Query 010935
Match_columns 497
No_of_seqs 259 out of 929
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 06:14:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010935.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010935hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0457 Histone acetyltransfer 100.0 7E-94 1.5E-98 736.1 25.1 362 81-496 13-377 (438)
2 COG5114 Histone acetyltransfer 100.0 9.2E-80 2E-84 607.9 20.0 359 80-496 3-368 (432)
3 COG5259 RSC8 RSC chromatin rem 99.7 1.2E-17 2.5E-22 174.1 5.7 108 80-191 222-329 (531)
4 cd02335 ZZ_ADA2 Zinc finger, Z 99.5 2E-14 4.4E-19 108.9 3.7 49 83-131 1-49 (49)
5 KOG1279 Chromatin remodeling f 99.4 2.3E-13 4.9E-18 146.4 6.8 109 74-192 186-304 (506)
6 cd02343 ZZ_EF Zinc finger, ZZ 99.3 5.2E-13 1.1E-17 100.4 3.3 46 83-129 1-46 (48)
7 cd02338 ZZ_PCMF_like Zinc fing 99.3 2E-12 4.3E-17 98.1 3.0 48 83-131 1-49 (49)
8 cd02334 ZZ_dystrophin Zinc fin 99.3 2.2E-12 4.8E-17 97.8 3.1 46 83-129 1-47 (49)
9 cd02345 ZZ_dah Zinc finger, ZZ 99.3 3E-12 6.6E-17 97.1 3.3 48 83-131 1-49 (49)
10 cd02249 ZZ Zinc finger, ZZ typ 99.1 3.4E-11 7.5E-16 90.0 3.3 46 83-131 1-46 (46)
11 PF00249 Myb_DNA-binding: Myb- 99.1 1.1E-10 2.3E-15 87.7 5.0 45 141-185 2-47 (48)
12 cd02341 ZZ_ZZZ3 Zinc finger, Z 99.0 1.3E-10 2.9E-15 87.7 3.0 45 83-131 1-48 (48)
13 cd02340 ZZ_NBR1_like Zinc fing 99.0 1.4E-10 3.1E-15 85.6 3.1 43 83-131 1-43 (43)
14 cd02336 ZZ_RSC8 Zinc finger, Z 98.9 5E-10 1.1E-14 83.5 3.1 42 83-125 1-42 (45)
15 cd02344 ZZ_HERC2 Zinc finger, 98.9 7.1E-10 1.5E-14 82.6 3.1 44 83-131 1-45 (45)
16 cd02339 ZZ_Mind_bomb Zinc fing 98.9 9.2E-10 2E-14 82.1 3.0 42 83-129 1-43 (45)
17 smart00291 ZnF_ZZ Zinc-binding 98.9 1.4E-09 3E-14 80.7 3.4 41 81-122 3-43 (44)
18 PF00569 ZZ: Zinc finger, ZZ t 98.8 1.4E-09 3E-14 81.5 1.7 42 81-123 3-45 (46)
19 smart00717 SANT SANT SWI3, AD 98.7 3.7E-08 8.1E-13 71.9 5.7 46 141-186 2-47 (49)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.7 4.3E-08 9.3E-13 70.5 5.4 44 142-185 1-44 (45)
21 TIGR01557 myb_SHAQKYF myb-like 98.6 5.9E-08 1.3E-12 76.0 5.1 49 140-188 3-56 (57)
22 cd02337 ZZ_CBP Zinc finger, ZZ 98.5 4.5E-08 9.7E-13 71.7 2.1 33 83-117 1-33 (41)
23 PF13921 Myb_DNA-bind_6: Myb-l 98.5 1.3E-07 2.9E-12 73.7 4.9 41 143-184 1-41 (60)
24 cd02342 ZZ_UBA_plant Zinc fing 98.5 6E-08 1.3E-12 71.2 1.9 33 83-116 1-34 (43)
25 KOG1280 Uncharacterized conser 98.3 3E-07 6.5E-12 94.1 2.0 50 81-131 7-57 (381)
26 KOG4286 Dystrophin-like protei 98.2 2.3E-07 5E-12 102.3 -0.0 71 63-134 577-655 (966)
27 KOG4582 Uncharacterized conser 98.1 1.4E-06 3E-11 88.6 3.2 46 83-133 153-199 (278)
28 PLN03212 Transcription repress 98.1 2.9E-06 6.3E-11 84.0 5.1 49 138-186 23-72 (249)
29 PLN03091 hypothetical protein; 97.9 1.5E-05 3.4E-10 84.4 5.0 49 138-186 12-61 (459)
30 KOG0048 Transcription factor, 97.6 4.6E-05 1E-09 75.7 4.2 46 140-185 9-55 (238)
31 PLN03212 Transcription repress 97.4 0.00023 4.9E-09 70.8 5.3 47 138-185 76-122 (249)
32 KOG4301 Beta-dystrobrevin [Cyt 97.3 4E-05 8.6E-10 78.7 -0.4 54 75-129 233-287 (434)
33 PLN03091 hypothetical protein; 97.0 0.0011 2.4E-08 70.7 6.0 48 137-185 64-111 (459)
34 KOG0048 Transcription factor, 96.3 0.0062 1.3E-07 60.6 5.5 46 138-184 60-105 (238)
35 KOG0049 Transcription factor, 95.9 0.011 2.4E-07 65.5 5.6 51 137-187 357-407 (939)
36 KOG0049 Transcription factor, 95.4 0.016 3.5E-07 64.3 4.2 48 137-184 409-459 (939)
37 PF13837 Myb_DNA-bind_4: Myb/S 93.9 0.041 8.9E-07 45.7 2.4 46 141-186 2-64 (90)
38 KOG0051 RNA polymerase I termi 92.7 0.11 2.4E-06 57.9 4.1 89 96-189 339-431 (607)
39 PF07649 C1_3: C1-like domain; 91.7 0.1 2.2E-06 35.4 1.5 28 84-112 2-29 (30)
40 PF03107 C1_2: C1 domain; Int 90.9 0.18 4E-06 34.3 2.1 28 83-112 1-29 (30)
41 KOG0050 mRNA splicing protein 87.7 0.53 1.1E-05 51.5 3.8 48 140-188 7-54 (617)
42 KOG0051 RNA polymerase I termi 87.6 0.55 1.2E-05 52.6 4.0 52 139-190 435-511 (607)
43 PF02207 zf-UBR: Putative zinc 82.3 0.74 1.6E-05 37.4 1.5 43 87-134 2-48 (71)
44 KOG0050 mRNA splicing protein 81.7 1.5 3.2E-05 48.2 3.8 45 138-184 57-101 (617)
45 KOG4282 Transcription factor G 81.5 1.8 3.9E-05 45.2 4.4 47 141-187 55-114 (345)
46 COG5147 REB1 Myb superfamily p 81.3 1.1 2.4E-05 49.5 2.8 45 140-184 20-64 (512)
47 PF09111 SLIDE: SLIDE; InterP 80.2 2.1 4.5E-05 38.6 3.7 43 140-182 49-106 (118)
48 KOG4167 Predicted DNA-binding 76.4 3.3 7.1E-05 47.3 4.6 44 140-184 619-662 (907)
49 COG5118 BDP1 Transcription ini 74.1 4.5 9.8E-05 43.0 4.7 45 140-185 365-409 (507)
50 PHA00442 host recBCD nuclease 73.6 3.5 7.7E-05 32.1 2.8 26 145-170 25-50 (59)
51 KOG1778 CREB binding protein/P 73.1 1.8 3.8E-05 45.3 1.4 47 78-132 165-211 (319)
52 KOG0384 Chromodomain-helicase 73.0 2.2 4.8E-05 51.2 2.4 29 139-167 1132-1160(1373)
53 PF13873 Myb_DNA-bind_5: Myb/S 72.7 5.3 0.00012 32.4 3.9 45 141-185 3-68 (78)
54 KOG4468 Polycomb-group transcr 72.3 3.8 8.3E-05 45.8 3.8 45 140-185 88-142 (782)
55 PF09862 DUF2089: Protein of u 71.9 6.1 0.00013 35.4 4.3 60 85-171 1-60 (113)
56 TIGR02894 DNA_bind_RsfA transc 67.7 4 8.6E-05 38.6 2.4 44 141-185 5-54 (161)
57 smart00396 ZnF_UBR1 Putative z 66.9 5.4 0.00012 32.6 2.7 42 87-133 2-47 (71)
58 PLN03142 Probable chromatin-re 66.2 7.1 0.00015 46.9 4.7 58 141-200 825-882 (1033)
59 COG5147 REB1 Myb superfamily p 64.4 7 0.00015 43.4 3.9 48 139-187 71-118 (512)
60 PF04504 DUF573: Protein of un 63.1 15 0.00033 31.8 4.9 33 139-171 3-42 (98)
61 KOG2789 Putative Zn-finger pro 62.8 7.1 0.00015 41.8 3.3 80 72-154 64-155 (482)
62 KOG4329 DNA-binding protein [G 61.8 9.6 0.00021 40.5 4.1 43 141-184 278-321 (445)
63 PF08914 Myb_DNA-bind_2: Rap1 58.4 16 0.00034 29.5 3.9 47 141-187 3-58 (65)
64 PF00643 zf-B_box: B-box zinc 58.3 6.3 0.00014 28.1 1.5 39 82-130 3-41 (42)
65 PF14569 zf-UDP: Zinc-binding 57.4 5 0.00011 33.6 1.0 33 82-115 9-45 (80)
66 PF07975 C1_4: TFIIH C1-like d 56.0 7.2 0.00016 30.1 1.5 30 84-114 1-37 (51)
67 KOG1356 Putative transcription 55.2 6.4 0.00014 45.8 1.6 36 79-116 226-261 (889)
68 PLN03142 Probable chromatin-re 54.2 15 0.00033 44.2 4.6 44 140-183 926-981 (1033)
69 PF08074 CHDCT2: CHDCT2 (NUC03 54.0 7.3 0.00016 37.0 1.5 29 141-169 4-32 (173)
70 COG3935 DnaD Putative primosom 53.9 14 0.0003 37.5 3.6 59 368-426 133-210 (246)
71 PF08394 Arc_trans_TRASH: Arch 53.6 6.7 0.00014 28.4 0.9 31 85-115 1-32 (37)
72 PLN02638 cellulose synthase A 53.4 11 0.00023 45.4 3.0 31 84-115 19-53 (1079)
73 PF15614 WHIM3: WSTF, HB1, Itc 51.3 29 0.00063 26.3 4.1 28 376-403 4-36 (46)
74 PF12776 Myb_DNA-bind_3: Myb/S 51.1 30 0.00065 28.7 4.8 44 142-185 1-61 (96)
75 COG3058 FdhE Uncharacterized p 50.7 3 6.5E-05 42.7 -1.7 40 64-104 192-232 (308)
76 PF06461 DUF1086: Domain of Un 49.9 26 0.00057 32.7 4.4 53 141-194 39-93 (145)
77 KOG1194 Predicted DNA-binding 47.2 12 0.00025 40.9 2.0 43 140-184 470-512 (534)
78 PF13404 HTH_AsnC-type: AsnC-t 45.6 58 0.0013 23.8 4.9 37 147-184 4-40 (42)
79 smart00595 MADF subfamily of S 43.9 23 0.00049 29.2 2.9 23 162-185 29-51 (89)
80 PF07261 DnaB_2: Replication i 43.1 5 0.00011 32.2 -1.2 23 399-421 54-76 (77)
81 KOG3554 Histone deacetylase co 42.9 25 0.00054 38.6 3.6 41 141-182 286-327 (693)
82 PLN02436 cellulose synthase A 40.9 16 0.00034 44.0 1.9 34 83-117 37-74 (1094)
83 KOG2807 RNA polymerase II tran 38.6 20 0.00042 37.8 2.0 33 80-113 328-360 (378)
84 PLN02189 cellulose synthase 38.4 29 0.00063 41.7 3.6 35 82-117 34-72 (1040)
85 PF02954 HTH_8: Bacterial regu 37.9 42 0.0009 24.2 3.1 24 147-171 6-29 (42)
86 PLN02915 cellulose synthase A 36.5 20 0.00043 43.0 1.9 34 82-116 15-52 (1044)
87 PRK13923 putative spore coat p 35.4 29 0.00063 33.2 2.5 44 140-184 5-54 (170)
88 TIGR01446 DnaD_dom DnaD and ph 34.5 29 0.00062 27.7 2.0 18 400-417 55-72 (73)
89 PLN02400 cellulose synthase 34.2 23 0.0005 42.6 1.9 33 83-116 37-73 (1085)
90 KOG1194 Predicted DNA-binding 33.4 55 0.0012 36.0 4.3 46 138-184 185-230 (534)
91 TIGR02531 yecD_yerC TrpR-relat 32.8 85 0.0019 26.8 4.7 51 368-419 7-60 (88)
92 PF01388 ARID: ARID/BRIGHT DNA 30.4 96 0.0021 25.7 4.6 39 148-186 38-88 (92)
93 COG2956 Predicted N-acetylgluc 30.4 29 0.00064 36.7 1.7 28 78-106 350-377 (389)
94 KOG0818 GTPase-activating prot 29.9 29 0.00063 38.5 1.7 69 81-164 7-77 (669)
95 PF00130 C1_1: Phorbol esters/ 29.0 48 0.001 24.7 2.3 24 81-104 10-35 (53)
96 PLN02195 cellulose synthase A 28.5 36 0.00078 40.7 2.2 33 83-116 7-43 (977)
97 PRK11823 DNA repair protein Ra 27.5 41 0.00089 36.7 2.3 28 80-108 5-32 (446)
98 PRK08359 transcription factor; 26.8 43 0.00092 32.3 2.0 40 83-122 7-48 (176)
99 PF05290 Baculo_IE-1: Baculovi 26.1 22 0.00049 32.8 0.0 53 81-136 79-131 (140)
100 PF07191 zinc-ribbons_6: zinc- 26.0 27 0.00058 28.8 0.4 21 84-104 3-24 (70)
101 TIGR01053 LSD1 zinc finger dom 25.6 50 0.0011 22.9 1.6 24 82-105 1-27 (31)
102 TIGR00270 conserved hypothetic 25.3 43 0.00094 31.4 1.8 39 84-122 2-40 (154)
103 PF03705 CheR_N: CheR methyltr 25.1 2.6E+02 0.0056 20.9 5.8 41 378-420 1-51 (57)
104 COG5347 GTPase-activating prot 24.9 50 0.0011 34.7 2.3 57 84-153 22-78 (319)
105 PRK00420 hypothetical protein; 24.5 47 0.001 29.8 1.7 29 83-111 24-54 (112)
106 PF13842 Tnp_zf-ribbon_2: DDE_ 24.0 65 0.0014 22.3 2.0 27 84-111 2-29 (32)
107 PLN03158 methionine aminopepti 23.5 17 0.00038 39.1 -1.4 42 81-128 8-57 (396)
108 PRK01343 zinc-binding protein; 23.4 40 0.00087 26.7 0.9 28 81-108 8-36 (57)
109 KOG3993 Transcription factor ( 22.9 21 0.00046 38.7 -0.9 50 74-130 259-322 (500)
110 PF01412 ArfGap: Putative GTPa 22.6 40 0.00087 29.8 0.9 56 83-151 14-69 (116)
111 TIGR00416 sms DNA repair prote 22.5 59 0.0013 35.7 2.4 29 80-109 5-33 (454)
112 smart00105 ArfGap Putative GTP 20.9 1.1E+02 0.0023 27.0 3.3 56 84-153 5-60 (112)
113 TIGR00622 ssl1 transcription f 20.8 64 0.0014 28.9 1.8 30 83-113 56-96 (112)
114 KOG3579 Predicted E3 ubiquitin 20.5 93 0.002 32.3 3.1 43 73-115 259-301 (352)
115 cd04766 HTH_HspR Helix-Turn-He 20.5 4.9E+02 0.011 21.6 7.1 61 345-405 22-87 (91)
116 PF10545 MADF_DNA_bdg: Alcohol 20.1 98 0.0021 24.6 2.7 24 162-185 28-52 (85)
No 1
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=100.00 E-value=7e-94 Score=736.15 Aligned_cols=362 Identities=49% Similarity=0.817 Sum_probs=317.3
Q ss_pred CCccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCCCCCCCCCCCcchhHHHHHHHHHHcCC
Q 010935 81 ALYHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPLICPDWNADDEILLLEGIEMYGL 160 (497)
Q Consensus 81 ~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~~~~~Wta~EEl~LLeaie~yG~ 160 (497)
..|+|++|..+|++.+||+|++|+|||||+.||+.|+|++.|+++|+|+||++++||+.+++|||+||++||+|+++|||
T Consensus 13 ~ky~C~~C~~dit~~i~ikCaeCp~fdLCl~CFs~GaE~~~H~~~H~Yrim~~~s~~i~~~~WtadEEilLLea~~t~G~ 92 (438)
T KOG0457|consen 13 GKYNCDYCSLDITGLIRIKCAECPDFDLCLQCFSVGAETGKHQNDHPYRIMDTNSFPILDPSWTADEEILLLEAAETYGF 92 (438)
T ss_pred CCCCCccHhHHhccceEEEeecCCCcchhHHHHhcccccCCCCCCCCceeecCCCCCCCCCCCChHHHHHHHHHHHHhCC
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CChhHHHHhhCCCCHHHHHHHHHhhccCCCCCCCCCCccccccchHHHHHHhccCCCCCCCCCCCCCCCccCCCCCCCch
Q 010935 161 GNWAEIAEHVGTKTKELCIEHYTNVYMNSPFFPLPDMSHVVGKNRKELLAMAKGHIDDKKGPSKPGEATVKEESPFSPSR 240 (497)
Q Consensus 161 GNW~~IA~~Vgtkt~~ec~~hy~~~yi~~~~~plp~~~~~~~~~~~ell~~~k~~~~~~~~~~~~~~~t~~~~~p~~p~~ 240 (497)
|||++||+||||||++||++||.++|++++++|+|++++.+|+++.+++++++... .||.|..
