Query 009802
Match_columns 525
No_of_seqs 349 out of 1408
Neff 6.7
Searched_HMMs 46136
Date Thu Mar 28 17:30:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009802.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009802hhsearch_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 2E-133 5E-138 1035.8 39.1 489 1-519 118-609 (615)
2 COG5165 POB3 Nucleosome-bindin 100.0 1E-99 2E-104 753.7 28.7 383 1-392 115-502 (508)
3 PF03531 SSrecog: Structure-sp 100.0 8E-66 1.7E-70 497.6 8.5 177 1-177 45-221 (222)
4 KOG1189 Global transcriptional 100.0 1.3E-45 2.7E-50 394.5 12.8 306 94-413 607-943 (960)
5 COG5406 Nucleosome binding fac 100.0 1.6E-37 3.6E-42 326.3 17.1 244 106-359 669-930 (1001)
6 PF08512 Rtt106: Histone chape 99.9 5E-28 1.1E-32 206.8 10.0 92 231-324 1-95 (95)
7 PTZ00199 high mobility group p 99.8 1.1E-20 2.5E-25 161.2 5.9 83 427-509 9-93 (94)
8 cd01389 MATA_HMG-box MATA_HMG- 99.7 1.7E-17 3.6E-22 136.4 5.1 72 440-511 1-72 (77)
9 cd01388 SOX-TCF_HMG-box SOX-TC 99.7 6.1E-17 1.3E-21 131.4 5.1 69 441-509 2-70 (72)
10 COG5648 NHP6B Chromatin-associ 99.6 1.3E-16 2.9E-21 150.9 4.3 90 429-518 59-148 (211)
11 cd01390 HMGB-UBF_HMG-box HMGB- 99.6 2.5E-16 5.4E-21 124.8 4.6 66 441-506 1-66 (66)
12 PF00505 HMG_box: HMG (high mo 99.6 1.3E-16 2.8E-21 127.6 2.8 69 441-509 1-69 (69)
13 PF09011 HMG_box_2: HMG-box do 99.6 4.4E-16 9.6E-21 126.7 3.4 72 438-509 1-73 (73)
14 smart00398 HMG high mobility g 99.6 7.9E-16 1.7E-20 122.9 4.8 70 440-509 1-70 (70)
15 KOG0381 HMG box-containing pro 99.5 5.9E-15 1.3E-19 126.1 5.1 76 437-512 17-95 (96)
16 cd00084 HMG-box High Mobility 99.5 1.9E-14 4.1E-19 113.6 4.6 65 441-505 1-65 (66)
17 KOG0527 HMG-box transcription 99.4 9.9E-14 2.1E-18 142.5 6.0 78 434-511 56-133 (331)
18 KOG3248 Transcription factor T 98.9 8.8E-10 1.9E-14 110.6 3.0 71 440-510 191-261 (421)
19 KOG0528 HMG-box transcription 98.7 9.6E-09 2.1E-13 108.0 4.6 76 440-515 325-400 (511)
20 KOG4715 SWI/SNF-related matrix 98.7 1.5E-08 3.2E-13 101.1 3.9 75 436-510 60-134 (410)
21 KOG2746 HMG-box transcription 98.2 6.4E-07 1.4E-11 97.8 2.8 74 431-504 172-247 (683)
22 PF14887 HMG_box_5: HMG (high 97.9 1.4E-05 3E-10 64.5 4.4 75 440-515 3-77 (85)
23 KOG1189 Global transcriptional 96.9 0.00075 1.6E-08 75.1 4.4 40 284-324 834-873 (960)
24 PF04690 YABBY: YABBY protein; 96.6 0.0017 3.6E-08 61.1 3.2 47 437-483 118-164 (170)
25 COG5406 Nucleosome binding fac 96.4 0.0024 5.2E-08 69.9 3.2 53 184-237 763-816 (1001)
26 PF14470 bPH_3: Bacterial PH d 96.0 0.053 1.1E-06 45.5 9.3 78 232-316 9-96 (96)
27 PF06382 DUF1074: Protein of u 95.7 0.0084 1.8E-07 56.3 3.1 48 445-496 83-130 (183)
28 COG5648 NHP6B Chromatin-associ 95.4 0.011 2.3E-07 57.1 3.0 68 440-507 143-210 (211)
29 KOG0526 Nucleosome-binding fac 92.9 0.1 2.2E-06 56.7 4.0 31 244-275 345-376 (615)
30 PF05764 YL1: YL1 nuclear prot 91.8 0.16 3.4E-06 50.9 3.6 9 362-370 38-46 (240)
31 PF08073 CHDNT: CHDNT (NUC034) 90.7 0.092 2E-06 40.2 0.5 39 445-483 13-51 (55)
32 KOG1832 HIV-1 Vpr-binding prot 84.5 1.2 2.6E-05 51.4 4.6 21 267-287 1326-1347(1516)
33 KOG3064 RNA-binding nuclear pr 84.2 0.6 1.3E-05 46.5 1.9 8 159-166 46-53 (303)
34 PF04769 MAT_Alpha1: Mating-ty 84.0 0.89 1.9E-05 44.3 3.0 56 435-496 38-93 (201)
35 PF04147 Nop14: Nop14-like fam 83.1 4.3 9.3E-05 47.9 8.8 18 480-497 456-473 (840)
36 PF04931 DNA_pol_phi: DNA poly 82.7 1.5 3.4E-05 51.2 4.9 14 302-315 620-633 (784)
37 COG5165 POB3 Nucleosome-bindin 82.5 1.9 4E-05 45.1 4.7 53 259-317 37-89 (508)
38 PF06524 NOA36: NOA36 protein; 76.7 3.1 6.7E-05 41.7 4.0 10 204-213 160-169 (314)
39 KOG1832 HIV-1 Vpr-binding prot 73.3 2.9 6.2E-05 48.5 3.2 13 91-103 1033-1045(1516)
40 PF10446 DUF2457: Protein of u 71.6 3.5 7.7E-05 44.3 3.3 8 310-317 12-19 (458)
41 PF08567 TFIIH_BTF_p62_N: TFII 71.1 16 0.00034 30.2 6.4 56 234-294 5-67 (79)
42 TIGR03481 HpnM hopanoid biosyn 69.2 5.6 0.00012 38.6 3.9 48 464-511 62-111 (198)
43 PF06244 DUF1014: Protein of u 67.8 2.3 4.9E-05 38.2 0.7 46 440-485 71-117 (122)
44 PF02893 GRAM: GRAM domain; I 65.4 8.8 0.00019 30.2 3.7 38 234-271 19-66 (69)
45 smart00568 GRAM domain in gluc 64.7 11 0.00024 28.8 4.1 38 234-271 12-58 (61)
46 PRK15117 ABC transporter perip 64.4 8.8 0.00019 37.6 4.2 49 463-511 65-115 (211)
47 PF14844 PH_BEACH: PH domain a 61.9 34 0.00073 29.3 7.0 68 239-311 15-102 (106)
48 PF05764 YL1: YL1 nuclear prot 59.0 13 0.00028 37.3 4.4 11 477-487 180-190 (240)
49 PF06524 NOA36: NOA36 protein; 58.4 14 0.0003 37.3 4.3 13 263-275 122-134 (314)
50 PF10446 DUF2457: Protein of u 53.9 12 0.00025 40.5 3.2 8 451-458 212-219 (458)
51 PF05285 SDA1: SDA1; InterPro 52.8 8.2 0.00018 40.4 1.9 19 297-317 63-81 (324)
52 PF02724 CDC45: CDC45-like pro 50.8 15 0.00032 42.0 3.6 20 492-511 257-276 (622)
53 KOG2897 DNA-binding protein YL 50.4 11 0.00024 39.8 2.3 14 467-480 188-201 (390)
54 PF02724 CDC45: CDC45-like pro 49.7 10 0.00022 43.2 2.2 12 477-488 355-366 (622)
55 PF04147 Nop14: Nop14-like fam 45.5 16 0.00034 43.3 2.9 10 302-311 276-285 (840)
56 TIGR03503 conserved hypothetic 44.8 2.8E+02 0.0061 29.8 11.7 89 83-173 163-253 (374)
57 PF05494 Tol_Tol_Ttg2: Toluene 44.5 28 0.0006 32.6 3.9 47 464-510 36-84 (170)
58 PF03703 bPH_2: Bacterial PH d 44.0 36 0.00077 26.9 4.0 57 257-314 22-80 (80)
59 KOG3223 Uncharacterized conser 43.3 7.6 0.00017 37.2 -0.1 54 439-495 162-216 (221)
60 KOG0127 Nucleolar protein fibr 43.0 27 0.00059 38.8 3.9 20 445-464 335-356 (678)
61 KOG2038 CAATT-binding transcri 42.3 22 0.00049 41.0 3.3 6 225-230 689-694 (988)
62 PF08000 bPH_1: Bacterial PH d 38.9 2.6E+02 0.0056 25.2 9.0 63 233-298 32-103 (124)
63 PF14317 YcxB: YcxB-like prote 38.2 67 0.0014 23.8 4.5 30 111-140 1-30 (62)
64 KOG2141 Protein involved in hi 36.0 26 0.00057 40.1 2.6 25 466-490 333-357 (822)
65 KOG2270 Serine/threonine prote 35.2 8.3 0.00018 41.4 -1.3 15 102-116 166-180 (520)
66 KOG4264 Nucleo-cytoplasmic pro 35.0 29 0.00063 38.2 2.7 15 371-385 85-99 (694)
67 PF11201 DUF2982: Protein of u 33.9 37 0.0008 31.7 2.8 35 108-142 1-35 (152)
68 KOG0784 Isocitrate dehydrogena 29.1 26 0.00057 36.7 1.1 114 129-291 131-262 (375)
69 PF09026 CENP-B_dimeris: Centr 29.0 18 0.0004 30.9 0.0 13 441-453 56-68 (101)
70 COG2854 Ttg2D ABC-type transpo 28.8 87 0.0019 30.6 4.5 45 472-516 77-122 (202)
71 PF09073 BUD22: BUD22; InterP 27.3 92 0.002 33.9 5.0 19 304-322 131-150 (432)
72 PF13619 KTSC: KTSC domain 26.6 88 0.0019 24.1 3.5 39 265-311 4-42 (60)
73 PF11705 RNA_pol_3_Rpc31: DNA- 26.5 57 0.0012 32.4 3.0 6 161-166 34-39 (233)
74 PRK10363 cpxP periplasmic repr 24.5 1.6E+02 0.0035 27.9 5.4 49 469-518 111-159 (166)
75 PF15406 PH_6: Pleckstrin homo 24.3 1.4E+02 0.003 26.4 4.5 56 250-315 49-110 (112)
76 PTZ00449 104 kDa microneme/rho 24.0 1.9E+02 0.004 32.5 6.3 18 149-166 222-239 (943)
77 KOG2076 RNA polymerase III tra 22.1 79 0.0017 37.2 3.4 9 447-455 146-154 (895)
78 TIGR02888 spore_YlmC_YmxH spor 21.9 2.1E+02 0.0045 23.4 4.9 49 87-135 14-67 (76)
79 KOG3838 Mannose lectin ERGIC-5 21.9 65 0.0014 34.5 2.4 39 481-519 268-306 (497)
80 KOG3205 Rho GDP-dissociation i 21.2 1.5E+02 0.0033 28.6 4.5 84 65-161 39-124 (200)
81 PF04386 SspB: Stringent starv 21.1 1.6E+02 0.0034 27.4 4.6 56 98-157 58-117 (155)
82 KOG1827 Chromatin remodeling c 21.0 20 0.00043 40.7 -1.6 44 444-487 552-595 (629)
83 COG5129 MAK16 Nuclear protein 20.5 66 0.0014 31.8 2.0 6 159-164 45-50 (303)
84 TIGR00648 recU recombination p 20.4 1.8E+02 0.0038 27.7 4.8 74 248-321 18-106 (169)
No 1
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=100.00 E-value=2.2e-133 Score=1035.75 Aligned_cols=489 Identities=47% Similarity=0.770 Sum_probs=418.7
Q ss_pred CceEEeCCeeEEEEechhhhccccCccceEEEEEecCCCCCCCCCCceEEEEEEecCCCCccCCCCCCChHHHHHHHHHh
Q 009802 1 MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMS 80 (525)
Q Consensus 1 ~l~f~~~~k~~feip~~~i~~~~~~~knev~~ef~~~~~~~~~~~~~l~e~rf~~p~~~~~~~~~~~~~~~~~~~~~i~~ 80 (525)
+|+|.|++||||||||++|+|| ++|||||+||||++|++ +.+|||||||||.+.. .| ++.+++++|+++|++
T Consensus 118 ~l~F~~~skpiFEIP~s~Vsn~-l~gKNEv~LEFh~nDda----~~~LmEmRF~iP~d~~--~g-ed~~~~e~F~~~v~~ 189 (615)
T KOG0526|consen 118 ELVFDVNSKPIFEIPLSDVSNT-LTGKNEVTLEFHQNDDA----PVGLMEMRFHIPEDQE--DG-EDRDKVEAFYENVLA 189 (615)
T ss_pred EEEEeeCCceeEEeehhhhhhh-hcCCceEEEEEeccCCC----CcceEEEEEecCcccc--cc-ccccHHHHHHHHHHH
Confidence 4899999999999999999999 78999999999999983 5669999999996542 33 457999999999999
Q ss_pred hcccCcCCcceEEEEcCceeeccCcceeEEEecCcEEEEccceeeeeecCceeEEEecccCCCCcEEEEEecCCcccCCC
Q 009802 81 MADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQ 160 (525)
Q Consensus 81 ~a~~~~~~g~~i~~~~~i~~~~PRgry~le~~~~~lrl~gkt~d~~I~y~~I~~~f~lP~~~~~~~~~v~~L~~Pi~~Gq 160 (525)
+|||++++||+||+|.+|+|+||||||+|+||.++||||||||||||+|++|.|+|+||+++++|++|||+|+|||||||
T Consensus 190 kAdv~~~~gdaI~~f~~i~~lTPRGRYdI~iy~t~lrL~GkTyDyKI~y~SI~rLflLPk~d~rh~~fVisldPPIRQGQ 269 (615)
T KOG0526|consen 190 KADVSSAVGDAIVSFEEILCLTPRGRYDIKIYPTFLRLHGKTYDYKIPYKSINRLFLLPKKDQRHVYFVISLDPPIRQGQ 269 (615)
T ss_pred hcCcccccCCceEEeeeeeeecCCccceeEEehhhhhhcccccceecchhheeeeEeccCCCCceEEEEEecCCccccCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccceEEEEEEecceeeeeccCcHHHHhHhhhcccccccccchHHHHHHHHhhhcCCeeccCCCcccCCCcceEEEeecC
Q 009802 161 TLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKA 240 (525)
Q Consensus 161 t~y~~lv~~f~~~~~~~~~l~~~~e~~~~k~~~~l~~~~~g~~~ev~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c~~ka 240 (525)
|||||||+||.++++++++|++++|+++.+|+++|++.|+|++|+||++||++|||+||++||+|.|+.|++||+|++||
T Consensus 270 TrY~~LV~qF~kDee~e~eLslsdE~l~~k~~~kL~k~ysg~i~Ev~s~V~k~L~~rKit~Pg~F~s~~g~~av~CS~KA 349 (615)
T KOG0526|consen 270 TRYPFLVLQFGKDEEVELELSLSDEELEEKYKGKLKKEYSGPIYEVFSIVMKALCGRKITVPGEFLSHSGTAAVKCSFKA 349 (615)
T ss_pred cccceEEEEeccccceeEeecccHHHHhhhhcchhhhhcCccHHHHHHHHHHHHhCceeeccccccccCCCceeeeeecc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceEEEecCcceeeccCCCeEEecCceeEEEEEEecCCCCceeeEeEEEEEeCCceEEEeccchhhhhhHHHHHhcCCce
Q 009802 241 EDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLK 320 (525)
