Query 024640
Match_columns 265
No_of_seqs 264 out of 1688
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 06:16:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024640.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024640hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0014 MADS box transcription 100.0 5.3E-40 1.2E-44 283.0 6.2 164 1-164 1-191 (195)
2 cd00265 MADS_MEF2_like MEF2 (m 100.0 9.9E-33 2.1E-37 205.6 4.1 74 2-76 1-74 (77)
3 cd00266 MADS_SRF_like SRF-like 100.0 2.4E-30 5.2E-35 195.5 5.1 77 2-78 1-77 (83)
4 smart00432 MADS MADS domain. 100.0 2.2E-29 4.7E-34 178.0 3.9 59 2-60 1-59 (59)
5 cd00120 MADS MADS: MCM1, Agamo 99.9 1.1E-28 2.5E-33 174.4 3.5 58 2-59 1-58 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 2.5E-27 5.5E-32 162.4 -1.4 51 9-59 1-51 (51)
7 PF01486 K-box: K-box region; 99.8 5E-20 1.1E-24 143.7 10.3 86 85-170 12-97 (100)
8 KOG0015 Regulator of arginine 99.7 3E-19 6.4E-24 160.3 1.9 65 2-67 63-127 (338)
9 COG5068 ARG80 Regulator of arg 99.4 1E-13 2.2E-18 129.8 2.3 65 1-66 81-145 (412)
10 PF06005 DUF904: Protein of un 92.5 0.65 1.4E-05 34.1 6.7 47 119-170 1-47 (72)
11 PRK04098 sec-independent trans 89.4 0.18 3.8E-06 42.6 1.2 30 42-74 14-43 (158)
12 PF10584 Proteasome_A_N: Prote 87.2 0.18 3.9E-06 28.9 -0.0 15 42-56 2-16 (23)
13 PF01166 TSC22: TSC-22/dip/bun 80.3 3.9 8.3E-05 28.8 4.2 28 143-170 16-43 (59)
14 PF06698 DUF1192: Protein of u 78.1 2.5 5.4E-05 29.9 2.8 30 110-139 12-41 (59)
15 cd07429 Cby_like Chibby, a nuc 74.7 4.1 9E-05 32.2 3.6 23 148-170 72-94 (108)
16 PF08317 Spc7: Spc7 kinetochor 71.3 37 0.00081 31.6 9.8 57 114-170 201-259 (325)
17 PRK15422 septal ring assembly 70.8 20 0.00043 26.8 6.1 43 119-166 1-43 (79)
18 TIGR02338 gimC_beta prefoldin, 70.7 45 0.00098 26.0 8.7 41 129-170 63-103 (110)
19 PRK10884 SH3 domain-containing 70.2 47 0.001 29.2 9.5 27 144-170 142-168 (206)
20 PRK13169 DNA replication intia 67.9 20 0.00043 28.5 6.0 45 121-170 7-51 (110)
21 smart00787 Spc7 Spc7 kinetocho 66.2 38 0.00083 31.6 8.6 58 113-170 195-254 (312)
22 PF07926 TPR_MLP1_2: TPR/MLP1/ 64.9 72 0.0016 25.7 9.5 27 144-170 101-127 (132)
23 PF06156 DUF972: Protein of un 62.1 30 0.00065 27.2 6.1 44 122-170 8-51 (107)
24 PF14662 CCDC155: Coiled-coil 60.3 91 0.002 27.2 9.2 71 89-170 19-89 (193)
25 PF07106 TBPIP: Tat binding pr 60.1 36 0.00077 28.5 6.7 24 119-142 142-165 (169)
26 PRK13824 replication initiatio 57.5 17 0.00036 35.3 4.7 94 35-141 104-212 (404)
27 PF06156 DUF972: Protein of un 56.7 47 0.001 26.2 6.3 29 142-170 16-44 (107)
28 COG3074 Uncharacterized protei 56.7 75 0.0016 23.3 6.7 37 119-160 1-37 (79)
29 PF02416 MttA_Hcf106: mttA/Hcf 55.1 3.1 6.7E-05 28.6 -0.5 29 43-74 12-40 (53)
30 KOG4673 Transcription factor T 54.1 51 0.0011 34.2 7.5 48 140-192 604-651 (961)
31 PRK01919 tatB sec-independent 54.1 7 0.00015 33.3 1.3 28 43-73 15-42 (169)
32 PF04849 HAP1_N: HAP1 N-termin 53.8 1.9E+02 0.0041 27.1 10.7 22 149-170 161-182 (306)
33 PRK13729 conjugal transfer pil 53.5 1.5E+02 0.0032 29.6 10.4 27 144-170 93-119 (475)
34 PF04849 HAP1_N: HAP1 N-termin 53.4 40 0.00086 31.5 6.2 48 123-170 214-263 (306)
35 KOG4797 Transcriptional regula 52.8 24 0.00052 28.0 4.0 27 144-170 70-96 (123)
36 PRK14860 tatA twin arginine tr 51.5 5.4 0.00012 28.6 0.2 38 34-76 8-45 (64)
37 KOG4797 Transcriptional regula 51.5 50 0.0011 26.2 5.5 40 131-170 50-89 (123)
38 KOG3759 Uncharacterized RUN do 50.6 63 0.0014 32.0 7.2 49 115-170 198-249 (621)
39 PRK04654 sec-independent trans 50.3 3.3 7.1E-05 36.6 -1.3 28 43-73 15-42 (214)
40 PRK11637 AmiB activator; Provi 49.1 1.3E+02 0.0028 29.0 9.4 62 89-159 51-114 (428)
41 PHA02592 52 DNA topisomerase I 48.3 1.6E+02 0.0034 29.0 9.8 42 26-73 285-326 (439)
42 COG4467 Regulator of replicati 47.3 71 0.0015 25.4 5.8 45 121-170 7-51 (114)
43 KOG0804 Cytoplasmic Zn-finger 46.6 64 0.0014 31.8 6.6 36 135-170 376-411 (493)
44 COG2433 Uncharacterized conser 46.2 1.7E+02 0.0037 30.0 9.7 80 89-170 419-503 (652)
45 PRK10884 SH3 domain-containing 45.4 75 0.0016 27.9 6.5 21 90-110 91-111 (206)
46 PRK13169 DNA replication intia 44.6 93 0.002 24.7 6.3 29 142-170 16-44 (110)
47 PHA02109 hypothetical protein 43.3 54 0.0012 28.3 5.0 83 64-163 138-222 (233)
48 TIGR02449 conserved hypothetic 42.5 1.1E+02 0.0025 21.9 5.9 48 123-170 1-50 (65)
49 PRK09343 prefoldin subunit bet 41.8 1.3E+02 0.0029 23.9 6.9 27 144-170 81-107 (121)
50 COG0216 PrfA Protein chain rel 39.4 2.6E+02 0.0055 26.8 9.2 91 62-167 8-102 (363)
51 TIGR01478 STEVOR variant surfa 39.3 43 0.00093 31.0 4.1 45 7-72 25-69 (295)
52 KOG1962 B-cell receptor-associ 39.3 1.4E+02 0.003 26.6 7.1 50 121-170 157-208 (216)
53 PF06005 DUF904: Protein of un 39.1 70 0.0015 23.3 4.5 30 141-170 11-40 (72)
54 KOG0971 Microtubule-associated 38.9 3.1E+02 0.0066 29.8 10.5 53 88-140 328-389 (1243)
55 PF10504 DUF2452: Protein of u 38.7 1E+02 0.0022 26.1 6.0 43 120-162 28-73 (159)
56 PRK01470 tatA twin arginine tr 38.6 10 0.00022 25.9 -0.0 30 43-75 14-43 (51)
57 PF12018 DUF3508: Domain of un 38.2 20 0.00044 32.8 1.9 39 19-67 210-248 (281)
58 KOG4005 Transcription factor X 38.0 1.1E+02 0.0023 27.8 6.2 13 49-61 30-42 (292)
59 PF09278 MerR-DNA-bind: MerR, 37.8 1.3E+02 0.0028 20.5 5.7 49 118-167 14-62 (65)
60 COG0139 HisI Phosphoribosyl-AM 37.8 15 0.00033 29.2 0.8 38 16-53 49-95 (111)
61 smart00338 BRLZ basic region l 37.7 79 0.0017 22.0 4.5 31 136-170 18-48 (65)
62 PF01502 PRA-CH: Phosphoribosy 37.6 10 0.00022 28.1 -0.2 38 17-54 18-64 (75)
63 cd00187 TOP4c DNA Topoisomeras 37.4 1.7E+02 0.0036 28.8 8.1 26 44-73 302-327 (445)
64 KOG4643 Uncharacterized coiled 36.8 1.3E+02 0.0028 32.7 7.5 40 131-170 283-323 (1195)
65 PF10623 PilI: Plasmid conjuga 36.6 30 0.00064 25.9 2.1 31 42-72 8-40 (83)
66 KOG0250 DNA repair protein RAD 36.5 3.8E+02 0.0082 29.4 10.9 16 44-59 621-636 (1074)
67 PF07544 Med9: RNA polymerase 36.2 1.8E+02 0.0039 21.5 6.7 45 86-133 22-70 (83)
68 PF04945 YHS: YHS domain; Int 35.7 24 0.00052 23.1 1.4 27 39-65 6-35 (47)
69 PRK14859 tatA twin arginine tr 35.2 11 0.00025 26.8 -0.2 31 43-76 15-45 (63)
70 PF10186 Atg14: UV radiation r 34.9 3.1E+02 0.0068 24.3 9.1 10 55-65 11-20 (302)
71 PF07716 bZIP_2: Basic region 34.8 1.1E+02 0.0023 20.6 4.6 33 134-170 15-47 (54)