T Consensus 93 GNW~dIA~hIGtKtkeeck~hy~k~fv~s~~~~~~~i~~~~~~~q~e~~~~~k~~~-----------------~~~~~~~ 155 (438)
T KOG0457|consen 93 GNWQDIADHIGTKTKEECKEHYLKHFVNSPIFPLPDISLGIGVNQDEDAAMAKNRA-----------------EPFQPTD 155 (438)
T ss_pred CcHHHHHHHHcccchHHHHHHHHHHHhcCccccccccccccCcchHHHhhhccccc-----------------ccCCCCC
Confidence 99999999999999999999999999999999999999999999999999877531 2344321
Q ss_pred hhhhhhccCCCCCCCCCCCCccccccCCCCCCCCCCCCCCccccccccCCCCCCCcccCcchHhhhhccccCCCCCHHHH
Q 010935 241 VKIEEMHKVGPSGRGLNADPQTERSSKGKKPVTSGNDGPSLVELSGYNSKRQEFDPEYDNDAEQLLAEMEFKDADSEEER 320 (497)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~r~~~~~kp~~~~~~~~~~~e~~GYmP~R~DFE~EyDNdAE~lladmeF~~dD~~~e~ 320 (497)
. -|++++.++|..++++||||+|.|||.||||+||++|+||+|+++|+|.++
T Consensus 156 ~----------------------------~pr~p~~~~p~~~e~~gyMp~R~dFd~Eydn~AE~li~dm~f~e~D~~~d~ 207 (438)
T KOG0457|consen 156 L----------------------------VPRKPGVSNPLRREISGYMPGRLDFDEEYDNEAEQLIRDMEFEEDDTEEDH 207 (438)
T ss_pred C----------------------------CCCCCCCCCchHHHHhhhCccchhhhhhhcchhhhhHhhcccCCCCcHHHH
Confidence 0 134444567889999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCC---CCCCCCCChHHHHHHHhhchhcccCChhHHHHHHHHHHHHHHHHH
Q 010935 321 DIKLRVLRIYSKRLDERKRRKDFILERNLLYP---NPFEKDLSPEERELCRRYDVFMRFHSKEDHEDLLQTVISEHRTLK 397 (497)
Q Consensus 321 eLKL~~l~iYn~RL~ER~rRK~~i~e~gLl~~---~~~ekk~tkeErel~~rlk~Farf~s~eehe~li~~L~~E~~Lr~ 397 (497)
+||+++|+|||+||+||.|||++|++|||+++ |++++++|+|||++++++|+||||+|+.||++|+.+++.|.+|++
T Consensus 208 elKla~ldiY~srl~eR~RRK~~I~d~nLl~~rk~q~~e~~~skEer~l~~s~k~fAR~~t~~d~~kfl~~~~eE~~L~~ 287 (438)
T KOG0457|consen 208 ELKLAVLDIYNSRLKERKRRKRFIRDRNLLDYRKNQAMEKRLSKEERELYNSIKVFARFLTKSDHDKFLGSVAEEKELRK 287 (438)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccccchhhhhHHHhhccHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999995 788999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhCccchHHHHHHHHHHhhhHHHHHHHHHhhcCCCCCCCCCCccccccccccccCCCCCCCCCCCCCCCCC
Q 010935 398 RIQDLKEARAAGCRTSAEADRYLELKRGREAEEASRRAKEGGHAGASSQGGANVFMASESLRKDSNSNSRPSGQASSSHV 477 (497)
Q Consensus 398 rI~~LqeyR~~Gittl~e~~~ye~~k~~Re~e~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a 477 (497)
||++|||||.+|+||++++.+|+.+|.+ +.+........+.+..+-..+. +.+-+ ..+.+++..+.+++++
T Consensus 288 ri~~lqE~R~ag~tt~~e~~ky~~~k~~-~~~~s~~~~~~~~~~~~i~~~~------~~~~~--~~~~~~v~~~~~~~~~ 358 (438)
T KOG0457|consen 288 RISDLQEYRSAGLTTNAEPNKYERLKFK-EFRESTALLLSSGALRYIKNSN------QEASG--SASKRPVQQQSIYKSA 358 (438)
T ss_pred HHHHHHHHHHhcceeccccchhHHHHHH-HHHHHhhhccccchhhhhhccc------ccccc--ccccCcccccccccCC
Confidence 9999999999999999999999999944 3444444433322211111111 11111 1123445566789999
Q ss_pred CcccccCCCccccCccccC
Q 010935 478 NDLYIMGFNETQLLSEAVS 496 (497)
Q Consensus 478 ~~l~i~g~pG~e~Ls~~~~ 496 (497)
+++||+|+||+++||+.|+
T Consensus 359 ~~~~~~~~~~~q~Lse~E~ 377 (438)
T KOG0457|consen 359 TPLDISGAPDTQLLSEDEK 377 (438)
T ss_pred CHHHHhcchhhhhhhhhHH
Confidence 9999999999999999985
No 2
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=100.00 E-value=9.2e-80 Score=607.92 Aligned_cols=359 Identities=31% Similarity=0.516 Sum_probs=303.5
Q ss_pred cCCccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCCCCCCCCCCCcchhHHHHHHHHHHcC
Q 010935 80 RALYHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPLICPDWNADDEILLLEGIEMYG 159 (497)
Q Consensus 80 ~~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~~~~~Wta~EEl~LLeaie~yG 159 (497)
.+.++||+|..+|+..++|+|++|++||||+.||++|.+.+.|++.|+|+||..+++|+++++|+++||++|+++++.+|
T Consensus 3 ~~k~hCdvC~~d~T~~~~i~C~eC~~~DLC~pCF~~g~~tg~H~pyH~YRiietnsypI~~e~WgadEEllli~~~~TlG 82 (432)
T COG5114 3 GVKIHCDVCFLDMTDLTFIKCNECPAVDLCLPCFVNGIETGVHSPYHGYRIIETNSYPIGEEGWGADEELLLIECLDTLG 82 (432)
T ss_pred CceeeehHHHHhhhcceeeeeecccccceehhhhhccccccccCCCCCeeEeeccCccccCCCcCchHHHHHHHHHHhcC
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCChhHHHHhhCCCCHHHHHHHHHhhccCCCCCCCCCCccccccchHHHHHHhccCCCCCCCCCCCCCCCccCCCCCCCc
Q 010935 160 LGNWAEIAEHVGTKTKELCIEHYTNVYMNSPFFPLPDMSHVVGKNRKELLAMAKGHIDDKKGPSKPGEATVKEESPFSPS 239 (497)
Q Consensus 160 ~GNW~~IA~~Vgtkt~~ec~~hy~~~yi~~~~~plp~~~~~~~~~~~ell~~~k~~~~~~~~~~~~~~~t~~~~~p~~p~ 239 (497)
+|||++||+|||.|+++||+.||.++|+++.++|||++...+-..+.++++..+.+++.-. ++|..|
T Consensus 83 lGNW~dIadyiGsr~kee~k~HylK~y~es~~ypl~~i~~~~~v~q~~f~~qrr~rie~f~------------~ppi~p- 149 (432)
T COG5114 83 LGNWEDIADYIGSRAKEEIKSHYLKMYDESKYYPLPDITQNIHVPQDEFLEQRRHRIETFE------------LPPINP- 149 (432)
T ss_pred CCcHHHHHHHHhhhhhHHHHHHHHHHHhhcccccccccccCCCCchHHHHHHHHhhhhhcc------------CCCCCC-
Confidence 9999999999999999999999999999999999999987777788888887665443211 112221
Q ss_pred hhhhhhhccCCCCCCCCCCCCccccccCCCCCCCCCCCCCCccccccccCCCCCCCcccCcchHhhhhccccCCCCCHHH
Q 010935 240 RVKIEEMHKVGPSGRGLNADPQTERSSKGKKPVTSGNDGPSLVELSGYNSKRQEFDPEYDNDAEQLLAEMEFKDADSEEE 319 (497)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~kp~~~~~~~~~~~e~~GYmP~R~DFE~EyDNdAE~lladmeF~~dD~~~e 319 (497)
.||.. ++|++++++||||+|.|||+||+|+||..|+||.|++|+.+.+
T Consensus 150 -----------------------------rkP~a---S~P~cheiqgyMPgRleFd~EymnEaE~pikDm~fd~d~~el~ 197 (432)
T COG5114 150 -----------------------------RKPKA---SNPYCHEIQGYMPGRLEFDVEYMNEAEVPIKDMSFDGDKEELK 197 (432)
T ss_pred -----------------------------CCCCC---CCCchhhhhccCCCccccchhhhhcccccccccccCCchHHHH
Confidence 13443 5799999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCC---CCCCCCCCChHHHHHHHhhchhcccCChhHHHHHHHHHHHHHHHH
Q 010935 320 RDIKLRVLRIYSKRLDERKRRKDFILERNLLY---PNPFEKDLSPEERELCRRYDVFMRFHSKEDHEDLLQTVISEHRTL 396 (497)
Q Consensus 320 ~eLKL~~l~iYn~RL~ER~rRK~~i~e~gLl~---~~~~ekk~tkeErel~~rlk~Farf~s~eehe~li~~L~~E~~Lr 396 (497)
++||+++|+|||+||.-|.+||+.|++++|+| -++.+|++||||+.+++++|+|||++|+.||+.|++.++.+.-++
T Consensus 198 ~~lk~a~LdiYnsrlt~Ra~rK~~if~~nLmDyr~Lqa~dkk~skEe~~l~N~iK~fAr~lT~~Df~~F~~~~~e~v~~~ 277 (432)
T COG5114 198 KKLKNATLDIYNSRLTFRARRKHAIFGKNLMDYRNLQAKDKKRSKEECGLVNSIKWFARYLTKSDFNVFFRDILEGVYIE 277 (432)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhhccHHHHhHHHhhhHHHHhhcchhHHHHHHHHhhhhhHH
Confidence 99999999999999999999999999999999 478899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhCccchHHHHHHHHHHhhhHHHHHHHHHhhc----CCCCCCCCCCccccccccccccCCCCCCCCCCCC
Q 010935 397 KRIQDLKEARAAGCRTSAEADRYLELKRGREAEEASRRAKEG----GHAGASSQGGANVFMASESLRKDSNSNSRPSGQA 472 (497)
Q Consensus 397 ~rI~~LqeyR~~Gittl~e~~~ye~~k~~Re~e~~~~~~~e~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 472 (497)
+||++||+||.||+|||+.|-+|+++|-.+ ..+.++-.+ ..+..++....|+..++... -...
T Consensus 278 kri~~LqewR~~glttle~g~kyeRDk~ek---f~~s~aas~~e~~~r~~~n~~~~sna~~s~~d~----------~ni~ 344 (432)
T COG5114 278 KRIHELQEWRNNGLTTLEAGLKYERDKFEK---FGASTAASLSEGNSRYRSNSAHRSNAEYSQMDV----------KNIL 344 (432)
T ss_pred HHHHHHHHHHhcCchhhhhhhhhhhhHHHh---hccchhhhhcccchhhhcccccccCcchhHHHH----------Hhcc
Confidence 999999999999999999999999998332 111111100 00000000000110000000 0012
Q ss_pred CCCCCCcccccCCCccccCccccC
Q 010935 473 SSSHVNDLYIMGFNETQLLSEAVS 496 (497)
Q Consensus 473 ~~~~a~~l~i~g~pG~e~Ls~~~~ 496 (497)
.++.+.+-||...|.|.+||++|.
T Consensus 345 p~K~~t~s~~q~a~d~~llS~dEq 368 (432)
T COG5114 345 PSKNMTISDIQHAPDYALLSDDEQ 368 (432)
T ss_pred CCCCCChhhhhccchhhhhcchHH
Confidence 477788999999999999999874
No 3
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=99.70 E-value=1.2e-17 Score=174.06 Aligned_cols=108 Identities=30% Similarity=0.613 Sum_probs=95.7
Q ss_pred cCCccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCCCCCCCCCCCcchhHHHHHHHHHHcC
Q 010935 80 RALYHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPLICPDWNADDEILLLEGIEMYG 159 (497)
Q Consensus 80 ~~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~~~~~Wta~EEl~LLeaie~yG 159 (497)
.+..+|+.||..+.. .||+-..-.+|++|..||-.|.++....++ +|..++...+. ....|+++|+++|||||++||
T Consensus 222 ~~~~~C~~cG~~~~~-t~y~nlra~~~n~C~~C~~qg~f~s~~~ss-Df~~v~~~~~~-~dk~WS~qE~~LLLEGIe~yg 298 (531)
T COG5259 222 KHPSSCSCCGNKSFN-TRYHNLRAEKYNSCSECYDQGRFPSEFTSS-DFKPVTISLLI-RDKNWSRQELLLLLEGIEMYG 298 (531)
T ss_pred cCCceeeccCccccc-hhhhhhhhhhcccchHHHhcCcCCCccccc-cchhhhhhccc-ccccccHHHHHHHHHHHHHhh
Confidence 456899999998887 899999888999999999999998887655 78877664433 457999999999999999999
Q ss_pred CCChhHHHHhhCCCCHHHHHHHHHhhccCCCC
Q 010935 160 LGNWAEIAEHVGTKTKELCIEHYTNVYMNSPF 191 (497)
Q Consensus 160 ~GNW~~IA~~Vgtkt~~ec~~hy~~~yi~~~~ 191 (497)
.+|..||.|||+||++||+.||+++++.+.+
T Consensus 299 -DdW~kVA~HVgtKt~EqCIl~FL~LPieD~~ 329 (531)
T COG5259 299 -DDWDKVARHVGTKTKEQCILHFLQLPIEDNY 329 (531)
T ss_pred -hhHHHHHHHhCCCCHHHHHHHHHcCCcchhh
Confidence 9999999999999999999999999998864
No 4
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.48 E-value=2e-14 Score=108.90 Aligned_cols=49 Identities=69% Similarity=1.499 Sum_probs=46.5
Q ss_pred ccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCcccc
Q 010935 83 YHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVM 131 (497)
Q Consensus 83 ~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi 131 (497)
++||+|++++...+||+|++|+|||||..||+.|.+.+.|+++|+|++|
T Consensus 1 ~~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~g~~~~~H~~~H~~~~~ 49 (49)
T cd02335 1 YHCDYCSKDITGTIRIKCAECPDFDLCLECFSAGAEIGKHRNDHNYRVV 49 (49)
T ss_pred CCCCCcCCCCCCCcEEECCCCCCcchhHHhhhCcCCCCCCCCCCCeEeC
Confidence 5799999998877999999999999999999999999999999999986
No 5
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=99.41 E-value=2.3e-13 Score=146.45 Aligned_cols=109 Identities=32% Similarity=0.677 Sum_probs=84.2
Q ss_pred CCCCCCcCCccccccccccCCCceEEcCCCCC----------cccchhcccccccccCCCCCCCccccCCCCCCCCCCCC
Q 010935 74 GAGEGKRALYHCNYCNKDITGKIRIKCAVCPD----------FDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPLICPDW 143 (497)
Q Consensus 74 ~~~e~~~~~~~Cd~C~~~i~~~~ri~C~~C~d----------~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~~~~~W 143 (497)
-+.+++...-+|+.|..-+. ++|-.|.+ +.+|..||..|.+...++.+ +|.++.. .....|
T Consensus 186 ~~~~~~~~~~~~~~~~~l~~----~~c~~~~~~~~~~~~~~~~~~c~~c~~~g~~~~~~~~~-Df~~~~~----~~~~~W 256 (506)
T KOG1279|consen 186 LSLESKIKSLHINAGEHLCA----IHCFIKEDPYYYDLTNRDVNLCADCYDQGEFPSEFKKS-DFKVIGE----SARPNW 256 (506)
T ss_pred ccccccccccccChHhhccc----cchhccccchhhhcchhhhhhhHHHHhcCCccCccccc-cchhccc----cCCCCc
Confidence 33444445555555543322 24444444 78999999999999988766 5654443 236899
Q ss_pred cchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHhhccCCCCC
Q 010935 144 NADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTNVYMNSPFF 192 (497)
Q Consensus 144 ta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~~yi~~~~~ 192 (497)
|.+|+++||+||++|| .+|..||.|||+||++||+.||++.++.+++.