Q Consensus 241 ~~G~Lypl~~~llfl~KPp~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~~~~~Fs~I~~~e~~~l~~~l~~k~i~ 320 (525)
++|+||||++|||||||||+||+|+||.+|+|+|++.+++++|||||+|++|+|++|+|++|.++||..|.+||++|+|+
T Consensus 350 neG~LYPLekgFlFl~KP~l~I~f~EIS~V~fsR~~~s~t~trtFD~ei~lk~g~~~tFs~i~keE~~~L~~fl~sK~lk 429 (615)
T KOG0526|consen 350 NEGLLYPLEKGFLFLPKPPLYIRFEEISSVNFSRSGLSGTSTRTFDFEITLKSGTSYTFSNISKEEYGKLFDFLNSKGLK 429 (615)
T ss_pred cCceEeecccceEeecCCceEeeccceeeEEEEeccCCccceeeEEEEEEEcCCCeeeecccCHHHHHHHHHHHhhcCce
Confidence 99999999999999999999999999999999999877777899999999999999999999999999999999999999
Q ss_pred EeecCCCccccchhhcc-cCCCCCCCChhhHhhhccCCCCCCCcccccccc--CCCCCCCCCCCCCCCCCCccCCCCCCC
Q 009802 321 IMNLGDMKTTDGVAAVL-QEDDDDAVDPHLERIKNEAGGDESDEEDSDFVA--DKDDGGSPTDDSGEEDSDASESGGEKE 397 (525)
Q Consensus 321 ~~~~~~~~~~~~~~~~~-~~~~dd~~d~~~~~~~~~~~dddd~eeDedf~~--~~~d~~ee~dsd~~~~~~~~e~~~e~e 397 (525)
|+|.+.....-...+.+ ..+.+++++ .+++..|+++++|+||++ +++|+++++||++.++++++.+++
T Consensus 430 i~N~~~~~~~D~~~~~~~~e~~~~edd------~~d~~~de~~e~Dedf~~~~~~d~vaee~dS~~~ds~~~eg~S~--- 500 (615)
T KOG0526|consen 430 IRNEGREDEIDEYLATLKAEDRDEEDD------SDDSSTDEDEEEDEDFKPGEEDDDVAEEFDSDEADSSDEEGDSD--- 500 (615)
T ss_pred eecCCcccccchHHhhhccccchhhhc------ccccccccchhhhhhcccCccccccccccCCcccccccccCCcc---
Confidence 99997643211222222 222222211 223345567788999997 455688899994333333221111
Q ss_pred CchhhhccccccccccccccCCCCCCCcccccccccccCCCCCCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHh
Q 009802 398 KPAKKESKKESSSVKASTSKKKSRDGDEDGKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGE 477 (525)
Q Consensus 398 ~~~~k~~k~~~~~~k~~k~kkk~k~~~~~~kkkkkkkkkd~~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge 477 (525)
+++++..+ .++|+.++ +. ++++++++.+|++||++||||+||||+|++..|..+|.+ |+++++|+|.+|+
T Consensus 501 ~~~k~~~~----~kk~K~ek-~~---k~~~~~k~~kk~kdpnapkra~sa~m~w~~~~r~~ik~d--gi~~~dv~kk~g~ 570 (615)
T KOG0526|consen 501 EPKKERSS----EKKPKREK-KE---KEKEKKKKGKKKKDPNAPKRATSAYMLWLNASRESIKED--GISVGDVAKKAGE 570 (615)
T ss_pred cccccccc----cccchhhh-Hh---hhhccccCcccCCCCCCCccchhHHHHHHHhhhhhHhhc--CchHHHHHHHHhH
Confidence 11111111 11121111 11 123344677889999999999999999999999999988 9999999999999
Q ss_pred hhccCChhhhhhhHHHHHHHHHHHHHHhccCCCCCCCCCCCC
Q 009802 478 RWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSG 519 (525)
Q Consensus 478 ~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~~~~~~~~~~~ 519 (525)
+||.||. |.+|+++|+.+|.||+.+|.+|+... ....++
T Consensus 571 ~wk~ms~--k~~we~ka~~dk~ry~~em~~yk~g~-~~~~~~ 609 (615)
T KOG0526|consen 571 KWKQMSA--KEEWEDKAAVDKQRYEDEMKEYKNGQ-MNSKSG 609 (615)
T ss_pred HHhhhcc--cchhhHHHHHHHHHHHHHHHhhcCCC-cccccC
Confidence 9999998 99999999999999999999999554 444443
No 2
>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=100.00 E-value=9.8e-100 Score=753.65 Aligned_cols=383 Identities=34% Similarity=0.588 Sum_probs=348.6
Q ss_pred CceEEeCCeeEEEEechhhhccccCccceEEEEEecCCCCCCCCCCceEEEEEEecCCCCccCC---C-CCCChHHHHHH
Q 009802 1 MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVG---D-ENHPPAQVFRD 76 (525)
Q Consensus 1 ~l~f~~~~k~~feip~~~i~~~~~~~knev~~ef~~~~~~~~~~~~~l~e~rf~~p~~~~~~~~---~-~~~~~~~~~~~ 76 (525)
+++|.+|+||+||||+++|.|+|+++||||+|||+..|.....++|+|||||||+|++.++..+ + -+++.|++|++
T Consensus 115 e~vf~~N~kp~FEIP~~~i~ntnl~~kNEv~vef~~~de~~~pa~delvEmRfy~pg~~~kEd~a~Ge~vek~~a~~fye 194 (508)
T COG5165 115 EAVFFRNTKPIFEIPVDDIENTNLDIKNEVSVEFRIQDEEYQPAGDELVEMRFYSPGVKTKEDIAGGESVEKSMAEAFYE 194 (508)
T ss_pred eeeeeecCCeeEEeehhhhccccccccceeEEEEeccccccCCCcccceEEEEecCCCcchhhccCcchhhHHHHHHHHH
Confidence 4789999999999999999999999999999999877776677889999999999997654322 2 34689999999
Q ss_pred HHHhhcccCcCCcceEEEEcCceeeccCcceeEEEecCcEEEEccceeeeeecCceeEEEecccCCCCcEEEEEecCCcc
Q 009802 77 KIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPI 156 (525)
Q Consensus 77 ~i~~~a~~~~~~g~~i~~~~~i~~~~PRgry~le~~~~~lrl~gkt~d~~I~y~~I~~~f~lP~~~~~~~~~v~~L~~Pi 156 (525)
.|+++|+||+++||+|++|++|+++||||||+|+||.++|||+||||||||.|++|+++|+||++++.|+++||+++|||
T Consensus 195 ~lkekadige~agDaIvsf~~~~l~tPRGrydid~y~~~lRLrGktYdyKi~y~sI~~l~~LpK~dd~h~~~Vig~ePPl 274 (508)
T COG5165 195 ELKEKADIGESAGDAIVSFEGLSLATPRGRYDIDFYRDYLRLRGKTYDYKIYYKSIKMLYVLPKIDDGHRYVVIGAEPPL 274 (508)
T ss_pred HHhhhcccccccccceeeeeceeeecCCccccchhhhhhhhhcccccceeeeeeeeeEEEEeccCCCccEEEEEecCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcccceEEEEEEecceeeeeccCcHHHHhHhhhcccccccccchHHHHHHHHhhhcCCeeccCCCcccCCCcceEEE
Q 009802 157 RKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKS 236 (525)
Q Consensus 157 ~~Gqt~y~~lv~~f~~~~~~~~~l~~~~e~~~~k~~~~l~~~~~g~~~ev~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c 236 (525)
|||||||||||+||.++++++++||+.++.++++|+++|+.+|.+++++||++||++||++|+++|++|.|+.|+.||+|
T Consensus 275 RQGQTrYpflV~qF~kded~Ev~Lnvede~~~e~y~dklK~~Yd~~~~ev~s~v~~gLt~rkvv~p~ef~S~~g~~av~C 354 (508)
T COG5165 275 RQGQTRYPFLVVQFQKDEDVEVELNVEDEDYEENYKDKLKGEYDGLLSEVFSEVMEGLTVRKVVRPSEFESRDGMRAVRC 354 (508)
T ss_pred cCCCccCCeEEEEEecccceeeeeccchhhhhhhHHHhhhhhccchHHHHHHHHHHhhcceeeecchhhcccCCceeeee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecCcceEEEecCcceeeccCCCeEEecCceeEEEEEEecCCCCceeeEeEEEEEeCCceEEEeccchhhhhhHHHHHhc
Q 009802 237 SLKAEDGVLYPLEKSFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISG 316 (525)
Q Consensus 237 ~~ka~~G~Lypl~~~llfl~KPp~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~~~~~Fs~I~~~e~~~l~~~l~~ 316 (525)
++||++|+||||++||+||+||.++|+++||..|+|+|+|.+++++|||||+++++++..++|++|.+.|+..|.+||.+
T Consensus 355 s~KAnEGqLYpLD~~flFlpKptl~l~~sdis~V~~SRig~ss~~arTFDlt~~lrs~~sytF~nisk~Eq~aLeqfl~s 434 (508)
T COG5165 355 SMKANEGQLYPLDDCFLFLPKPTLRLDLSDISLVEFSRIGLSSMQARTFDLTLFLRSPGSYTFNNISKDEQGALEQFLHS 434 (508)
T ss_pred eeeccCceEeeccceEEeccCceEEeecccceEEEEeecccchhhhceeeEEEEEecCCceeecCcCHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999888899999999999999999999999999999999999
Q ss_pred CCceEeecCCCccccchhhcccCCCCCCCChhhHhhhccCCCCCCCcccccccc-CCCCCCCCCCCCCCCCCCccCC
Q 009802 317 KGLKIMNLGDMKTTDGVAAVLQEDDDDAVDPHLERIKNEAGGDESDEEDSDFVA-DKDDGGSPTDDSGEEDSDASES 392 (525)
Q Consensus 317 k~i~~~~~~~~~~~~~~~~~~~~~~dd~~d~~~~~~~~~~~dddd~eeDedf~~-~~~d~~ee~dsd~~~~~~~~e~ 392 (525)
|||+++|+-. .. .....++++.|++ +++++++.++++++||||+. +++|++||||+++..++.+..+
T Consensus 435 K~ik~~ne~~-~e--~~qt~lgs~sD~E------d~~~~~~~eedesedEdfq~~sdsDvaeEyD~~a~~sd~eg~s 502 (508)
T COG5165 435 KGIKARNEEV-QE--RLQTDLGSISDSE------DINMGSAGEEDESEDEDFQMVSDSDVAEEYDLQAALSDAEGGS 502 (508)
T ss_pred cCceecchhh-hh--hhhhccccccchh------hhccccccccccccccccceeeccchhhhhccchhhccccCCC
Confidence 9999999821 11 2223333333322 23456667788899999996 8999999999987765544333
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=8e-66 Score=497.61 Aligned_cols=177 Identities=49% Similarity=0.836 Sum_probs=84.8
Q ss_pred CceEEeCCeeEEEEechhhhccccCccceEEEEEecCCCCCCCCCCceEEEEEEecCCCCccCCCCCCChHHHHHHHHHh
Q 009802 1 MLTFMVGQKQAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSLMEISFHIPNSNTQFVGDENHPPAQVFRDKIMS 80 (525)
Q Consensus 1 ~l~f~~~~k~~feip~~~i~~~~~~~knev~~ef~~~~~~~~~~~~~l~e~rf~~p~~~~~~~~~~~~~~~~~~~~~i~~ 80 (525)
+|+|+|+|||||||||++|||||++|||||+||||++|+++.+++|+|||||||||++.....+|++.++|++|+++||+
T Consensus 45 ~L~F~v~~K~aFEIPl~~Vsn~n~~gKNEV~lEF~~~d~~~~~~~D~LvEmRFyvP~~~~~~~~Dee~~~a~~f~~~i~~ 124 (222)
T PF03531_consen 45 ELVFNVDNKPAFEIPLSDVSNCNLAGKNEVALEFHQDDDAEVANEDSLVEMRFYVPGTEKEEDEDEEDSAAEAFYDTILE 124 (222)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEEEEECCeEEEEeeHHHhhhccCCCCCEEEEEcCCCCCCCCCCCCEEEEEEEEcCCCCCcccccccccHHHHHHHHHHH
Confidence 58999999999999999999999999999999999999875557899999999999985555566778999999999999
Q ss_pred hcccCcCCcceEEEEcCceeeccCcceeEEEecCcEEEEccceeeeeecCceeEEEecccCCCCcEEEEEecCCcccCCC
Q 009802 81 MADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQ 160 (525)
Q Consensus 81 ~a~~~~~~g~~i~~~~~i~~~~PRgry~le~~~~~lrl~gkt~d~~I~y~~I~~~f~lP~~~~~~~~~v~~L~~Pi~~Gq 160 (525)
||+|++++|++||+|.+|+|+||||||+|+||+++||||||||||||+|++|.|+|+||+|+++|++|||+|+|||||||
T Consensus 125 ka~i~~~~g~~i~~f~~i~~ltPRGRydi~~y~~~lrl~GktyDykI~y~~I~rlflLpk~d~~~~~~Vi~LdpPiRQGQ 204 (222)
T PF03531_consen 125 KADIGQVSGDAIASFEDILCLTPRGRYDIEMYPTFLRLHGKTYDYKIQYSSISRLFLLPKPDDRHVFFVISLDPPIRQGQ 204 (222)
T ss_dssp --------TTSSEEEEEEEEEETTEEEEEEE-SSEEEEEESSBEEEEEGGGEEEEEEEE-TTSSEEEEEEEEEEEEEETT
T ss_pred Hhhccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccceEEEEEEecceee
Q 009802 161 TLYPHIVLQFETDYVVQ 177 (525)
Q Consensus 161 t~y~~lv~~f~~~~~~~ 177 (525)
||||||||||.++++++
T Consensus 205 T~Y~~lV~qf~~de~~~ 221 (222)
T PF03531_consen 205 TRYPFLVMQFSKDEEVE 221 (222)
T ss_dssp EEEEEEEEEEETT-EEE
T ss_pred ccccccccccccccccC
Confidence 99999999999998765
No 4
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=100.00 E-value=1.3e-45 Score=394.46 Aligned_cols=306 Identities=19% Similarity=0.270 Sum_probs=223.1
Q ss_pred EEcCceeecc----CcceeEEEecCcEEEEcccee-eeeecCceeEEEecccCCCCcEEEEEecCCcccCCCcccceEEE
Q 009802 94 TFEGIAILTP----RGRYSVELHLSFLRLQGQAND-FKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVL 168 (525)
Q Consensus 94 ~~~~i~~~~P----Rgry~le~~~~~lrl~gkt~d-~~I~y~~I~~~f~lP~~~~~~~~~v~~L~~Pi~~Gqt~y~~lv~ 168 (525)
.+.+|-+-.| |-.=+|++|.|||||.+-+.+ ++|+|+||+|+|||||.+++++++||||++|||.|++++.+|+|
T Consensus 607 ~L~dlyiRp~i~~Kr~~G~lEaH~NGfRy~s~R~~~vdiLfsNIKhafFqpc~~Emi~llHfHLknpIm~GkkK~~dVQF 686 (960)
T KOG1189|consen 607 KLKDLYIRPNIDTKRIPGSLEAHENGFRYQSLRDERVDILFSNIKHAFFQPCEGEMIILLHFHLKNPIMVGKKKTKDVQF 686 (960)
T ss_pred chhheEecCCccccccccceeeecCceeeeeccccchhhhhhhhhhhhcCccccceeeEeeehhccceeecccceeeeee
Confidence 6677765555 556689999999999996544 99999999999999999999999999999999999999998877
Q ss_pred EEEecceeeeec-----cCcHHHHhHhhhcccccccccchHHHHHHHHhhhcCCeeccC---CCcccCCCcceEEEeecC
Q 009802 169 QFETDYVVQSEL-----LMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKP---GKFRSAQDGYAVKSSLKA 240 (525)
Q Consensus 169 ~f~~~~~~~~~l-----~~~~e~~~~k~~~~l~~~~~g~~~ev~~~~~k~l~~~ki~~P---~~F~s~~~~~~v~c~~ka 240 (525)
+.++++.+ -++ ..+.+++..+.++|-++. .+.+.|+.++.+..... -.|..+.+..++.+.+..
