q Consensus 5 ~~f~~I~~~~~g~~~~G~lk~~~~gl~wK~~~~g~~~~i--~~~di~~~~w~r~~~~~~Lri~~k~~~~~~fd 75 (580)
.+++..||.- +--.|.+ +.||.+.++....+ +.+||.|..|.+ |+.-|-...++|.+..|.
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 3455666654 2234555 45888876766777 789999999998 777788888888776664
No 77
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=29.21 E-value=41 Score=38.53 Aligned_cols=7 Identities=29% Similarity=0.757 Sum_probs=3.3
Q ss_pred chhhhcc
Q 008035 563 SGFIFFS 569 (580)
Q Consensus 563 sa~~~f~ 569 (580)
+||.-|.
T Consensus 336 tAFv~Fk 342 (678)
T KOG0127|consen 336 TAFVKFK 342 (678)
T ss_pred ceEEEec
Confidence 4454443
No 78
>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=28.45 E-value=1.5e+02 Score=25.19 Aligned_cols=51 Identities=12% Similarity=0.192 Sum_probs=37.7
Q ss_pred cccCCceeEEe--cCceeeCCCcceEEEEecc---cEEEecccceeEeecCceeEE
Q 008035 202 GAGGEEAVVTF--EGIAILTPRGRYSVELHLS---FLRLQGQANDFKIQYSSVVRL 252 (580)
Q Consensus 202 ~~~~gd~i~~f--~dI~~~tPRGRydie~~~~---~lrl~gkt~dykI~y~~I~rl 252 (580)
.-.+|..+-.+ .|+.+-.-.|+-.--+-+. .+.|.|+..++-|||++|+++
T Consensus 12 ni~~G~~lG~v~~~Dl~iD~~~G~I~aiIi~~~~~~~~~~~~~~~~~Ipw~~I~kI 67 (76)
T TIGR02888 12 NVNDGERLGVIGNIDLEIDEEDGRILSLIIPGKGKKFGLFSKGEEIEIPWDAIKKI 67 (76)
T ss_pred ECCCCcEeeccccceEEEECCCCEEEEEEEeCCCcEEEeecCCcEEEEEhhhccEE
Confidence 34478888888 7888876678855333333 566778888899999999986
No 79
>KOG4264 consensus Nucleo-cytoplasmic protein MLN51 [General function prediction only]
Probab=27.61 E-value=44 Score=38.07 Aligned_cols=14 Identities=21% Similarity=0.390 Sum_probs=5.9
Q ss_pred CCCCCCCCCCCCCC
Q 008035 488 DKDDGGSPTDDSGE 501 (580)
Q Consensus 488 s~sd~~ee~Ds~~~ 501 (580)
+-||..|+.|++++
T Consensus 85 sgsdsEe~ed~~~E 98 (694)
T KOG4264|consen 85 SGSDSEEKEDEAAE 98 (694)
T ss_pred ccCCcccccccccc
Confidence 33444444444433
No 80
>COG4909 PduC Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=27.48 E-value=52 Score=35.88 Aligned_cols=45 Identities=20% Similarity=0.405 Sum_probs=35.6
Q ss_pred ecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCCCceee
Q 008035 56 VPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQ 101 (580)
Q Consensus 56 ~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~~~l~~~e 101 (580)
.+...--.|.++||.++.+||-.+.||+-|-.|+.+| +|+++.-+
T Consensus 33 spndpkpsiki~ng~v~eldgk~~~dfdlidhfiary-gidl~rae 77 (554)
T COG4909 33 SPNDPKPSIKIKNGRVIELDGKLEHDFDLIDHFIARY-GIDLERAE 77 (554)
T ss_pred CCCCCCCcceeccCeEEeecCccccchhHHHHHHHHh-CCChhhhH
Confidence 3455556677889999999999999999887777665 98886544
No 81
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=26.85 E-value=38 Score=42.17 Aligned_cols=21 Identities=14% Similarity=0.199 Sum_probs=14.9
Q ss_pred CCEEEEEEecccccccccccC
Q 008035 124 GQKQAFEVSLADVSQTQLQGK 144 (580)
Q Consensus 124 ~~k~~feip~~~is~~~~~~K 144 (580)
+..|.|-+-++++..-+-+|-
T Consensus 1230 DDSPLfiLC~NDtCSFTWTGa 1250 (3015)
T KOG0943|consen 1230 DDSPLFILCCNDTCSFTWTGA 1250 (3015)
T ss_pred CCCceEEEEecCccceeecch
Confidence 457788888888777766553
No 82
>PF06115 DUF956: Domain of unknown function (DUF956); InterPro: IPR010360 This is a family of bacterial sequences with undetermined function.