T Consensus 257 T~qE~lLLLE~ie~y~-ddW~kVa~hVg~ks~eqCI~kFL~LPieD~~l 304 (506)
T KOG1279|consen 257 TEQETLLLLEAIEMYG-DDWNKVADHVGTKSQEQCILKFLRLPIEDPYL 304 (506)
T ss_pred cHHHHHHHHHHHHHhc-ccHHHHHhccCCCCHHHHHHHHHhcCccchhh
Confidence 9999999999999999 99999999999999999999999999988643
No 6
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.35 E-value=5.2e-13 Score=100.38 Aligned_cols=46 Identities=33% Similarity=0.717 Sum_probs=43.0
Q ss_pred ccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCcc
Q 010935 83 YHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYR 129 (497)
Q Consensus 83 ~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~ 129 (497)
+.||+|++.+.+ +||+|++|+|||||..||..|.+.+.|+.+|+++
T Consensus 1 i~CdgC~~~~~~-~RykCl~C~d~DlC~~Cf~~g~~~~~H~~~Hpm~ 46 (48)
T cd02343 1 ISCDGCDEIAPW-HRYRCLQCTDMDLCKTCFLGGVKPEGHEDDHEMV 46 (48)
T ss_pred CCCCCCCCcCCC-ceEECCCCCCchhHHHHHhCCccCCCCCCCCCcc
Confidence 469999998776 9999999999999999999999999999999875
No 7
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=99.27 E-value=2e-12 Score=98.10 Aligned_cols=48 Identities=38% Similarity=0.953 Sum_probs=44.5
Q ss_pred ccccccc-cccCCCceEEcCCCCCcccchhcccccccccCCCCCCCcccc
Q 010935 83 YHCNYCN-KDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVM 131 (497)
Q Consensus 83 ~~Cd~C~-~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi 131 (497)
+.|++|+ .+|.+ .||+|++|+|||||..||+.|.+.+.|+++|+|+++
T Consensus 1 i~C~~C~~~~i~g-~R~~C~~C~d~dlC~~Cf~~~~~~~~H~~~H~~~~~ 49 (49)
T cd02338 1 VSCDGCGKSNFTG-RRYKCLICYDYDLCADCYDSGVTTERHLFDHPMQCI 49 (49)
T ss_pred CCCCCCcCCCcEE-eeEEeCCCCCCccchhHHhCCCcCCCCCCCCCEEEC
Confidence 4699999 68887 999999999999999999999999999999999864
No 8
>cd02334 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.
Probab=99.27 E-value=2.2e-12 Score=97.78 Aligned_cols=46 Identities=41% Similarity=0.977 Sum_probs=43.0
Q ss_pred cccccccc-ccCCCceEEcCCCCCcccchhcccccccccCCCCCCCcc
Q 010935 83 YHCNYCNK-DITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYR 129 (497)
Q Consensus 83 ~~Cd~C~~-~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~ 129 (497)
+.|++|++ +|.+ .||+|++|.|||||..||..|.+.+.|+++|+|+
T Consensus 1 ~~Cd~C~~~pi~g-~RykC~~C~d~DLC~~Cf~~g~~~~~H~~~Hp~~ 47 (49)
T cd02334 1 AKCNICKEFPITG-FRYRCLKCFNYDLCQSCFFSGRTSKSHKNSHPMK 47 (49)
T ss_pred CCCCCCCCCCcee-eeEECCCCCCcCchHHHHhCCCcCCCCCCCCCee
Confidence 36999997 5887 9999999999999999999999999999999986
No 9
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=99.26 E-value=3e-12 Score=97.09 Aligned_cols=48 Identities=42% Similarity=0.948 Sum_probs=44.3
Q ss_pred cccccccc-ccCCCceEEcCCCCCcccchhcccccccccCCCCCCCcccc
Q 010935 83 YHCNYCNK-DITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVM 131 (497)
Q Consensus 83 ~~Cd~C~~-~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi 131 (497)
..|++|.+ +|++ +||+|++|+|||||..||+.|.+.+.|+++|+|..+
T Consensus 1 ~~C~~C~~~~i~g-~R~~C~~C~dydLC~~Cf~~~~~~~~H~~~H~~~~~ 49 (49)
T cd02345 1 LSCSACRKQDISG-IRFPCQVCRDYSLCLGCYTKGRETKRHNSLHIMYEL 49 (49)
T ss_pred CcCCCCCCCCceE-eeEECCCCCCcCchHHHHhCCCcCCCCCCCCCcccC
Confidence 36999999 9997 999999999999999999999999999999998643
No 10
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=99.12 E-value=3.4e-11 Score=90.00 Aligned_cols=46 Identities=41% Similarity=1.024 Sum_probs=42.3
Q ss_pred ccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCcccc
Q 010935 83 YHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVM 131 (497)
Q Consensus 83 ~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi 131 (497)
|.|++|+++|.+ .||+|.+|+|||||..||+.+. +.|+++|+|..|
T Consensus 1 ~~C~~C~~~i~g-~r~~C~~C~d~dLC~~Cf~~~~--~~H~~~H~~~~~ 46 (46)
T cd02249 1 YSCDGCLKPIVG-VRYHCLVCEDFDLCSSCYAKGK--KGHPPDHSFTEI 46 (46)
T ss_pred CCCcCCCCCCcC-CEEECCCCCCCcCHHHHHCcCc--CCCCCCCCEeEC
Confidence 579999999998 9999999999999999999987 889999998754
No 11
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.10 E-value=1.1e-10 Score=87.72 Aligned_cols=45 Identities=31% Similarity=0.716 Sum_probs=41.1
Q ss_pred CCCcchhHHHHHHHHHHcCCCChhHHHHhhC-CCCHHHHHHHHHhh
Q 010935 141 PDWNADDEILLLEGIEMYGLGNWAEIAEHVG-TKTKELCIEHYTNV 185 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vg-tkt~~ec~~hy~~~ 185 (497)
..||.+|+.+|++||.+||.+||..||.+|+ +||+.||+.||.++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~ 47 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNL 47 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhh
Confidence 5799999999999999999888999999999 99999999999875
No 12
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=99.03 E-value=1.3e-10 Score=87.74 Aligned_cols=45 Identities=36% Similarity=0.882 Sum_probs=40.9
Q ss_pred cccccccc-ccCCCceEEcCCCC--CcccchhcccccccccCCCCCCCcccc
Q 010935 83 YHCNYCNK-DITGKIRIKCAVCP--DFDLCIECFSVGVEVHPHKSNHPYRVM 131 (497)
Q Consensus 83 ~~Cd~C~~-~i~~~~ri~C~~C~--d~dLC~~CFs~G~e~~~Hk~~H~Y~vi 131 (497)
|.||+|+. +|.+ +||+|.+|+ +||||..||..|. .|+.+|.+..|
T Consensus 1 y~Cd~C~~~pI~G-~R~~C~~C~~~d~DlC~~C~~~~~---~H~~~H~~~~i 48 (48)
T cd02341 1 FKCDSCGIEPIPG-TRYHCSECDDGDFDLCQDCVVKGE---SHQEDHWLVKI 48 (48)
T ss_pred CCCCCCCCCcccc-ceEECCCCCCCCCccCHHHHhCcC---CCCCCCceeeC
Confidence 67999998 7887 999999999 9999999999997 79999988654
No 13
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=99.03 E-value=1.4e-10 Score=85.64 Aligned_cols=43 Identities=42% Similarity=0.943 Sum_probs=38.9
Q ss_pred ccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCcccc
Q 010935 83 YHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVM 131 (497)
Q Consensus 83 ~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi 131 (497)
+.||+|+.+|.+ .||+|++|+|||||..||..+ .| +.|+|..|
T Consensus 1 v~Cd~C~~~i~G-~ry~C~~C~d~dLC~~C~~~~----~H-~~H~f~~~ 43 (43)
T cd02340 1 VICDGCQGPIVG-VRYKCLVCPDYDLCESCEAKG----VH-PEHAMLKI 43 (43)
T ss_pred CCCCCCCCcCcC-CeEECCCCCCccchHHhhCcC----CC-CCCCEEeC
Confidence 469999999988 999999999999999999987 68 89998754
No 14
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=98.94 E-value=5e-10 Score=83.50 Aligned_cols=42 Identities=31% Similarity=0.648 Sum_probs=39.9
Q ss_pred ccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCC
Q 010935 83 YHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSN 125 (497)
Q Consensus 83 ~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~ 125 (497)
|+|+.|+.|++. +||+|+.+.++|||+.||..|.++.+|.+.
T Consensus 1 y~C~~Cg~D~t~-vryh~~~~~~~dLC~~CF~~G~f~~~~~s~ 42 (45)
T cd02336 1 YHCFTCGNDCTR-VRYHNLKAKKYDLCPSCYQEGRFPSNFQSS 42 (45)
T ss_pred CcccCCCCccCc-eEEEecCCCccccChHHHhCcCCCCCCccc
Confidence 689999999996 999999999999999999999999999876
No 15
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=98.92 E-value=7.1e-10 Score=82.63 Aligned_cols=44 Identities=36% Similarity=0.906 Sum_probs=38.6
Q ss_pred cccccccc-ccCCCceEEcCCCCCcccchhcccccccccCCCCCCCcccc
Q 010935 83 YHCNYCNK-DITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVM 131 (497)
Q Consensus 83 ~~Cd~C~~-~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi 131 (497)
+.||+|+. +|.+ .||+|++|.|||||..||..+ .|...|.|..|
T Consensus 1 V~Cd~C~~~pI~G-~RykC~~C~dyDLC~~Cf~~~----~H~~~H~F~ri 45 (45)
T cd02344 1 VTCDGCQMFPING-PRFKCRNCDDFDFCENCFKTR----KHNTRHTFGRI 45 (45)
T ss_pred CCCCCCCCCCCcc-CeEECCCCCCccchHHhhCCC----CcCCCCceeeC
Confidence 46999997 6787 999999999999999999985 48889988654
No 16
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=98.90 E-value=9.2e-10 Score=82.13 Aligned_cols=42 Identities=43% Similarity=1.020 Sum_probs=36.8
Q ss_pred cccccccc-ccCCCceEEcCCCCCcccchhcccccccccCCCCCCCcc
Q 010935 83 YHCNYCNK-DITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYR 129 (497)
Q Consensus 83 ~~Cd~C~~-~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~ 129 (497)
+.||+|++ .|.+ .||+|++|+|||||..||.. +.|+.+|+|.
T Consensus 1 i~Cd~C~~~~i~G-~RykC~~C~dyDLC~~C~~~----~~H~~~H~f~ 43 (45)
T cd02339 1 IICDTCRKQGIIG-IRWKCAECPNYDLCTTCYHG----DKHDLEHRFY 43 (45)
T ss_pred CCCCCCCCCCccc-CeEECCCCCCccchHHHhCC----CCCCCCCCEE
Confidence 46999996 6666 99999999999999999996 4599999985
No 17
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=98.88 E-value=1.4e-09 Score=80.67 Aligned_cols=41 Identities=46% Similarity=1.093 Sum_probs=37.3
Q ss_pred CCccccccccccCCCceEEcCCCCCcccchhcccccccccCC
Q 010935 81 ALYHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPH 122 (497)
Q Consensus 81 ~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~H 122 (497)
..+.|++|+.+|++ .||+|++|+|||||..||+.|.+.+.|
T Consensus 3 ~~~~C~~C~~~i~g-~ry~C~~C~d~dlC~~Cf~~~~~~~~h 43 (44)
T smart00291 3 HSYSCDTCGKPIVG-VRYHCLVCPDYDLCQSCFAKGSAGGEH 43 (44)
T ss_pred CCcCCCCCCCCCcC-CEEECCCCCCccchHHHHhCcCcCCCC
Confidence 56789999998887 899999999999999999999877766
No 18
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.
Probab=98.82 E-value=1.4e-09 Score=81.47 Aligned_cols=42 Identities=50% Similarity=1.118 Sum_probs=31.9
Q ss_pred CCcccccccc-ccCCCceEEcCCCCCcccchhcccccccccCCC
Q 010935 81 ALYHCNYCNK-DITGKIRIKCAVCPDFDLCIECFSVGVEVHPHK 123 (497)
Q Consensus 81 ~~~~Cd~C~~-~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk 123 (497)
..+.|++|+. .|.+ .||+|..|+|||||..||..|.....|+
T Consensus 3 ~~~~C~~C~~~~i~g-~Ry~C~~C~d~dLC~~C~~~g~~~~~H~ 45 (46)
T PF00569_consen 3 HGYTCDGCGTDPIIG-VRYHCLVCPDYDLCEDCFSKGRHSHNHK 45 (46)
T ss_dssp SSCE-SSS-SSSEES-SEEEESSSSS-EEEHHHHHH--H-SSSS
T ss_pred CCeECcCCCCCcCcC-CeEECCCCCCCchhhHHHhCcCCCCCcC
Confidence 4688999999 6777 9999999999999999999998777764
No 19
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.68 E-value=3.7e-08 Score=71.86 Aligned_cols=46 Identities=33% Similarity=0.749 Sum_probs=43.2
Q ss_pred CCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHhhc
Q 010935 141 PDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTNVY 186 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~~y 186 (497)
..||.+|+..|+.++..||.++|..||.++++||+.+|+.+|..+.
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 5799999999999999999999999999999999999999998653
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.66 E-value=4.3e-08 Score=70.51 Aligned_cols=44 Identities=34% Similarity=0.791 Sum_probs=41.9
Q ss_pred CCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHhh
Q 010935 142 DWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTNV 185 (497)
Q Consensus 142 ~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~~ 185 (497)
.||.+|+..|+.++..||.++|..||..+++||..+|+.||.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 49999999999999999999999999999999999999999764
No 21
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=98.61 E-value=5.9e-08 Score=75.99 Aligned_cols=49 Identities=18% Similarity=0.317 Sum_probs=44.9
Q ss_pred CCCCcchhHHHHHHHHHHcCCCCh---hHHHHhhC-CC-CHHHHHHHHHhhccC
Q 010935 140 CPDWNADDEILLLEGIEMYGLGNW---AEIAEHVG-TK-TKELCIEHYTNVYMN 188 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~GNW---~~IA~~Vg-tk-t~~ec~~hy~~~yi~ 188 (497)
+..||++|+..+|+||+.+|.||| ..|+++|+ ++ |+.||+.|+.++|+.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 347999999999999999999999 99999987 67 999999999999864
No 22
>cd02337 ZZ_CBP Zinc finger, ZZ type. Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.
Probab=98.52 E-value=4.5e-08 Score=71.69 Aligned_cols=33 Identities=42% Similarity=1.111 Sum_probs=29.1
Q ss_pred ccccccccccCCCceEEcCCCCCcccchhcccccc
Q 010935 83 YHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGV 117 (497)
Q Consensus 83 ~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~ 117 (497)
|+||+|.+. .+ +||+|.+|+|||||..||..+.
T Consensus 1 y~C~~C~~~-~~-~r~~C~~C~dfDLC~~C~~~~~ 33 (41)
T cd02337 1 YTCNECKHH-VE-TRWHCTVCEDYDLCITCYNTKN 33 (41)
T ss_pred CcCCCCCCc-CC-CceECCCCcchhhHHHHhCCCC
Confidence 579999984 45 9999999999999999999854
No 23
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=98.52 E-value=1.3e-07 Score=73.74 Aligned_cols=41 Identities=39% Similarity=0.920 Sum_probs=37.1
Q ss_pred CcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHh
Q 010935 143 WNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTN 184 (497)
Q Consensus 143 Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~ 184 (497)
||.+|+.+|++++..|| .+|..||+++|+||+.+|+.||..
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~~Rt~~~~~~r~~~ 41 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLGNRTPKQCRNRWRN 41 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHSTTS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHCcCCHHHHHHHHHH
Confidence 99999999999999999 799999999999999999999998
No 24
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=98.48 E-value=6e-08 Score=71.19 Aligned_cols=33 Identities=45% Similarity=0.799 Sum_probs=30.1
Q ss_pred cccccccc-ccCCCceEEcCCCCCcccchhccccc
Q 010935 83 YHCNYCNK-DITGKIRIKCAVCPDFDLCIECFSVG 116 (497)
Q Consensus 83 ~~Cd~C~~-~i~~~~ri~C~~C~d~dLC~~CFs~G 116 (497)
+.||+|+. +|.+ .||+|.+|.|||||..||...
T Consensus 1 I~CDgCg~~PI~G-~RykC~~C~dyDLC~~C~~~~ 34 (43)
T cd02342 1 IQCDGCGVLPITG-PRYKSKVKEDYDLCTICFSRM 34 (43)
T ss_pred CCCCCCCCCcccc-cceEeCCCCCCccHHHHhhhh
Confidence 46999997 7888 999999999999999999974
No 25
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=98.27 E-value=3e-07 Score=94.11 Aligned_cols=50 Identities=34% Similarity=0.782 Sum_probs=45.9
Q ss_pred CCccccccccc-cCCCceEEcCCCCCcccchhcccccccccCCCCCCCcccc
Q 010935 81 ALYHCNYCNKD-ITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVM 131 (497)
Q Consensus 81 ~~~~Cd~C~~~-i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi 131 (497)
..+.||+|++. +++ .||||..|.|||||..||-.|+....|.-+|+.+.|
T Consensus 7 e~v~CdgC~k~~~t~-rrYkCL~C~DyDlC~sCyen~~tt~~H~~dHPmqci 57 (381)
T KOG1280|consen 7 EGVSCDGCGKTAFTF-RRYKCLRCSDYDLCFSCYENGATTPIHDEDHPMQCI 57 (381)
T ss_pred CCceeccccccceee-eeeEeeeecchhHHHHHhhcCCCCcccCCCCceeEE
Confidence 45789999995 676 999999999999999999999999999999999876
No 26
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=98.23 E-value=2.3e-07 Score=102.28 Aligned_cols=71 Identities=23% Similarity=0.367 Sum_probs=60.1
Q ss_pred CCCCCCCCCC-------CCCCCCCcCCcccccccc-ccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCC
Q 010935 63 SDNSDTAAPG-------QGAGEGKRALYHCNYCNK-DITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNL 134 (497)
Q Consensus 63 ~~~~~~~~~~-------~~~~e~~~~~~~Cd~C~~-~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~ 134 (497)
.-+.|+.+++ -..+|...+.-.|++|.+ .|.+ +||+|..|.++|||..||..|.-.+.|+..|++.-....