T Consensus 687 Y~Ev~div-~dlg~~~~~~D~del~~EQ~Er~rr~-------~ln~~FksF~~kv~~~~~~~~efd~pfr~lGF~GvP~r 758 (960)
T KOG1189|consen 687 YREVGDIV-TDLGKRRRMGDRDELEQEQEERDRRA-------KLNMAFKSFAEKVAEATESELEFDVPFRELGFNGVPFR 758 (960)
T ss_pred eehhhhHH-HhhccCccccchHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHhhhccceeeccchhhcCcCCCCcc
Confidence 77765432 222 134444443222222211 12234444443322221 177888888888899999
Q ss_pred cceEEEecCcceeeccCCC-eEEecCceeEEEEEEecCCCCceeeEeEEEEEeC--CceEEEeccchhhhhhHHHHHhcC
Q 009802 241 EDGVLYPLEKSFFFLPKPP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT--EQEHLFRNIQRNEYHNLFDFISGK 317 (525)
Q Consensus 241 ~~G~Lypl~~~llfl~KPp-~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~--~~~~~Fs~I~~~e~~~l~~~l~~k 317 (525)
+..+|.|+..||+.|+.+| |+|+|+||+.|||+||++|+ |||||+|++|+ +.++++++||.+.+++|++||++|
T Consensus 759 ssv~i~pTs~cLV~LtE~P~~VvtL~eVEiv~~ERV~f~l---KnfDmvfIfKd~~k~v~~i~svp~~sLd~iKEWLdsc 835 (960)
T KOG1189|consen 759 SSVFIQPTSSCLVNLTEWPFFVVTLEEVEIVNLERVQFGL---KNFDMVFIFKDFKKKVTMINSVPMESLDKLKEWLDSC 835 (960)
T ss_pred ceeeeecchhhhhccccCCceEEeecceeeeeeeeeeecc---ccceEEEEeccccccceeeeccchhhhhHHHHhhhcc
Confidence 9999999999999999876 55999999999999999988 99999999999 689999999999999999999999
Q ss_pred CceEeecCCCccccchhhcccCCCCCC----CChhhHhhhccC-----CCCCCCccccccccCCCCCCCCCCCCCCCCC-
Q 009802 318 GLKIMNLGDMKTTDGVAAVLQEDDDDA----VDPHLERIKNEA-----GGDESDEEDSDFVADKDDGGSPTDDSGEEDS- 387 (525)
Q Consensus 318 ~i~~~~~~~~~~~~~~~~~~~~~~dd~----~d~~~~~~~~~~-----~dddd~eeDedf~~~~~d~~ee~dsd~~~~~- 387 (525)
+|+|. ++..+. ||..+|...-||. ++++|..+..++ ++++++++|+.|++++.|+++|.++|.+.++
T Consensus 836 DI~y~-Eg~~sL--NW~~ImKTI~dDP~~Ffe~GgW~fL~~~~sdsee~~~ese~e~~~y~psd~~v~~eS~ed~e~sE~ 912 (960)
T KOG1189|consen 836 DIKYT-EGVQSL--NWTKIMKTITDDPIAFFEDGGWSFLNVESSDSEEGGDESEEEDSAYEPSDDDVSDESDEDEEESEE 912 (960)
T ss_pred cceee-cccccc--cHHHHhhhhccCHHHHHhcCCeeeecCCCCcccccccccccccccCCccccCcccccccccccccc
Confidence 99999 656566 9999998776665 466687776444 2233445677788766655555443322221
Q ss_pred -----CccCCCCCCCCchhhhcccccccccc
Q 009802 388 -----DASESGGEKEKPAKKESKKESSSVKA 413 (525)
Q Consensus 388 -----~~~e~~~e~e~~~~k~~k~~~~~~k~ 413 (525)
+++++.+++|++++.|+..+.+++++
T Consensus 913 s~~de~~de~~~sdEE~gkdwdele~ea~~~ 943 (960)
T KOG1189|consen 913 SEEDEEDDEDLESDEESGKDWDELEREARNA 943 (960)
T ss_pred ccccccccccccchhhhccchhhhHHHHhhc
Confidence 11222233456667776665555443
No 5
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=100.00 E-value=1.6e-37 Score=326.33 Aligned_cols=244 Identities=16% Similarity=0.221 Sum_probs=182.2
Q ss_pred ceeEEEecCcEEEEcc-cee--eeeecCceeEEEecccCCCCcEEEEEecCCcccCCCcccceEEEEEEeccee------
Q 009802 106 RYSVELHLSFLRLQGQ-AND--FKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVV------ 176 (525)
Q Consensus 106 ry~le~~~~~lrl~gk-t~d--~~I~y~~I~~~f~lP~~~~~~~~~v~~L~~Pi~~Gqt~y~~lv~~f~~~~~~------ 176 (525)
-=.|++|.|||||+|. +.| ++|+|+||+|+|||||..+++++|||||++||+.|+++..+|+|+-++...+
T Consensus 669 pg~~eiHeNGiRfqsplrsds~idiLFSNikhlfFq~c~gEliviiH~HLk~PIl~GkrKvqdVQFYREasd~~vdeTg~ 748 (1001)
T COG5406 669 PGNLEIHENGIRFQSPLRSDSHIDILFSNIKHLFFQECNGELIVIIHFHLKSPILTGKRKVQDVQFYREASDTMVDETGK 748 (1001)
T ss_pred CccEEEecCceeecCCcccCceeEEeeccchhheeccCCceEEEEEEEeecCceecCCceeeeeeeeecccccchhhhcc
Confidence 3589999999999995 233 9999999999999999999999999999999999999998776665543221
Q ss_pred --eeeccCcHHHHhHhhhcccccccccchHHHHHHHHhhhcCCeeccCCCcccCCCcceEEEeecCcceEEEecCcceee
Q 009802 177 --QSELLMSEELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEKSFFF 254 (525)
Q Consensus 177 --~~~l~~~~e~~~~k~~~~l~~~~~g~~~ev~~~~~k~l~~~ki~~P~~F~s~~~~~~v~c~~ka~~G~Lypl~~~llf 254 (525)
..+.-.++++++++.++|-++.--...|.-|+......++-.+ .|....+..++.+.+..+..++.|+..||+.
T Consensus 749 ~~rk~~ygdedElEqEqeerrrraald~eFksFa~~Iaeas~gri----~~~~~fr~lgF~GVPfRs~V~~~pTtdCLVq 824 (1001)
T COG5406 749 RGRKEHYGDEDELEQEQEERRRRAALDQEFKSFASSIAEASEGRI----EFKVQFRKLGFYGVPFRSSVMIKPTTDCLVQ 824 (1001)
T ss_pred ccchhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCce----EEeeechhccccCCccccceeeecchhheee
Confidence 1122334555555444444433333333333333333332222 2344445556666677777788899999999
Q ss_pred ccCCCeE-EecCceeEEEEEEecCCCCceeeEeEEEEEeC--CceEEEeccchhhhhhHHHHHhcCCceEeecCCCcccc
Q 009802 255 LPKPPTL-ILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT--EQEHLFRNIQRNEYHNLFDFISGKGLKIMNLGDMKTTD 331 (525)
Q Consensus 255 l~KPp~~-i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~--~~~~~Fs~I~~~e~~~l~~~l~~k~i~~~~~~~~~~~~ 331 (525)
|..||++ |++++|+.|+|+||++|+ |||||++++++ +.+++|++||.+.++.|++||++++|.+. ++..+.
T Consensus 825 L~e~Pf~VitLeevEi~~lERVqfgl---KnfD~vFi~~df~rp~vhIntvpvesld~lKewLds~di~f~-e~~~nl-- 898 (1001)
T COG5406 825 LDEAPFFVITLEEVEIVNLERVQFGL---KNFDVVFILRDFYRPLVHINTVPVESLDKLKEWLDSNDILFM-ETSANL-- 898 (1001)
T ss_pred ccCCceEEEEecceeEEeeeeEEeec---ccceEEEEeccccCCcceeccccHHHHHHHHHHhhhcCceeE-eccccc--
Confidence 9999966 999999999999999998 99999999999 78999999999999999999999999999 434445
Q ss_pred chhhcccCCCCCC----CChhhHhhhccCCCC
Q 009802 332 GVAAVLQEDDDDA----VDPHLERIKNEAGGD 359 (525)
Q Consensus 332 ~~~~~~~~~~dd~----~d~~~~~~~~~~~dd 359 (525)
+|+.+|++.-+|. +|++|..+..+++|+
T Consensus 899 nW~timksi~~DPi~FfedGgW~fL~~gsddE 930 (1001)
T COG5406 899 NWNTIMKSIMKDPISFFEDGGWSFLMVGSDDE 930 (1001)
T ss_pred cHHHHHHHHhcCcHHHhhcCcceeeecCCccc
Confidence 8888886554443 566677766555443
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=5e-28 Score=206.81 Aligned_cols=92 Identities=48% Similarity=0.752 Sum_probs=81.4
Q ss_pred cceEEEeecCcceEEEecCcceee-ccCCCeEEecCceeEEEEEEecCCCCceeeEeEEEEEeC--CceEEEeccchhhh
Q 009802 231 GYAVKSSLKAEDGVLYPLEKSFFF-LPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKT--EQEHLFRNIQRNEY 307 (525)
Q Consensus 231 ~~~v~c~~ka~~G~Lypl~~~llf-l~KPp~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~--~~~~~Fs~I~~~e~ 307 (525)
.+||+|++||++|+||||++||+| ++||+++|+++||++|+|+||+ +.++|||||+|++|+ +++++|+||+++|+
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 9999999999999999999992 223499999999999 89999999999999
Q ss_pred hhHHHHHhcCCceEeec
Q 009802 308 HNLFDFISGKGLKIMNL 324 (525)
Q Consensus 308 ~~l~~~l~~k~i~~~~~ 324 (525)
++|++||+++||+++|+
T Consensus 79 ~~l~~~l~~~~i~~~~~ 95 (95)
T PF08512_consen 79 DNLKDFLKSKNIKIKNE 95 (95)
T ss_dssp HHHHHHHHHCCHHCCCH
T ss_pred HHHHHHHHHCCCEeecC
Confidence 99999999999999864
No 7
>PTZ00199 high mobility group protein; Provisional
Probab=99.82 E-value=1.1e-20 Score=161.17 Aligned_cols=83 Identities=48% Similarity=0.867 Sum_probs=78.0
Q ss_pred cccccccccCCCCCCcCCcceeEeeehHHHHHHHhhCCCCC--chhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHH
Q 009802 427 GKKKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIA--FTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDE 504 (525)
Q Consensus 427 ~kkkkkkkkkd~~~PKrP~sAy~lF~~e~R~~~k~~~P~~~--~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e 504 (525)
.+++++++++||++||||+|||+|||+++|..|+.+||++. +++|+++||++|+.||+++|++|+++|+.++.+|..+
T Consensus 9 ~~k~~~k~~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk~rY~~e 88 (94)
T PTZ00199 9 LVRKNKRKKKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDKVRYEKE 88 (94)
T ss_pred cccccCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHH
Confidence 45556677899999999999999999999999999999986 8999999999999999999999999999999999999
Q ss_pred hccCC
Q 009802 505 ISGYK 509 (525)
Q Consensus 505 ~~~y~ 509 (525)
|.+|+
T Consensus 89 ~~~Y~ 93 (94)
T PTZ00199 89 KAEYA 93 (94)
T ss_pred HHHHh
Confidence 99995
No 8
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=99.69 E-value=1.7e-17 Score=136.43 Aligned_cols=72 Identities=28% Similarity=0.542 Sum_probs=69.8
Q ss_pred CCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCCCC
Q 009802 440 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNP 511 (525)
Q Consensus 440 ~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~~~ 511 (525)
.||||+|||||||++.|..++.+||++++++|+++||++|+.||+++|++|.++|++++++|.+++++|+-.
T Consensus 1 ~~kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k~~~~~~~p~Yky~ 72 (77)
T cd01389 1 KIPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESPEVKAYYKELAEEEKERHAREYPDYKYT 72 (77)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHCCCCccc
Confidence 489999999999999999999999999999999999999999999999999999999999999999999764
No 9
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=99.66 E-value=6.1e-17 Score=131.40 Aligned_cols=69 Identities=32% Similarity=0.568 Sum_probs=67.6
Q ss_pred CcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCC
Q 009802 441 PKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYK 509 (525)
Q Consensus 441 PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~ 509 (525)
.|||+|||++||+++|..++++||++++++|+++||++|+.||+++|++|.++|++++++|.++++.|+
T Consensus 2 iKrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~~~p~y~ 70 (72)
T cd01388 2 IKRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMKLYPDYK 70 (72)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHCcCCC
Confidence 589999999999999999999999999999999999999999999999999999999999999999996
No 10
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.63 E-value=1.3e-16 Score=150.91 Aligned_cols=90 Identities=40% Similarity=0.801 Sum_probs=84.5
Q ss_pred cccccccCCCCCCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccC
Q 009802 429 KKKQKKKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGY 508 (525)
Q Consensus 429 kkkkkkkkd~~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y 508 (525)
++..+++++||.||||+||||+||.++|.++++.+|.+.++++++++|++|++|++++|++|...|..++++|..++..|
T Consensus 59 k~~~r~k~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq~ek~~y 138 (211)
T COG5648 59 KRLVRKKKDPNGPKRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREKEEY 138 (211)
T ss_pred HHHHHHhcCCCCCCCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHHHHHHhh
Confidence 44577889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCC
Q 009802 509 KNPKPMDIDS 518 (525)
Q Consensus 509 ~~~~~~~~~~ 518 (525)
.++.+.....