72 COG4026 Uncharacterized protei 34.7 2.8E+02 0.0061 25.0 8.3 10 113-122 97-106 (290)
73 PF15619 Lebercilin: Ciliary p 34.6 3.1E+02 0.0067 23.8 9.2 47 123-170 140-186 (194)
74 PF14968 CCDC84: Coiled coil p 34.3 4.1E+02 0.009 25.2 10.0 36 36-72 61-98 (336)
75 PF10211 Ax_dynein_light: Axon 34.2 1.6E+02 0.0035 25.3 6.8 24 50-74 81-104 (189)
76 PF14645 Chibby: Chibby family 34.2 52 0.0011 26.3 3.4 24 147-170 70-93 (116)
77 cd02980 TRX_Fd_family Thioredo 34.2 36 0.00078 24.0 2.3 31 39-70 47-77 (77)
78 PF00170 bZIP_1: bZIP transcri 33.8 1E+02 0.0023 21.3 4.6 31 136-170 18-48 (64)
79 PF09158 MotCF: Bacteriophage 33.5 15 0.00032 28.9 0.1 55 4-74 18-73 (103)
80 COG5068 ARG80 Regulator of arg 33.2 25 0.00054 34.0 1.6 60 8-73 18-77 (412)
81 PRK00191 tatA twin arginine tr 33.1 11 0.00024 28.5 -0.6 37 34-75 7-43 (84)
82 TIGR02894 DNA_bind_RsfA transc 31.9 3.2E+02 0.0069 23.2 10.7 55 116-170 77-133 (161)
83 PF01920 Prefoldin_2: Prefoldi 30.9 1.9E+02 0.0041 21.5 6.0 26 145-170 73-98 (106)
84 PHA01750 hypothetical protein 30.8 2.1E+02 0.0045 20.7 5.9 21 150-170 51-71 (75)
85 PF09941 DUF2173: Uncharacteri 30.2 50 0.0011 26.1 2.6 27 32-59 3-29 (108)
86 PRK11637 AmiB activator; Provi 30.2 3.8E+02 0.0083 25.7 9.3 18 146-163 108-125 (428)
87 PF08614 ATG16: Autophagy prot 30.0 3.5E+02 0.0076 23.1 8.6 21 150-170 160-180 (194)
88 KOG0930 Guanine nucleotide exc 29.8 1.3E+02 0.0029 28.0 5.6 40 116-164 8-47 (395)
89 PF04880 NUDE_C: NUDE protein, 29.0 75 0.0016 27.1 3.7 42 124-170 2-46 (166)
90 cd03064 TRX_Fd_NuoE TRX-like [ 28.6 43 0.00093 24.2 1.9 30 38-70 51-80 (80)
91 PF04111 APG6: Autophagy prote 28.3 3.8E+02 0.0081 25.0 8.6 15 123-137 65-79 (314)
92 cd04769 HTH_MerR2 Helix-Turn-H 28.1 2.2E+02 0.0048 22.1 6.1 53 118-170 56-108 (116)
93 PF13758 Prefoldin_3: Prefoldi 28.0 2.9E+02 0.0064 21.5 7.1 18 87-104 7-24 (99)
94 PF14009 DUF4228: Domain of un 27.8 50 0.0011 27.0 2.4 33 40-73 14-46 (181)
95 PF10226 DUF2216: Uncharacteri 27.6 1.6E+02 0.0035 25.7 5.4 30 141-170 48-77 (195)
96 PF01093 Clusterin: Clusterin; 27.5 56 0.0012 32.1 3.0 55 116-170 3-66 (436)
97 PF05529 Bap31: B-cell recepto 27.3 2.3E+02 0.005 24.0 6.6 49 122-170 125-183 (192)
98 PF09798 LCD1: DNA damage chec 27.0 1.6E+02 0.0035 30.5 6.2 48 123-170 5-55 (654)
99 PF03980 Nnf1: Nnf1 ; InterPr 26.6 1.4E+02 0.003 23.0 4.6 43 115-170 60-102 (109)
100 PF04912 Dynamitin: Dynamitin 26.1 1.6E+02 0.0035 28.0 5.9 16 90-105 99-114 (388)
101 PF04977 DivIC: Septum formati 25.8 1.2E+02 0.0026 21.4 3.9 26 145-170 21-46 (80)
102 PF09789 DUF2353: Uncharacteri 25.7 4.1E+02 0.0088 25.1 8.2 35 135-170 74-108 (319)
103 PF04859 DUF641: Plant protein 25.7 3.7E+02 0.0081 21.9 8.7 50 120-170 81-130 (131)
104 PF04566 RNA_pol_Rpb2_4: RNA p 25.4 26 0.00056 24.9 0.2 31 22-54 23-54 (63)
105 PF07407 Seadorna_VP6: Seadorn 25.3 1.5E+02 0.0032 28.2 5.2 36 113-160 23-58 (420)
106 PTZ00370 STEVOR; Provisional 25.3 83 0.0018 29.2 3.5 27 37-72 42-68 (296)
107 KOG4673 Transcription factor T 25.0 3.8E+02 0.0083 28.2 8.3 39 131-170 569-620 (961)
108 smart00340 HALZ homeobox assoc 24.8 1.1E+02 0.0024 20.2 3.0 21 150-170 7-27 (44)
109 KOG1853 LIS1-interacting prote 24.5 2.3E+02 0.0049 26.1 6.0 25 121-145 86-110 (333)
110 COG4467 Regulator of replicati 24.3 1.1E+02 0.0024 24.2 3.6 26 145-170 19-44 (114)
111 KOG4252 GTP-binding protein [S 24.1 4.2E+02 0.0092 23.3 7.4 15 39-53 91-105 (246)
112 COG4917 EutP Ethanolamine util 24.1 46 0.00099 27.5 1.4 25 34-58 58-82 (148)
113 PF07888 CALCOCO1: Calcium bin 24.0 5.4E+02 0.012 26.1 9.2 25 146-170 211-235 (546)
114 cd01109 HTH_YyaN Helix-Turn-He 23.8 3.4E+02 0.0073 20.8 6.7 52 118-170 57-108 (113)
115 KOG0183 20S proteasome, regula 23.4 39 0.00086 30.1 1.0 18 41-58 4-23 (249)
116 PF05700 BCAS2: Breast carcino 23.4 5.1E+02 0.011 22.7 9.9 82 57-139 60-156 (221)
117 TIGR01950 SoxR redox-sensitive 23.2 3E+02 0.0065 22.4 6.2 53 118-170 57-109 (142)
118 PRK00888 ftsB cell division pr 23.0 1.6E+02 0.0035 22.8 4.4 25 146-170 32-56 (105)
119 PF03428 RP-C: Replication pro 22.9 85 0.0018 26.9 3.0 64 41-111 96-170 (177)
120 PF15254 CCDC14: Coiled-coil d 22.7 7.3E+02 0.016 26.4 9.9 77 88-169 390-476 (861)
121 PHA03155 hypothetical protein; 22.7 1.1E+02 0.0023 24.5 3.2 22 150-187 10-31 (115)
122 KOG0182 20S proteasome, regula 22.5 39 0.00085 30.0 0.8 17 40-56 8-24 (246)
123 PRK03625 tatE twin arginine tr 21.3 27 0.00058 25.3 -0.4 29 43-74 15-43 (67)
124 PF07851 TMPIT: TMPIT-like pro 21.2 3.1E+02 0.0066 26.0 6.5 43 91-139 3-45 (330)
125 COG1826 TatA Sec-independent p 21.1 31 0.00067 26.3 -0.1 29 43-74 15-43 (94)
126 smart00782 PhnA_Zn_Ribbon PhnA 20.9 48 0.001 22.2 0.8 21 28-48 2-22 (47)
127 PF14263 DUF4354: Domain of un 20.7 28 0.00061 28.3 -0.4 44 11-59 41-84 (124)
128 PF05700 BCAS2: Breast carcino 20.7 5.3E+02 0.011 22.6 7.7 19 122-140 175-193 (221)
129 KOG4637 Adaptor for phosphoino 20.6 78 0.0017 30.5 2.4 46 32-77 366-415 (464)
130 PRK15422 septal ring assembly 20.5 2.4E+02 0.0052 21.1 4.5 30 141-170 11-40 (79)
131 PF11629 Mst1_SARAH: C termina 20.5 1.9E+02 0.0041 19.7 3.6 17 116-132 5-21 (49)
132 PRK09514 zntR zinc-responsive 20.4 3.8E+02 0.0082 21.7 6.3 53 118-170 58-110 (140)
133 TIGR03752 conj_TIGR03752 integ 20.2 5.7E+02 0.012 25.5 8.3 69 89-170 70-138 (472)
134 PF12925 APP_E2: E2 domain of 20.2 5.9E+02 0.013 22.2 10.7 89 62-170 7-96 (193)
135 KOG0837 Transcriptional activa 20.1 2.1E+02 0.0045 26.3 4.9 48 121-170 201-249 (279)
136 PF09151 DUF1936: Domain of un 20.1 72 0.0016 19.6 1.4 24 35-58 3-26 (36)
137 PF15397 DUF4618: Domain of un 20.0 3.9E+02 0.0084 24.4 6.7 32 139-170 184-215 (258)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=100.00 E-value=5.3e-40 Score=283.04 Aligned_cols=164 Identities=49% Similarity=0.670 Sum_probs=135.1
Q ss_pred CCcccceeeeeccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccCch-hHHHHHHHHhhcCCCccc
Q 024640 1 MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSP-SIMKTLERYHRCSFGAHE 79 (265)
Q Consensus 1 MgR~Kv~ikrIen~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~~-sm~~iLeRY~~~~~~~~~ 79 (265)
||||||+|+||||+++|||||+|||+||||||+|||||||||||||||||+|++|+|++++ +|..+++||.........