T Consensus 577 w~~~epqsmVwL~vlhRv~~aE~~kH~~kCniCk~~pIvG-~RyR~l~~fn~dlCq~CF~sgraak~hk~~~pM~Ey~~~ 655 (966)
T KOG4286|consen 577 WMRLEPQSMVWLPVLHRVAAAETAKHQAKCNICKECPIIG-FRYRSLKHFNYDICQSCFFSGRAAKGHKMHYPMVEYCTP 655 (966)
T ss_pred HhccCcchhhHHHHHHHHHHHHHHHhhhhcchhhhCccce-eeeeehhhcChhHHhhHhhhcccccCCCCCCCceeeeCC
Confidence 4566666676 456777789999999998 6887 999999999999999999999999999999988765443
No 27
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=98.13 E-value=1.4e-06 Score=88.64 Aligned_cols=46 Identities=39% Similarity=0.890 Sum_probs=39.7
Q ss_pred cccccccc-ccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCC
Q 010935 83 YHCNYCNK-DITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDN 133 (497)
Q Consensus 83 ~~Cd~C~~-~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~ 133 (497)
..||.|++ .|.| .||+|++|+|||||..|+..+ .|+-.|.+..|..
T Consensus 153 v~CD~C~~~~IvG-~RyKC~~C~dYDLCe~Ce~~~----~~h~~H~~lR~~t 199 (278)
T KOG4582|consen 153 VPCDNCGKPGIVG-ARYKCTVCPDYDLCERCEAGN----EHHAAHAMLRLHT 199 (278)
T ss_pred ccCCCccCCcccc-ceeeecCCCccchhHHhhcCC----CCCcccceeeccc
Confidence 68999999 8888 999999999999999999976 4667888777544
No 28
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.12 E-value=2.9e-06 Score=84.04 Aligned_cols=49 Identities=18% Similarity=0.472 Sum_probs=45.0
Q ss_pred CCCCCCcchhHHHHHHHHHHcCCCChhHHHHhhC-CCCHHHHHHHHHhhc
Q 010935 138 LICPDWNADDEILLLEGIEMYGLGNWAEIAEHVG-TKTKELCIEHYTNVY 186 (497)
Q Consensus 138 ~~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vg-tkt~~ec~~hy~~~y 186 (497)
+-+..||.+|+.+|+++|+.||.+||..||.+++ +||..||+++|.++.
T Consensus 23 lKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L 72 (249)
T PLN03212 23 MKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYL 72 (249)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhh
Confidence 4467899999999999999999999999999997 899999999998764
No 29
>PLN03091 hypothetical protein; Provisional
Probab=97.85 E-value=1.5e-05 Score=84.44 Aligned_cols=49 Identities=24% Similarity=0.545 Sum_probs=44.5
Q ss_pred CCCCCCcchhHHHHHHHHHHcCCCChhHHHHhhC-CCCHHHHHHHHHhhc
Q 010935 138 LICPDWNADDEILLLEGIEMYGLGNWAEIAEHVG-TKTKELCIEHYTNVY 186 (497)
Q Consensus 138 ~~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vg-tkt~~ec~~hy~~~y 186 (497)
+-...||.+|+.+|+++|.+||.+||..||.+++ +||..||+++|.++.
T Consensus 12 lrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyL 61 (459)
T PLN03091 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYL 61 (459)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhcc
Confidence 3356899999999999999999999999999998 899999999998764
No 30
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.63 E-value=4.6e-05 Score=75.72 Aligned_cols=46 Identities=17% Similarity=0.427 Sum_probs=44.1
Q ss_pred CCCCcchhHHHHHHHHHHcCCCChhHHHHhhC-CCCHHHHHHHHHhh
Q 010935 140 CPDWNADDEILLLEGIEMYGLGNWAEIAEHVG-TKTKELCIEHYTNV 185 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vg-tkt~~ec~~hy~~~ 185 (497)
...||.+|+..|.+.|.+||-|||..||++.| .|+...|+.+|.++
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~Ny 55 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNY 55 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcc
Confidence 47899999999999999999999999999999 99999999999876
No 31
>PLN03212 Transcription repressor MYB5; Provisional
Probab=97.38 E-value=0.00023 Score=70.84 Aligned_cols=47 Identities=19% Similarity=0.282 Sum_probs=43.8
Q ss_pred CCCCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHhh
Q 010935 138 LICPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTNV 185 (497)
Q Consensus 138 ~~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~~ 185 (497)
+....||.+|+.+||+.+..|| ..|..||.+|.+||..+|+.||..+
T Consensus 76 I~kgpWT~EED~lLlel~~~~G-nKWs~IAk~LpGRTDnqIKNRWns~ 122 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTH 122 (249)
T ss_pred cccCCCChHHHHHHHHHHHhcc-ccHHHHHhhcCCCCHHHHHHHHHHH
Confidence 5578999999999999999999 8999999999999999999999753
No 32
>KOG4301 consensus Beta-dystrobrevin [Cytoskeleton]
Probab=97.35 E-value=4e-05 Score=78.74 Aligned_cols=54 Identities=28% Similarity=0.707 Sum_probs=47.5
Q ss_pred CCCCCcCCcccccccc-ccCCCceEEcCCCCCcccchhcccccccccCCCCCCCcc
Q 010935 75 AGEGKRALYHCNYCNK-DITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYR 129 (497)
Q Consensus 75 ~~e~~~~~~~Cd~C~~-~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~ 129 (497)
+.+...+.+.|++|.. .+++ .||+|..|.+|.||.+||..|.--+.|.+.|.|.
T Consensus 233 ~v~nv~hpv~cs~c~srs~~g-fry~cq~C~nyqlcq~cfwrG~~g~~hsnqh~mk 287 (434)
T KOG4301|consen 233 TVENVFHPVECSYCRSRSMMG-FRYRCQQCHNYQLCQQCFWRGHAGGSHSNQHQMK 287 (434)
T ss_pred hhcccCCCccCcceecccccc-hhhhHhhcCCccccchhhccccCCCCcchHHHHH
Confidence 3455578899999987 5777 9999999999999999999999999999999765
No 33
>PLN03091 hypothetical protein; Provisional
Probab=96.99 E-value=0.0011 Score=70.71 Aligned_cols=48 Identities=19% Similarity=0.351 Sum_probs=44.2
Q ss_pred CCCCCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHhh
Q 010935 137 PLICPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTNV 185 (497)
Q Consensus 137 p~~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~~ 185 (497)
.+....||.+|+.+||+.+..|| ..|..||.++.+||..+|+.||..+
T Consensus 64 ~IkKgpWT~EED~lLLeL~k~~G-nKWskIAk~LPGRTDnqIKNRWnsl 111 (459)
T PLN03091 64 DLKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSC 111 (459)
T ss_pred cccCCCCCHHHHHHHHHHHHHhC-cchHHHHHhcCCCCHHHHHHHHHHH
Confidence 35578999999999999999999 7999999999999999999999764
No 34
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=96.29 E-value=0.0062 Score=60.64 Aligned_cols=46 Identities=20% Similarity=0.403 Sum_probs=42.4
Q ss_pred CCCCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHh
Q 010935 138 LICPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTN 184 (497)
Q Consensus 138 ~~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~ 184 (497)
+-...||.+||.+|+++-..+| .-|..||.++.+||..+++.||..
T Consensus 60 ikrg~fT~eEe~~Ii~lH~~~G-NrWs~IA~~LPGRTDNeIKN~Wnt 105 (238)
T KOG0048|consen 60 LKRGNFSDEEEDLIIKLHALLG-NRWSLIAGRLPGRTDNEVKNHWNT 105 (238)
T ss_pred ccCCCCCHHHHHHHHHHHHHHC-cHHHHHHhhCCCcCHHHHHHHHHH
Confidence 4478999999999999999999 669999999999999999999954
No 35
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.92 E-value=0.011 Score=65.51 Aligned_cols=51 Identities=27% Similarity=0.649 Sum_probs=46.6
Q ss_pred CCCCCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHhhcc
Q 010935 137 PLICPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTNVYM 187 (497)
Q Consensus 137 p~~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~~yi 187 (497)
.+-.+.||.+|+.+|+.||+.||--+|-.|-..|.+||..||+++|.+..-
T Consensus 357 sikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~ 407 (939)
T KOG0049|consen 357 SVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLN 407 (939)
T ss_pred cccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHH
Confidence 345789999999999999999998899999999999999999999998543
No 36
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.35 E-value=0.016 Score=64.30 Aligned_cols=48 Identities=25% Similarity=0.378 Sum_probs=42.5
Q ss_pred CCCCCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCH---HHHHHHHHh
Q 010935 137 PLICPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTK---ELCIEHYTN 184 (497)
Q Consensus 137 p~~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~---~ec~~hy~~ 184 (497)
..-...|+-.||-.||++|++||.|||..+|-.+|.||. .-|+.+++.
T Consensus 409 s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~ 459 (939)
T KOG0049|consen 409 SAKVERWTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIA 459 (939)
T ss_pred hhccCceeecchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHHHHHH
Confidence 344679999999999999999999999999999999998 668887754
No 37
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=93.88 E-value=0.041 Score=45.69 Aligned_cols=46 Identities=28% Similarity=0.585 Sum_probs=33.4
Q ss_pred CCCcchhHHHHHHHHHH--cC--CC---------ChhHHHHhhC----CCCHHHHHHHHHhhc
Q 010935 141 PDWNADDEILLLEGIEM--YG--LG---------NWAEIAEHVG----TKTKELCIEHYTNVY 186 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~--yG--~G---------NW~~IA~~Vg----tkt~~ec~~hy~~~y 186 (497)
..||.+|...||+.+.. +. ++ -|..||+.|. .+|+.||+.+|.++.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 47999999999998877 21 21 3999999985 599999999998753
No 38
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=92.70 E-value=0.11 Score=57.91 Aligned_cols=89 Identities=13% Similarity=0.198 Sum_probs=59.7
Q ss_pred ceEEcCCC-CCcccchhcccccccccCCCCCCCccccCCCCCCC---CCCCCcchhHHHHHHHHHHcCCCChhHHHHhhC
Q 010935 96 IRIKCAVC-PDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPL---ICPDWNADDEILLLEGIEMYGLGNWAEIAEHVG 171 (497)
Q Consensus 96 ~ri~C~~C-~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~---~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vg 171 (497)
.|+.|.-| ....-|-.|...-.-+ -...-.|.-+.. .+.+ ...-||.+|+..|-..+.+.| +.|.+|++.||
T Consensus 339 ~~i~s~~~~~~~~~l~n~~~~~Lp~--R~~~siy~~~rR-~y~~FE~~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg 414 (607)
T KOG0051|consen 339 QRIWSKDWKTIIRNLYNNLYKLLPY--RDRKSIYHHLRR-AYTPFENKRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG 414 (607)
T ss_pred hheeccCcchHHHHHHHhhhhhcCc--ccchhHHHHHHh-cCCccccccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc
Confidence 45556655 3344565665543211 011122332222 2222 358999999999999999999 99999999998
Q ss_pred CCCHHHHHHHHHhhccCC
Q 010935 172 TKTKELCIEHYTNVYMNS 189 (497)
Q Consensus 172 tkt~~ec~~hy~~~yi~~ 189 (497)
|.|..|+.+|.++-..+
T Consensus 415 -r~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 415 -RMPMDCRDRWRQYVKCG 431 (607)
T ss_pred -cCcHHHHHHHHHhhccc
Confidence 79999999999876554
No 39
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=91.71 E-value=0.1 Score=35.43 Aligned_cols=28 Identities=46% Similarity=1.031 Sum_probs=12.8
Q ss_pred cccccccccCCCceEEcCCCCCcccchhc
Q 010935 84 HCNYCNKDITGKIRIKCAVCPDFDLCIEC 112 (497)
Q Consensus 84 ~Cd~C~~~i~~~~ri~C~~C~d~dLC~~C 112 (497)
.|+.|++.+.+...|+|.+| ||+|...|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~C-df~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSEC-DFDLHEEC 29 (30)
T ss_dssp --TTTS----S--EEE-TTT------HHH
T ss_pred cCCcCCCcCCCCceEECccC-CCccChhc
Confidence 69999999876689999999 59998887
No 40
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=90.94 E-value=0.18 Score=34.28 Aligned_cols=28 Identities=32% Similarity=0.999 Sum_probs=24.4
Q ss_pred ccccccccccCCCc-eEEcCCCCCcccchhc
Q 010935 83 YHCNYCNKDITGKI-RIKCAVCPDFDLCIEC 112 (497)
Q Consensus 83 ~~Cd~C~~~i~~~~-ri~C~~C~d~dLC~~C 112 (497)
+.|+.|++.+.+ . .|+|.+|. |+|.+.|
T Consensus 1 ~~C~~C~~~~~~-~~~Y~C~~c~-f~lh~~C 29 (30)
T PF03107_consen 1 FWCDVCRRKIDG-FYFYHCSECC-FTLHVRC 29 (30)
T ss_pred CCCCCCCCCcCC-CEeEEeCCCC-CeEcCcc
Confidence 469999999987 6 99999998 8888877
No 41
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=87.73 E-value=0.53 Score=51.52 Aligned_cols=48 Identities=21% Similarity=0.524 Sum_probs=43.5
Q ss_pred CCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHhhccC
Q 010935 140 CPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTNVYMN 188 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~~yi~ 188 (497)
...|+..||..|=-|+.+||-..|..|+..+..||+.+|..+|. -+|+
T Consensus 7 ggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~-e~ld 54 (617)
T KOG0050|consen 7 GGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWE-EWLD 54 (617)
T ss_pred cceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHH-HHhC
Confidence 46799999999999999999888999999999999999999998 4454
No 42
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=87.59 E-value=0.55 Score=52.55 Aligned_cols=52 Identities=19% Similarity=0.373 Sum_probs=43.2
Q ss_pred CCCCCcchhHHHHHHHHH-------Hc------------------CCCChhHHHHhhCCCCHHHHHHHHHhhccCCC
Q 010935 139 ICPDWNADDEILLLEGIE-------MY------------------GLGNWAEIAEHVGTKTKELCIEHYTNVYMNSP 190 (497)
Q Consensus 139 ~~~~Wta~EEl~LLeaie-------~y------------------G~GNW~~IA~~Vgtkt~~ec~~hy~~~yi~~~ 190 (497)
-...||-+|+..||+.|+ ++ ..=||..|++.+|||+..+|+.||.++-....
T Consensus 435 ~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s 511 (607)
T KOG0051|consen 435 NRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPS 511 (607)
T ss_pred ccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHH
Confidence 457899999999999996 44 11289999999999999999999998765543
No 43
>PF02207 zf-UBR: Putative zinc finger in N-recognin (UBR box); InterPro: IPR003126 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The N-end rule-based degradation signal, which targets a protein for ubiquitin-dependent proteolysis, comprises a destabilising amino-terminal residue and a specific internal lysine residue. This entry describes a putative zinc finger in N-recognin, a recognition component of the N-end rule pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0004842 ubiquitin-protein ligase activity, 0008270 zinc ion binding; PDB: 3NY1_B 3NIS_F 3NIM_A 3NIK_A 3NII_A 3NIH_A 3NIL_D 3NIN_B 3NIJ_A 3NIT_A ....
Probab=82.30 E-value=0.74 Score=37.41 Aligned_cols=43 Identities=28% Similarity=0.557 Sum_probs=28.0
Q ss_pred ccccccC-CCceEEcCCCCC---cccchhcccccccccCCCCCCCccccCCC
Q 010935 87 YCNKDIT-GKIRIKCAVCPD---FDLCIECFSVGVEVHPHKSNHPYRVMDNL 134 (497)
Q Consensus 87 ~C~~~i~-~~~ri~C~~C~d---~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~ 134 (497)
.|+..+. +.+.|+|..|.. ..+|..||..+. |. .|.|.++...