T Consensus 139 ~~k~~~~~~~ 148 (211)
T COG5648 139 NKKLPNKAPI 148 (211)
T ss_pred hcccCCCCCC
Confidence 9988776543
No 11
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=99.62 E-value=2.5e-16 Score=124.80 Aligned_cols=66 Identities=47% Similarity=0.890 Sum_probs=64.5
Q ss_pred CcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhc
Q 009802 441 PKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEIS 506 (525)
Q Consensus 441 PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~ 506 (525)
||||+|||++|++++|..++.+||++++++|++.||++|++||+++|++|.++|++++++|..+|.
T Consensus 1 Pkrp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls~~eK~~y~~~a~~~~~~y~~e~~ 66 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELSEEEKKKYEEKAEKDKERYEKEMK 66 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhC
Confidence 899999999999999999999999999999999999999999999999999999999999999874
No 12
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....
Probab=99.62 E-value=1.3e-16 Score=127.65 Aligned_cols=69 Identities=35% Similarity=0.801 Sum_probs=65.6
Q ss_pred CcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCC
Q 009802 441 PKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYK 509 (525)
Q Consensus 441 PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~ 509 (525)
||||+|||+|||+++|..++.+||+++.++|+++||++|++||+++|++|.+.|.+++.+|.++|+.|+
T Consensus 1 PkrP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l~~~eK~~y~~~a~~~~~~y~~~~~~y~ 69 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNLSEEEKAPYKEEAEEEKERYEKEMPEYK 69 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 899999999999999999999999999999999999999999999999999999999999999999884
No 13
>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins. It has no known function. ; GO: 0005634 nucleus; PDB: 2EQZ_A 1V64_A 2CTO_A 1H5P_A 3TQ6_A 3FGH_A 3TMM_A 1J3X_A 2YRQ_A 1AAB_A ....
Probab=99.60 E-value=4.4e-16 Score=126.66 Aligned_cols=72 Identities=38% Similarity=0.740 Sum_probs=63.9
Q ss_pred CCCCcCCcceeEeeehHHHHHHHhh-CCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCC
Q 009802 438 PNAPKRAMSGFIFFSQMERENIKKS-NPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYK 509 (525)
Q Consensus 438 ~~~PKrP~sAy~lF~~e~R~~~k~~-~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~ 509 (525)
|++||||+|||+||+.+++..++.. .+....+++++.|+++|++||++||.+|+++|+.++++|..+|..|.
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls~~EK~~Y~~~A~~~k~~y~~e~~~~~ 73 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLSEEEKEPYEERAKEDKERYEREMKEWN 73 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 6789999999999999999999988 77889999999999999999999999999999999999999999884
No 14
>smart00398 HMG high mobility group.
Probab=99.60 E-value=7.9e-16 Score=122.93 Aligned_cols=70 Identities=50% Similarity=0.922 Sum_probs=68.2
Q ss_pred CCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCC
Q 009802 440 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYK 509 (525)
Q Consensus 440 ~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~ 509 (525)
+||||+|||++|++++|..++.+||++++++|++.||++|+.||+++|++|.++|++++++|..+++.|+
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~~ek~~y~~~a~~~~~~y~~~~~~y~ 70 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEYK 70 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4899999999999999999999999999999999999999999999999999999999999999999985
No 15
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=99.54 E-value=5.9e-15 Score=126.07 Aligned_cols=76 Identities=45% Similarity=0.858 Sum_probs=72.4
Q ss_pred CC--CCCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhc-cCCCCC
Q 009802 437 DP--NAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEIS-GYKNPK 512 (525)
Q Consensus 437 d~--~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~-~y~~~~ 512 (525)
++ +.||||+|||++|+.+.|..++.+||++++.++++++|++|++|++++|++|+..|..++++|..+|. .|+...
T Consensus 17 ~p~~~~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~~~~k~~y~~ka~~~k~~Y~~~~~~~~~~~~ 95 (96)
T KOG0381|consen 17 DPNAQAPKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLAEEEKQPYEEKASKLKEKYEKELAGEYKASL 95 (96)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 55 59999999999999999999999999999999999999999999999999999999999999999999 887754
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=99.49 E-value=1.9e-14 Score=113.57 Aligned_cols=65 Identities=45% Similarity=0.894 Sum_probs=63.6
Q ss_pred CcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHh
Q 009802 441 PKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEI 505 (525)
Q Consensus 441 PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~ 505 (525)
||||+|||++|+++.|..++.++|+++..+|++.+|.+|+.|++++|++|.++|..++.+|.+++
T Consensus 1 pkrp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~~~~k~~y~~~a~~~~~~y~~~~ 65 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSEEEKKKYEEKAEKDKERYEKEM 65 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 79999999999999999999999999999999999999999999999999999999999999876
No 17
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=99.43 E-value=9.9e-14 Score=142.47 Aligned_cols=78 Identities=29% Similarity=0.538 Sum_probs=72.8
Q ss_pred ccCCCCCCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCCCC
Q 009802 434 KKKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNP 511 (525)
Q Consensus 434 kkkd~~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~~~ 511 (525)
.++...+.||||||||+|++.+|.+|.++||.+.+.||+|+||.+||.|+++||.+|.+.|++.|.+|+++.+.|+-+
T Consensus 56 ~k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~mHNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~HmkehPdYKYR 133 (331)
T KOG0527|consen 56 DKTSTDRIKRPMNAFMVWSQGQRRKLAKQNPKMHNSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMKEYPDYKYR 133 (331)
T ss_pred CCCCccccCCCcchhhhhhHHHHHHHHHhCcchhhHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHHhCCCcccc
Confidence 345556789999999999999999999999999999999999999999999999999999999999999999999543
No 18
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=98.87 E-value=8.8e-10 Score=110.60 Aligned_cols=71 Identities=20% Similarity=0.397 Sum_probs=66.2
Q ss_pred CCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCCC
Q 009802 440 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKN 510 (525)
Q Consensus 440 ~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~~ 510 (525)
..|+|+||||||++|.|+++.+++---..++|.++||.+|-+||.+|.++|.++|+++++-+.+-+..|.+
T Consensus 191 hiKKPLNAFmlyMKEmRa~vvaEctlKeSAaiNqiLGrRWH~LSrEEQAKYyElArKerqlH~qlYP~WSA 261 (421)
T KOG3248|consen 191 HIKKPLNAFMLYMKEMRAKVVAECTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSA 261 (421)
T ss_pred cccccHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCcch
Confidence 35899999999999999999999876678999999999999999999999999999999999999999954
No 19
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=98.71 E-value=9.6e-09 Score=107.97 Aligned_cols=76 Identities=26% Similarity=0.494 Sum_probs=70.9
Q ss_pred CCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCCCCCCCC
Q 009802 440 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMD 515 (525)
Q Consensus 440 ~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~~~~~~~ 515 (525)
..|||+||||.|.++.|.++.+.+|++.+..|+|+||.+||.|+..||++|.+..++.-..|....+.|+-+-..+
T Consensus 325 HIKRPMNAFMVWAkDERRKILqA~PDMHNSnISKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~PdYrYkPRPK 400 (511)
T KOG0528|consen 325 HIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKYPDYRYKPRPK 400 (511)
T ss_pred cccCCcchhhcccchhhhhhhhcCccccccchhHHhcccccccccccccchHHHHHHHHHhhhccCcccccCCCCC
Confidence 5699999999999999999999999999999999999999999999999999999999999999999998765544
No 20
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=98.66 E-value=1.5e-08 Score=101.09 Aligned_cols=75 Identities=25% Similarity=0.631 Sum_probs=70.9
Q ss_pred CCCCCCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCCC
Q 009802 436 KDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKN 510 (525)
Q Consensus 436 kd~~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~~ 510 (525)
+.|..|-+|+-+||.|++..++++|+.||.+..-+|.|++|.+|+-|+++||+.|...++..|..|.+.|+.|+.
T Consensus 60 kpPkppekpl~pymrySrkvWd~VkA~nPe~kLWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEKieY~~smkayh~ 134 (410)
T KOG4715|consen 60 KPPKPPEKPLMPYMRYSRKVWDQVKASNPELKLWEIGKIIGGMWLDLPDEEKQEYLNEYEAEKIEYNESMKAYHN 134 (410)
T ss_pred CCCCCCCcccchhhHHhhhhhhhhhccCcchHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 456677899999999999999999999999999999999999999999999999999999999999999999954
No 21
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=98.21 E-value=6.4e-07 Score=97.80 Aligned_cols=74 Identities=23% Similarity=0.446 Sum_probs=67.6
Q ss_pred cccccCCCCCCcCCcceeEeeehHHH--HHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHH
Q 009802 431 KQKKKKDPNAPKRAMSGFIFFSQMER--ENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDE 504 (525)
Q Consensus 431 kkkkkkd~~~PKrP~sAy~lF~~e~R--~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e 504 (525)
+...+++....+|||+||++|++.+| ..+...||+..++-|+++||++|-.|-+.||++|.++|.+.|++|.++
T Consensus 172 rspnkr~k~HirrPMnaf~ifskrhr~~g~vhq~~pn~DNrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~Ahfka 247 (683)
T KOG2746|consen 172 RSPNKRDKDHIRRPMNAFHIFSKRHRGEGRVHQRHPNQDNRTISKILGEWWYTLGPNEKQKYHDLAFQVKEAHFKA 247 (683)
T ss_pred CCCCcCcchhhhhhhHHHHHHHhhcCCccchhccCccccchhHHHHHhhhHhhhCchhhhhHHHHHHHHHHHHhhh
Confidence 34445555667999999999999999 899999999999999999999999999999999999999999999987
No 22
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=97.91 E-value=1.4e-05 Score=64.46 Aligned_cols=75 Identities=16% Similarity=0.228 Sum_probs=62.1
Q ss_pred CCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCCCCCCCC
Q 009802 440 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMD 515 (525)
Q Consensus 440 ~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~~~~~~~ 515 (525)
-|..|-+|--||.+..+..+.+.++.....+ .+.+...|++|+..+|-+|..+|.++..+|+.+|.+|+...+..
T Consensus 3 lPE~PKt~qe~Wqq~vi~dYla~~~~dr~K~-~kam~~~W~~me~Kekl~WIkKA~EdqKrYE~el~e~r~~~~~~ 77 (85)
T PF14887_consen 3 LPETPKTAQEIWQQSVIGDYLAKFRNDRKKA-LKAMEAQWSQMEKKEKLKWIKKAAEDQKRYERELREMRSAPADA 77 (85)
T ss_dssp -S----THHHHHHHHHHHHHHHHTTSTHHHH-HHHHHHHHHTTGGGHHHHHHHHHHHHHHHHHHHHHCCS-CCCTT
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHhhHhHHHH-HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 4677888888999999999999998887777 45899999999999999999999999999999999999876543
No 23
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=96.95 E-value=0.00075 Score=75.06 Aligned_cols=40 Identities=15% Similarity=0.197 Sum_probs=28.6
Q ss_pred eEeEEEEEeCCceEEEeccchhhhhhHHHHHhcCCceEeec
Q 009802 284 YFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGKGLKIMNL 324 (525)
Q Consensus 284 tFDl~i~~K~~~~~~Fs~I~~~e~~~l~~~l~~k~i~~~~~ 324 (525)
+.|+..+- +.+.+.|..|.+.-.+....|+..-|+.+.+.
T Consensus 834 scDI~y~E-g~~sLNW~~ImKTI~dDP~~Ffe~GgW~fL~~ 873 (960)
T KOG1189|consen 834 SCDIKYTE-GVQSLNWTKIMKTITDDPIAFFEDGGWSFLNV 873 (960)
T ss_pred cccceeec-ccccccHHHHhhhhccCHHHHHhcCCeeeecC
Confidence 44544332 34678889999988888888888888777754
No 24
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=96.58 E-value=0.0017 Score=61.14 Aligned_cols=47 Identities=23% Similarity=0.418 Sum_probs=42.2
Q ss_pred CCCCCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCC
Q 009802 437 DPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMS 483 (525)
Q Consensus 437 d~~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls 483 (525)
.|.++.|-+|||..|+++.-+.||+.+|+++.+|.-+.++..|+..+
T Consensus 118 PPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h~p 164 (170)
T PF04690_consen 118 PPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAHFP 164 (170)
T ss_pred CccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhCc
Confidence 34455677899999999999999999999999999999999999876
No 25
>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=96.37 E-value=0.0024 Score=69.85 Aligned_cols=53 Identities=13% Similarity=0.117 Sum_probs=32.4
Q ss_pred HHHHhHhhhcccccccccchHHHHHHHHhhhcCCeeccCC-CcccCCCcceEEEe
Q 009802 184 EELLNTKYKDKLEPSYKGLIHEVFTTILRGLSGAKITKPG-KFRSAQDGYAVKSS 237 (525)
Q Consensus 184 ~e~~~~k~~~~l~~~~~g~~~ev~~~~~k~l~~~ki~~P~-~F~s~~~~~~v~c~ 237 (525)
.|+-+.+.+..|.+++...+ ..++..-.+....++.+|. .|.++.-..+|.|.
T Consensus 763 qEqeerrrraald~eFksFa-~~Iaeas~gri~~~~~fr~lgF~GVPfRs~V~~~ 816 (1001)
T COG5406 763 QEQEERRRRAALDQEFKSFA-SSIAEASEGRIEFKVQFRKLGFYGVPFRSSVMIK 816 (1001)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHhhcCceEEeeechhccccCCccccceeee
Confidence 33333344456666666444 4445566666667888876 77777766666664
No 26
>PF14470 bPH_3: Bacterial PH domain
Probab=96.03 E-value=0.053 Score=45.52 Aligned_cols=78 Identities=23% Similarity=0.371 Sum_probs=61.3
Q ss_pred ceEEEeec----CcceEEEecCcceeeccCCC------eEEecCceeEEEEEEecCCCCceeeEeEEEEEeCCceEEEec
Q 009802 232 YAVKSSLK----AEDGVLYPLEKSFFFLPKPP------TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRN 301 (525)
Q Consensus 232 ~~v~c~~k----a~~G~Lypl~~~llfl~KPp------~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~~~~~Fs~ 301 (525)
..+.|.++ ...|.|+.+++=|+|+.+.+ .-|++++|.+|++..-..+ .+ +.|.+ ++..+.|.+
T Consensus 9 ~~~~~~~~~~~~~~~g~l~~TnkRlif~~~~~~~~~~~~~i~y~~I~~v~~~~g~~~----~~--i~i~~-~~~~~~i~~ 81 (96)
T PF14470_consen 9 YVAVGSYNYFFTSFPGVLVLTNKRLIFYSKGMFGGKKFESIPYDDITSVSFKKGILG----GK--ITIET-NGEKIKIDN 81 (96)
T ss_pred EEEEEEEeecccCceeEEEEeCCEEEEEEcccCCCceEEEEEhhheEEEEEEccccc----cE--EEEEE-CCEEEEEEE
Confidence 35677777 88999999999999976542 2389999999999963221 22 66666 778999999
Q ss_pred cchhhhhhHHHHHhc
Q 009802 302 IQRNEYHNLFDFISG 316 (525)
Q Consensus 302 I~~~e~~~l~~~l~~ 316 (525)
|++.+.+.+.++++.