Probab=26.56 E-value=1.9e+02 Score=26.81 Aligned_cols=76 Identities=12% Similarity=0.089 Sum_probs=55.1
Q ss_pred CCCeeEEEecCceeEEeCC-CCceEEeecCCcceeEEEEe--c-CcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhc
Q 008035 18 TNPGQLKIYSGKISWKKLG-GGKAVEVDKVDIAGVTWMKV--P-RTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNF 93 (580)
Q Consensus 18 ~~~G~lk~~~~gl~wK~~~-~g~~~~i~~~di~~~~w~r~--~-~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~ 93 (580)
...|.+-+.+.++-|-|+. ...-++||+++|..+.=+-. + .-....|.++.++.+.|.. .|--++-+.+++|.
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 3889999999999998764 46789999999987765433 1 2233667788877888764 45566677777776
Q ss_pred CCC
Q 008035 94 GIS 96 (580)
Q Consensus 94 ~~~ 96 (580)
+-+
T Consensus 99 ~~e 101 (118)
T PF06115_consen 99 GNE 101 (118)
T ss_pred CHh
Confidence 543
No 83
>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=25.57 E-value=23 Score=42.34 Aligned_cols=19 Identities=16% Similarity=0.212 Sum_probs=12.0
Q ss_pred eeEEEEEEEeCCceEEEee
Q 008035 400 HYFDLLIRLKTEQEHLFRN 418 (580)
Q Consensus 400 rTFDl~V~~K~g~~~~Fs~ 418 (580)
.|....+.+..|.-|.|.+
T Consensus 574 ~Tt~~rv~l~~G~WYLl~s 592 (787)
T PF03115_consen 574 NTTQVRVRLNQGNWYLLQS 592 (787)
T ss_dssp S-EEEEEEE-TT-EEEEEE
T ss_pred ccceeeEEecCCcEEEEEE
Confidence 6778888888887776655
No 84
>COG4343 CRISPR-associated protein, RecB family exonuclease [Defense mechanisms]
Probab=25.08 E-value=21 Score=37.12 Aligned_cols=31 Identities=23% Similarity=0.367 Sum_probs=21.5
Q ss_pred eeeeeeeeeeeeeeEecCceEEEEeCCEEEEEEecccccc
Q 008035 99 EKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVSLADVSQ 138 (580)
Q Consensus 99 ~~els~~GwNwG~~~~~~~~l~f~v~~k~~feip~~~is~ 138 (580)
...-.++||||+..=+.. .+-.-+++++|.-
T Consensus 21 ~V~eELRGWnw~~PPVkp---------~~~~~lslSdi~y 51 (281)
T COG4343 21 PVYEELRGWNWNEPPVKP---------PRYVRLSLSDIVY 51 (281)
T ss_pred CCcHHhcCCcCCCCCCCC---------ccccCccHHHhhc
Confidence 344468999999875544 3345678888887
No 85
>PF13619 KTSC: KTSC domain
Probab=24.84 E-value=84 Score=25.10 Aligned_cols=27 Identities=15% Similarity=0.296 Sum_probs=23.7
Q ss_pred EEEEEEeCCceEEEeecChhhhhhHHH
Q 008035 403 DLLIRLKTEQEHLFRNIQRNEYHNLFD 429 (580)
Q Consensus 403 Dl~V~~K~g~~~~Fs~I~reE~~~L~~ 429 (580)
-|.|.+++|..+++.++|.+.++.|..
T Consensus 17 ~L~V~F~~G~~Y~Y~~Vp~~~~~~l~~ 43 (60)
T PF13619_consen 17 TLEVEFKSGSVYRYFGVPPEVYEALLN 43 (60)
T ss_pred EEEEEEcCCCEEEECCCCHHHHHHHHc
Confidence 478888999999999999999988753
No 86
>PF08208 RNA_polI_A34: DNA-directed RNA polymerase I subunit RPA34.5; InterPro: IPR013240 This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription [].; PDB: 3NFG_N.
Probab=24.36 E-value=25 Score=34.66 Aligned_cols=7 Identities=0% Similarity=0.211 Sum_probs=3.1
Q ss_pred EEEEecc
Q 008035 284 VLQFETD 290 (580)
Q Consensus 284 V~qF~~e 290 (580)
.|+++..