T Consensus 2 ~C~~~~~~~q~~y~C~tC~~~~~~~iC~~CF~~~~----H~-gH~~~~~~~~ 48 (71)
T PF02207_consen 2 KCTYVWTSGQIFYRCLTCSLDESSGICEECFANSC----HE-GHRVVYYRSS 48 (71)
T ss_dssp SS--B--TT-EEEEETTTBSSTT-BBEHHHHCTSG----GG-GSSEEEEE--
T ss_pred cCCCCCcCCCEEEECccCCCCCCEEEchhhCCCCC----cC-CCcEEEEEeC
Confidence 3666543 368999999974 679999999865 76 7888887553
No 44
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=81.67 E-value=1.5 Score=48.19 Aligned_cols=45 Identities=27% Similarity=0.634 Sum_probs=40.8
Q ss_pred CCCCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHh
Q 010935 138 LICPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTN 184 (497)
Q Consensus 138 ~~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~ 184 (497)
+-...|+.+||..||.+....- .-|-.||.-|| +|..+|.++|++
T Consensus 57 i~~tews~eederlLhlakl~p-~qwrtIa~i~g-r~~~qc~eRy~~ 101 (617)
T KOG0050|consen 57 IKKTEWSREEDERLLHLAKLEP-TQWRTIADIMG-RTSQQCLERYNN 101 (617)
T ss_pred HhhhhhhhhHHHHHHHHHHhcC-CccchHHHHhh-hhHHHHHHHHHH
Confidence 3457899999999999999888 78999999998 799999999987
No 45
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=81.48 E-value=1.8 Score=45.23 Aligned_cols=47 Identities=21% Similarity=0.532 Sum_probs=38.2
Q ss_pred CCCcchhHHHHHHHHHHc----CCCC-----hhHHHHhhC----CCCHHHHHHHHHhhcc
Q 010935 141 PDWNADDEILLLEGIEMY----GLGN-----WAEIAEHVG----TKTKELCIEHYTNVYM 187 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~y----G~GN-----W~~IA~~Vg----tkt~~ec~~hy~~~yi 187 (497)
..|+.+|.+.||++.... +-|+ |.+||..+. .||+.||+..|.+++.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k 114 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKK 114 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 679999999999987643 3355 999999543 5999999999988764
No 46
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=81.34 E-value=1.1 Score=49.52 Aligned_cols=45 Identities=18% Similarity=0.352 Sum_probs=42.1
Q ss_pred CCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHh
Q 010935 140 CPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTN 184 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~ 184 (497)
...|+..|+..|+-++..||..||..||...+.+++++|..||..
T Consensus 20 ~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~ 64 (512)
T COG5147 20 GGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNN 64 (512)
T ss_pred CCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhh
Confidence 468999999999999999999999999999999999999999943
No 47
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=80.24 E-value=2.1 Score=38.56 Aligned_cols=43 Identities=21% Similarity=0.441 Sum_probs=34.2
Q ss_pred CCCCcchhHHHHHHHHHHcCC---CChhHHHHhhC------------CCCHHHHHHHH
Q 010935 140 CPDWNADDEILLLEGIEMYGL---GNWAEIAEHVG------------TKTKELCIEHY 182 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~---GNW~~IA~~Vg------------tkt~~ec~~hy 182 (497)
...||.+|+.-||-.+..||+ |+|+.|-..|- ++|+.|+..+=
T Consensus 49 ~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~ 106 (118)
T PF09111_consen 49 KKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRC 106 (118)
T ss_dssp -SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHH
T ss_pred CCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHH
Confidence 478999999999999999999 99999988763 67777776543
No 48
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=76.38 E-value=3.3 Score=47.35 Aligned_cols=44 Identities=20% Similarity=0.423 Sum_probs=40.5
Q ss_pred CCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHh
Q 010935 140 CPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTN 184 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~ 184 (497)
...||..|-.++=+||-.|. .++..|++.|.+||..||.+.|.-
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhccccHHHHHHHHHH
Confidence 36899999999999999999 899999999999999999988753
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=74.13 E-value=4.5 Score=42.99 Aligned_cols=45 Identities=7% Similarity=0.293 Sum_probs=41.7
Q ss_pred CCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHhh
Q 010935 140 CPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTNV 185 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~~ 185 (497)
...|++.|..++..|++++| -++.-|+....+|+..|++..|.+-
T Consensus 365 ~~~Ws~~e~ekFYKALs~wG-tdF~LIs~lfP~R~RkqIKaKfi~E 409 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWG-TDFSLISSLFPNRERKQIKAKFIKE 409 (507)
T ss_pred CCcccHHHHHHHHHHHHHhc-chHHHHHHhcCchhHHHHHHHHHHH
Confidence 46899999999999999999 7999999999999999999998653
No 50
>PHA00442 host recBCD nuclease inhibitor
Probab=73.57 E-value=3.5 Score=32.14 Aligned_cols=26 Identities=19% Similarity=0.489 Sum_probs=22.4
Q ss_pred chhHHHHHHHHHHcCCCChhHHHHhh
Q 010935 145 ADDEILLLEGIEMYGLGNWAEIAEHV 170 (497)
Q Consensus 145 a~EEl~LLeaie~yG~GNW~~IA~~V 170 (497)
-+.+..+|++++.+|..||+.+.+.+
T Consensus 25 Lek~~~~L~~Lea~GVDNW~Gy~eA~ 50 (59)
T PHA00442 25 LEKDNEFLKALRACGVDNWDGYMDAV 50 (59)
T ss_pred HHHhhHHHHHHHHcCCcchhhHHHHH
Confidence 45677899999999999999988765
No 51
>KOG1778 consensus CREB binding protein/P300 and related TAZ Zn-finger proteins [Transcription]
Probab=73.09 E-value=1.8 Score=45.33 Aligned_cols=47 Identities=34% Similarity=0.794 Sum_probs=37.7
Q ss_pred CCcCCccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccC
Q 010935 78 GKRALYHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMD 132 (497)
Q Consensus 78 ~~~~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~ 132 (497)
.+...+.|..|..+. ..+|+|.+|++||.|..|+.... | .|.|..+.
T Consensus 165 ~~~~~~~c~~c~~~~--~~~~~c~~~~d~d~~~~~~~k~~----h--~h~~~~~~ 211 (319)
T KOG1778|consen 165 EKWFAYTCPICKLEV--LTAWHCEVCPDYDRCRACEEKPL----H--PHLYEAME 211 (319)
T ss_pred cCceeeecCcccccc--ccccccccCCchhhhhcccCCCC----C--Ccchhccc
Confidence 346788999999987 37899999999999999999764 3 45565553
No 52
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=73.00 E-value=2.2 Score=51.22 Aligned_cols=29 Identities=38% Similarity=0.730 Sum_probs=27.2
Q ss_pred CCCCCcchhHHHHHHHHHHcCCCChhHHH
Q 010935 139 ICPDWNADDEILLLEGIEMYGLGNWAEIA 167 (497)
Q Consensus 139 ~~~~Wta~EEl~LLeaie~yG~GNW~~IA 167 (497)
+..+|+.+++-.||=||-+||+|+|+.|-
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhc
Confidence 57899999999999999999999999983
No 53
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=72.69 E-value=5.3 Score=32.37 Aligned_cols=45 Identities=22% Similarity=0.469 Sum_probs=37.6
Q ss_pred CCCcchhHHHHHHHHHHcC----------------CCChhHHHHhhC-----CCCHHHHHHHHHhh
Q 010935 141 PDWNADDEILLLEGIEMYG----------------LGNWAEIAEHVG-----TKTKELCIEHYTNV 185 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~yG----------------~GNW~~IA~~Vg-----tkt~~ec~~hy~~~ 185 (497)
+.||.+|...|++.|+.|. -.-|++|+..+. .||..+++..|.++
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nl 68 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNL 68 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence 5799999999999998872 125999999874 59999999999765
No 54
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=72.34 E-value=3.8 Score=45.83 Aligned_cols=45 Identities=18% Similarity=0.413 Sum_probs=38.9
Q ss_pred CCCCcchhHHHHHHHHHHcCCCChhHHHH----------hhCCCCHHHHHHHHHhh
Q 010935 140 CPDWNADDEILLLEGIEMYGLGNWAEIAE----------HVGTKTKELCIEHYTNV 185 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~GNW~~IA~----------~Vgtkt~~ec~~hy~~~ 185 (497)
...||.+|+..+.+||.++| .|++.|-+ .+..||+.|++.||.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~ 142 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRL 142 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHH
Confidence 56899999999999999999 89999933 34569999999999773
No 55
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=71.95 E-value=6.1 Score=35.40 Aligned_cols=60 Identities=20% Similarity=0.407 Sum_probs=41.6
Q ss_pred ccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCCCCCCCCCCCcchhHHHHHHHHHHcCCCChh
Q 010935 85 CNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPLICPDWNADDEILLLEGIEMYGLGNWA 164 (497)
Q Consensus 85 Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~~~~~Wta~EEl~LLeaie~yG~GNW~ 164 (497)
|-.|+..+.- .+++|..|..- -.|. | .+..-.--..|++.++...-... ||-.
T Consensus 1 CPvCg~~l~v-t~l~C~~C~t~-------i~G~----------F--------~l~~~~~L~~E~~~Fi~~Fi~~r-GnlK 53 (113)
T PF09862_consen 1 CPVCGGELVV-TRLKCPSCGTE-------IEGE----------F--------ELPWFARLSPEQLEFIKLFIKNR-GNLK 53 (113)
T ss_pred CCCCCCceEE-EEEEcCCCCCE-------EEee----------e--------ccchhhcCCHHHHHHHHHHHHhc-CCHH
Confidence 8899998875 78999988621 0111 1 10000112368899999988888 9999
Q ss_pred HHHHhhC
Q 010935 165 EIAEHVG 171 (497)
Q Consensus 165 ~IA~~Vg 171 (497)
+|++.+|
T Consensus 54 e~e~~lg 60 (113)
T PF09862_consen 54 EMEKELG 60 (113)
T ss_pred HHHHHHC
Confidence 9999998
No 56
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=67.66 E-value=4 Score=38.64 Aligned_cols=44 Identities=20% Similarity=0.480 Sum_probs=36.7
Q ss_pred CCCcchhHHHHHHHHHHc---C---CCChhHHHHhhCCCCHHHHHHHHHhh
Q 010935 141 PDWNADDEILLLEGIEMY---G---LGNWAEIAEHVGTKTKELCIEHYTNV 185 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~y---G---~GNW~~IA~~Vgtkt~~ec~~hy~~~ 185 (497)
..||.+|+++|-+.|-.| | +--.++|++.++ ||+.-|--+|+.+
T Consensus 5 DAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~-RTsAACGFRWNs~ 54 (161)
T TIGR02894 5 DAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN-RTAAACGFRWNAY 54 (161)
T ss_pred cccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc-ccHHHhcchHHHH
Confidence 579999999999998877 2 225788888885 8999999999865
No 57
>smart00396 ZnF_UBR1 Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway. Domain is involved in recognition of N-end rule substrates in yeast Ubr1p
Probab=66.89 E-value=5.4 Score=32.56 Aligned_cols=42 Identities=29% Similarity=0.725 Sum_probs=29.8
Q ss_pred ccccccC-CCceEEcCCCCC---cccchhcccccccccCCCCCCCccccCC
Q 010935 87 YCNKDIT-GKIRIKCAVCPD---FDLCIECFSVGVEVHPHKSNHPYRVMDN 133 (497)
Q Consensus 87 ~C~~~i~-~~~ri~C~~C~d---~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~ 133 (497)
.|+..++ +...|+|..|.- .-+|..||..+. | ..|.|.+...
T Consensus 2 ~C~~~~~~~~~~y~C~tC~~~~~~~iC~~Cf~~~~----H-~gH~~~~~~~ 47 (71)
T smart00396 2 VCTYKFTGGEVIYRCKTCGLDPTCVLCSDCFRSNC----H-KGHDYSLKTS 47 (71)
T ss_pred CCCCccCCCCEEEECcCCCCCCCEeEChHHCCCCC----C-CCCCEEEEEe
Confidence 5666553 447799999962 458999999654 7 4688877754
No 58
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=66.20 E-value=7.1 Score=46.94 Aligned_cols=58 Identities=24% Similarity=0.377 Sum_probs=46.7
Q ss_pred CCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHhhccCCCCCCCCCCccc
Q 010935 141 PDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTNVYMNSPFFPLPDMSHV 200 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~~yi~~~~~plp~~~~~ 200 (497)
.+|+..+=..++.|+++||-.+-+.||..|++||++|++. |.+.|.... -.+.+....
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~-y~~~f~~~~-~~~~~~~~~ 882 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVER-YAKVFWERY-KELNDYDRI 882 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHH-HHHHHHHhh-hhhccHHHH
Confidence 5899999999999999999999999999999999999984 566665442 224554443
No 59
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=64.42 E-value=7 Score=43.40 Aligned_cols=48 Identities=23% Similarity=0.528 Sum_probs=43.5
Q ss_pred CCCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHhhcc
Q 010935 139 ICPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTNVYM 187 (497)
Q Consensus 139 ~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~~yi 187 (497)
-..+|+.+|+-.|++.-..+| --|..||..|+++|..+|.++|....=
T Consensus 71 k~~~~~~eed~~li~l~~~~~-~~wstia~~~d~rt~~~~~ery~~~~~ 118 (512)
T COG5147 71 KKKNWSEEEDEQLIDLDKELG-TQWSTIADYKDRRTAQQCVERYVNTLE 118 (512)
T ss_pred ccccccHHHHHHHHHHHHhcC-chhhhhccccCccchHHHHHHHHHHhh
Confidence 357999999999999999999 469999999999999999999987643
No 60
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=63.09 E-value=15 Score=31.84 Aligned_cols=33 Identities=24% Similarity=0.530 Sum_probs=25.6
Q ss_pred CCCCCcchhHHHHHHHHHHc----CCC---ChhHHHHhhC
Q 010935 139 ICPDWNADDEILLLEGIEMY----GLG---NWAEIAEHVG 171 (497)
Q Consensus 139 ~~~~Wta~EEl~LLeaie~y----G~G---NW~~IA~~Vg 171 (497)
+..-||.++|+.||+|+-.| |.+ +|...-++|.
T Consensus 3 ~qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk 42 (98)
T PF04504_consen 3 FQRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVK 42 (98)
T ss_pred CcCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHH
Confidence 45789999999999999888 643 6666666654
No 61
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=62.76 E-value=7.1 Score=41.84 Aligned_cols=80 Identities=21% Similarity=0.293 Sum_probs=54.5
Q ss_pred CCCCCCCCcCCccccccccc-cCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCCCCCC-----------C
Q 010935 72 GQGAGEGKRALYHCNYCNKD-ITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPL-----------I 139 (497)
Q Consensus 72 ~~~~~e~~~~~~~Cd~C~~~-i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~-----------~ 139 (497)
+....++......|-.|... -...-+.+|.. --+|.+||..=.-+..|+.+-++.++.++.|+. +
T Consensus 64 s~Hlls~~rr~~ecpicflyyps~~n~~rcC~---~~Ic~ecf~~~~~~~~~~pt~~a~v~~~~~f~~~s~p~~~~cp~c 140 (482)
T KOG2789|consen 64 SSHLLSTSRRKTECPICFLYYPSAKNLVRCCS---ETICGECFAPFGCYSFEKPTYDATVVKNLIFKRKSAPFYTPCPDC 140 (482)
T ss_pred ccchhhhccccccCceeeeecccccchhhhhc---cchhhhheecccCCCcccCccccccccccccccccccccccCCcc
Confidence 33444455566789999864 23234555543 449999999977778899998888887776653 3
Q ss_pred CCCCcchhHHHHHHH
Q 010935 140 CPDWNADDEILLLEG 154 (497)
Q Consensus 140 ~~~Wta~EEl~LLea 154 (497)
...|++.|=....++
T Consensus 141 ~t~~~~vey~~i~~~ 155 (482)
T KOG2789|consen 141 DTSWTRVEYIKIVDG 155 (482)
T ss_pred CCcccceeeeccccC
Confidence 478988776555544
No 62
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=61.85 E-value=9.6 Score=40.52 Aligned_cols=43 Identities=28% Similarity=0.499 Sum_probs=37.3
Q ss_pred CCCcchhHHHHHHHHHHcCCCChhHH-HHhhCCCCHHHHHHHHHh
Q 010935 141 PDWNADDEILLLEGIEMYGLGNWAEI-AEHVGTKTKELCIEHYTN 184 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~yG~GNW~~I-A~~Vgtkt~~ec~~hy~~ 184 (497)
..|+.+|=+.+=+||+.|| .|+.-| +..|.||+..||+..|..
T Consensus 278 ~~wsEeEcr~FEegl~~yG-KDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYG-KDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhc-ccHHHHHhcccccchHHHHHHHHHH
Confidence 6899999999999999999 787777 456999999999987753
No 63
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=58.35 E-value=16 Score=29.51 Aligned_cols=47 Identities=23% Similarity=0.406 Sum_probs=32.0
Q ss_pred CCCcchhHHHHHHHHHH---cC---CCC--hhHHHHhhC-CCCHHHHHHHHHhhcc
Q 010935 141 PDWNADDEILLLEGIEM---YG---LGN--WAEIAEHVG-TKTKELCIEHYTNVYM 187 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~---yG---~GN--W~~IA~~Vg-tkt~~ec~~hy~~~yi 187 (497)
..+|++|+..|++.|.. .| -|| |+++++.-. .+|-.--++||.+...
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~ 58 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLR 58 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence 46899999999999943 33 467 999999877 6777777999988753
No 64
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=58.28 E-value=6.3 Score=28.15 Aligned_cols=39 Identities=28% Similarity=0.514 Sum_probs=27.5
Q ss_pred CccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccc
Q 010935 82 LYHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRV 130 (497)
Q Consensus 82 ~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~v 130 (497)
...|..|.... ..+.|..|. .-+|..|+..+ |+. |.+..