T Consensus 82 i~k~~~~~~~~~i~~ 96 (96)
T PF14470_consen 82 IQKGDVKEFYEYIKE 96 (96)
T ss_pred cCHHHHHHHHHHHhC
Confidence 999999999988863
No 27
>PF06382 DUF1074: Protein of unknown function (DUF1074); InterPro: IPR024460 This family consists of several proteins which appear to be specific to Insecta. The function of this family is unknown.
Probab=95.70 E-value=0.0084 Score=56.29 Aligned_cols=48 Identities=19% Similarity=0.333 Sum_probs=42.6
Q ss_pred cceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHH
Q 009802 445 MSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARA 496 (525)
Q Consensus 445 ~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~ 496 (525)
.+||+=|+.+.|. .|.++...|+....+..|..||+.+|..|..++-.
T Consensus 83 nnaYLNFLReFRr----kh~~L~p~dlI~~AAraW~rLSe~eK~rYrr~~~~ 130 (183)
T PF06382_consen 83 NNAYLNFLREFRR----KHCGLSPQDLIQRAARAWCRLSEAEKNRYRRMAPS 130 (183)
T ss_pred chHHHHHHHHHHH----HccCCCHHHHHHHHHHHHHhCCHHHHHHHHhhcch
Confidence 5789999999875 67799999999999999999999999999997653
No 28
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=95.45 E-value=0.011 Score=57.08 Aligned_cols=68 Identities=16% Similarity=0.332 Sum_probs=61.4
Q ss_pred CCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhcc
Q 009802 440 APKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISG 507 (525)
Q Consensus 440 ~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~ 507 (525)
+++.|.-+|+-+-.+.|+.+...+|+....+.+++++..|++|+++-|.+|.+.+++++..|...|+.
T Consensus 143 ~~~~~~~~~~e~~~~~r~~~~~~~~~~~~~e~~k~~~~~w~el~~skK~~~~~~~Kk~k~~~~~~~~~ 210 (211)
T COG5648 143 PNKAPIGPFIENEPKIRPKVEGPSPDKALVEETKIISKAWSELDESKKKKYIDKYKKLKEEYDSFYPE 210 (211)
T ss_pred CCCCCCchhhhccHHhccccCCCCcchhhhHHhhhhhhhhhhhChhhhhHHHHHHHHHHHHHhhhccc
Confidence 45677778888889999999999999999999999999999999999999999999999999987753
No 29
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=92.87 E-value=0.1 Score=56.66 Aligned_cols=31 Identities=16% Similarity=0.312 Sum_probs=17.2
Q ss_pred EEEecCcceee-ccCCCeEEecCceeEEEEEEe
Q 009802 244 VLYPLEKSFFF-LPKPPTLILHEEIDYVEFERH 275 (525)
Q Consensus 244 ~Lypl~~~llf-l~KPp~~i~~~eI~~V~feRv 275 (525)
+=|--..|+|| |-|-.+||+=- .-.|.|+-|
T Consensus 345 CS~KAneG~LYPLekgFlFl~KP-~l~I~f~EI 376 (615)
T KOG0526|consen 345 CSFKANEGLLYPLEKGFLFLPKP-PLYIRFEEI 376 (615)
T ss_pred eeecccCceEeecccceEeecCC-ceEeeccce
Confidence 33445778888 76766666421 334444443
No 30
>PF05764 YL1: YL1 nuclear protein; InterPro: IPR008895 The proteins in this family are designated YL1 []. They have been shown to be DNA-binding and may be transcription factors [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=91.83 E-value=0.16 Score=50.90 Aligned_cols=9 Identities=33% Similarity=0.844 Sum_probs=5.8
Q ss_pred Ccccccccc
Q 009802 362 DEEDSDFVA 370 (525)
Q Consensus 362 ~eeDedf~~ 370 (525)
+++|++|+.
T Consensus 38 ee~D~ef~~ 46 (240)
T PF05764_consen 38 EEDDEEFES 46 (240)
T ss_pred cCCCccccC
Confidence 455777774
No 31
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=90.67 E-value=0.092 Score=40.24 Aligned_cols=39 Identities=23% Similarity=0.508 Sum_probs=35.2
Q ss_pred cceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCC
Q 009802 445 MSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMS 483 (525)
Q Consensus 445 ~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls 483 (525)
++.|=+|.+..|+.+.+.||++....+...++.+||+-+
T Consensus 13 lt~yK~Fsq~vRP~l~~~NPk~~~sKl~~l~~AKwrEF~ 51 (55)
T PF08073_consen 13 LTNYKAFSQHVRPLLAKANPKAPMSKLMMLLQAKWREFQ 51 (55)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHH
Confidence 356778999999999999999999999999999999754
No 32
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=84.52 E-value=1.2 Score=51.45 Aligned_cols=21 Identities=24% Similarity=0.186 Sum_probs=10.4
Q ss_pred eeEEEEEEecCCC-CceeeEeE
Q 009802 267 IDYVEFERHAAGG-SNMHYFDL 287 (525)
Q Consensus 267 I~~V~feRv~~~~-~~~rtFDl 287 (525)
+..||-.|+-.-. ++-||||-
T Consensus 1326 ~sdvh~~r~k~p~fSSFRTf~a 1347 (1516)
T KOG1832|consen 1326 MSDVHTRRVKHPLFSSFRTFDA 1347 (1516)
T ss_pred hhhhcccccccchhhhhccccc
Confidence 5556666664322 12266664
No 33
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=84.22 E-value=0.6 Score=46.54 Aligned_cols=8 Identities=13% Similarity=0.476 Sum_probs=3.9
Q ss_pred CCcccceE
Q 009802 159 GQTLYPHI 166 (525)
Q Consensus 159 Gqt~y~~l 166 (525)
-..+|-.|
T Consensus 46 ANSrYATV 53 (303)
T KOG3064|consen 46 ANSRYATV 53 (303)
T ss_pred ccccceeE
Confidence 45555543
No 34
>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT). MAT alpha 1 is a transcription activator that activates mating-type alpha-specific genes with the help of the MADS-box containing MCM1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation []. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (IPR006742 from INTERPRO) response pathway [].; GO: 0000772 mating pheromone activity, 0003677 DNA binding, 0045895 positive regulation of transcription, mating-type specific, 0005634 nucleus
Probab=84.02 E-value=0.89 Score=44.28 Aligned_cols=56 Identities=23% Similarity=0.460 Sum_probs=42.9
Q ss_pred cCCCCCCcCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHHH
Q 009802 435 KKDPNAPKRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKARA 496 (525)
Q Consensus 435 kkd~~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~~ 496 (525)
+....++|||.++||+|..-+ ....|+...++++..|+..|..= --|..|.-+|+.
T Consensus 38 ~~~~~~~kr~lN~Fm~FRsyy----~~~~~~~~Qk~~S~~l~~lW~~d--p~k~~W~l~ak~ 93 (201)
T PF04769_consen 38 KRSPEKAKRPLNGFMAFRSYY----SPIFPPLPQKELSGILTKLWEKD--PFKNKWSLMAKA 93 (201)
T ss_pred cccccccccchhHHHHHHHHH----HhhcCCcCHHHHHHHHHHHHhCC--ccHhHHHHHhhh
Confidence 344556799999999995544 36678889999999999999863 236778777754
No 35
>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=83.13 E-value=4.3 Score=47.91 Aligned_cols=18 Identities=6% Similarity=-0.044 Sum_probs=10.0
Q ss_pred ccCChhhhhhhHHHHHHH
Q 009802 480 KKMSVEEREPYESKARAD 497 (525)
Q Consensus 480 k~Ls~~eK~~y~~~A~~~ 497 (525)
-.|.+.-|.+....+.-.
T Consensus 456 psLa~~NK~Kl~~f~~vL 473 (840)
T PF04147_consen 456 PSLAEGNKEKLQVFFGVL 473 (840)
T ss_pred CCCCcchHHHHHHHHHHH
Confidence 346666666655554444
No 36
>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=82.65 E-value=1.5 Score=51.19 Aligned_cols=14 Identities=14% Similarity=0.373 Sum_probs=6.3
Q ss_pred cchhhhhhHHHHHh
Q 009802 302 IQRNEYHNLFDFIS 315 (525)
Q Consensus 302 I~~~e~~~l~~~l~ 315 (525)
|..+.++.|.+-|.
T Consensus 620 ~t~~~l~~ll~vl~ 633 (784)
T PF04931_consen 620 LTESGLQLLLDVLD 633 (784)
T ss_pred cCHHHHHHHHHHhc
Confidence 33444444444444
No 37
>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=82.53 E-value=1.9 Score=45.15 Aligned_cols=53 Identities=21% Similarity=0.282 Sum_probs=47.5
Q ss_pred CeEEecCceeEEEEEEecCCCCceeeEeEEEEEeCCceEEEeccchhhhhhHHHHHhcC
Q 009802 259 PTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFISGK 317 (525)
Q Consensus 259 p~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~~~~~Fs~I~~~e~~~l~~~l~~k 317 (525)
|+.++.++|..++.+|- . |-++|.|.+|+..++++++.+++.++.|++-+...
T Consensus 37 pftlp~~Ev~~~~wsrg---~---Rgy~lkI~~k~~~v~~ldgfsQ~d~d~lkn~f~~~ 89 (508)
T COG5165 37 PFTLPRNEVKDAEWSRG---V---RGYKLKIRVKGNAVYELDGFSQNDIDELKNIFSEY 89 (508)
T ss_pred ceeechhHhhHHHHhhh---c---ccceEEEEEcCCCceEecCcCHHHHHHHHHHHHHh
Confidence 48889999999999993 2 88999999999999999999999999999877654
No 38
>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=76.66 E-value=3.1 Score=41.72 Aligned_cols=10 Identities=20% Similarity=0.415 Sum_probs=4.3
Q ss_pred HHHHHHHHhh
Q 009802 204 HEVFTTILRG 213 (525)
Q Consensus 204 ~ev~~~~~k~ 213 (525)
|+.-.++|.+
T Consensus 160 HQAsCQvLe~ 169 (314)
T PF06524_consen 160 HQASCQVLES 169 (314)
T ss_pred hhhhhhhhhc
Confidence 3344444443
No 39
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=73.31 E-value=2.9 Score=48.54 Aligned_cols=13 Identities=23% Similarity=0.450 Sum_probs=6.6
Q ss_pred eEEEEcCceeecc
Q 009802 91 AVVTFEGIAILTP 103 (525)
Q Consensus 91 ~i~~~~~i~~~~P 103 (525)
+|.|..-+++++|
T Consensus 1033 PVtTcPPfSLf~p 1045 (1516)
T KOG1832|consen 1033 PVTTCPPFSLFHP 1045 (1516)
T ss_pred CcccCCChhhcCC
Confidence 4555555555544
No 40
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=71.61 E-value=3.5 Score=44.31 Aligned_cols=8 Identities=25% Similarity=0.181 Sum_probs=5.1
Q ss_pred HHHHHhcC
Q 009802 310 LFDFISGK 317 (525)
Q Consensus 310 l~~~l~~k 317 (525)
..+|++.-
T Consensus 12 ~ddWi~~~ 19 (458)
T PF10446_consen 12 EDDWIRQD 19 (458)
T ss_pred hhhhhhcc
Confidence 46787654
No 41
>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=71.07 E-value=16 Score=30.19 Aligned_cols=56 Identities=27% Similarity=0.304 Sum_probs=42.1
Q ss_pred EEEeecCcceEEEecCcc--eeeccC----CC-eEEecCceeEEEEEEecCCCCceeeEeEEEEEeCC
Q 009802 234 VKSSLKAEDGVLYPLEKS--FFFLPK----PP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTE 294 (525)
Q Consensus 234 v~c~~ka~~G~Lypl~~~--llfl~K----Pp-~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~ 294 (525)
-.|.||..+|.||..++. +.|..+ |. +-|+|++|...--+-.+. --=-|.|+++++
T Consensus 5 ~~~~yKK~~G~L~l~~d~~~~~W~~~~~~~~~~v~i~~~~I~~lq~Sp~~s-----~Kv~Lki~~~~~ 67 (79)
T PF08567_consen 5 GAASYKKKDGTLTLTEDRKPLEWTPKASDGPSTVSIPLNDIKNLQQSPEGS-----PKVMLKIVLKDD 67 (79)
T ss_dssp CEEEETTEEEEEEEETTCSSEEEEECCSSSSSEEEEETTTEEEEEE--TTS-----STEEEEEEETTS
T ss_pred ceEEEEcCCcEEEEecCCceEEEeecCCCCCceEEEEHHHhhhhccCCCCC-----cceEEEEEEecC
Confidence 368999999999999999 999776 44 779999999865555432 234577888875
No 42
>TIGR03481 HpnM hopanoid biosynthesis associated membrane protein HpnM. The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins are members of the pfam05494 family of putative transporters known as "toluene tolerance protein Ttg2D", although it is unlikely that the members included here have anything to do with toluene per-se.
Probab=69.16 E-value=5.6 Score=38.60 Aligned_cols=48 Identities=21% Similarity=0.473 Sum_probs=41.4
Q ss_pred CCCCchhhhh-HHHhhhccCChhhhhhhHHHHHH-HHHHHHHHhccCCCC
Q 009802 464 PGIAFTDVGR-VLGERWKKMSVEEREPYESKARA-DKKRYKDEISGYKNP 511 (525)
Q Consensus 464 P~~~~~eisk-~lge~Wk~Ls~~eK~~y~~~A~~-~k~~y~~e~~~y~~~ 511 (525)
|-.++..+++ .||..|+.+|+++|+.|.+.-.. ....|...+..|...