T Consensus 9 lI~~P~~ 15 (198)
T PF08208_consen 9 LIKAPAS 15 (198)
T ss_dssp EEEEETT
T ss_pred EEeCCCC
Confidence 4444443
No 87
>TIGR00648 recU recombination protein U. The Bacillus protein has been shown to be required for DNA recombination and repair. RJD 11/20/00
Probab=23.88 E-value=1.1e+02 Score=29.97 Aligned_cols=76 Identities=17% Similarity=0.284 Sum_probs=53.5
Q ss_pred EeccCceeeccCCc---EEEEcC-------ceeEEEEEEecC----CCcceeeEEEEEEE-eCCceEEEeecChhhhhhH
Q 008035 363 YPLEKSFFFLPKPP---TLILHE-------EIDYVEFERHAA----GGSNMHYFDLLIRL-KTEQEHLFRNIQRNEYHNL 427 (580)
Q Consensus 363 yPLe~~flfl~KPp---~~I~~~-------eI~~V~f~Rv~~----~~~~~rTFDl~V~~-K~g~~~~Fs~I~reE~~~L 427 (580)
|-+++++-.++|-| ..+.++ -|....|.+-+. |.-+.|.+|+.--- ++.+.+-+++|.....+.|
T Consensus 16 ~Y~~~~iA~I~K~PtPi~iv~v~~p~r~~~~I~~Ayf~~kSt~DY~Gvy~G~~i~FEAKeT~~k~~fpl~nI~~HQi~~L 95 (169)
T TIGR00648 16 YYLTNQIAVIHKKPTPVQIVNVHYPKRSAAVIKEAYFKQSSTTDYNGIYKGRYIDFEAKETKNKTSFPLQNIHDHQIEHM 95 (169)
T ss_pred HHHHCCeEEEEecCCCeEEEEecCccccCceEEEEEEccCCcCCccceECCEEEEEEccccCCCCceehhhCCHHHHHHH
Confidence 34566777777633 355443 355566655431 33456899988844 4677899999999999999
Q ss_pred HHHHhcCCceE
Q 008035 428 FDFISGKGLKI 438 (580)
Q Consensus 428 ~~fl~~k~lki 438 (580)
.++.+..||-.
T Consensus 96 ~~~~~~gGiaF 106 (169)
T TIGR00648 96 KQVKQQDGICF 106 (169)
T ss_pred HHHHHCCCEEE
Confidence 99999999654
No 88
>PF14317 YcxB: YcxB-like protein
Probab=23.71 E-value=1.6e+02 Score=22.30 Aligned_cols=30 Identities=7% Similarity=0.136 Sum_probs=24.8
Q ss_pred EecccEEEecccceeEeecCceeEEEeccc
Q 008035 228 LHLSFLRLQGQANDFKIQYSSVVRLFLLPK 257 (580)
Q Consensus 228 ~~~~~lrl~gkt~dykI~y~~I~rlFlLP~ 257 (580)
+++++|+++.......++|++|.++.--|.
T Consensus 1 f~~~gi~~~~~~~~~~~~w~~i~~v~e~~~ 30 (62)
T PF14317_consen 1 FDEDGIIIESGNGSSRIPWSDIKKVVETKD 30 (62)
T ss_pred CCCCEEEEEECCeEEEEEchheEEEEEeCC
Confidence 357889998878889999999999876554
No 89
>PRK00092 ribosome maturation protein RimP; Reviewed
Probab=22.79 E-value=6.6e+02 Score=23.81 Aligned_cols=90 Identities=18% Similarity=0.348 Sum_probs=59.1
Q ss_pred CcceeEEEEecCcceEEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCCC-----ceeeeeeeeee-------------
Q 008035 47 DIAGVTWMKVPRTNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISP-----EEKQLSVSGRN------------- 108 (580)
Q Consensus 47 di~~~~w~r~~~~~~Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~~~l-----~~~els~~GwN------------- 108 (580)
+|-.+.|.+-++...|||.+-.. +|-.-+|.+.++..+...++..- +.=|+|..|-+
T Consensus 23 ~l~dv~~~~~~~~~~l~V~Id~~-----~gv~iddc~~~Sr~is~~LD~~d~i~~~Y~LEVSSPGi~RpL~~~~~f~r~~ 97 (154)
T PRK00092 23 ELVDVEYVKEGRDSTLRIYIDKE-----GGIDLDDCEEVSRQISAVLDVEDPIPGAYTLEVSSPGLDRPLKKARDFRRFI 97 (154)
T ss_pred EEEEEEEEecCCCcEEEEEEECC-----CCCCHHHHHHHHHHHHHHhccccCCCCCeEEEEeCCCCCCcCCCHHHHHHhC
Confidence 46778888888888999998432 46788899999988887775321 12233333321
Q ss_pred ------------------eeee-EecCceEEEEeCCEE-EEEEeccccccccc
Q 008035 109 ------------------WGEV-DLNGNMLTFMVGQKQ-AFEVSLADVSQTQL 141 (580)
Q Consensus 109 ------------------wG~~-~~~~~~l~f~v~~k~-~feip~~~is~~~~ 141 (580)