T Consensus 3 ~~~C~~H~~~~---~~~~C~~C~-~~~C~~C~~~~-----H~~-H~~~~ 41 (42)
T PF00643_consen 3 EPKCPEHPEEP---LSLFCEDCN-EPLCSECTVSG-----HKG-HKIVP 41 (42)
T ss_dssp SSB-SSTTTSB---EEEEETTTT-EEEEHHHHHTS-----TTT-SEEEE
T ss_pred CccCccCCccc---eEEEecCCC-CccCccCCCCC-----CCC-CEEeE
Confidence 34677777532 678999998 46999999976 654 76643
No 65
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=57.42 E-value=5 Score=33.59 Aligned_cols=33 Identities=27% Similarity=0.881 Sum_probs=16.5
Q ss_pred Ccccccccccc----CCCceEEcCCCCCcccchhcccc
Q 010935 82 LYHCNYCNKDI----TGKIRIKCAVCPDFDLCIECFSV 115 (497)
Q Consensus 82 ~~~Cd~C~~~i----~~~~ri~C~~C~d~dLC~~CFs~ 115 (497)
...|..|+-++ .+.+++-|.+|. |-+|-.||..
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~-fPvCr~CyEY 45 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECA-FPVCRPCYEY 45 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS------HHHHHH
T ss_pred CcccccccCccccCCCCCEEEEEcccC-CccchhHHHH
Confidence 44699999764 466999999997 8899999976
No 66
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=55.97 E-value=7.2 Score=30.11 Aligned_cols=30 Identities=30% Similarity=0.738 Sum_probs=18.5
Q ss_pred cccccccccCCC-------ceEEcCCCCCcccchhccc
Q 010935 84 HCNYCNKDITGK-------IRIKCAVCPDFDLCIECFS 114 (497)
Q Consensus 84 ~Cd~C~~~i~~~-------~ri~C~~C~d~dLC~~CFs 114 (497)
.|.+|.+.+... .+|+|..|. -..|..|=.
T Consensus 1 ~CfgC~~~~~~~~~~~~~~~~y~C~~C~-~~FC~dCD~ 37 (51)
T PF07975_consen 1 YCFGCQKPFPDGPEKKADSSRYRCPKCK-NHFCIDCDV 37 (51)
T ss_dssp EETTTTEE-TTS-------EEE--TTTT---B-HHHHH
T ss_pred CCccCCCCCCCcccccccCCeEECCCCC-CccccCcCh
Confidence 488899887653 699999997 458888843
No 67
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=55.23 E-value=6.4 Score=45.76 Aligned_cols=36 Identities=25% Similarity=0.763 Sum_probs=30.5
Q ss_pred CcCCccccccccccCCCceEEcCCCCCcccchhccccc
Q 010935 79 KRALYHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVG 116 (497)
Q Consensus 79 ~~~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G 116 (497)
+-....|+.|.+.+-+ ++|+|..|. |-+|+.|+-.-
T Consensus 226 ~g~~~mC~~C~~tlfn-~hw~C~~C~-~~~Cl~C~r~~ 261 (889)
T KOG1356|consen 226 KGIREMCDRCETTLFN-IHWRCPRCG-FGVCLDCYRKW 261 (889)
T ss_pred cCcchhhhhhcccccc-eeEEccccC-Ceeeecchhhc
Confidence 3466789999999877 899999997 66999999764
No 68
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=54.24 E-value=15 Score=44.20 Aligned_cols=44 Identities=18% Similarity=0.334 Sum_probs=36.6
Q ss_pred CCCCcchhHHHHHHHHHHcCCCChhHHHHhhC------------CCCHHHHHHHHH
Q 010935 140 CPDWNADDEILLLEGIEMYGLGNWAEIAEHVG------------TKTKELCIEHYT 183 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vg------------tkt~~ec~~hy~ 183 (497)
...||.+|+.-||-.+..||+|+|+.|-..|. +||+.|+..+-.
T Consensus 926 ~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~ 981 (1033)
T PLN03142 926 GKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCD 981 (1033)
T ss_pred CCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHH
Confidence 36799999999999999999999999977663 578877766544
No 69
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like 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=54.01 E-value=7.3 Score=37.05 Aligned_cols=29 Identities=31% Similarity=0.693 Sum_probs=25.6
Q ss_pred CCCcchhHHHHHHHHHHcCCCChhHHHHh
Q 010935 141 PDWNADDEILLLEGIEMYGLGNWAEIAEH 169 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~yG~GNW~~IA~~ 169 (497)
.-|...-+.-||-||-++|+|.|++|...
T Consensus 4 ~iw~r~hdywll~gi~~hgy~rwqdi~nd 32 (173)
T PF08074_consen 4 EIWHRRHDYWLLAGIVKHGYGRWQDIQND 32 (173)
T ss_pred hhhhhhhhHHHHhHHhhccchhHHHHhcC
Confidence 35888888899999999999999999875
No 70
>COG3935 DnaD Putative primosome component and related proteins [DNA replication, recombination, and repair]
Probab=53.92 E-value=14 Score=37.46 Aligned_cols=59 Identities=22% Similarity=0.186 Sum_probs=39.8
Q ss_pred HhhchhcccCChhHHHHHHHHHHHHH--------HHHHH----------H-HHHHHHHHhCccchHHHHHHHHHHhhh
Q 010935 368 RRYDVFMRFHSKEDHEDLLQTVISEH--------RTLKR----------I-QDLKEARAAGCRTSAEADRYLELKRGR 426 (497)
Q Consensus 368 ~rlk~Farf~s~eehe~li~~L~~E~--------~Lr~r----------I-~~LqeyR~~Gittl~e~~~ye~~k~~R 426 (497)
.-..-|.|+++|-+.|.|..-|-.-. .|+.- | .-|..|+.+|++|++++..|+++.+.|
T Consensus 133 ~F~~e~Gr~lsP~e~E~L~~wld~d~~~~elI~~ALkeAv~~gK~n~~YI~~IL~nW~k~gvkTv~dv~~~~~~~~~~ 210 (246)
T COG3935 133 DFEEEFGRMLSPFEIEDLQKWLDEDSHDPELIKAALKEAVENGKLNFKYIDAILRNWKKNGVKTVEDVRAREEERRTR 210 (246)
T ss_pred HHHHHcCCcCCchhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHH
Confidence 34456777888888887765433111 22221 1 238899999999999999998877654
No 71
>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators. It is thought to function as a metal-sensing regulatory module [].
Probab=53.61 E-value=6.7 Score=28.36 Aligned_cols=31 Identities=29% Similarity=0.654 Sum_probs=19.2
Q ss_pred ccccccccCCCceEEcCCCCCccc-chhcccc
Q 010935 85 CNYCNKDITGKIRIKCAVCPDFDL-CIECFSV 115 (497)
Q Consensus 85 Cd~C~~~i~~~~ri~C~~C~d~dL-C~~CFs~ 115 (497)
||+|++.|.+.+...=..=..|-+ |..|...
T Consensus 1 Cd~CG~~I~~eP~~~k~~~~~y~fCC~tC~~~ 32 (37)
T PF08394_consen 1 CDYCGGEITGEPIVVKIGNKVYYFCCPTCLSQ 32 (37)
T ss_pred CCccCCcccCCEEEEEECCeEEEEECHHHHHH
Confidence 899999998765544333223444 4677653
No 72
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=53.41 E-value=11 Score=45.39 Aligned_cols=31 Identities=29% Similarity=0.974 Sum_probs=26.8
Q ss_pred ccccccccc----CCCceEEcCCCCCcccchhcccc
Q 010935 84 HCNYCNKDI----TGKIRIKCAVCPDFDLCIECFSV 115 (497)
Q Consensus 84 ~Cd~C~~~i----~~~~ri~C~~C~d~dLC~~CFs~ 115 (497)
.|..|+-++ .+.+++-|.+|. |-+|-.||..
T Consensus 19 iCqICGD~vg~~~~Ge~FVAC~eC~-FPVCrpCYEY 53 (1079)
T PLN02638 19 VCQICGDNVGKTVDGEPFVACDVCA-FPVCRPCYEY 53 (1079)
T ss_pred eeeecccccCcCCCCCEEEEeccCC-Cccccchhhh
Confidence 699999864 466999999997 9999999965
No 73
>PF15614 WHIM3: WSTF, HB1, Itc1p, MBD9 motif 3
Probab=51.26 E-value=29 Score=26.30 Aligned_cols=28 Identities=18% Similarity=0.431 Sum_probs=24.1
Q ss_pred cCChhHHHHHHHHH-----HHHHHHHHHHHHHH
Q 010935 376 FHSKEDHEDLLQTV-----ISEHRTLKRIQDLK 403 (497)
Q Consensus 376 f~s~eehe~li~~L-----~~E~~Lr~rI~~Lq 403 (497)
+.+++++++|++.| ++|.+|++.+.+..
T Consensus 4 ~~~~e~ld~L~~aL~~prG~RE~~L~~~L~~~~ 36 (46)
T PF15614_consen 4 YDDPEELDELLKALENPRGKRESKLKKELDKHR 36 (46)
T ss_pred ccCHHHHHHHHHHHcCcccHhHHHHHHHHHHHh
Confidence 56799999999999 79999999887654
No 74
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=51.08 E-value=30 Score=28.75 Aligned_cols=44 Identities=25% Similarity=0.469 Sum_probs=32.7
Q ss_pred CCcchhHHHHHHHHHHc---CC----C-----ChhHHHHhhC-----CCCHHHHHHHHHhh
Q 010935 142 DWNADDEILLLEGIEMY---GL----G-----NWAEIAEHVG-----TKTKELCIEHYTNV 185 (497)
Q Consensus 142 ~Wta~EEl~LLeaie~y---G~----G-----NW~~IA~~Vg-----tkt~~ec~~hy~~~ 185 (497)
.||.+.+..||+.+-.. |. | .|+.|+..+. ..|..+|+.||..+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 49999999999976433 11 1 3888888775 47899999998653
No 75
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=50.70 E-value=3 Score=42.73 Aligned_cols=40 Identities=25% Similarity=0.468 Sum_probs=28.7
Q ss_pred CCCCCCCCCCCC-CCCCcCCccccccccccCCCceEEcCCCC
Q 010935 64 DNSDTAAPGQGA-GEGKRALYHCNYCNKDITGKIRIKCAVCP 104 (497)
Q Consensus 64 ~~~~~~~~~~~~-~e~~~~~~~Cd~C~~~i~~~~ri~C~~C~ 104 (497)
++.-+++|+.+. ++......+|+.|..+-.. +|++|+.|.
T Consensus 192 GS~PvaSmV~~g~~~~GlRYL~CslC~teW~~-VR~KC~nC~ 232 (308)
T COG3058 192 GSMPVASMVQIGETEQGLRYLHCSLCETEWHY-VRVKCSNCE 232 (308)
T ss_pred CCCCcceeeeecCccccchhhhhhhHHHHHHH-HHHHhcccc
Confidence 444455566333 5666777899999988876 899998886
No 76
>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins. This domain is often found in conjunction with IPR000330 from INTERPRO, IPR001650 from INTERPRO, IPR009463 from INTERPRO, IPR000953 from INTERPRO and IPR001965 from INTERPRO.
Probab=49.93 E-value=26 Score=32.70 Aligned_cols=53 Identities=19% Similarity=0.388 Sum_probs=44.9
Q ss_pred CCCcchhHHHHHHHHHHcCCC--ChhHHHHhhCCCCHHHHHHHHHhhccCCCCCCC
Q 010935 141 PDWNADDEILLLEGIEMYGLG--NWAEIAEHVGTKTKELCIEHYTNVYMNSPFFPL 194 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~yG~G--NW~~IA~~Vgtkt~~ec~~hy~~~yi~~~~~pl 194 (497)
-+++..+-..+|.+|..||+| +|......+..||.+|.+ .|..+|+..-+.|.
T Consensus 39 lGFn~rQR~~Fln~vMR~G~~~f~~~w~~~~Lr~Ks~~ei~-aY~~LFm~HL~E~~ 93 (145)
T PF06461_consen 39 LGFNPRQRKAFLNAVMRYGMGAFDWKWFVPRLRGKSEKEIR-AYGSLFMRHLCEPG 93 (145)
T ss_pred eccCHHHHHHHHHHHHHHCcCcccchHHhhhhccccHHHHH-HHHHHHHHHhcCCC
Confidence 378899999999999999999 799999999999998887 57788877655443
No 77
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=47.19 E-value=12 Score=40.90 Aligned_cols=43 Identities=26% Similarity=0.422 Sum_probs=36.8
Q ss_pred CCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHh
Q 010935 140 CPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTN 184 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~ 184 (497)
.-+||..|-- ++..-..|| .|.+.||+-++|||++|+...|++
T Consensus 470 ~~~wSp~e~s-~ircf~~y~-~~fe~ia~l~~tktp~Q~~~fy~~ 512 (534)
T KOG1194|consen 470 NYGWSPEEKS-AIRCFHWYK-DNFELIAELMATKTPEQIKKFYMD 512 (534)
T ss_pred cCCCCCcccc-cccCchhhc-cchHHHHHHhcCCCHHHHHHHhcC
Confidence 3689987655 888888999 899999999999999999977653
No 78
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=45.58 E-value=58 Score=23.78 Aligned_cols=37 Identities=19% Similarity=0.238 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHh
Q 010935 147 DEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTN 184 (497)
Q Consensus 147 EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~ 184 (497)
=+..||..++.-|---|.+||+.+| =|+..|..+...
T Consensus 4 ~D~~Il~~Lq~d~r~s~~~la~~lg-lS~~~v~~Ri~r 40 (42)
T PF13404_consen 4 LDRKILRLLQEDGRRSYAELAEELG-LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHH-TTS-HHHHHHHHT-S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCccHHHHHHHHC-cCHHHHHHHHHH
Confidence 3678999999998888999999998 488888887654
No 79
>smart00595 MADF subfamily of SANT domain.
Probab=43.89 E-value=23 Score=29.16 Aligned_cols=23 Identities=39% Similarity=0.820 Sum_probs=20.9
Q ss_pred ChhHHHHhhCCCCHHHHHHHHHhh
Q 010935 162 NWAEIAEHVGTKTKELCIEHYTNV 185 (497)
Q Consensus 162 NW~~IA~~Vgtkt~~ec~~hy~~~ 185 (497)
-|..||..+|. |.++|+.+|.++
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHH
Confidence 59999999997 999999999775
No 80
>PF07261 DnaB_2: Replication initiation and membrane attachment; InterPro: IPR006343 This entry represents a domain found in several bacterial replication initiation and membrane attachment proteins, DnaB and DnaD. The DnaD protein is a component of the PriA primosome. The PriA primosome functions to recruit the replication fork helicase onto the DNA []. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria []. The DnaB protein is essential for both replication initiation and membrane attachment of the origin region of the chromosome and Plasmid pUB110 in Bacillus subtilis. It is known that there are two different classes (DnaBI and DnaBII) in the DnaB mutants; DnaBI is essential for both chromosome and pUB110 replication, whereas DnaBII is necessary only for chromosome replication []. This domain tends to be found towards the C terminus of DnaB and DnaD proteins and is alpha helical in nature.; PDB: 2I5U_A 2ZC2_A.
Probab=43.11 E-value=5 Score=32.17 Aligned_cols=23 Identities=22% Similarity=0.339 Sum_probs=15.0
Q ss_pred HHHHHHHHHhCccchHHHHHHHH
Q 010935 399 IQDLKEARAAGCRTSAEADRYLE 421 (497)
Q Consensus 399 I~~LqeyR~~Gittl~e~~~ye~ 421 (497)
..-|..|++.||+|++++..|++
T Consensus 54 ~~Il~~W~~~gi~t~e~~~~~~k 76 (77)
T PF07261_consen 54 EKILNNWKQKGIKTVEDAEEYEK 76 (77)
T ss_dssp HHHHHHHHHCT--SCCCCT----
T ss_pred HHHHHHHHHcCCCCHHHHHHHhh
Confidence 35688999999999999998875
No 81
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=42.94 E-value=25 Score=38.56 Aligned_cols=41 Identities=27% Similarity=0.547 Sum_probs=32.3
Q ss_pred CCCcchhHHHHHHHHHHcCCCChhHHHH-hhCCCCHHHHHHHH
Q 010935 141 PDWNADDEILLLEGIEMYGLGNWAEIAE-HVGTKTKELCIEHY 182 (497)
Q Consensus 141 ~~Wta~EEl~LLeaie~yG~GNW~~IA~-~Vgtkt~~ec~~hy 182 (497)
+.|++.|-.++-||+++|| .++++|-. ++.=||-..+++.|
T Consensus 286 EEWSasEanLFEeALeKyG-KDFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYG-KDFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred hhccchhhHHHHHHHHHhc-ccHHHHHHhhcchHHHHHHHHHH
Confidence 6899999999999999999 77777744 45556666666655
No 82
>PLN02436 cellulose synthase A
Probab=40.92 E-value=16 Score=43.97 Aligned_cols=34 Identities=26% Similarity=0.823 Sum_probs=28.1
Q ss_pred cccccccccc----CCCceEEcCCCCCcccchhcccccc
Q 010935 83 YHCNYCNKDI----TGKIRIKCAVCPDFDLCIECFSVGV 117 (497)
Q Consensus 83 ~~Cd~C~~~i----~~~~ri~C~~C~d~dLC~~CFs~G~ 117 (497)
-.|..|+-++ .+.+++-|.+|. |-+|..||..-+
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~-fpvCr~Cyeyer 74 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECA-FPVCRPCYEYER 74 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCC-Cccccchhhhhh
Confidence 3699999865 466999999997 999999996543
No 83
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=38.59 E-value=20 Score=37.75 Aligned_cols=33 Identities=21% Similarity=0.714 Sum_probs=24.9
Q ss_pred cCCccccccccccCCCceEEcCCCCCcccchhcc
Q 010935 80 RALYHCNYCNKDITGKIRIKCAVCPDFDLCIECF 113 (497)
Q Consensus 80 ~~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CF 113 (497)
...-.|.+|+.......+|+|..|..+ +|+.|=
T Consensus 328 ~~~~~Cf~C~~~~~~~~~y~C~~Ck~~-FCldCD 360 (378)
T KOG2807|consen 328 NGSRFCFACQGELLSSGRYRCESCKNV-FCLDCD 360 (378)
T ss_pred CCCcceeeeccccCCCCcEEchhccce-eeccch
Confidence 344569999776665699999999854 788884
No 84
>PLN02189 cellulose synthase
Probab=38.37 E-value=29 Score=41.68 Aligned_cols=35 Identities=26% Similarity=0.770 Sum_probs=28.5
Q ss_pred Ccccccccccc----CCCceEEcCCCCCcccchhcccccc
Q 010935 82 LYHCNYCNKDI----TGKIRIKCAVCPDFDLCIECFSVGV 117 (497)
Q Consensus 82 ~~~Cd~C~~~i----~~~~ri~C~~C~d~dLC~~CFs~G~ 117 (497)
...|..|+-++ .+.+++-|.+|. |-+|-.||..-.