T Consensus 1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~ 80 (195)
T KOG0014|consen 1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLNLTEPSRK 80 (195)
T ss_pred CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHhhhhhhhc
Confidence 9999999999999999999999999999999999999999999999999999999999753 399999999987665543
Q ss_pred CCCCCcch---------------------hhhHHHHHHHHHHHHHHHH---hhhhhcCCCCCCCCH-HHHHHHHHHHHhc
Q 024640 80 ANRPPIET---------------------QSTYQEYLRLKTAVELLQR---SQRNLLGEDLDPLST-KELEQLEHQLETS 134 (265)
Q Consensus 80 ~~~~~~e~---------------------q~~~~E~~kLk~kie~Lq~---~~R~llGedL~~Ls~-~EL~qLE~qLe~s 134 (265)
......+. +.+..+...++...+.|+. .++++.|++|.+++. .+|..++.+|+.+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~ 160 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS 160 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence 33222221 1123344455556666553 488999999999999 9999999999999
Q ss_pred hhhhhhhhhhhHHHHHH-HHHHHHHHHHHHh
Q 024640 135 LKHVRSTKTQCMVDQLS-DLQKREQVLLELN 164 (265)
Q Consensus 135 L~~IRsrK~qlm~~qi~-~LqkKe~~L~eeN 164 (265)
+..+|..+...+.+++. .++.++..+.+.|
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 191 (195)
T KOG0014|consen 161 LHNSRSSKSKPLSDSNFQVLQEKEKSLEAEN 191 (195)
T ss_pred hcCCCCCCCcCCcchhhhhhcccchhccccC
Confidence 99999999999999887 7777666655443
No 2
>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.97 E-value=9.9e-33 Score=205.64 Aligned_cols=74 Identities=73% Similarity=1.074 Sum_probs=70.9
Q ss_pred CcccceeeeeccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccCchhHHHHHHHHhhcCCC
Q 024640 2 GRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKTLERYHRCSFG 76 (265)
Q Consensus 2 gR~Kv~ikrIen~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~~~ 76 (265)
||+||+|++|||+.+|++||+|||+||||||+||||||||+||||||||+|++|+|+|+ ++.+||+||...+..
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~-s~~~vl~ry~~~~~~ 74 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSP-SMEKIIERYQKTSGS 74 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCC-CHHHHHHHHHhcccc
Confidence 89999999999999999999999999999999999999999999999999999999975 689999999988654
No 3
>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.96 E-value=2.4e-30 Score=195.46 Aligned_cols=77 Identities=51% Similarity=0.777 Sum_probs=71.7
Q ss_pred CcccceeeeeccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccCchhHHHHHHHHhhcCCCcc
Q 024640 2 GRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKTLERYHRCSFGAH 78 (265)
Q Consensus 2 gR~Kv~ikrIen~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~~~~~ 78 (265)
||+||+|++|+|+.+|+|||+|||.||+|||+||||||||+||||||||+|++|+|++++++..+|+||...+....
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 77 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSALER 77 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHhhh
Confidence 89999999999999999999999999999999999999999999999999999999876559999999998765443
No 4
>smart00432 MADS MADS domain.
Probab=99.95 E-value=2.2e-29 Score=178.01 Aligned_cols=59 Identities=78% Similarity=1.156 Sum_probs=57.5
Q ss_pred CcccceeeeeccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccCc
Q 024640 2 GRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSS 60 (265)
Q Consensus 2 gR~Kv~ikrIen~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~ 60 (265)
||+||+|++|||+.+|++||+||+.||+|||+|||||||||||||||||+|++|+|+++
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p 59 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence 89999999999999999999999999999999999999999999999999999999863
No 5
>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.95 E-value=1.1e-28 Score=174.41 Aligned_cols=58 Identities=78% Similarity=1.181 Sum_probs=57.0
Q ss_pred CcccceeeeeccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccC
Q 024640 2 GRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 59 (265)
Q Consensus 2 gR~Kv~ikrIen~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S 59 (265)
||+||+|++|+|+..|++||+|||.||+|||+||||||||+||+|||||+|++|+|++
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~ 58 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWS 58 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccC
Confidence 7999999999999999999999999999999999999999999999999999999985
No 6
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=99.92 E-value=2.5e-27 Score=162.45 Aligned_cols=51 Identities=67% Similarity=0.998 Sum_probs=47.1
Q ss_pred eeeccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccC
Q 024640 9 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 59 (265)
Q Consensus 9 krIen~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S 59 (265)
|+|||+..|++||+|||.||+|||+|||+|||||||||||||+|++|.|+|
T Consensus 1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~f~s 51 (51)
T PF00319_consen 1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVDVALIVFSPDGKLYTFPS 51 (51)
T ss_dssp S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETTSEEEEEES
T ss_pred CCccchhHhHhHHHHHHhhhhhccceeeeecCCeEEEEEECCCCCEEEecC
Confidence 689999999999999999999999999999999999999999999999986
No 7
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=99.82 E-value=5e-20 Score=143.68 Aligned_cols=86 Identities=47% Similarity=0.650 Sum_probs=83.7
Q ss_pred cchhhhHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHh
Q 024640 85 IETQSTYQEYLRLKTAVELLQRSQRNLLGEDLDPLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELN 164 (265)
Q Consensus 85 ~e~q~~~~E~~kLk~kie~Lq~~~R~llGedL~~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN 164 (265)
...+.+..|+.+|+.+++.|+..+|+++|+||++||++||.+||++|+.||++||+||+++|.++|+.|++|++.|.++|
T Consensus 12 ~~~e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~~l~~en 91 (100)
T PF01486_consen 12 SQHEELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKERELEEEN 91 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45579999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHh
Q 024640 165 KGLRKK 170 (265)
Q Consensus 165 ~~L~~k 170 (265)
..|+.+
T Consensus 92 ~~L~~~ 97 (100)
T PF01486_consen 92 NQLRQK 97 (100)
T ss_pred HHHHHH
Confidence 999999
No 8
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.75 E-value=3e-19 Score=160.32 Aligned_cols=65 Identities=42% Similarity=0.763 Sum_probs=60.1
Q ss_pred CcccceeeeeccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccCchhHHHHH
Q 024640 2 GRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKTL 67 (265)
Q Consensus 2 gR~Kv~ikrIen~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~iL 67 (265)
||.||+|++|||+..|.|||||||.|+||||||||||.|.+|-|+|.|.+|-+|.|+++ .++.||
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTp-KLep~i 127 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATP-KLEPMI 127 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccc-cccccc
Confidence 79999999999999999999999999999999999999999999999999999999975 444333
No 9
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.39 E-value=1e-13 Score=129.84 Aligned_cols=65 Identities=37% Similarity=0.604 Sum_probs=60.7
Q ss_pred CCcccceeeeeccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccCchhHHHH
Q 024640 1 MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKT 66 (265)
Q Consensus 1 MgR~Kv~ikrIen~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~i 66 (265)
|||+|+.|..|+|+.+|.|||+||+.|++|||+||+||.|.+|.|+|.|.+|+++.|+++ ..+.|
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp-~~e~v 145 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTP-KLESV 145 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCC-ccccc
Confidence 789999999999999999999999999999999999999999999999999999999975 34433
No 10
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=92.51 E-value=0.65 Score=34.09 Aligned_cols=47 Identities=23% Similarity=0.400 Sum_probs=34.7
Q ss_pred CCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 119 LSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 119 Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+|++.|.+||..+..++..|. ++..++++|+.+-..|.++|..|+..
T Consensus 1 M~~E~l~~LE~ki~~aveti~-----~Lq~e~eeLke~n~~L~~e~~~L~~e 47 (72)
T PF06005_consen 1 MSLELLEQLEEKIQQAVETIA-----LLQMENEELKEKNNELKEENEELKEE 47 (72)
T ss_dssp --HHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 578899999999999998887 44556677887766666666666665
No 11
>PRK04098 sec-independent translocase; Provisional
Probab=89.37 E-value=0.18 Score=42.56 Aligned_cols=30 Identities=23% Similarity=0.235 Sum_probs=23.9
Q ss_pred ceeeeeeccCCCcccccCchhHHHHHHHHhhcC
Q 024640 42 EVALIIFSNRGKLYEFCSSPSIMKTLERYHRCS 74 (265)
Q Consensus 42 eValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~ 74 (265)
=||||||+|. ||++.. ..+.+.+..|++..