T Consensus 62 ~~~Df~~mar~vLG~~W~~~s~~Qr~~F~~~F~~~l~~tY~~~l~~y~~~ 111 (198)
T TIGR03481 62 EAFDLPAMARLTLGSSWTSLSPEQRRRFIGAFRELSIATYASQFKSYAGE 111 (198)
T ss_pred HhCCHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhcCc
Confidence 3578888887 68999999999999999998887 778899999999764
No 43
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=67.77 E-value=2.3 Score=38.19 Aligned_cols=46 Identities=22% Similarity=0.520 Sum_probs=40.1
Q ss_pred CC-cCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChh
Q 009802 440 AP-KRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVE 485 (525)
Q Consensus 440 ~P-KrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~ 485 (525)
.| ||-.-||.-|+..+.+.+++++|++-...+-.+|-..|..-|+.
T Consensus 71 HPErR~KAAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPeN 117 (122)
T PF06244_consen 71 HPERRMKAAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPEN 117 (122)
T ss_pred CcchhHHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCCC
Confidence 44 44457899999999999999999999999999999999987753
No 44
>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=65.43 E-value=8.8 Score=30.18 Aligned_cols=38 Identities=21% Similarity=0.279 Sum_probs=29.8
Q ss_pred EEEeecC----cceEEEecCcceeeccC----C--CeEEecCceeEEE
Q 009802 234 VKSSLKA----EDGVLYPLEKSFFFLPK----P--PTLILHEEIDYVE 271 (525)
Q Consensus 234 v~c~~ka----~~G~Lypl~~~llfl~K----P--p~~i~~~eI~~V~ 271 (525)
..|++.. ..|.||-+++-|.|-.. + -+.|++.+|..|+
T Consensus 19 ~~c~l~~~~~~~~G~LyiT~~~lcF~s~~~~~~~~~~~ipl~~I~~i~ 66 (69)
T PF02893_consen 19 YSCALFKSKIPVQGRLYITNNYLCFYSNKFGSKTCKFVIPLSDIKSIE 66 (69)
T ss_dssp EEETTTEE---EEEEEEEESSEEEEEESSSSS-E-EEEEEGGGEEEEE
T ss_pred EEEEEECCccceeeEEEECCCEEEEEECCCCCceEEEEEEhHheeEEE
Confidence 5566666 79999999999999662 2 2569999999886
No 45
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=64.66 E-value=11 Score=28.76 Aligned_cols=38 Identities=21% Similarity=0.240 Sum_probs=29.7
Q ss_pred EEEeec---CcceEEEecCcceeecc-C--C---CeEEecCceeEEE
Q 009802 234 VKSSLK---AEDGVLYPLEKSFFFLP-K--P---PTLILHEEIDYVE 271 (525)
Q Consensus 234 v~c~~k---a~~G~Lypl~~~llfl~-K--P---p~~i~~~eI~~V~ 271 (525)
..|.+. ...|.||.+++.|.|.. . . .+.|++.+|.+|+
T Consensus 12 ~~C~l~~~~~~~G~lyiT~~~l~F~S~~~~~~~~~~~ipl~~I~~i~ 58 (61)
T smart00568 12 YSCYLSRDGPVQGRLYISNYRLCFRSDLPGKLTPKVVIPLADITRIE 58 (61)
T ss_pred EEeEECCCccccEEEEEECCEEEEEccCCCCeeEEEEEEHHHeeEEE
Confidence 567775 67999999999999955 2 2 3568999998875
No 46
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=64.39 E-value=8.8 Score=37.63 Aligned_cols=49 Identities=27% Similarity=0.412 Sum_probs=41.6
Q ss_pred CCCCCchhhhh-HHHhhhccCChhhhhhhHHHHHH-HHHHHHHHhccCCCC
Q 009802 463 NPGIAFTDVGR-VLGERWKKMSVEEREPYESKARA-DKKRYKDEISGYKNP 511 (525)
Q Consensus 463 ~P~~~~~eisk-~lge~Wk~Ls~~eK~~y~~~A~~-~k~~y~~e~~~y~~~ 511 (525)
.|..++..+++ .||..|+.+|+++|+.|.+.-.. ...-|...+..|...
T Consensus 65 ~p~~Df~~~s~~vLG~~wr~as~eQr~~F~~~F~~~Lv~tYa~~l~~y~~q 115 (211)
T PRK15117 65 LPYVQVKYAGALVLGRYYKDATPAQREAYFAAFREYLKQAYGQALAMYHGQ 115 (211)
T ss_pred cccCCHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 47788888877 68999999999999999987776 557899999999754
No 47
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=61.86 E-value=34 Score=29.28 Aligned_cols=68 Identities=19% Similarity=0.256 Sum_probs=48.7
Q ss_pred cCcceEEEecCcceeeccC-------------------CC-eEEecCceeEEEEEEecCCCCceeeEeEEEEEeCCceEE
Q 009802 239 KAEDGVLYPLEKSFFFLPK-------------------PP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHL 298 (525)
Q Consensus 239 ka~~G~Lypl~~~llfl~K-------------------Pp-~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~~~~~ 298 (525)
....|.|.-+++.+.|... |. ..|++++|..|+.-|-.. |.==|.|.+.||..+-
T Consensus 15 ~~~~G~l~i~~~~i~F~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~I~~v~~RRyll-----r~~AlEiF~~dg~s~f 89 (106)
T PF14844_consen 15 DSIPGTLIITKSSIYFIPNDNSSENKISSENPSISISKPKSKRWPLSDIKEVHKRRYLL-----RDTALEIFFSDGRSYF 89 (106)
T ss_dssp EEEEEEEEE-SSEEEEEE--TTSHHHHCS-HHHHCC---TCEEEEGGGEEEEEEEEETT-----EEEEEEEEETTS-EEE
T ss_pred eeEEEEEEEeCCEEEEEECCcccccccccccccccccCCceEEEEHHHhHHHHHHHhcC-----cceEEEEEEcCCcEEE
Confidence 4467788888887777532 43 559999999999999764 8888999999998887
Q ss_pred EeccchhhhhhHH
Q 009802 299 FRNIQRNEYHNLF 311 (525)
Q Consensus 299 Fs~I~~~e~~~l~ 311 (525)
|+==++.+.+.+.
T Consensus 90 ~~F~~~~~R~~v~ 102 (106)
T PF14844_consen 90 FNFESKKERDEVY 102 (106)
T ss_dssp EE-SSHHHHHHHH
T ss_pred EEcCCHHHHHHHH
Confidence 7665666665543
No 48
>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=59.01 E-value=13 Score=37.25 Aligned_cols=11 Identities=18% Similarity=0.235 Sum_probs=5.3
Q ss_pred hhhccCChhhh
Q 009802 477 ERWKKMSVEER 487 (525)
Q Consensus 477 e~Wk~Ls~~eK 487 (525)
..++.|+.+++
T Consensus 180 ~~~~~lTQeEl 190 (240)
T PF05764_consen 180 QEERPLTQEEL 190 (240)
T ss_pred ccCCCCCHHHH
Confidence 44455554443
No 49
>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=58.35 E-value=14 Score=37.28 Aligned_cols=13 Identities=23% Similarity=0.227 Sum_probs=7.0
Q ss_pred ecCceeEEEEEEe
Q 009802 263 LHEEIDYVEFERH 275 (525)
Q Consensus 263 ~~~eI~~V~feRv 275 (525)
||.+-..|+-+|.
T Consensus 122 pl~da~C~EC~R~ 134 (314)
T PF06524_consen 122 PLQDAVCIECERG 134 (314)
T ss_pred cCCCcEeeeeecc
Confidence 4555555555553
No 50
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=53.93 E-value=12 Score=40.53 Aligned_cols=8 Identities=13% Similarity=-0.035 Sum_probs=3.6
Q ss_pred eehHHHHH
Q 009802 451 FSQMEREN 458 (525)
Q Consensus 451 F~~e~R~~ 458 (525)
-|.+.|..
T Consensus 212 Scle~Rr~ 219 (458)
T PF10446_consen 212 SCLEARRR 219 (458)
T ss_pred HHHHHHHH
Confidence 34444443
No 51
>PF05285 SDA1: SDA1; InterPro: IPR007949 This domain consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus [].
Probab=52.76 E-value=8.2 Score=40.41 Aligned_cols=19 Identities=16% Similarity=0.146 Sum_probs=11.0
Q ss_pred EEEeccchhhhhhHHHHHhcC
Q 009802 297 HLFRNIQRNEYHNLFDFISGK 317 (525)
Q Consensus 297 ~~Fs~I~~~e~~~l~~~l~~k 317 (525)
..-+.||-.| .|..|....
T Consensus 63 ~~~~~i~G~e--lL~~~~~~~ 81 (324)
T PF05285_consen 63 RVADGIPGAE--LLEEWKEEE 81 (324)
T ss_pred ccccCCChHH--HHHHHhhcc
Confidence 3356677555 477776544
No 52
>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=50.75 E-value=15 Score=42.03 Aligned_cols=20 Identities=15% Similarity=0.117 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHhccCCCC
Q 009802 492 SKARADKKRYKDEISGYKNP 511 (525)
Q Consensus 492 ~~A~~~k~~y~~e~~~y~~~ 511 (525)
+.+......++.++......
T Consensus 257 ~~Y~~~~~~L~~eV~rl~~~ 276 (622)
T PF02724_consen 257 ERYDRYVPLLQDEVSRLNPS 276 (622)
T ss_pred hhHHHHHHHHHHHHHhcCCc
Confidence 33333444444444444443
No 53
>KOG2897 consensus DNA-binding protein YL1 and related proteins [General function prediction only]
Probab=50.40 E-value=11 Score=39.81 Aligned_cols=14 Identities=0% Similarity=-0.374 Sum_probs=8.9
Q ss_pred CchhhhhHHHhhhc
Q 009802 467 AFTDVGRVLGERWK 480 (525)
Q Consensus 467 ~~~eisk~lge~Wk 480 (525)
...+........|.
T Consensus 188 TQeE~l~eAk~TE~ 201 (390)
T KOG2897|consen 188 TQEERLLEAKKTEA 201 (390)
T ss_pred cHHHHHHHHHHHHH
Confidence 55566666667773
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=49.71 E-value=10 Score=43.25 Aligned_cols=12 Identities=17% Similarity=0.468 Sum_probs=5.1
Q ss_pred hhhccCChhhhh
Q 009802 477 ERWKKMSVEERE 488 (525)
Q Consensus 477 e~Wk~Ls~~eK~ 488 (525)
+.|..|+.+-|.
T Consensus 355 Q~y~~Md~~~K~ 366 (622)
T PF02724_consen 355 QKYSYMDMELKR 366 (622)
T ss_pred CCchhCCHHHHH
Confidence 344444444433
No 55
>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=45.48 E-value=16 Score=43.34 Aligned_cols=10 Identities=30% Similarity=0.325 Sum_probs=4.4
Q ss_pred cchhhhhhHH
Q 009802 302 IQRNEYHNLF 311 (525)
Q Consensus 302 I~~~e~~~l~ 311 (525)
|-++|-+.|.
T Consensus 276 ~a~ee~erLe 285 (840)
T PF04147_consen 276 IAKEEKERLE 285 (840)
T ss_pred HHHHHHHHHH
Confidence 3344444443
No 56
>TIGR03503 conserved hypothetical protein TIGR03503. This set of conserved hypothetical protein has a phylogenetic range that closely matches that of TIGR03501, a putative C-terminal protein targeting signal.
Probab=44.80 E-value=2.8e+02 Score=29.77 Aligned_cols=89 Identities=12% Similarity=0.108 Sum_probs=56.5
Q ss_pred ccCcCCcceEEEEcCceeeccCcceeEEEecC-cEEEEccceeeeeecCceeEEEecccCCCCcEEEEEecCCc-ccCCC
Q 009802 83 DVGAGGEEAVVTFEGIAILTPRGRYSVELHLS-FLRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPP-IRKGQ 160 (525)
Q Consensus 83 ~~~~~~g~~i~~~~~i~~~~PRgry~le~~~~-~lrl~gkt~d~~I~y~~I~~~f~lP~~~~~~~~~v~~L~~P-i~~Gq 160 (525)
+.....||.|++ ..+.+..|=|+|.+.+... .+..|-..+.+.|.-.=|..-|.+|......+.++|..++. |..|.
T Consensus 163 g~DE~p~DGvFT-~~l~l~~~~G~Y~~~v~~~n~vF~R~~~q~v~V~p~Pi~~~~~~~~~~~~~h~l~v~~d~~~i~~~s 241 (374)
T TIGR03503 163 GLDERPGDGIFT-GEFNLDVAPGEYRPTYQSRNPVFLREVEQPVLVYPLPVSYTVIQSEDESGAHQLMVDADAGHIDPGS 241 (374)
T ss_pred cCCCCCCCceEE-EEeeccCCCceEEEEEEEcCceEEEEEEEeEEEECCCeeEEEEccCCCCCceEEEEEcccceecccc
Confidence 345567888774 4578888999999999855 45555545555555566777888876545555667777654 44455
Q ss_pred cccceEEEEEEec
Q 009802 161 TLYPHIVLQFETD 173 (525)
Q Consensus 161 t~y~~lv~~f~~~ 173 (525)
+.-+ +-+.++.+
T Consensus 242 ~~~~-~~~~~P~g 253 (374)
T TIGR03503 242 LVIH-GELVFPNG 253 (374)
T ss_pred EEEE-EEEECCCC
Confidence 5332 33444433
No 57
>PF05494 Tol_Tol_Ttg2: Toluene tolerance, Ttg2 ; InterPro: IPR008869 Toluene tolerance is mediated by increased cell membrane rigidity resulting from changes in fatty acid and phospholipid compositions, exclusion of toluene from the cell membrane, and removal of intracellular toluene by degradation []. Many proteins are involved in these processes. This family is a transporter which shows similarity to ABC transporters [].; PDB: 2QGU_A.
Probab=44.48 E-value=28 Score=32.56 Aligned_cols=47 Identities=23% Similarity=0.504 Sum_probs=35.9
Q ss_pred CCCCchhhhhH-HHhhhccCChhhhhhhHHHHHH-HHHHHHHHhccCCC
Q 009802 464 PGIAFTDVGRV-LGERWKKMSVEEREPYESKARA-DKKRYKDEISGYKN 510 (525)
Q Consensus 464 P~~~~~eisk~-lge~Wk~Ls~~eK~~y~~~A~~-~k~~y~~e~~~y~~ 510 (525)
|-.++..+++. ||.-|+.||+++|+.|.+.... ....|...+..|..