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~-fpvCr~Cyeyer 72 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECG-FPVCRPCYEYER 72 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCC-Cccccchhhhhh
Confidence 34699999874 466999999997 999999996543
No 85
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=37.86 E-value=42 Score=24.23 Aligned_cols=24 Identities=29% Similarity=0.531 Sum_probs=20.4
Q ss_pred hHHHHHHHHHHcCCCChhHHHHhhC
Q 010935 147 DEILLLEGIEMYGLGNWAEIAEHVG 171 (497)
Q Consensus 147 EEl~LLeaie~yG~GNW~~IA~~Vg 171 (497)
|-..|.++++.+| ||....|..+|
T Consensus 6 E~~~i~~aL~~~~-gn~~~aA~~Lg 29 (42)
T PF02954_consen 6 EKQLIRQALERCG-GNVSKAARLLG 29 (42)
T ss_dssp HHHHHHHHHHHTT-T-HHHHHHHHT
T ss_pred HHHHHHHHHHHhC-CCHHHHHHHHC
Confidence 5567789999999 99999999998
No 86
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=36.53 E-value=20 Score=43.00 Aligned_cols=34 Identities=26% Similarity=0.845 Sum_probs=27.8
Q ss_pred Ccccccccccc----CCCceEEcCCCCCcccchhccccc
Q 010935 82 LYHCNYCNKDI----TGKIRIKCAVCPDFDLCIECFSVG 116 (497)
Q Consensus 82 ~~~Cd~C~~~i----~~~~ri~C~~C~d~dLC~~CFs~G 116 (497)
...|..|+-++ .+.+++-|.+|. |-+|-.||...
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~-fpvCr~cyeye 52 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCG-FPVCKPCYEYE 52 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCC-Cccccchhhhh
Confidence 44699999864 466999999997 99999999653
No 87
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=35.44 E-value=29 Score=33.25 Aligned_cols=44 Identities=16% Similarity=0.265 Sum_probs=32.8
Q ss_pred CCCCcchhHHHHHHHHHHcCCC------ChhHHHHhhCCCCHHHHHHHHHh
Q 010935 140 CPDWNADDEILLLEGIEMYGLG------NWAEIAEHVGTKTKELCIEHYTN 184 (497)
Q Consensus 140 ~~~Wta~EEl~LLeaie~yG~G------NW~~IA~~Vgtkt~~ec~~hy~~ 184 (497)
...||.+++++|-+.+-.++-- -.+++++.+ .+|+..|..+|+.
T Consensus 5 qdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs 54 (170)
T PRK13923 5 QDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNS 54 (170)
T ss_pred hhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHH
Confidence 3579999999998887777621 345555666 4899999999943
No 88
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=34.46 E-value=29 Score=27.70 Aligned_cols=18 Identities=17% Similarity=0.287 Sum_probs=15.8
Q ss_pred HHHHHHHHhCccchHHHH
Q 010935 400 QDLKEARAAGCRTSAEAD 417 (497)
Q Consensus 400 ~~LqeyR~~Gittl~e~~ 417 (497)
.-|..|++.||+|+++++
T Consensus 55 ~Il~~W~~~gi~T~e~~~ 72 (73)
T TIGR01446 55 AILNNWKNNGIKTVEDVE 72 (73)
T ss_pred HHHHHHHHcCCCCHHHHh
Confidence 458899999999999985
No 89
>PLN02400 cellulose synthase
Probab=34.18 E-value=23 Score=42.64 Aligned_cols=33 Identities=30% Similarity=0.936 Sum_probs=27.6
Q ss_pred cccccccccc----CCCceEEcCCCCCcccchhccccc
Q 010935 83 YHCNYCNKDI----TGKIRIKCAVCPDFDLCIECFSVG 116 (497)
Q Consensus 83 ~~Cd~C~~~i----~~~~ri~C~~C~d~dLC~~CFs~G 116 (497)
-.|..|+-++ .+.+++-|.+|. |-+|-.||...
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCa-FPVCRpCYEYE 73 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECA-FPVCRPCYEYE 73 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCC-Cccccchhhee
Confidence 3699999864 466999999997 99999999753
No 90
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=33.41 E-value=55 Score=35.96 Aligned_cols=46 Identities=15% Similarity=0.440 Sum_probs=40.7
Q ss_pred CCCCCCcchhHHHHHHHHHHcCCCChhHHHHhhCCCCHHHHHHHHHh
Q 010935 138 LICPDWNADDEILLLEGIEMYGLGNWAEIAEHVGTKTKELCIEHYTN 184 (497)
Q Consensus 138 ~~~~~Wta~EEl~LLeaie~yG~GNW~~IA~~Vgtkt~~ec~~hy~~ 184 (497)
-+...||++|-.+|=.+.+.|| .+...|-..+.-|+-...+..|..
T Consensus 185 ~~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 185 EFPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALPHRSLASLVQYYYS 230 (534)
T ss_pred CCcccchHHHHHHHHHHHHHhc-ccHHHHHHHccCccHHHHHHHHHH
Confidence 3557999999988889999999 899999999999999999887753
No 91
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=32.75 E-value=85 Score=26.78 Aligned_cols=51 Identities=10% Similarity=0.190 Sum_probs=38.1
Q ss_pred HhhchhcccCChhHHHHHHHHHHHHHH---HHHHHHHHHHHHHhCccchHHHHHH
Q 010935 368 RRYDVFMRFHSKEDHEDLLQTVISEHR---TLKRIQDLKEARAAGCRTSAEADRY 419 (497)
Q Consensus 368 ~rlk~Farf~s~eehe~li~~L~~E~~---Lr~rI~~LqeyR~~Gittl~e~~~y 419 (497)
..+..|..+.+++|...|++.|....+ |-.| .++..|...|++.-+=+..+
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~l~t~~e~~~Ls~R-~~I~~ll~~G~S~~eIA~~L 60 (88)
T TIGR02531 7 ELFDAILTLKNREECYRFFDDIATINEIQSLAQR-LQVAKMLKQGKTYSDIEAET 60 (88)
T ss_pred HHHHHHHhCCCHHHHHHHHHHhCCHHHHHhhhHH-HHHHHHHHCCCCHHHHHHHH
Confidence 345678899999999999999985554 4457 88888999998655444444
No 92
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=30.37 E-value=96 Score=25.74 Aligned_cols=39 Identities=21% Similarity=0.399 Sum_probs=26.7
Q ss_pred HHHHHHHHHHcC-C------CChhHHHHhhCCCC-----HHHHHHHHHhhc
Q 010935 148 EILLLEGIEMYG-L------GNWAEIAEHVGTKT-----KELCIEHYTNVY 186 (497)
Q Consensus 148 El~LLeaie~yG-~------GNW~~IA~~Vgtkt-----~~ec~~hy~~~y 186 (497)
-..|-.+|...| + +.|..||..+|-.+ ..+.+.+|.++-
T Consensus 38 L~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L 88 (92)
T PF01388_consen 38 LYKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYL 88 (92)
T ss_dssp HHHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHh
Confidence 345667777776 1 36999999998322 367788887753
No 93
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=30.35 E-value=29 Score=36.75 Aligned_cols=28 Identities=18% Similarity=0.627 Sum_probs=22.6
Q ss_pred CCcCCccccccccccCCCceEEcCCCCCc
Q 010935 78 GKRALYHCNYCNKDITGKIRIKCAVCPDF 106 (497)
Q Consensus 78 ~~~~~~~Cd~C~~~i~~~~ri~C~~C~d~ 106 (497)
.....|+|..|+-.... .+|+|..|..+
T Consensus 350 ~~~~~YRC~~CGF~a~~-l~W~CPsC~~W 377 (389)
T COG2956 350 RRKPRYRCQNCGFTAHT-LYWHCPSCRAW 377 (389)
T ss_pred hhcCCceecccCCccee-eeeeCCCcccc
Confidence 34678999999987654 89999999865
No 94
>KOG0818 consensus GTPase-activating proteins of the GIT family [Signal transduction mechanisms]
Probab=29.93 E-value=29 Score=38.47 Aligned_cols=69 Identities=23% Similarity=0.369 Sum_probs=43.1
Q ss_pred CCccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCCCCCCCCCCCcchhHHHHHHHHHHcCC
Q 010935 81 ALYHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPLICPDWNADDEILLLEGIEMYGL 160 (497)
Q Consensus 81 ~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~~~~~Wta~EEl~LLeaie~yG~ 160 (497)
..-.|+-|+..= +.|-... ....||.+||+.....|.|-+. +.- +-...|-. +-+.+.+++...|
T Consensus 7 ~~evC~DC~~~d---p~WASvn-rGt~lC~eCcsvHrsLGrhIS~-----vrh----LR~s~W~p-t~l~~V~tLn~~g- 71 (669)
T KOG0818|consen 7 SSEVCADCSGPD---PSWASVN-RGTFLCDECCSVHRSLGRHISQ-----VRH----LRHTPWPP-TLLQMVETLNNNG- 71 (669)
T ss_pred hhhhhcccCCCC---Ccceeec-CceEehHhhhHHHhhhcchHHH-----HHH----hccCCCCH-HHHHHHHHHHhcC-
Confidence 345688898742 2233222 3466999999998888877431 111 23467843 5677888888888
Q ss_pred CC--hh
Q 010935 161 GN--WA 164 (497)
Q Consensus 161 GN--W~ 164 (497)
-| |+
T Consensus 72 aNsIWE 77 (669)
T KOG0818|consen 72 ANSIWE 77 (669)
T ss_pred cchhhh
Confidence 33 65
No 95
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=29.02 E-value=48 Score=24.66 Aligned_cols=24 Identities=33% Similarity=0.665 Sum_probs=18.5
Q ss_pred CCcccccccccc--CCCceEEcCCCC
Q 010935 81 ALYHCNYCNKDI--TGKIRIKCAVCP 104 (497)
Q Consensus 81 ~~~~Cd~C~~~i--~~~~ri~C~~C~ 104 (497)
....|++|++.| ....-++|..|.
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~ 35 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCG 35 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT
T ss_pred CCCCCcccCcccCCCCCCeEEECCCC
Confidence 456799999988 445789999996
No 96
>PLN02195 cellulose synthase A
Probab=28.49 E-value=36 Score=40.69 Aligned_cols=33 Identities=24% Similarity=0.810 Sum_probs=27.1
Q ss_pred cccccccccc----CCCceEEcCCCCCcccchhccccc
Q 010935 83 YHCNYCNKDI----TGKIRIKCAVCPDFDLCIECFSVG 116 (497)
Q Consensus 83 ~~Cd~C~~~i----~~~~ri~C~~C~d~dLC~~CFs~G 116 (497)
..|..|+-++ .+.+++-|.+|. |-+|-.||...
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~-~pvCrpCyeye 43 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECS-YPLCKACLEYE 43 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCC-Cccccchhhhh
Confidence 4699999753 466999999997 99999999653
No 97
>PRK11823 DNA repair protein RadA; Provisional
Probab=27.48 E-value=41 Score=36.71 Aligned_cols=28 Identities=18% Similarity=0.560 Sum_probs=22.5
Q ss_pred cCCccccccccccCCCceEEcCCCCCccc
Q 010935 80 RALYHCNYCNKDITGKIRIKCAVCPDFDL 108 (497)
Q Consensus 80 ~~~~~Cd~C~~~i~~~~ri~C~~C~d~dL 108 (497)
...|.|..|+-.-.. .+++|..|..|+-
T Consensus 5 ~~~y~C~~Cg~~~~~-~~g~Cp~C~~w~t 32 (446)
T PRK11823 5 KTAYVCQECGAESPK-WLGRCPECGAWNT 32 (446)
T ss_pred CCeEECCcCCCCCcc-cCeeCcCCCCccc
Confidence 467999999987665 8899999987753
No 98
>PRK08359 transcription factor; Validated
Probab=26.76 E-value=43 Score=32.30 Aligned_cols=40 Identities=18% Similarity=0.380 Sum_probs=26.0
Q ss_pred ccccccccccCCCceEEcCCCCCcccchhcc-cccc-cccCC
Q 010935 83 YHCNYCNKDITGKIRIKCAVCPDFDLCIECF-SVGV-EVHPH 122 (497)
Q Consensus 83 ~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CF-s~G~-e~~~H 122 (497)
..|-.|+.+|.+.++.-=.+=...++|..|+ --|. +++.+
T Consensus 7 ~~CEiCG~~i~g~~~~v~ieGael~VC~~Ca~k~G~~~~~~~ 48 (176)
T PRK08359 7 RYCEICGAEIRGPGHRIRIEGAELLVCDRCYEKYGRKKPGTF 48 (176)
T ss_pred ceeecCCCccCCCCeEEEEcCeEEehHHHHHHHhCCCccCCc
Confidence 4499999999875232222222367899999 6677 55444
No 99
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=26.06 E-value=22 Score=32.78 Aligned_cols=53 Identities=23% Similarity=0.442 Sum_probs=38.7
Q ss_pred CCccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCCCC
Q 010935 81 ALYHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSF 136 (497)
Q Consensus 81 ~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~ 136 (497)
..|.|+.|...-++..+.+=.+|-.|.+|--||+.-. .|-+.|+-=.+...+|
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LW---K~~~~ypvCPvCkTSF 131 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLW---KFCNLYPVCPVCKTSF 131 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHH---HHcccCCCCCcccccc
Confidence 6899999997666667788889999999999999854 3444555444433333
No 100
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=25.95 E-value=27 Score=28.78 Aligned_cols=21 Identities=19% Similarity=0.694 Sum_probs=8.6
Q ss_pred cccccccccCCC-ceEEcCCCC
Q 010935 84 HCNYCNKDITGK-IRIKCAVCP 104 (497)
Q Consensus 84 ~Cd~C~~~i~~~-~ri~C~~C~ 104 (497)
.|-.|...+... ..|+|..|.
T Consensus 3 ~CP~C~~~L~~~~~~~~C~~C~ 24 (70)
T PF07191_consen 3 TCPKCQQELEWQGGHYHCEACQ 24 (70)
T ss_dssp B-SSS-SBEEEETTEEEETTT-
T ss_pred cCCCCCCccEEeCCEEECcccc
Confidence 355555544311 355555554
No 101
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=25.56 E-value=50 Score=22.88 Aligned_cols=24 Identities=25% Similarity=0.704 Sum_probs=17.8
Q ss_pred Ccccccccccc---CCCceEEcCCCCC
Q 010935 82 LYHCNYCNKDI---TGKIRIKCAVCPD 105 (497)
Q Consensus 82 ~~~Cd~C~~~i---~~~~ri~C~~C~d 105 (497)
+..|.+|+..+ .+...++|+.|.-
T Consensus 1 q~~C~~C~t~L~yP~gA~~vrCs~C~~ 27 (31)
T TIGR01053 1 QVVCGGCRTLLMYPRGASSVRCALCQT 27 (31)
T ss_pred CcCcCCCCcEeecCCCCCeEECCCCCe
Confidence 35799999865 3557899999863
No 102
>TIGR00270 conserved hypothetical protein TIGR00270.