T Consensus 14 vVaLlvfGP~-KLP~~~--r~lGk~ir~~K~~~ 43 (158)
T PRK04098 14 VVAIIFLGPD-KLPQAM--VDIAKFFKAVKKTI 43 (158)
T ss_pred HHHHhhcCch-HHHHHH--HHHHHHHHHHHHHH
Confidence 3789999986 899887 36888888888764
No 12
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=87.16 E-value=0.18 Score=28.88 Aligned_cols=15 Identities=27% Similarity=0.700 Sum_probs=12.0
Q ss_pred ceeeeeeccCCCccc
Q 024640 42 EVALIIFSNRGKLYE 56 (265)
Q Consensus 42 eValIiFS~~Gkl~e 56 (265)
|-.+.+|||.|+||.
T Consensus 2 D~~~t~FSp~Grl~Q 16 (23)
T PF10584_consen 2 DRSITTFSPDGRLFQ 16 (23)
T ss_dssp SSSTTSBBTTSSBHH
T ss_pred CCCceeECCCCeEEe
Confidence 345779999999985
No 13
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=80.30 E-value=3.9 Score=28.78 Aligned_cols=28 Identities=25% Similarity=0.444 Sum_probs=25.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 143 TQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 143 ~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
-+.+.++|.+|..+...|+.||..|+..
T Consensus 16 VevLK~~I~eL~~~n~~Le~EN~~Lk~~ 43 (59)
T PF01166_consen 16 VEVLKEQIAELEERNSQLEEENNLLKQN 43 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4578899999999999999999999988
No 14
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=78.10 E-value=2.5 Score=29.87 Aligned_cols=30 Identities=37% Similarity=0.500 Sum_probs=22.5
Q ss_pred hhcCCCCCCCCHHHHHHHHHHHHhchhhhh
Q 024640 110 NLLGEDLDPLSTKELEQLEHQLETSLKHVR 139 (265)
Q Consensus 110 ~llGedL~~Ls~~EL~qLE~qLe~sL~~IR 139 (265)
+..|+||+.||++||..-=..|+.-+.+++
T Consensus 12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~ 41 (59)
T PF06698_consen 12 HEIGEDLSLLSVEELEERIALLEAEIARLE 41 (59)
T ss_pred cccCCCchhcCHHHHHHHHHHHHHHHHHHH
Confidence 578999999999999875555555444444
No 15
>cd07429 Cby_like Chibby, a nuclear inhibitor of Wnt/beta-catenin mediated transcription, and similar proteins. Chibby(Cby) is a well-conserved nuclear protein that functions as part of the Wnt/beta-catenin signaling pathway. Specifically, Cby binds directly to beta-catenin by interacting with its central region, which harbors armadillo repeats. Cby-beta-catenin interactions may also involve 14-3-3 proteins. By competing with other binding partners of beta-catenin, the Tcf/Lef transcription factors, Cby inhibits transcriptional activation. Cby has been shown to play a role in adipocyte differentiation. The C-terminal region of Cby appears to contain an alpha-helical coiled-coil motif.
Probab=74.73 E-value=4.1 Score=32.24 Aligned_cols=23 Identities=35% Similarity=0.354 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHh
Q 024640 148 DQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 148 ~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+++..|++|.+.|+|||+.|+-|
T Consensus 72 ~e~~rlkkk~~~LeEENNlLklK 94 (108)
T cd07429 72 REVLRLKKKNQQLEEENNLLKLK 94 (108)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456788899999999999998
No 16
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=71.33 E-value=37 Score=31.64 Aligned_cols=57 Identities=21% Similarity=0.405 Sum_probs=41.2
Q ss_pred CCCCCCCHHHHHHHHHHHHhchhhhhhhhhhh--HHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 114 EDLDPLSTKELEQLEHQLETSLKHVRSTKTQC--MVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 114 edL~~Ls~~EL~qLE~qLe~sL~~IRsrK~ql--m~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
.+++.++..+|..+-..|...-..|..+|..+ +..++..++.+...+.++...+...
T Consensus 201 ~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~e 259 (325)
T PF08317_consen 201 EEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAE 259 (325)
T ss_pred hhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45888999999999999988888888777664 5556666666665555555555555
No 17
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=70.85 E-value=20 Score=26.79 Aligned_cols=43 Identities=14% Similarity=0.339 Sum_probs=27.4
Q ss_pred CCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHH
Q 024640 119 LSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKG 166 (265)
Q Consensus 119 Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~ 166 (265)
+|++=|.+||..+..++..|- ++.-+|++|+.|-..|.+++..
T Consensus 1 MS~EvleqLE~KIqqAvdtI~-----LLqmEieELKekn~~L~~e~~~ 43 (79)
T PRK15422 1 MSLEVFEKLEAKVQQAIDTIT-----LLQMEIEELKEKNNSLSQEVQN 43 (79)
T ss_pred CcHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
Confidence 467778889887777776664 4444556666665555554443
No 18
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=70.66 E-value=45 Score=25.96 Aligned_cols=41 Identities=24% Similarity=0.349 Sum_probs=23.9
Q ss_pred HHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 129 HQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 129 ~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
.-.+.++..+..|+. .+...|..|.++...|.+.-..++.+
T Consensus 63 ~~~~e~~~~l~~r~e-~ie~~i~~lek~~~~l~~~l~e~q~~ 103 (110)
T TIGR02338 63 TDKEEAIQELKEKKE-TLELRVKTLQRQEERLREQLKELQEK 103 (110)
T ss_pred ecHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444555554433 33666777777777776666666665
No 19
>PRK10884 SH3 domain-containing protein; Provisional
Probab=70.16 E-value=47 Score=29.21 Aligned_cols=27 Identities=19% Similarity=0.038 Sum_probs=13.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 144 QCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 144 qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+-+.+++..++.+...|..+|..+++.
T Consensus 142 ~~L~~~l~~~~~~~~~l~~~~~~~~~~ 168 (206)
T PRK10884 142 QKLKNQLIVAQKKVDAANLQLDDKQRT 168 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555555555555555555554443
No 20
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=67.88 E-value=20 Score=28.49 Aligned_cols=45 Identities=29% Similarity=0.372 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 121 TKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 121 ~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
++.|.+||+++..-+..+..-|.++ .+|-..-..|.-||..||++
T Consensus 7 fd~l~~le~~l~~l~~el~~LK~~~-----~el~EEN~~L~iEN~~Lr~~ 51 (110)
T PRK13169 7 FDALDDLEQNLGVLLKELGALKKQL-----AELLEENTALRLENDKLRER 51 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHH
Confidence 3567788888777776666554433 45555566677777777777
No 21
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=66.15 E-value=38 Score=31.63 Aligned_cols=58 Identities=16% Similarity=0.316 Sum_probs=37.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHhchhhhhhhhhhh--HHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 113 GEDLDPLSTKELEQLEHQLETSLKHVRSTKTQC--MVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 113 GedL~~Ls~~EL~qLE~qLe~sL~~IRsrK~ql--m~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
-++++.++..||.++-..|..-...|...+.++ +.+++..+..+.....+.-..+...
T Consensus 195 ~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~ 254 (312)
T smart00787 195 EDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTE 254 (312)
T ss_pred HHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356788999999999999888888887776654 4444444444444444444444443
No 22
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=64.92 E-value=72 Score=25.65 Aligned_cols=27 Identities=33% Similarity=0.390 Sum_probs=24.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 144 QCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 144 qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
..+..++.+++++...|.+.|+.|..+
T Consensus 101 ~~le~e~~~~~~r~~dL~~QN~lLh~Q 127 (132)
T PF07926_consen 101 EQLEKELSELEQRIEDLNEQNKLLHDQ 127 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467889999999999999999999988
No 23
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=62.09 E-value=30 Score=27.24 Aligned_cols=44 Identities=34% Similarity=0.438 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 122 KELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 122 ~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+.|.+||++|..-+..|..-|.+ +.+|-..-..|.-||..||..
T Consensus 8 ~~l~~le~~l~~l~~~~~~LK~~-----~~~l~EEN~~L~~EN~~Lr~~ 51 (107)
T PF06156_consen 8 DRLDQLEQQLGQLLEELEELKKQ-----LQELLEENARLRIENEHLRER 51 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHH
Confidence 45667777766555555443322 234444444555566666666
No 24
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=60.30 E-value=91 Score=27.22 Aligned_cols=71 Identities=24% Similarity=0.356 Sum_probs=40.2
Q ss_pred hhHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHH
Q 024640 89 STYQEYLRLKTAVELLQRSQRNLLGEDLDPLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLR 168 (265)
Q Consensus 89 ~~~~E~~kLk~kie~Lq~~~R~llGedL~~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~ 168 (265)
.+..|..+|+..++........+. .|+..|.+++...=.-+ .+...+.+++++|+.--..|+|+|+.|.