T Consensus 36 ~~~D~~~~ar~~LG~~w~~~s~~q~~~F~~~f~~~l~~~Y~~~l~~y~~ 84 (170)
T PF05494_consen 36 PYFDFERMARRVLGRYWRKASPAQRQRFVEAFKQLLVRTYAKRLDEYSG 84 (170)
T ss_dssp GGB-HHHHHHHHHGGGTTTS-HHHHHHHHHHHHHHHHHHHHHHHHT-SS
T ss_pred HhCCHHHHHHHHHHHhHhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 55677777764 7889999999999999987766 56788899999975
No 58
>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=43.97 E-value=36 Score=26.89 Aligned_cols=57 Identities=14% Similarity=0.159 Sum_probs=41.3
Q ss_pred CCCeEEecCceeEEEEEEecCCCCceeeEeEEEEEeCCce--EEEeccchhhhhhHHHHH
Q 009802 257 KPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQE--HLFRNIQRNEYHNLFDFI 314 (525)
Q Consensus 257 KPp~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~~~--~~Fs~I~~~e~~~l~~~l 314 (525)
+-..+|+++.|..|...+--..- -.+.-++.|.+.++.. ..+..++.++...|.+||
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 34577999999999997622111 1155678888887653 788889999999998875
No 59
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.26 E-value=7.6 Score=37.24 Aligned_cols=54 Identities=28% Similarity=0.570 Sum_probs=44.5
Q ss_pred CCC-cCCcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhhhhhHHHHH
Q 009802 439 NAP-KRAMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEEREPYESKAR 495 (525)
Q Consensus 439 ~~P-KrP~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK~~y~~~A~ 495 (525)
..| ||=.-||.-|-..+.+.++.+||++..++.-.+|-.+|..-|+. |+.+++.
T Consensus 162 rHPEkRmrAA~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~KsPDN---P~Nq~~~ 216 (221)
T KOG3223|consen 162 RHPEKRMRAAFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKSPDN---PFNQAAV 216 (221)
T ss_pred cChHHHHHHHHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhCCCC---hhhHHhh
Confidence 344 45567799999999999999999999999999999999988865 6766553
No 60
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=42.97 E-value=27 Score=38.75 Aligned_cols=20 Identities=20% Similarity=0.396 Sum_probs=11.2
Q ss_pred cceeEeeehHH--HHHHHhhCC
Q 009802 445 MSGFIFFSQME--RENIKKSNP 464 (525)
Q Consensus 445 ~sAy~lF~~e~--R~~~k~~~P 464 (525)
-+||+-|.... ..-|.+..|
T Consensus 335 GtAFv~Fkt~~~~~~ci~~Asp 356 (678)
T KOG0127|consen 335 GTAFVKFKTQIAAQNCIEAASP 356 (678)
T ss_pred cceEEEeccHHHHHHHHHhcCc
Confidence 58899886433 233444434
No 61
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=42.33 E-value=22 Score=40.96 Aligned_cols=6 Identities=0% Similarity=0.324 Sum_probs=2.2
Q ss_pred cccCCC
Q 009802 225 FRSAQD 230 (525)
Q Consensus 225 F~s~~~ 230 (525)
|.+..+
T Consensus 689 YD~r~R 694 (988)
T KOG2038|consen 689 YDPRKR 694 (988)
T ss_pred CCcccC
Confidence 333333
No 62
>PF08000 bPH_1: Bacterial PH domain; InterPro: IPR012544 This family contains many bacterial hypothetical proteins.; PDB: 3DCX_E 3HSA_C 3B77_D.
Probab=38.89 E-value=2.6e+02 Score=25.16 Aligned_cols=63 Identities=13% Similarity=0.033 Sum_probs=45.3
Q ss_pred eEEEeecCcceEEEecCcceeeccC-------CC-eEEecCceeEEEEEEecCCCCceeeEeEEEEEeCC-ceEE
Q 009802 233 AVKSSLKAEDGVLYPLEKSFFFLPK-------PP-TLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTE-QEHL 298 (525)
Q Consensus 233 ~v~c~~ka~~G~Lypl~~~llfl~K-------Pp-~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~-~~~~ 298 (525)
.|.+.++.....+.+|++-||++-+ -- .-||+..|.++++|-.|..- ....|.|.+.+. .+..
T Consensus 32 ~I~~ayk~iRD~~vFTnkRlI~vD~QG~TGkK~~~~siPY~~I~~~siETAG~~D---lD~Elki~i~~~~~~i~ 103 (124)
T PF08000_consen 32 EIEAAYKLIRDEIVFTNKRLILVDKQGITGKKVEYKSIPYSSITHFSIETAGTFD---LDSELKIWISGQGFPIE 103 (124)
T ss_dssp -EEEEEEESSEEEEEESSEEEEEEEESSSSSEEEEEEEEGGGEEEEEEEECSSTT---SEEEEEEEETTESSEEE
T ss_pred eeeeeehhhceeEEEecChheEEecccCccceEEEEEEehhhccEEEEEeCCccc---CcccEEEEECCCcEEEE
Confidence 4667888889999999999999652 22 34999999999999854322 556667766663 3444
No 63
>PF14317 YcxB: YcxB-like protein
Probab=38.15 E-value=67 Score=23.80 Aligned_cols=30 Identities=7% Similarity=0.136 Sum_probs=25.2
Q ss_pred EecCcEEEEccceeeeeecCceeEEEeccc
Q 009802 111 LHLSFLRLQGQANDFKIQYSSVVRLFLLPK 140 (525)
Q Consensus 111 ~~~~~lrl~gkt~d~~I~y~~I~~~f~lP~ 140 (525)
+++++|+++.......++|++|.++.--|.
T Consensus 1 f~~~gi~~~~~~~~~~~~w~~i~~v~e~~~ 30 (62)
T PF14317_consen 1 FDEDGIIIESGNGSSRIPWSDIKKVVETKD 30 (62)
T ss_pred CCCCEEEEEECCeEEEEEchheEEEEEeCC
Confidence 357889999888889999999999877665
No 64
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=36.04 E-value=26 Score=40.09 Aligned_cols=25 Identities=8% Similarity=-0.036 Sum_probs=16.8
Q ss_pred CCchhhhhHHHhhhccCChhhhhhh
Q 009802 466 IAFTDVGRVLGERWKKMSVEEREPY 490 (525)
Q Consensus 466 ~~~~eisk~lge~Wk~Ls~~eK~~y 490 (525)
....-|.+.|.+.|.+.|......+
T Consensus 333 aNi~~I~~~i~~Ly~~~sr~~v~~s 357 (822)
T KOG2141|consen 333 ANIIKIIAGIAELYMNNSRYDVTSS 357 (822)
T ss_pred HHHHHHHHHHHHHHHhcchhhHHHH
Confidence 3455677778889998886554433
No 65
>KOG2270 consensus Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms; Cell cycle control, cell division, chromosome partitioning]
Probab=35.22 E-value=8.3 Score=41.38 Aligned_cols=15 Identities=0% Similarity=0.213 Sum_probs=10.4
Q ss_pred ccCcceeEEEecCcE
Q 009802 102 TPRGRYSVELHLSFL 116 (525)
Q Consensus 102 ~PRgry~le~~~~~l 116 (525)
+|-..|-|.||.++|
T Consensus 166 ~dG~~~AIKIYKTSI 180 (520)
T KOG2270|consen 166 EDGSEFAIKIYKTSI 180 (520)
T ss_pred CCCceEEEEEEeeeE
Confidence 444557888888864
No 66
>KOG4264 consensus Nucleo-cytoplasmic protein MLN51 [General function prediction only]
Probab=34.99 E-value=29 Score=38.24 Aligned_cols=15 Identities=20% Similarity=0.424 Sum_probs=6.7
Q ss_pred CCCCCCCCCCCCCCC
Q 009802 371 DKDDGGSPTDDSGEE 385 (525)
Q Consensus 371 ~~~d~~ee~dsd~~~ 385 (525)
+.+|++|++|+++++
T Consensus 85 sgsdsEe~ed~~~Ed 99 (694)
T KOG4264|consen 85 SGSDSEEKEDEAAED 99 (694)
T ss_pred ccCCccccccccccc
Confidence 444444444444333
No 67
>PF11201 DUF2982: Protein of unknown function (DUF2982); InterPro: IPR021367 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=33.87 E-value=37 Score=31.68 Aligned_cols=35 Identities=14% Similarity=0.215 Sum_probs=30.3
Q ss_pred eEEEecCcEEEEccceeeeeecCceeEEEecccCC
Q 009802 108 SVELHLSFLRLQGQANDFKIQYSSVVRLFLLPKSN 142 (525)
Q Consensus 108 ~le~~~~~lrl~gkt~d~~I~y~~I~~~f~lP~~~ 142 (525)
++.++..+|++|...+...|.|+||.|+=......
T Consensus 1 Sl~Lt~~~l~y~hr~G~w~i~W~Ni~ri~ip~v~~ 35 (152)
T PF11201_consen 1 SLTLTAEGLQYHHRRGGWVIPWQNIQRIDIPRVEQ 35 (152)
T ss_pred CeEEcccceEEEecCccEEeecccceeeCCCcccC
Confidence 46788999999999999999999999987766653
No 68
>KOG0784 consensus Isocitrate dehydrogenase, gamma subunit [Amino acid transport and metabolism]
Probab=29.08 E-value=26 Score=36.69 Aligned_cols=114 Identities=23% Similarity=0.338 Sum_probs=71.1
Q ss_pred cCceeEEEecccCCCCcEEEEEecCCcccCCCcccceEEEEEEecceeeeeccCcHHHHhHhhhcccccccccchHHHHH
Q 009802 129 YSSVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTKYKDKLEPSYKGLIHEVFT 208 (525)
Q Consensus 129 y~~I~~~f~lP~~~~~~~~~v~~L~~Pi~~Gqt~y~~lv~~f~~~~~~~~~l~~~~e~~~~k~~~~l~~~~~g~~~ev~~ 208 (525)
|.|+.|.+-||- =+||++.|.++.-++ .-+-+|+|..|+.|.
T Consensus 131 yanvv~~~slpG------------------~~tRh~~vDiviIRE--------------------NTEGEYs~LEHE~Vp 172 (375)
T KOG0784|consen 131 YANVVHCKSLPG------------------VKTRHENVDIVIIRE--------------------NTEGEYSGLEHESVP 172 (375)
T ss_pred hhheeeeeccCC------------------cccccCCccEEEEec--------------------CCcccccccccccCc
Confidence 666666666664 257777777766543 123467888888888
Q ss_pred HHHhhhcCCeeccCC---------CcccCCCcceEEEeecCcceEEEecCcceee-----ccCCCeE--EecCce--eEE
Q 009802 209 TILRGLSGAKITKPG---------KFRSAQDGYAVKSSLKAEDGVLYPLEKSFFF-----LPKPPTL--ILHEEI--DYV 270 (525)
Q Consensus 209 ~~~k~l~~~ki~~P~---------~F~s~~~~~~v~c~~ka~~G~Lypl~~~llf-----l~KPp~~--i~~~eI--~~V 270 (525)
.|..+|. .++..+ .|...++.--|.|.+||+ +++|.+||+- ++|- | |.|+++ ...
T Consensus 173 GVVEsLK--VvT~~kseRIaryAF~yA~k~gRKkVTaVHKAn---imKL~DGlFle~~~eva~~--Yp~I~~e~miVDN~ 245 (375)
T KOG0784|consen 173 GVVESLK--VVTRFKSERIARYAFEYAKKNGRKKVTAVHKAN---IMKLGDGLFLESCQEVAKK--YPDITFEEMIVDNA 245 (375)
T ss_pred chhheee--eehhhhhHHHHHHHHHHHHHhCCceEEEEeccC---ceecchhhHHHHHHHHHhc--CCCccHHHhhHHHh
Confidence 7777663 123222 566677888999999999 7899999865 4432 3 555553 333
Q ss_pred EEEEecCCCCceeeEeEEEEE
Q 009802 271 EFERHAAGGSNMHYFDLLIRL 291 (525)
Q Consensus 271 ~feRv~~~~~~~rtFDl~i~~ 291 (525)
+..-|. .--.||..|..
T Consensus 246 ~MQlvs----~P~qFDvmv~p 262 (375)
T KOG0784|consen 246 CMQLVS----RPQQFDVMVMP 262 (375)
T ss_pred HHHhhc----CchheeeEech
Confidence 332222 11368877664
No 69
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=28.96 E-value=18 Score=30.93 Aligned_cols=13 Identities=23% Similarity=0.296 Sum_probs=5.6
Q ss_pred CcCCcceeEeeeh
Q 009802 441 PKRAMSGFIFFSQ 453 (525)
Q Consensus 441 PKrP~sAy~lF~~ 453 (525)
++|-++.|.|+-+
T Consensus 56 v~rYltSf~id~~ 68 (101)
T PF09026_consen 56 VKRYLTSFPIDDK 68 (101)
T ss_dssp HHHHHCTS---HH
T ss_pred HhhhhhccchhHh
Confidence 3455666666644
No 70
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=28.84 E-value=87 Score=30.62 Aligned_cols=45 Identities=24% Similarity=0.317 Sum_probs=37.2
Q ss_pred hhHHHhhhccCChhhhhhhHHHHHH-HHHHHHHHhccCCCCCCCCC
Q 009802 472 GRVLGERWKKMSVEEREPYESKARA-DKKRYKDEISGYKNPKPMDI 516 (525)
Q Consensus 472 sk~lge~Wk~Ls~~eK~~y~~~A~~-~k~~y~~e~~~y~~~~~~~~ 516 (525)
...||.-||.+|+++++.|...-.. ....|...+..|+.+...-.
T Consensus 77 ~~vLGk~~k~aspeQ~~~F~~aF~~yl~q~Y~~aL~~Y~~q~~~v~ 122 (202)
T COG2854 77 KLVLGKYYKTASPEQRQAFFKAFRTYLEQTYGQALLDYKGQTLKVK 122 (202)
T ss_pred HHHhccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHccCCCceeC
Confidence 3458999999999999999987666 56789999999998865543
No 71
>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=27.34 E-value=92 Score=33.94 Aligned_cols=19 Identities=5% Similarity=0.004 Sum_probs=9.3
Q ss_pred hhhhhhHHHHHhc-CCceEe
Q 009802 304 RNEYHNLFDFISG-KGLKIM 322 (525)
Q Consensus 304 ~~e~~~l~~~l~~-k~i~~~ 322 (525)
+..+..|..+|.. .|+...
T Consensus 131 k~~~~~~~~~~~~~lg~~~~ 150 (432)
T PF09073_consen 131 KEVVPGIEEGLRQVLGIPKP 150 (432)
T ss_pred HHHHHHHHHHHHHHhCCCcc
Confidence 3445666555533 344443
No 72
>PF13619 KTSC: KTSC domain
Probab=26.56 E-value=88 Score=24.09 Aligned_cols=39 Identities=15% Similarity=0.253 Sum_probs=29.3
Q ss_pred CceeEEEEEEecCCCCceeeEeEEEEEeCCceEEEeccchhhhhhHH
Q 009802 265 EEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLF 311 (525)
Q Consensus 265 ~eI~~V~feRv~~~~~~~rtFDl~i~~K~~~~~~Fs~I~~~e~~~l~ 311 (525)
+.|.+|.|.. .+=-|.|.|++|..+++.++|...++.|.