Probab=25.31 E-value=43 Score=31.43 Aligned_cols=39 Identities=26% Similarity=0.516 Sum_probs=25.5
Q ss_pred cccccccccCCCceEEcCCCCCcccchhcccccccccCC
Q 010935 84 HCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPH 122 (497)
Q Consensus 84 ~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~H 122 (497)
.|-.|++.|.+.++.-=.+=....+|..|+--|.++..+
T Consensus 2 ~CEiCG~~i~~~~~~v~iega~l~vC~~C~k~G~~~~~~ 40 (154)
T TIGR00270 2 NCEICGRKIKGKGFKIVIEGSEMTVCGECRKFGKEIIKK 40 (154)
T ss_pred ccccCCCccCCCCeEEEEcCeEEehhhhHHhcCCccccC
Confidence 399999999874222222222367899999778865544
No 103
>PF03705 CheR_N: CheR methyltransferase, all-alpha domain; InterPro: IPR022641 CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the N-terminal domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF01739 from PFAM. Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region [].; PDB: 1AF7_A 1BC5_A.
Probab=25.09 E-value=2.6e+02 Score=20.88 Aligned_cols=41 Identities=22% Similarity=0.215 Sum_probs=25.3
Q ss_pred ChhHHHHHHHHHH----------HHHHHHHHHHHHHHHHHhCccchHHHHHHH
Q 010935 378 SKEDHEDLLQTVI----------SEHRTLKRIQDLKEARAAGCRTSAEADRYL 420 (497)
Q Consensus 378 s~eehe~li~~L~----------~E~~Lr~rI~~LqeyR~~Gittl~e~~~ye 420 (497)
|..+|+.|++-|. +...|..||..+ .+..|+.++.+--.+.
T Consensus 1 sd~~f~~~~~~i~~~~Gi~l~~~K~~~l~rRl~~r--m~~~~~~~~~~y~~~L 51 (57)
T PF03705_consen 1 SDAEFERFRELIYRRTGIDLSEYKRSLLERRLARR--MRALGLPSFAEYYELL 51 (57)
T ss_dssp -HHHHHHHHHHHHHHH-----GGGHHHHHHHHHHH--HHHHT---HHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHCCCCchhhHHHHHHHHHHH--HHHcCCCCHHHHHHHH
Confidence 3556666666554 456788888844 6789999988765554
No 104
>COG5347 GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
Probab=24.88 E-value=50 Score=34.70 Aligned_cols=57 Identities=21% Similarity=0.374 Sum_probs=34.1
Q ss_pred cccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCCCCCCCCCCCcchhHHHHHH
Q 010935 84 HCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPLICPDWNADDEILLLE 153 (497)
Q Consensus 84 ~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~~~~~Wta~EEl~LLe 153 (497)
.|.-|+..- |.| |..=..+.||++|-+..+..|.|.+- |.. +.-..|+.+|-..|..
T Consensus 22 ~CaDCga~~---P~W-~S~nlGvfiCi~CagvHRsLGvhiS~-----VKS----itLD~wt~~~l~~m~~ 78 (319)
T COG5347 22 KCADCGAPN---PTW-ASVNLGVFLCIDCAGVHRSLGVHISK-----VKS----LTLDNWTEEELRRMEV 78 (319)
T ss_pred ccccCCCCC---Cce-EecccCeEEEeecchhhhccccceee-----eee----eecccCCHHHHHHHHH
Confidence 466688653 333 22224577999999998888877532 211 2234699865554443
No 105
>PRK00420 hypothetical protein; Validated
Probab=24.47 E-value=47 Score=29.76 Aligned_cols=29 Identities=17% Similarity=0.359 Sum_probs=20.8
Q ss_pred ccccccccccCC--CceEEcCCCCCcccchh
Q 010935 83 YHCNYCNKDITG--KIRIKCAVCPDFDLCIE 111 (497)
Q Consensus 83 ~~Cd~C~~~i~~--~~ri~C~~C~d~dLC~~ 111 (497)
.+|..|+.++.. ...+.|..|.....|..
T Consensus 24 ~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~v~~ 54 (112)
T PRK00420 24 KHCPVCGLPLFELKDGEVVCPVHGKVYIVKS 54 (112)
T ss_pred CCCCCCCCcceecCCCceECCCCCCeeeecc
Confidence 679999998763 46777887776655543
No 106
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=24.01 E-value=65 Score=22.31 Aligned_cols=27 Identities=33% Similarity=0.864 Sum_probs=18.9
Q ss_pred cccccccc-cCCCceEEcCCCCCcccchh
Q 010935 84 HCNYCNKD-ITGKIRIKCAVCPDFDLCIE 111 (497)
Q Consensus 84 ~Cd~C~~~-i~~~~ri~C~~C~d~dLC~~ 111 (497)
.|.+|.+. +....+|.|..|. .-||..
T Consensus 2 rC~vC~~~k~rk~T~~~C~~C~-v~lC~~ 29 (32)
T PF13842_consen 2 RCKVCSKKKRRKDTRYMCSKCD-VPLCVE 29 (32)
T ss_pred CCeECCcCCccceeEEEccCCC-CcccCC
Confidence 47778763 3223789999995 778865
No 107
>PLN03158 methionine aminopeptidase; Provisional
Probab=23.51 E-value=17 Score=39.11 Aligned_cols=42 Identities=29% Similarity=0.748 Sum_probs=28.6
Q ss_pred CCccccccccccCCCceEEcCCCCCcc-------cc-hhcccccccccCCCCCCCc
Q 010935 81 ALYHCNYCNKDITGKIRIKCAVCPDFD-------LC-IECFSVGVEVHPHKSNHPY 128 (497)
Q Consensus 81 ~~~~Cd~C~~~i~~~~ri~C~~C~d~d-------LC-~~CFs~G~e~~~Hk~~H~Y 128 (497)
....|.+|++.-+ .+|..|-... .| ..||.... ..||.-|..
T Consensus 8 ~~~~c~~c~~~a~----l~Cp~C~k~~~~~~~s~fCsq~CFk~~w--~~Hk~~h~~ 57 (396)
T PLN03158 8 SPLACARCSKPAH----LQCPKCLELKLPREGASFCSQDCFKAAW--SSHKSVHTK 57 (396)
T ss_pred CcccccCCCCccc----ccCccchhcCCCCCCceeECHHHHHHHH--HHHHHHHHh
Confidence 4445889998643 6888886533 46 78998764 468777733
No 108
>PRK01343 zinc-binding protein; Provisional
Probab=23.39 E-value=40 Score=26.71 Aligned_cols=28 Identities=32% Similarity=0.553 Sum_probs=20.6
Q ss_pred CCccccccccccCCCceEEcC-CCCCccc
Q 010935 81 ALYHCNYCNKDITGKIRIKCA-VCPDFDL 108 (497)
Q Consensus 81 ~~~~Cd~C~~~i~~~~ri~C~-~C~d~dL 108 (497)
....|-.|++......|-.|+ .|.+.||
T Consensus 8 p~~~CP~C~k~~~~~~rPFCS~RC~~iDL 36 (57)
T PRK01343 8 PTRPCPECGKPSTREAYPFCSERCRDIDL 36 (57)
T ss_pred CCCcCCCCCCcCcCCCCcccCHHHhhhhH
Confidence 567899999987655666777 4777765
No 109
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=22.87 E-value=21 Score=38.74 Aligned_cols=50 Identities=20% Similarity=0.414 Sum_probs=32.9
Q ss_pred CCCCCCcCCccccccccc--------------cCCCceEEcCCCCCcccchhcccccccccCCCCCCCccc
Q 010935 74 GAGEGKRALYHCNYCNKD--------------ITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRV 130 (497)
Q Consensus 74 ~~~e~~~~~~~Cd~C~~~--------------i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~v 130 (497)
+...++...|.|.-|... |.. +-|+|.+|....-|..- .-.|+.+|.=+.
T Consensus 259 ~~i~n~iGdyiCqLCK~kYeD~F~LAQHrC~RIV~-vEYrCPEC~KVFsCPAN------LASHRRWHKPR~ 322 (500)
T KOG3993|consen 259 AGIPNVIGDYICQLCKEKYEDAFALAQHRCPRIVH-VEYRCPECDKVFSCPAN------LASHRRWHKPRP 322 (500)
T ss_pred ccCcccHHHHHHHHHHHhhhhHHHHhhccCCeeEE-eeecCCcccccccCchh------hhhhhcccCCch
Confidence 334456788999999752 222 55788888776556543 445999996543
No 110
>PF01412 ArfGap: Putative GTPase activating protein for Arf; InterPro: IPR001164 This entry describes a family of small GTPase activating proteins, for example ARF1-directed GTPase-activating protein, the cycle control GTPase activating protein (GAP) GCS1 which is important for the regulation of the ADP ribosylation factor ARF, a member of the Ras superfamily of GTP-binding proteins []. The GTP-bound form of ARF is essential for the maintenance of normal Golgi morphology, it participates in recruitment of coat proteins which are required for budding and fission of membranes. Before the fusion with an acceptor compartment the membrane must be uncoated. This step required the hydrolysis of GTP associated to ARF. These proteins contain a characteristic zinc finger motif (Cys-x2-Cys-x(16,17)-x2-Cys) which displays some similarity to the C4-type GATA zinc finger. The ARFGAP domain display no obvious similarity to other GAP proteins. The 3D structure of the ARFGAP domain of the PYK2-associated protein beta has been solved []. It consists of a three-stranded beta-sheet surrounded by 5 alpha helices. The domain is organised around a central zinc atom which is coordinated by 4 cysteines. The ARFGAP domain is clearly unrelated to the other GAP proteins structures which are exclusively helical. Classical GAP proteins accelerate GTPase activity by supplying an arginine finger to the active site. The crystal structure of ARFGAP bound to ARF revealed that the ARFGAP domain does not supply an arginine to the active site which suggests a more indirect role of the ARFGAP domain in the GTPase hydrolysis []. The Rev protein of human immunodeficiency virus type 1 (HIV-1) facilitates nuclear export of unspliced and partly-spliced viral RNAs []. Rev contains an RNA-binding domain and an effector domain; the latter is believed to interact with a cellular cofactor required for the Rev response and hence HIV-1 replication. Human Rev interacting protein (hRIP) specifically interacts with the Rev effector. The amino acid sequence of hRIP is characterised by an N-terminal, C-4 class zinc finger motif.; GO: 0008060 ARF GTPase activator activity, 0008270 zinc ion binding, 0032312 regulation of ARF GTPase activity; PDB: 2P57_A 2CRR_A 2OWA_B 3O47_B 3DWD_A 1DCQ_A 2CRW_A 3MDB_D 3FEH_A 3LJU_X ....
Probab=22.60 E-value=40 Score=29.79 Aligned_cols=56 Identities=16% Similarity=0.348 Sum_probs=27.9
Q ss_pred ccccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCCCCCCCCCCCcchhHHHH
Q 010935 83 YHCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPLICPDWNADDEILL 151 (497)
Q Consensus 83 ~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~~~~~Wta~EEl~L 151 (497)
-.|.-|+.. . +.|-|.. ....||..|....+..+.|.+ .|.. +.-..|+.+|-..|
T Consensus 14 ~~CaDCg~~--~-p~w~s~~-~GiflC~~Cag~HR~lg~~is-----~VkS----i~~d~w~~~ev~~~ 69 (116)
T PF01412_consen 14 KVCADCGAP--N-PTWASLN-YGIFLCLECAGIHRSLGVHIS-----RVKS----ITMDNWSPEEVQRM 69 (116)
T ss_dssp TB-TTT-SB--S---EEETT-TTEEE-HHHHHHHHHHTTTT-------EEE----TTTS---HHHHHHH
T ss_pred CcCCCCCCC--C-CCEEEee-cChhhhHHHHHHHHHhcccch-----hccc----cccCCCCHHHHHHH
Confidence 457778743 2 5677765 346699999998887777532 1222 12236988754444
No 111
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=22.51 E-value=59 Score=35.66 Aligned_cols=29 Identities=21% Similarity=0.598 Sum_probs=22.7
Q ss_pred cCCccccccccccCCCceEEcCCCCCcccc
Q 010935 80 RALYHCNYCNKDITGKIRIKCAVCPDFDLC 109 (497)
Q Consensus 80 ~~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC 109 (497)
...|.|..|+-.-.. .+++|..|..|+-=
T Consensus 5 ~~~y~C~~Cg~~~~~-~~g~Cp~C~~w~t~ 33 (454)
T TIGR00416 5 KSKFVCQHCGADSPK-WQGKCPACHAWNTI 33 (454)
T ss_pred CCeEECCcCCCCCcc-ccEECcCCCCcccc
Confidence 356999999987654 78999999877543
No 112
>smart00105 ArfGap Putative GTP-ase activating proteins for the small GTPase, ARF. Putative zinc fingers with GTPase activating proteins (GAPs) towards the small GTPase, Arf. The GAP of ARD1 stimulates GTPase hydrolysis for ARD1 but not ARFs.
Probab=20.91 E-value=1.1e+02 Score=26.97 Aligned_cols=56 Identities=25% Similarity=0.459 Sum_probs=32.7
Q ss_pred cccccccccCCCceEEcCCCCCcccchhcccccccccCCCCCCCccccCCCCCCCCCCCCcchhHHHHHH
Q 010935 84 HCNYCNKDITGKIRIKCAVCPDFDLCIECFSVGVEVHPHKSNHPYRVMDNLSFPLICPDWNADDEILLLE 153 (497)
Q Consensus 84 ~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~G~e~~~Hk~~H~Y~vi~~~~~p~~~~~Wta~EEl~LLe 153 (497)
.|.-|+.. . +.|-+..- ...+|..|-...+..+.|.+- |.. +.-..|+.+ ++.+|+
T Consensus 5 ~CaDC~~~--~-p~w~s~~~-GifvC~~CsgiHR~lg~his~-----VkS----l~md~w~~~-~i~~~~ 60 (112)
T smart00105 5 KCFDCGAP--N-PTWASVNL-GVFLCIECSGIHRSLGVHISK-----VRS----LTLDTWTEE-ELRLLQ 60 (112)
T ss_pred cccCCCCC--C-CCcEEecc-ceeEhHHhHHHHHhcCCCcCe-----eee----cccCCCCHH-HHHHHH
Confidence 46667752 2 55666543 345899999987777766422 222 223479874 444444
No 113
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.81 E-value=64 Score=28.93 Aligned_cols=30 Identities=30% Similarity=0.685 Sum_probs=21.8
Q ss_pred ccccccccccCC-----------CceEEcCCCCCcccchhcc
Q 010935 83 YHCNYCNKDITG-----------KIRIKCAVCPDFDLCIECF 113 (497)
Q Consensus 83 ~~Cd~C~~~i~~-----------~~ri~C~~C~d~dLC~~CF 113 (497)
..|.+|.+.+.. ..+|+|..|. .+.|..|=
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~-~~FC~dCD 96 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCK-NVFCVDCD 96 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCC-Cccccccc
Confidence 359999886542 3589999997 45787773
No 114
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.55 E-value=93 Score=32.34 Aligned_cols=43 Identities=19% Similarity=0.572 Sum_probs=34.2
Q ss_pred CCCCCCCcCCccccccccccCCCceEEcCCCCCcccchhcccc
Q 010935 73 QGAGEGKRALYHCNYCNKDITGKIRIKCAVCPDFDLCIECFSV 115 (497)
Q Consensus 73 ~~~~e~~~~~~~Cd~C~~~i~~~~ri~C~~C~d~dLC~~CFs~ 115 (497)
.+++.......+|..|..-+..+-+++|..-+.-.+|-.|--.
T Consensus 259 ~~s~~A~~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSRe 301 (352)
T KOG3579|consen 259 PDSGAAPSAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRE 301 (352)
T ss_pred cccccCCCCceeehhhhhhhccCceeecCCCcccceecccCHH
Confidence 4555666778999999999988889999887777788877544
No 115
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=20.51 E-value=4.9e+02 Score=21.59 Aligned_cols=61 Identities=15% Similarity=0.104 Sum_probs=45.9
Q ss_pred HhhCCCCCCC---CCCCCChHHHHHHHhhchhcc--cCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010935 345 LERNLLYPNP---FEKDLSPEERELCRRYDVFMR--FHSKEDHEDLLQTVISEHRTLKRIQDLKEA 405 (497)
Q Consensus 345 ~e~gLl~~~~---~ekk~tkeErel~~rlk~Far--f~s~eehe~li~~L~~E~~Lr~rI~~Lqey 405 (497)
.+.|||.|.. ..+.++.++-.....++.+.+ -++-.+-..++..+-+-..|+++|.+|++.
T Consensus 22 e~~Gli~p~r~~~g~R~y~~~dv~~l~~i~~L~~d~g~~l~~i~~~l~l~~~~~~l~~~l~~l~~~ 87 (91)
T cd04766 22 ERLGLLSPSRTDGGTRRYSERDIERLRRIQRLTQELGVNLAGVKRILELEEELAELRAELDELRAR 87 (91)
T ss_pred HHCCCcCCCcCCCCCeeECHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3579997532 345678877777777777766 678888888888777778888899888764
No 116
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=20.15 E-value=98 Score=24.56 Aligned_cols=24 Identities=29% Similarity=0.684 Sum_probs=20.3
Q ss_pred ChhHHHHhhCC-CCHHHHHHHHHhh
Q 010935 162 NWAEIAEHVGT-KTKELCIEHYTNV 185 (497)
Q Consensus 162 NW~~IA~~Vgt-kt~~ec~~hy~~~ 185 (497)
-|+.||..+|. -+.++|+.+|.++
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~L 52 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNL 52 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHH
Confidence 49999999984 5788999999775
Done!