T Consensus 19 ~L~~en~kL~~~ve~~ee~na~L~---------~e~~~L~~q~~s~Qqal--~~aK~l~eEledLk~~~~~lEE~~~~L~ 87 (193)
T PF14662_consen 19 KLADENAKLQRSVETAEEGNAQLA---------EEITDLRKQLKSLQQAL--QKAKALEEELEDLKTLAKSLEEENRSLL 87 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666677766666655444432 23444444443322222 2444667777777777777777777776
Q ss_pred Hh
Q 024640 169 KK 170 (265)
Q Consensus 169 ~k 170 (265)
.+
T Consensus 88 aq 89 (193)
T PF14662_consen 88 AQ 89 (193)
T ss_pred HH
Confidence 65
No 25
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=60.12 E-value=36 Score=28.48 Aligned_cols=24 Identities=29% Similarity=0.340 Sum_probs=10.0
Q ss_pred CCHHHHHHHHHHHHhchhhhhhhh
Q 024640 119 LSTKELEQLEHQLETSLKHVRSTK 142 (265)
Q Consensus 119 Ls~~EL~qLE~qLe~sL~~IRsrK 142 (265)
.+.+|...++.......+..+.||
T Consensus 142 vs~ee~~~~~~~~~~~~k~w~kRK 165 (169)
T PF07106_consen 142 VSPEEKEKLEKEYKKWRKEWKKRK 165 (169)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444444333
No 26
>PRK13824 replication initiation protein RepC; Provisional
Probab=57.52 E-value=17 Score=35.28 Aligned_cols=94 Identities=22% Similarity=0.277 Sum_probs=60.2
Q ss_pred hhcccCcceeeeee--ccCCCcccccCch---------hHHHHHHHHhhcCCCcccCCCCCcchhhhHHHHHHHHHHHHH
Q 024640 35 LSVLCDAEVALIIF--SNRGKLYEFCSSP---------SIMKTLERYHRCSFGAHEANRPPIETQSTYQEYLRLKTAVEL 103 (265)
Q Consensus 35 LSvLCdaeValIiF--S~~Gkl~ef~S~~---------sm~~iLeRY~~~~~~~~~~~~~~~e~q~~~~E~~kLk~kie~ 103 (265)
|+.|. |.+||++ ||+||=|-.-... ++..++.||....... ...+.-..++..|+.++..
T Consensus 104 la~Lv--eaGLI~rrDSpNGKRyarr~~~G~i~~AfGfDLsPL~~R~~El~~~A-------~~~~ae~~~~r~lr~~it~ 174 (404)
T PRK13824 104 LAALV--EAGLIIRRDSPNGKRYARKGRGGEIEEAFGFDLAPLLARAEEFEALA-------EQVAAERKALRRLRERLTL 174 (404)
T ss_pred HHHHH--HCCCeEeecCCCCcccceeCCCCceeeeeccchHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHH
Confidence 44444 5668888 8999987543211 4678888887653211 1122345667778888888
Q ss_pred HHHhhhhhcC----CCCCCCCHHHHHHHHHHHHhchhhhhhh
Q 024640 104 LQRSQRNLLG----EDLDPLSTKELEQLEHQLETSLKHVRST 141 (265)
Q Consensus 104 Lq~~~R~llG----edL~~Ls~~EL~qLE~qLe~sL~~IRsr 141 (265)
+.+..+.++. +.+.+ +...++..++..+..++.+
T Consensus 175 ~rRdi~~li~~a~~~~~~~----~w~~~~~~~~~i~~~l~R~ 212 (404)
T PRK13824 175 CRRDIAKLIEAAIEEGVPG----DWEGVEQRFRAIVARLPRR 212 (404)
T ss_pred HHHHHHHHHHHHHhccCCC----cHHHHHHHHHHHHHHcCCC
Confidence 8888877662 22222 4777888888888888744
No 27
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=56.69 E-value=47 Score=26.16 Aligned_cols=29 Identities=34% Similarity=0.460 Sum_probs=26.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 142 KTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 142 K~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
....|.++|..|+.....|.|+|..|+..
T Consensus 16 ~l~~l~~~~~~LK~~~~~l~EEN~~L~~E 44 (107)
T PF06156_consen 16 QLGQLLEELEELKKQLQELLEENARLRIE 44 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567899999999999999999999987
No 28
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.66 E-value=75 Score=23.28 Aligned_cols=37 Identities=16% Similarity=0.425 Sum_probs=21.2
Q ss_pred CCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHH
Q 024640 119 LSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVL 160 (265)
Q Consensus 119 Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L 160 (265)
+|++=|.+||..+..++..|- ++.-+|++|+.|-..|
T Consensus 1 MSlEv~ekLE~KiqqAvdTI~-----LLQmEieELKEknn~l 37 (79)
T COG3074 1 MSLEVFEKLEAKVQQAIDTIT-----LLQMEIEELKEKNNSL 37 (79)
T ss_pred CchHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHhhHh
Confidence 456667777776666665553 4444555555554433
No 29
>PF02416 MttA_Hcf106: mttA/Hcf106 family; InterPro: IPR003369 Members of this protein family are involved in a sec-independent translocation mechanism. This pathway has been called the DeltapH pathway in chloroplasts []. Members of this family in Escherichia coli are involved in export of redox proteins with a "twin arginine" leader motif (S/T-R-R-X-F-L-K) []. This sec-independent pathway is termed TAT for twin-arginine translocation system. This system mainly transports proteins with bound cofactors that require folding prior to export.; GO: 0008565 protein transporter activity, 0015031 protein transport; PDB: 2L16_A.
Probab=55.13 E-value=3.1 Score=28.56 Aligned_cols=29 Identities=31% Similarity=0.531 Sum_probs=22.9
Q ss_pred eeeeeeccCCCcccccCchhHHHHHHHHhhcC
Q 024640 43 VALIIFSNRGKLYEFCSSPSIMKTLERYHRCS 74 (265)
Q Consensus 43 ValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~ 74 (265)
||||||+| +||++++ .++-+.+..|++..
T Consensus 12 valllfGp-~kLP~~~--r~lG~~ir~fk~~~ 40 (53)
T PF02416_consen 12 VALLLFGP-KKLPELA--RSLGKAIREFKKAI 40 (53)
T ss_dssp HHHHHS-T-TTHHHHH--HHHHHHHHHHHHHH
T ss_pred HHHHHhCc-hHHHHHH--HHHHHHHHHHHHHH
Confidence 68899999 7899997 36888888888763
No 30
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=54.08 E-value=51 Score=34.23 Aligned_cols=48 Identities=19% Similarity=0.226 Sum_probs=29.6
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHhHHHHHhhhcCCcccCCCCCCcccchhhh
Q 024640 140 STKTQCMVDQLSDLQKREQVLLELNKGLRKKAFLGNYTCLTTPPFTQLDESNI 192 (265)
Q Consensus 140 srK~qlm~~qi~~LqkKe~~L~eeN~~L~~k~~~~~~~~~~~~~~~~l~e~~~ 192 (265)
.||.+.|..+|.+|+++-+..+.-|..|-.. |..++.|-+-|++....
T Consensus 604 arrEd~~R~Ei~~LqrRlqaaE~R~eel~q~-----v~~TTrPLlRQIE~lQ~ 651 (961)
T KOG4673|consen 604 ARREDMFRGEIEDLQRRLQAAERRCEELIQQ-----VPETTRPLLRQIEALQE 651 (961)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-----ccccccHHHHHHHHHHH
Confidence 3566666667777776666666666666655 44444555777776543
No 31
>PRK01919 tatB sec-independent translocase; Provisional
Probab=54.05 E-value=7 Score=33.33 Aligned_cols=28 Identities=21% Similarity=0.301 Sum_probs=21.3
Q ss_pred eeeeeeccCCCcccccCchhHHHHHHHHhhc
Q 024640 43 VALIIFSNRGKLYEFCSSPSIMKTLERYHRC 73 (265)
Q Consensus 43 ValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~ 73 (265)
||||||+|. ||++.. .++...+-+++++
T Consensus 15 VALiV~GPe-kLP~~a--RtlGk~i~k~Rr~ 42 (169)
T PRK01919 15 VALVVIGPE-RLPRVA--RTAGALFGRAQRY 42 (169)
T ss_pred HHHheeCch-HhHHHH--HHHHHHHHHHHHH
Confidence 799999984 677776 3677788777765
No 32
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=53.80 E-value=1.9e+02 Score=27.08 Aligned_cols=22 Identities=41% Similarity=0.469 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHhHHHHHh
Q 024640 149 QLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 149 qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+++.|++|.+.|+++|..||..
T Consensus 161 ~le~Lq~Klk~LEeEN~~LR~E 182 (306)
T PF04849_consen 161 QLEALQEKLKSLEEENEQLRSE 182 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 3589999999999999999998
No 33
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=53.46 E-value=1.5e+02 Score=29.55 Aligned_cols=27 Identities=26% Similarity=0.228 Sum_probs=23.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 144 QCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 144 qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
++|..+..+++.|.+.|+++|..|+.+
T Consensus 93 q~~saq~~dle~KIkeLEaE~~~Lk~Q 119 (475)
T PRK13729 93 DVLNKQRGDDQRRIEKLGQDNAALAEQ 119 (475)
T ss_pred HHHhhhhhhHHHHHHHHHHHHHHHHHH
Confidence 466777788899999999999999999
No 34
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=53.37 E-value=40 Score=31.53 Aligned_cols=48 Identities=23% Similarity=0.387 Sum_probs=34.9
Q ss_pred HHHHHHHHHHhchhhhhhhhhhh--HHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 123 ELEQLEHQLETSLKHVRSTKTQC--MVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 123 EL~qLE~qLe~sL~~IRsrK~ql--m~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
++..|...|.......+....++ +..+|.+|++|.+.+.-+|..|...