-|.+ .++++.+.+.+.+++ ..+||+++|..+++
T Consensus 98 G~~v~V~~~~~~~~~~~~~G~L~~~~~~~i~l~~~~~~~~~~i~~~~I~~a~l 150 (154)
T PRK00092 98 GREVKVKLYEPIDGRKKFQGILLAVDGETVTLEVEGKEKEVEIPLDNIAKARL 150 (154)
T ss_pred CCeEEEEEEcccCCceEEEEEEEEeeCCEEEEEECCCeEEEEEEHHHcceEEE
Confidence 1221 234566777777663 67888888888765
No 90
>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=22.69 E-value=62 Score=29.57 Aligned_cols=61 Identities=13% Similarity=0.077 Sum_probs=45.3
Q ss_pred CCCCeeEEEecCceeEEeCCC-------C-ceE--------EeecCCcceeEEEEec-CcceEEEEEeCCcEEEEcCCC
Q 008035 17 GTNPGQLKIYSGKISWKKLGG-------G-KAV--------EVDKVDIAGVTWMKVP-RTNQLGVRTKDGLYYKFTGFR 78 (580)
Q Consensus 17 ~~~~G~lk~~~~gl~wK~~~~-------g-~~~--------~i~~~di~~~~w~r~~-~~~~Lri~~k~~~~~~fdGF~ 78 (580)
...+|+|.|+...|-|-.+.+ + .+. ..+=++|+++.|.|.- |...|.|++.++.-+.| .|.
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 5667788888888876 88999999999855443 455
No 91
>PF15406 PH_6: Pleckstrin homology domain
Probab=22.69 E-value=1.5e+02 Score=27.31 Aligned_cols=49 Identities=20% Similarity=0.308 Sum_probs=34.9
Q ss_pred CcEEEEcCceeEEEEEEecCCCcceeeEEEEEEEeCCceEEEeecChhhhhhHHHHHhc
Q 008035 375 PPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISG 433 (580)
Q Consensus 375 Pp~~I~~~eI~~V~f~Rv~~~~~~~rTFDl~V~~K~g~~~~Fs~I~reE~~~L~~fl~~ 433 (580)
|.=+|++.|+..|+=+ |+ .-|-+.+ +|..|+|-.-+-.|-++-...|+.
T Consensus 63 P~GiinLadase~~~~----g~---~kF~f~~---~G~khtF~A~s~aERD~Wv~~lk~ 111 (112)
T PF15406_consen 63 PSGIINLADASEPEKD----GS---NKFHFKI---KGHKHTFEAASAAERDNWVAQLKA 111 (112)
T ss_pred CcceEehhhccccccC----CC---ceEEEEe---CCceeeeecCCHHHhccHHHHhhc
Confidence 5569999999888743 12 4465555 588999999988888765555443
No 92
>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=22.29 E-value=1.3e+02 Score=24.74 Aligned_cols=46 Identities=26% Similarity=0.312 Sum_probs=35.7
Q ss_pred EEEEEeCCcEEEEcCCChhhHHHHHHHHHhhcCCCCceeeeeeeee
Q 008035 62 LGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGR 107 (580)
Q Consensus 62 Lri~~k~~~~~~fdGF~~~d~~~l~~~~~~~~~~~l~~~els~~Gw 107 (580)
|+|.+.+|..+.+.=-..+-...||+.+.+..|+..++..|...|+
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 5677777876666655667799999999999999888877766554
No 93
>PF10278 Med19: Mediator of RNA pol II transcription subunit 19 ; InterPro: IPR019403 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=21.39 E-value=55 Score=32.38 Aligned_cols=6 Identities=50% Similarity=1.115 Sum_probs=4.1
Q ss_pred ccCCcE
Q 008035 372 LPKPPT 377 (580)
Q Consensus 372 l~KPp~ 377 (580)
|-||||
T Consensus 69 IekPPi 74 (178)
T PF10278_consen 69 IEKPPI 74 (178)
T ss_pred hhCCCC
Confidence 357877
No 94
>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=20.98 E-value=3.1e+02 Score=23.71 Aligned_cols=39 Identities=26% Similarity=0.464 Sum_probs=22.3
Q ss_pred CCCeeEEEecCc-----eeEEeCCC-Cce---EEeecCCcceeEEEEecCc
Q 008035 18 TNPGQLKIYSGK-----ISWKKLGG-GKA---VEVDKVDIAGVTWMKVPRT 59 (580)
Q Consensus 18 ~~~G~lk~~~~g-----l~wK~~~~-g~~---~~i~~~di~~~~w~r~~~~ 59 (580)
..+|.|.|..+. |.|++..+ |.+ +-|.++ .+.|.+|...