T Consensus 4 s~I~~v~Yd~--------~~~~L~V~F~~G~~Y~Y~~Vp~~~~~~l~ 42 (60)
T PF13619_consen 4 SNIRSVGYDP--------ETRTLEVEFKSGSVYRYFGVPPEVYEALL 42 (60)
T ss_pred CcccEEeECC--------CCCEEEEEEcCCCEEEECCCCHHHHHHHH
Confidence 3456666654 22248899999999999999999988764
No 73
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=26.52 E-value=57 Score=32.36 Aligned_cols=6 Identities=33% Similarity=1.027 Sum_probs=3.0
Q ss_pred cccceE
Q 009802 161 TLYPHI 166 (525)
Q Consensus 161 t~y~~l 166 (525)
..||.+
T Consensus 34 ~lfP~~ 39 (233)
T PF11705_consen 34 PLFPPL 39 (233)
T ss_pred CCCCCC
Confidence 455544
No 74
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=24.50 E-value=1.6e+02 Score=27.88 Aligned_cols=49 Identities=10% Similarity=0.340 Sum_probs=38.5
Q ss_pred hhhhhHHHhhhccCChhhhhhhHHHHHHHHHHHHHHhccCCCCCCCCCCC
Q 009802 469 TDVGRVLGERWKKMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDS 518 (525)
Q Consensus 469 ~eisk~lge~Wk~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~~~~~~~~~~ 518 (525)
-+..+.-.++++-|++++|+.|.+..++....+.. +..+....+....+
T Consensus 111 Vem~k~~nqmy~lLTPEQKaq~~~~~~~rm~~~~~-~~~~q~~s~~~~~~ 159 (166)
T PRK10363 111 VEMAKVRNQMYRLLTPEQQAVLNEKHQQRMEQLRD-VTQWQKSSSLKLLS 159 (166)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHH-HHhcCccccccccc
Confidence 35677778899999999999999999998888866 77777665554433
No 75
>PF15406 PH_6: Pleckstrin homology domain
Probab=24.34 E-value=1.4e+02 Score=26.42 Aligned_cols=56 Identities=23% Similarity=0.386 Sum_probs=37.5
Q ss_pred cceeeccC------CCeEEecCceeEEEEEEecCCCCceeeEeEEEEEeCCceEEEeccchhhhhhHHHHHh
Q 009802 250 KSFFFLPK------PPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQEHLFRNIQRNEYHNLFDFIS 315 (525)
Q Consensus 250 ~~llfl~K------Pp~~i~~~eI~~V~feRv~~~~~~~rtFDl~i~~K~~~~~~Fs~I~~~e~~~l~~~l~ 315 (525)
+||||+.| |.=+|.|.|+..|.=+ |. .-|-+++ +|..|+|-.-+-+|.++-...|+
T Consensus 49 KGLLF~~K~~dka~P~GiinLadase~~~~----g~---~kF~f~~---~G~khtF~A~s~aERD~Wv~~lk 110 (112)
T PF15406_consen 49 KGLLFFSKAEDKASPSGIINLADASEPEKD----GS---NKFHFKI---KGHKHTFEAASAAERDNWVAQLK 110 (112)
T ss_pred ceEEEEeccccccCCcceEehhhccccccC----CC---ceEEEEe---CCceeeeecCCHHHhccHHHHhh
Confidence 45555443 7788999998877643 12 3454444 58899999999888876544443
No 76
>PTZ00449 104 kDa microneme/rhoptry antigen; Provisional
Probab=24.00 E-value=1.9e+02 Score=32.47 Aligned_cols=18 Identities=17% Similarity=0.434 Sum_probs=10.8
Q ss_pred EEecCCcccCCCcccceE
Q 009802 149 VVTLDPPIRKGQTLYPHI 166 (525)
Q Consensus 149 v~~L~~Pi~~Gqt~y~~l 166 (525)
+|.++.-=|.|.+-+++|
T Consensus 222 if~idd~gm~~nkyfq~~ 239 (943)
T PTZ00449 222 IFSIDDNGMIGNKYFQHL 239 (943)
T ss_pred EEEecCCcccchhhhhhh
Confidence 556666666666655554
No 77
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=22.12 E-value=79 Score=37.20 Aligned_cols=9 Identities=11% Similarity=0.202 Sum_probs=4.3
Q ss_pred eeEeeehHH
Q 009802 447 GFIFFSQME 455 (525)
Q Consensus 447 Ay~lF~~e~ 455 (525)
|-++|..-.
T Consensus 146 AN~lfarg~ 154 (895)
T KOG2076|consen 146 ANNLFARGD 154 (895)
T ss_pred HHHHHHhCC
Confidence 455565433
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=21.92 E-value=2.1e+02 Score=23.44 Aligned_cols=49 Identities=12% Similarity=0.196 Sum_probs=31.8
Q ss_pred CCcceEEEE--cCceeeccCcceeEEEecC---cEEEEccceeeeeecCceeEE
Q 009802 87 GGEEAVVTF--EGIAILTPRGRYSVELHLS---FLRLQGQANDFKIQYSSVVRL 135 (525)
Q Consensus 87 ~~g~~i~~~--~~i~~~~PRgry~le~~~~---~lrl~gkt~d~~I~y~~I~~~ 135 (525)
.+|.-+-.+ .||.+-.-.|+..--+-+. ++.|-|+..++-|||++|+++
T Consensus 14 ~~G~~lG~v~~~Dl~iD~~~G~I~aiIi~~~~~~~~~~~~~~~~~Ipw~~I~kI 67 (76)
T TIGR02888 14 NDGERLGVIGNIDLEIDEEDGRILSLIIPGKGKKFGLFSKGEEIEIPWDAIKKI 67 (76)
T ss_pred CCCcEeeccccceEEEECCCCEEEEEEEeCCCcEEEeecCCcEEEEEhhhccEE
Confidence 356666666 5655554455554333333 466677778899999999986
No 79
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.89 E-value=65 Score=34.51 Aligned_cols=39 Identities=15% Similarity=0.264 Sum_probs=32.9
Q ss_pred cCChhhhhhhHHHHHHHHHHHHHHhccCCCCCCCCCCCC
Q 009802 481 KMSVEEREPYESKARADKKRYKDEISGYKNPKPMDIDSG 519 (525)
Q Consensus 481 ~Ls~~eK~~y~~~A~~~k~~y~~e~~~y~~~~~~~~~~~ 519 (525)
++.+.+|++|.+..+..+..|+++.++|++..+.....+
T Consensus 268 E~qe~ek~kyqeEfe~~q~elek~k~efkk~hpd~~~e~ 306 (497)
T KOG3838|consen 268 EMQELEKAKYQEEFEWAQLELEKRKDEFKKSHPDAQGEG 306 (497)
T ss_pred hhhHHHHHHHHHHHHHHHHHHhhhHhhhccCCchhhcch
Confidence 345668999999999999999999999999988765553
No 80
>KOG3205 consensus Rho GDP-dissociation inhibitor [Signal transduction mechanisms]
Probab=21.24 E-value=1.5e+02 Score=28.56 Aligned_cols=84 Identities=14% Similarity=0.217 Sum_probs=58.7
Q ss_pred CCCCChHHHHHHHHHhhcccCcCCcceEEEEcCceeecc-CcceeEEEecCcEE-EEccceeeeeecCceeEEEecccCC
Q 009802 65 DENHPPAQVFRDKIMSMADVGAGGEEAVVTFEGIAILTP-RGRYSVELHLSFLR-LQGQANDFKIQYSSVVRLFLLPKSN 142 (525)
Q Consensus 65 ~~~~~~~~~~~~~i~~~a~~~~~~g~~i~~~~~i~~~~P-Rgry~le~~~~~lr-l~gkt~d~~I~y~~I~~~f~lP~~~ 142 (525)
|.+....+...+.|+.-.++..-.+++.+++..|++++| |--..+.|..+.-- +.++.+- |- -.-
T Consensus 39 DkdDESL~kwKe~Llg~~~~~~~~~dp~VvV~~LtLl~~~r~pi~ldlt~~~~~~~k~~~f~--iK-----------EGs 105 (200)
T KOG3205|consen 39 DKDDESLRKWKEQLLGSVDVIVDPNDPRVVVLKLTLLSEGRPPIVLDLTGDLSPELKKQWFT--IK-----------EGS 105 (200)
T ss_pred CcchHHHHHHHHHhCCCCCcccCCCCCeEEEEEEEEEeCCCCCeEEeCCCCccccccCceEE--ee-----------cCc
Confidence 345567899999999998877778999999999999999 88888888777544 5554332 11 111
Q ss_pred CCcEEEEEecCCcccCCCc
Q 009802 143 QPHTFVVVTLDPPIRKGQT 161 (525)
Q Consensus 143 ~~~~~~v~~L~~Pi~~Gqt 161 (525)
+-.+-|+|+..+-|.-|-.
T Consensus 106 ~Y~lki~F~Vq~eIvSGLr 124 (200)
T KOG3205|consen 106 EYRLKISFRVQREIVSGLR 124 (200)
T ss_pred EEEEEEEEEEeeheeccce
Confidence 2334566666777766643
No 81
>PF04386 SspB: Stringent starvation protein B; InterPro: IPR007481 Escherichia coli stringent starvation protein B (SspB), is thought to enhance the specificity of degradation of tmRNA-tagged proteins by the ClpXP protease. The tmRNA tag, also known as ssrA, is an 11-aa peptide added to the C terminus of proteins stalled during translation, targets proteins for degradation by ClpXP and ClpAP. SspB is a cytoplasmic protein that specifically binds to residues 1-4 and 7 of the tag. Binding of SspB enhances degradation of tagged proteins by ClpX, and masks sequence elements important for ClpA interactions, inhibiting degradation by ClpA []. However, more recent work has cast doubt on the importance of SspB in wild-type cells []. SspB is encoded in an operon whose synthesis is stimulated by carbon, amino acid, and phosphate starvation. SspB may play a special role during nutrient stress, for example by ensuring rapid degradation of the products of stalled translation, without causing a global increase in degradation of all ClpXP substrates [].; PDB: 2NYS_A 2QAZ_D 2QAS_A 1OX9_A 1OX8_A 1YFN_C 1TWB_B 1OU9_C 1OU8_B 1ZSZ_B ....
Probab=21.09 E-value=1.6e+02 Score=27.45 Aligned_cols=56 Identities=14% Similarity=0.325 Sum_probs=36.3
Q ss_pred ceeeccCcceeEEEecCc----EEEEccceeeeeecCceeEEEecccCCCCcEEEEEecCCccc
Q 009802 98 IAILTPRGRYSVELHLSF----LRLQGQANDFKIQYSSVVRLFLLPKSNQPHTFVVVTLDPPIR 157 (525)
Q Consensus 98 i~~~~PRgry~le~~~~~----lrl~gkt~d~~I~y~~I~~~f~lP~~~~~~~~~v~~L~~Pi~ 157 (525)
|+.+.|+---+|.|..++ +||.|+...+.|||..|..+|=- +...-+.|....+..
T Consensus 58 vlnI~~~a~~~L~v~~d~i~f~arF~G~~~~i~VP~~AV~aiya~----e~g~G~~F~~~~~~~ 117 (155)
T PF04386_consen 58 VLNISPHAVRDLSVDNDAISFTARFGGVPESIYVPFSAVLAIYAR----ENGQGMVFEVEPPDE 117 (155)
T ss_dssp EEEESSSSEEEEEE-SSEEEEEEEETTEEEEEEEEGGGEEEEEET----TTTEEEE-S-BGGGC
T ss_pred EEEECcCCcCCcEEECCEEEEEEEECCEEEEEEEhHHhhheeecc----cCCcceeccCCCCcc
Confidence 355667777788888884 56667788899999999888732 234455566555443
No 82
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=21.04 E-value=20 Score=40.68 Aligned_cols=44 Identities=25% Similarity=0.441 Sum_probs=40.1
Q ss_pred CcceeEeeehHHHHHHHhhCCCCCchhhhhHHHhhhccCChhhh
Q 009802 444 AMSGFIFFSQMERENIKKSNPGIAFTDVGRVLGERWKKMSVEER 487 (525)
Q Consensus 444 P~sAy~lF~~e~R~~~k~~~P~~~~~eisk~lge~Wk~Ls~~eK 487 (525)
-+++|++|+.+.|..+-..+|++.+++++.+.|..|+.|+..-|
T Consensus 552 ~~~~~~~~s~~~~~~~~~~np~v~~~~~~~~vg~~~~~lp~~~k 595 (629)
T KOG1827|consen 552 SPEPYILDSIENRTIIWFENPTVGFGEVSIIVGNDWDKLPNINK 595 (629)
T ss_pred CCccccccccccCceeeeeCCCcccceeEEeecCCcccCccccc
Confidence 56899999999999999999999999999999999999994433
No 83
>COG5129 MAK16 Nuclear protein with HMG-like acidic region [General function prediction only]
Probab=20.49 E-value=66 Score=31.78 Aligned_cols=6 Identities=17% Similarity=0.479 Sum_probs=2.6
Q ss_pred CCcccc
Q 009802 159 GQTLYP 164 (525)
Q Consensus 159 Gqt~y~ 164 (525)
...||-
T Consensus 45 ANSrYA 50 (303)
T COG5129 45 ANSRYA 50 (303)
T ss_pred ccCcce
Confidence 344444
No 84
>TIGR00648 recU recombination protein U. The Bacillus protein has been shown to be required for DNA recombination and repair. RJD 11/20/00
Probab=20.39 E-value=1.8e+02 Score=27.71 Aligned_cols=74 Identities=16% Similarity=0.272 Sum_probs=49.7
Q ss_pred cCcceeeccC---CCeEEecC-------ceeEEEEEEecC----CCCceeeEeEEEE-EeCCceEEEeccchhhhhhHHH
Q 009802 248 LEKSFFFLPK---PPTLILHE-------EIDYVEFERHAA----GGSNMHYFDLLIR-LKTEQEHLFRNIQRNEYHNLFD 312 (525)
Q Consensus 248 l~~~llfl~K---Pp~~i~~~-------eI~~V~feRv~~----~~~~~rtFDl~i~-~K~~~~~~Fs~I~~~e~~~l~~ 312 (525)
+++++-.++| |...|.++ -|...-|.+-+. |.-++|.+|+.-- +++++.+-+++|.....+.|..
T Consensus 18 ~~~~iA~I~K~PtPi~iv~v~~p~r~~~~I~~Ayf~~kSt~DY~Gvy~G~~i~FEAKeT~~k~~fpl~nI~~HQi~~L~~ 97 (169)
T TIGR00648 18 LTNQIAVIHKKPTPVQIVNVHYPKRSAAVIKEAYFKQSSTTDYNGIYKGRYIDFEAKETKNKTSFPLQNIHDHQIEHMKQ 97 (169)
T ss_pred HHCCeEEEEecCCCeEEEEecCccccCceEEEEEEccCCcCCccceECCEEEEEEccccCCCCceehhhCCHHHHHHHHH
Confidence 4555666665 33445443 355566654321 3334588777763 3467789999999999999999
Q ss_pred HHhcCCceE
Q 009802 313 FISGKGLKI 321 (525)
Q Consensus 313 ~l~~k~i~~ 321 (525)
|.+..||.+
T Consensus 98 ~~~~gGiaF 106 (169)
T TIGR00648 98 VKQQDGICF 106 (169)
T ss_pred HHHCCCEEE
Confidence 999999865
Done!