T Consensus 214 qia~LseELa~k~Ee~~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~ 263 (306)
T PF04849_consen 214 QIASLSEELARKTEENRRQQEEITSLLSQIVDLQQRCKQLAAENEELQQH 263 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence 44555555555555555444553 7889999999999999999999888
No 35
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=52.83 E-value=24 Score=27.98 Aligned_cols=27 Identities=22% Similarity=0.363 Sum_probs=20.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 144 QCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 144 qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+.+.++|.+|..+...|++||..|+.-
T Consensus 70 e~Lk~qI~eL~er~~~Le~EN~lLk~~ 96 (123)
T KOG4797|consen 70 EVLKEQIRELEERNSALERENSLLKTL 96 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 456677777877888888888877765
No 36
>PRK14860 tatA twin arginine translocase protein A; Provisional
Probab=51.50 E-value=5.4 Score=28.61 Aligned_cols=38 Identities=24% Similarity=0.399 Sum_probs=29.3
Q ss_pred hhhcccCcceeeeeeccCCCcccccCchhHHHHHHHHhhcCCC
Q 024640 34 ELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKTLERYHRCSFG 76 (265)
Q Consensus 34 ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~~~ 76 (265)
||-|++= ||||||+|. ||++.. .++-+.+..|++....
T Consensus 8 ElliI~v--IalllfGp~-kLP~l~--r~lGk~ir~fkk~~~~ 45 (64)
T PRK14860 8 ELIVILV--IALVVFGPA-KLPQLG--QALGGAIRNFKKASNE 45 (64)
T ss_pred HHHHHHH--HHHhhcCch-HHHHHH--HHHHHHHHHHHHHccc
Confidence 5555543 789999987 999987 3689999999887554
No 37
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=51.49 E-value=50 Score=26.25 Aligned_cols=40 Identities=18% Similarity=0.292 Sum_probs=29.6
Q ss_pred HHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 131 LETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 131 Le~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+|.++.-|.+.-+-...++++-|+.+.+.|.+.|..|.+.
T Consensus 50 IeQAMDLVKtHLmfAVREEVe~Lk~qI~eL~er~~~Le~E 89 (123)
T KOG4797|consen 50 IEQAMDLVKTHLMFAVREEVEVLKEQIRELEERNSALERE 89 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444445689999999999999999999988
No 38
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=50.59 E-value=63 Score=32.04 Aligned_cols=49 Identities=31% Similarity=0.408 Sum_probs=32.2
Q ss_pred CCCCCCHHHHHHHHHHHHhchhhhhh---hhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 115 DLDPLSTKELEQLEHQLETSLKHVRS---TKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 115 dL~~Ls~~EL~qLE~qLe~sL~~IRs---rK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
||+.||.+||+ +|+|.+++++-. -|.|+. +.||.....|+.--+.|+..
T Consensus 198 ~i~~lsteelr---~qVD~A~~q~VnP~k~KeQLV----~QLkTQItDLErFInFlQ~e 249 (621)
T KOG3759|consen 198 DIDKLSTEELR---RQVDDALKQLVNPFKEKEQLV----DQLKTQITDLERFINFLQDE 249 (621)
T ss_pred CcccccHHHHH---HHHHHHHHHHhChHHHHHHHH----HHHHHHHHHHHHHHHHHHHh
Confidence 57888888765 588999998742 455542 45555555565555566555
No 39
>PRK04654 sec-independent translocase; Provisional
Probab=50.32 E-value=3.3 Score=36.56 Aligned_cols=28 Identities=18% Similarity=0.089 Sum_probs=20.6
Q ss_pred eeeeeeccCCCcccccCchhHHHHHHHHhhc
Q 024640 43 VALIIFSNRGKLYEFCSSPSIMKTLERYHRC 73 (265)
Q Consensus 43 ValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~ 73 (265)
||||||+| .||.+.. ..+.+.|.++++.
T Consensus 15 VALlV~GP-erLPe~a--RtlGk~irk~R~~ 42 (214)
T PRK04654 15 VALVVLGP-ERLPKAA--RFAGLWVRRARMQ 42 (214)
T ss_pred HHHHhcCc-hHHHHHH--HHHHHHHHHHHHH
Confidence 78999987 4777776 3577777777753
No 40
>PRK11637 AmiB activator; Provisional
Probab=49.08 E-value=1.3e+02 Score=28.98 Aligned_cols=62 Identities=18% Similarity=0.250 Sum_probs=27.7
Q ss_pred hhHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCHHHHHHHHHHHHhchhhhhhhhhh--hHHHHHHHHHHHHHH
Q 024640 89 STYQEYLRLKTAVELLQRSQRNLLGEDLDPLSTKELEQLEHQLETSLKHVRSTKTQ--CMVDQLSDLQKREQV 159 (265)
Q Consensus 89 ~~~~E~~kLk~kie~Lq~~~R~llGedL~~Ls~~EL~qLE~qLe~sL~~IRsrK~q--lm~~qi~~LqkKe~~ 159 (265)
....++..++.++..++...+.+ ..+|..|+.+|...-..|+....+ .+..+|..++++...
T Consensus 51 ~l~~qi~~~~~~i~~~~~~~~~~---------~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~ 114 (428)
T PRK11637 51 SIQQDIAAKEKSVRQQQQQRASL---------LAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAK 114 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444554444443332 234555555555555555443333 234444444444333
No 41
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=48.29 E-value=1.6e+02 Score=29.00 Aligned_cols=42 Identities=12% Similarity=0.204 Sum_probs=28.6
Q ss_pred cchhhhhhhhhcccCcceeeeeeccCCCcccccCchhHHHHHHHHhhc
Q 024640 26 NGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKTLERYHRC 73 (265)
Q Consensus 26 ~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~ 73 (265)
++|+|+- .|.+- .-+-+++|.++|++..|. ++.+||+.|-.+
T Consensus 285 ~~L~k~~-~L~~~--~~~Nm~~~d~~g~~~~~~---~~~~Il~~f~~~ 326 (439)
T PHA02592 285 EKIMKDF-GLIER--VSQNITVINENGKLKVYE---NAEDLIRDFVEI 326 (439)
T ss_pred HHHHHhc-Cchhe--eeeeEEEEecCCeeeecC---CHHHHHHHHHHH
Confidence 4666543 23222 236788999999999995 478888888654
No 42
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=47.30 E-value=71 Score=25.35 Aligned_cols=45 Identities=24% Similarity=0.316 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 121 TKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 121 ~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
++.+.+||.+|-..+..|-.-|.++ .+|=..-..|.=||..||+.
T Consensus 7 Fd~v~~le~~l~~l~~el~~lK~~l-----~~lvEEN~~L~lENe~LR~R 51 (114)
T COG4467 7 FDQVDNLEEQLGVLLAELGGLKQHL-----GSLVEENTALRLENEKLRER 51 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHhhHHHHhhHHHHHHH
Confidence 3567788888877776666555443 23333344556666677777
No 43
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=46.57 E-value=64 Score=31.79 Aligned_cols=36 Identities=31% Similarity=0.193 Sum_probs=26.0
Q ss_pred hhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 135 LKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 135 L~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
.++|-++|.+-+...+..+++..+.+.|+|+.|++-
T Consensus 376 ~kk~~e~k~~q~q~k~~k~~kel~~~~E~n~~l~kn 411 (493)
T KOG0804|consen 376 EKKIVERKLQQLQTKLKKCQKELKEEREENKKLIKN 411 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 445556666667777788888888888888877664
No 44
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=46.23 E-value=1.7e+02 Score=30.04 Aligned_cols=80 Identities=25% Similarity=0.326 Sum_probs=48.1
Q ss_pred hhHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCHHHHHHHHHHHHhchhhhh-----hhhhhhHHHHHHHHHHHHHHHHHH
Q 024640 89 STYQEYLRLKTAVELLQRSQRNLLGEDLDPLSTKELEQLEHQLETSLKHVR-----STKTQCMVDQLSDLQKREQVLLEL 163 (265)
Q Consensus 89 ~~~~E~~kLk~kie~Lq~~~R~llGedL~~Ls~~EL~qLE~qLe~sL~~IR-----srK~qlm~~qi~~LqkKe~~L~ee 163 (265)
....++.++..+++.|+..+++|..+ ++.+- +++..|+.+|+..-..++ .|+.+.+...|..|+++...-...
T Consensus 419 ~~~~~i~~~~~~ve~l~~e~~~L~~~-~ee~k-~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~ 496 (652)
T COG2433 419 VYEKRIKKLEETVERLEEENSELKRE-LEELK-REIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKR 496 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH-HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55667777777777777776665432 00111 677778888777666554 345566777788887765444443
Q ss_pred hHHHHHh
Q 024640 164 NKGLRKK 170 (265)
Q Consensus 164 N~~L~~k 170 (265)
-..|+++
T Consensus 497 ve~L~~~ 503 (652)
T COG2433 497 VEELERK 503 (652)
T ss_pred HHHHHHH
Confidence 4444444
No 45
>PRK10884 SH3 domain-containing protein; Provisional
Probab=45.41 E-value=75 Score=27.90 Aligned_cols=21 Identities=19% Similarity=0.140 Sum_probs=11.0
Q ss_pred hHHHHHHHHHHHHHHHHhhhh
Q 024640 90 TYQEYLRLKTAVELLQRSQRN 110 (265)
Q Consensus 90 ~~~E~~kLk~kie~Lq~~~R~ 110 (265)
....+.+++++++.++....+
T Consensus 91 ~~~rlp~le~el~~l~~~l~~ 111 (206)
T PRK10884 91 LRTRVPDLENQVKTLTDKLNN 111 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444555566666665544333
No 46
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=44.56 E-value=93 Score=24.67 Aligned_cols=29 Identities=31% Similarity=0.412 Sum_probs=25.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 142 KTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 142 K~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
....+.+++..|+.....|.|+|..|+..