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 367888887653 78999877 433 223333 4678888643
No 95
>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=20.60 E-value=1.4e+02 Score=30.86 Aligned_cols=36 Identities=17% Similarity=0.195 Sum_probs=30.9
Q ss_pred eee-eEecCceEEEEeCCEEEEEEecccccccccccC
Q 008035 109 WGE-VDLNGNMLTFMVGQKQAFEVSLADVSQTQLQGK 144 (580)
Q Consensus 109 wG~-~~~~~~~l~f~v~~k~~feip~~~is~~~~~~K 144 (580)
.|. +..+++.|.+.-++++..+||+.+|+++.+.|.
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 888999999999999999999999999988554
No 96
>cd00836 FERM_C FERM_C domain. The FERM_C domain is the third structural domain within the FERM domain. The FERM domain is found in the cytoskeletal-associated proteins such as ezrin, moesin, radixin, 4.1R, and merlin. These proteins provide a link between the membrane and cytoskeleton and are involved in signal transduction pathways. The FERM_C domain is also found in protein tyrosine phosphatases (PTPs), the tyrosine kinases FAKand JAK, in addition to other proteins involved in signaling. This domain is structuraly similar to the PH and PTB domains and consequently is capable of binding to both peptides and phospholipids at different sites.
Probab=20.56 E-value=3.2e+02 Score=23.24 Aligned_cols=50 Identities=24% Similarity=0.319 Sum_probs=39.6
Q ss_pred CcEEEEcCceeEEEEEEecCCCcceeeEEEEEEEeC--CceEEEeecChhhhhhHHHHHh
Q 008035 375 PPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT--EQEHLFRNIQRNEYHNLFDFIS 432 (580)
Q Consensus 375 Pp~~I~~~eI~~V~f~Rv~~~~~~~rTFDl~V~~K~--g~~~~Fs~I~reE~~~L~~fl~ 432 (580)
|+..++..+|..++|.| |+|-+.+.-+. ...+.|.+-+.+....|-.-+.
T Consensus 34 ~~~~f~W~~I~~isf~~--------k~F~i~~~~~~~~~~~~~f~~~s~~~~k~lwk~~v 85 (92)
T cd00836 34 PINEFPWPEIRKISFKR--------KKFTLKVRDKDGQEITLSFQTPSHRACKYLWKLCV 85 (92)
T ss_pred EEEEEEcccceEEEEcC--------CEEEEEEecCcCceeeEEEECCCHHHHHHHHHHHH
Confidence 66789999999999987 89999888763 3577899888877777655443
No 97
>PTZ00449 104 kDa microneme/rhoptry antigen; Provisional
Probab=20.45 E-value=2.9e+02 Score=32.05 Aligned_cols=20 Identities=15% Similarity=0.220 Sum_probs=12.9
Q ss_pred eEEEEec-CcceEEEEEeCCc
Q 008035 51 VTWMKVP-RTNQLGVRTKDGL 70 (580)
Q Consensus 51 ~~w~r~~-~~~~Lri~~k~~~ 70 (580)
+.|-... .-|.+.|.+.|.+
T Consensus 81 viwen~~~plyt~aivt~n~~ 101 (943)
T PTZ00449 81 VIWENAEMPLYTCAIVTNNDG 101 (943)
T ss_pred EEEecCCCcceeEEEEecCCC
Confidence 4566554 5677777776654
No 98
>KOG3540 consensus Beta amyloid precursor protein [General function prediction only]
Probab=20.02 E-value=78 Score=35.87 Aligned_cols=17 Identities=24% Similarity=0.419 Sum_probs=9.3
Q ss_pred hHHHHHhcCCceEeeCC
Q 008035 426 NLFDFISGKGLKIMNLG 442 (580)
Q Consensus 426 ~L~~fl~~k~lki~n~~ 442 (580)
--..=+..+|+.+.+.|
T Consensus 155 ea~etC~tk~mil~~~g 171 (615)
T KOG3540|consen 155 EAMETCSTKGMILHSYG 171 (615)
T ss_pred HHHHHhccCCeeeeccc
Confidence 33444555666666654
Done!