T Consensus 16 ~l~~l~~el~~LK~~~~el~EEN~~L~iE 44 (110)
T PRK13169 16 NLGVLLKELGALKKQLAELLEENTALRLE 44 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567899999999999999999999887
No 47
>PHA02109 hypothetical protein
Probab=43.34 E-value=54 Score=28.30 Aligned_cols=83 Identities=18% Similarity=0.280 Sum_probs=45.6
Q ss_pred HHHHHHHhhcCCCcccCCCCCcchhhhHHHHHHHHHHHHHHHHhhhhhcCCCCCCCC--HHHHHHHHHHHHhchhhhhhh
Q 024640 64 MKTLERYHRCSFGAHEANRPPIETQSTYQEYLRLKTAVELLQRSQRNLLGEDLDPLS--TKELEQLEHQLETSLKHVRST 141 (265)
Q Consensus 64 ~~iLeRY~~~~~~~~~~~~~~~e~q~~~~E~~kLk~kie~Lq~~~R~llGedL~~Ls--~~EL~qLE~qLe~sL~~IRsr 141 (265)
..+|.||++....+..........+.. ++-.--++++..+ ++..|+.|++|. ++|+-.||.
T Consensus 138 L~VL~R~R~~~~~E~k~r~~~~KP~~v--~~~AsTE~ID~~~---~~~t~~~L~~~~~~L~~I~~L~~------------ 200 (233)
T PHA02109 138 LAVLTRTRRIETIEKKTRVRPAKPKAV--EIHASTERIDQVE---RSHTGENLEGLTDKLKQISELTI------------ 200 (233)
T ss_pred chhhhhhhhhhhhhhhcCCCCCCccce--eccccHHHHHHHH---hccchhhhhhhhHHHHhhHHHHH------------
Confidence 478899987654333222111110000 1111123344433 556788888886 556666654
Q ss_pred hhhhHHHHHHHHHHHHHHHHHH
Q 024640 142 KTQCMVDQLSDLQKREQVLLEL 163 (265)
Q Consensus 142 K~qlm~~qi~~LqkKe~~L~ee 163 (265)
|-..+.++.+++|.|...+..+
T Consensus 201 ki~~LS~E~~Q~~~Ki~N~R~~ 222 (233)
T PHA02109 201 KLEALSDEACQVKHKILNLRAE 222 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788888888887776554
No 48
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=42.47 E-value=1.1e+02 Score=21.90 Aligned_cols=48 Identities=29% Similarity=0.340 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhchhhhhhhh--hhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 123 ELEQLEHQLETSLKHVRSTK--TQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 123 EL~qLE~qLe~sL~~IRsrK--~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
||+.||..|+.-+.....-+ +.++.+++..++..-..|.+.|..=+.+
T Consensus 1 ~L~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~r 50 (65)
T TIGR02449 1 ELQALAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQK 50 (65)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777777776665443222 2244444444444444444444444444
No 49
>PRK09343 prefoldin subunit beta; Provisional
Probab=41.78 E-value=1.3e+02 Score=23.89 Aligned_cols=27 Identities=30% Similarity=0.262 Sum_probs=19.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 144 QCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 144 qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+.+...|..|.+++..|.+.-..++.+
T Consensus 81 E~ie~~ik~lekq~~~l~~~l~e~q~~ 107 (121)
T PRK09343 81 ELLELRSRTLEKQEKKLREKLKELQAK 107 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344577788888888887777777777
No 50
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=39.42 E-value=2.6e+02 Score=26.77 Aligned_cols=91 Identities=20% Similarity=0.220 Sum_probs=46.1
Q ss_pred hHHHHHHHHhhcCCCcccCCCCCcchhhhHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCHHHHHHHHHHHHhchhhhhhh
Q 024640 62 SIMKTLERYHRCSFGAHEANRPPIETQSTYQEYLRLKTAVELLQRSQRNLLGEDLDPLSTKELEQLEHQLETSLKHVRST 141 (265)
Q Consensus 62 sm~~iLeRY~~~~~~~~~~~~~~~e~q~~~~E~~kLk~kie~Lq~~~R~llGedL~~Ls~~EL~qLE~qLe~sL~~IRsr 141 (265)
.+..+.+||......-...... ....++.++-++...|+.... -++++.+++.+|+.+-.-+...
T Consensus 8 kl~~~~~r~~el~~~L~~p~v~-----~d~~~~~~lske~a~l~~iv~----------~~~~~~~~~~~l~~a~~~l~~~ 72 (363)
T COG0216 8 KLESLLERYEELEALLSDPEVI-----SDPDEYRKLSKEYAELEPIVE----------KYREYKKAQEDLEDAKEMLAEE 72 (363)
T ss_pred HHHHHHHHHHHHHHHhcCcccc-----cCHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHhcc
Confidence 5888999998874322222111 222334444444333333211 1234444444444333333322
Q ss_pred hh----hhHHHHHHHHHHHHHHHHHHhHHH
Q 024640 142 KT----QCMVDQLSDLQKREQVLLELNKGL 167 (265)
Q Consensus 142 K~----qlm~~qi~~LqkKe~~L~eeN~~L 167 (265)
+. .+..++|.+++.+...|.++-+.|
T Consensus 73 ~D~em~ema~~Ei~~~~~~~~~le~~L~~l 102 (363)
T COG0216 73 KDPEMREMAEEEIKELEAKIEELEEELKIL 102 (363)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 22 456777888888887887776655
No 51
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=39.34 E-value=43 Score=31.01 Aligned_cols=45 Identities=11% Similarity=0.311 Sum_probs=32.2
Q ss_pred eeeeeccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccCchhHHHHHHHHhh
Q 024640 7 ELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKTLERYHR 72 (265)
Q Consensus 7 ~ikrIen~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY~~ 72 (265)
.+..|.|.+.|..+=++ .||..|.+ +.| .|-++|.|++|++.|.+
T Consensus 25 n~~li~n~tqr~t~~sR-------------~L~Ecel~---~~p-----~Y~nDpEmK~iid~~n~ 69 (295)
T TIGR01478 25 NVSYIQNNTQMTSTKSR-------------LLAEIQRP---KNP-----HYHNDPELKEIIDKLNE 69 (295)
T ss_pred ceecccCccccccccce-------------ehhhhccc---cCC-----CCCCcHHHHHHHHHHhH
Confidence 45678888888766332 47877764 333 57788899999999876
No 52
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=39.27 E-value=1.4e+02 Score=26.62 Aligned_cols=50 Identities=28% Similarity=0.387 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHhchhhhhhhhhh--hHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 121 TKELEQLEHQLETSLKHVRSTKTQ--CMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 121 ~~EL~qLE~qLe~sL~~IRsrK~q--lm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
..|+..|+..++..-+......++ .|..|.+.+++.-..|.|+|..|+.+
T Consensus 157 ~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~ 208 (216)
T KOG1962|consen 157 KADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQ 208 (216)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence 456777777776665555443333 56777888888888888889888888
No 53
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=39.08 E-value=70 Score=23.33 Aligned_cols=30 Identities=30% Similarity=0.344 Sum_probs=25.9
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 141 TKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 141 rK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
.|.+-..+.|..|+.+...|.++|..|...
T Consensus 11 ~ki~~aveti~~Lq~e~eeLke~n~~L~~e 40 (72)
T PF06005_consen 11 EKIQQAVETIALLQMENEELKEKNNELKEE 40 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 467778899999999999999999999876
No 54
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=38.95 E-value=3.1e+02 Score=29.80 Aligned_cols=53 Identities=34% Similarity=0.381 Sum_probs=35.6
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhhh------cCCCCCCCCHHHHHHHHHH---HHhchhhhhh
Q 024640 88 QSTYQEYLRLKTAVELLQRSQRNL------LGEDLDPLSTKELEQLEHQ---LETSLKHVRS 140 (265)
Q Consensus 88 q~~~~E~~kLk~kie~Lq~~~R~l------lGedL~~Ls~~EL~qLE~q---Le~sL~~IRs 140 (265)
+.+++|+.-++++++.|.....-| -|.|--..|.-++.+||+| |-.+|-+.|.
T Consensus 328 esLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRD 389 (1243)
T KOG0971|consen 328 ESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRD 389 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 367777777787777665543211 2777777888888888877 5566666654
No 55
>PF10504 DUF2452: Protein of unknown function (DUF2452); InterPro: IPR019534 This entry contains proteins that have no known function.
Probab=38.74 E-value=1e+02 Score=26.07 Aligned_cols=43 Identities=23% Similarity=0.382 Sum_probs=32.7
Q ss_pred CHHHHHHHHHHHHhchhhhhhh---hhhhHHHHHHHHHHHHHHHHH
Q 024640 120 STKELEQLEHQLETSLKHVRST---KTQCMVDQLSDLQKREQVLLE 162 (265)
Q Consensus 120 s~~EL~qLE~qLe~sL~~IRsr---K~qlm~~qi~~LqkKe~~L~e 162 (265)
+..+|..|-++++.+-..+|.+ |-..+.+||..||..-+.+.+
T Consensus 28 ~~~dlv~la~~iq~Ad~~~~~~t~~kL~~I~eQi~~Lq~QA~~ile 73 (159)
T PF10504_consen 28 DPFDLVDLAQQIQKADSAMRANTCNKLEVIAEQIRFLQEQARKILE 73 (159)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 6678999999998888888765 566788888888876555443
No 56
>PRK01470 tatA twin arginine translocase protein A; Provisional
Probab=38.56 E-value=10 Score=25.93 Aligned_cols=30 Identities=20% Similarity=0.415 Sum_probs=24.3
Q ss_pred eeeeeeccCCCcccccCchhHHHHHHHHhhcCC
Q 024640 43 VALIIFSNRGKLYEFCSSPSIMKTLERYHRCSF 75 (265)
Q Consensus 43 ValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~~ 75 (265)
|+||||.| +||++.. .++-+.+..|++...
T Consensus 14 i~llvFGp-~KLP~l~--r~lG~~i~~Fk~~~~ 43 (51)
T PRK01470 14 IIFVLFGA-GKLPQVM--SDLAKGLKAFKDGMK 43 (51)
T ss_pred HHHHhcCc-hHhHHHH--HHHHHHHHHHHHHhc
Confidence 78999998 5999987 368888989987643
No 57
>PF12018 DUF3508: Domain of unknown function (DUF3508); InterPro: IPR021897 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 280 amino acids in length. This domain has two conserved sequence motifs: GFC and GLL. This family is also known as UPF0704.
Probab=38.23 E-value=20 Score=32.78 Aligned_cols=39 Identities=26% Similarity=0.494 Sum_probs=27.5
Q ss_pred eehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccCchhHHHHH
Q 024640 19 VTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKTL 67 (265)
Q Consensus 19 vTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~iL 67 (265)
+||.+|. ||+ +=-+..++|+.+ .||.|.|+|...+.+..
T Consensus 210 ~tl~~~~-GLL-------lPG~p~~Gv~~~--~~k~y~F~s~~aa~~F~ 248 (281)
T PF12018_consen 210 WTLAERD-GLL-------LPGNPSIGVLKY--KDKYYAFSSREAAYRFA 248 (281)
T ss_pred EEEeccC-cee-------ecCCCccceeEE--cCEEEEeCCHHHHHHHH
Confidence 5677764 866 445677888887 88999999865555443
No 58
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=38.04 E-value=1.1e+02 Score=27.83 Aligned_cols=13 Identities=31% Similarity=0.345 Sum_probs=6.4
Q ss_pred ccCCCcccccCch
Q 024640 49 SNRGKLYEFCSSP 61 (265)
Q Consensus 49 S~~Gkl~ef~S~~ 61 (265)
||+|.-.-|.|++
T Consensus 30 ~p~g~s~~~~~~~ 42 (292)
T KOG4005|consen 30 SPTGSSSGYASSS 42 (292)
T ss_pred CCCCCCccccCcc
Confidence 4455444455544
No 59
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=37.82 E-value=1.3e+02 Score=20.46 Aligned_cols=49 Identities=14% Similarity=0.205 Sum_probs=24.9
Q ss_pred CCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHH
Q 024640 118 PLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGL 167 (265)
Q Consensus 118 ~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L 167 (265)
++|++|+.++=.--+..-...... .+++.++++++.++...|...-..|
T Consensus 14 GfsL~eI~~~l~l~~~~~~~~~~~-~~~l~~~~~~i~~~i~~L~~~~~~L 62 (65)
T PF09278_consen 14 GFSLEEIRELLELYDQGDPPCADR-RALLEEKLEEIEEQIAELQALRAQL 62 (65)
T ss_dssp T--HHHHHHHHHHCCSHCHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHhccCCCCCCHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 388888888763322222222222 2566666666666666665544444
No 60
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=37.81 E-value=15 Score=29.17 Aligned_cols=38 Identities=21% Similarity=0.461 Sum_probs=28.7
Q ss_pred Ccceehhhhccch---------hhhhhhhhcccCcceeeeeeccCCC
Q 024640 16 NRQVTFAKRRNGL---------LKKAYELSVLCDAEVALIIFSNRGK 53 (265)
Q Consensus 16 ~RqvTfsKRr~GL---------~KKA~ELSvLCdaeValIiFS~~Gk 53 (265)
.+...||+-|+-| +-|..|+.+=||.|.-||+..+.|.
T Consensus 49 g~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~gg 95 (111)
T COG0139 49 GEAHYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQIGG 95 (111)
T ss_pred CeEEEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeCCC
Confidence 3444467777644 5567899999999999999998664
No 61
>smart00338 BRLZ basic region leucin zipper.
Probab=37.74 E-value=79 Score=22.00 Aligned_cols=31 Identities=23% Similarity=0.435 Sum_probs=21.9
Q ss_pred hhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 136 KHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 136 ~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
..-|.+|. ..+.+|..+...|..+|..|+.+
T Consensus 18 ~~~R~rKk----~~~~~Le~~~~~L~~en~~L~~~ 48 (65)
T smart00338 18 RRSRERKK----AEIEELERKVEQLEAENERLKKE 48 (65)
T ss_pred HHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566653 34567788888888888888877
No 62
>PF01502 PRA-CH: Phosphoribosyl-AMP cyclohydrolase; InterPro: IPR002496 Phosphoribosyl-AMP cyclohydrolase 3.5.4.19 from EC catalyses the third step in the histidine biosynthetic pathway: 5-phosphoribosyl-AMP + H2O = 5-(5-phospho-D-ribosylaminoformimino)-1-(5-phospho-ribosyl) imidazole-4-carboxamide It requires Zn2+ ions for activity [].; GO: 0004635 phosphoribosyl-AMP cyclohydrolase activity, 0000105 histidine biosynthetic process; PDB: 1ZPS_B.
Probab=37.64 E-value=10 Score=28.11 Aligned_cols=38 Identities=26% Similarity=0.492 Sum_probs=28.3
Q ss_pred cceehhhhccchhhh---------hhhhhcccCcceeeeeeccCCCc
Q 024640 17 RQVTFAKRRNGLLKK---------AYELSVLCDAEVALIIFSNRGKL 54 (265)
Q Consensus 17 RqvTfsKRr~GL~KK---------A~ELSvLCdaeValIiFS~~Gkl 54 (265)
+-+-||+-|++|-.| +.|+.+-||.|.-|+..-|.|..
T Consensus 18 ~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~a 64 (75)
T PF01502_consen 18 RATYYSRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGPA 64 (75)
T ss_dssp B-EEEETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-S
T ss_pred cEEEEEccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCCC
Confidence 444568888877554 67899999999999999998873
No 63
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=37.36 E-value=1.7e+02 Score=28.83 Aligned_cols=26 Identities=12% Similarity=0.391 Sum_probs=20.3
Q ss_pred eeeeeccCCCcccccCchhHHHHHHHHhhc
Q 024640 44 ALIIFSNRGKLYEFCSSPSIMKTLERYHRC 73 (265)
Q Consensus 44 alIiFS~~Gkl~ef~S~~sm~~iLeRY~~~ 73 (265)
-+++|.++|++..| + +.+||+.|-.+
T Consensus 302 Nm~~~~~~g~p~~~-~---l~~iL~~f~~~ 327 (445)
T cd00187 302 NMVAFDPNGRPKKL-N---LKEILQEFLDH 327 (445)
T ss_pred eEEEEecCCeeEEe-C---HHHHHHHHHHH
Confidence 57778889999888 3 78888887654
No 64
>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]
Probab=36.79 E-value=1.3e+02 Score=32.71 Aligned_cols=40 Identities=18% Similarity=0.267 Sum_probs=21.6
Q ss_pred HHhchhhhhhhhhh-hHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 131 LETSLKHVRSTKTQ-CMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 131 Le~sL~~IRsrK~q-lm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
|+.-|.+.|.|=.. -+..+|-.|++|...+..++...+.|
T Consensus 283 LeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr~k 323 (1195)
T KOG4643|consen 283 LEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDRHK 323 (1195)
T ss_pred HHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHHHH
Confidence 44455555544332 24555555566666666666666665
No 65
>PF10623 PilI: Plasmid conjugative transfer protein PilI; InterPro: IPR018897 The thin pilus of plasmid R64 belongs to the type IV family and is required for liquid matings. PilI is one of 14 genes that have been identified as being involved in biogenesis of the R64 thin pilus [].
Probab=36.56 E-value=30 Score=25.88 Aligned_cols=31 Identities=19% Similarity=0.318 Sum_probs=25.1
Q ss_pred ceeeeeeccCC--CcccccCchhHHHHHHHHhh
Q 024640 42 EVALIIFSNRG--KLYEFCSSPSIMKTLERYHR 72 (265)
Q Consensus 42 eValIiFS~~G--kl~ef~S~~sm~~iLeRY~~ 72 (265)
.+-|+|++++| ||+.+..+.....++.+|..
T Consensus 8 rl~VLVv~n~c~~kL~~~~~~~D~~~i~r~f~T 40 (83)
T PF10623_consen 8 RLQVLVVSNHCERKLFDTKPDNDPDKIARRFCT 40 (83)
T ss_pred eEEEEEEeCCcceeEeecCCCCCHHHHHhhccC
Confidence 46788999987 58877766689999999975
No 66
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=36.53 E-value=3.8e+02 Score=29.45 Aligned_cols=16 Identities=6% Similarity=-0.031 Sum_probs=8.8
Q ss_pred eeeeeccCCCcccccC
Q 024640 44 ALIIFSNRGKLYEFCS 59 (265)
Q Consensus 44 alIiFS~~Gkl~ef~S 59 (265)
+.-+|.++|..--|.+
T Consensus 621 ~~~aytldg~~~~~~g 636 (1074)
T KOG0250|consen 621 VTKAYTLDGRQIFAGG 636 (1074)
T ss_pred ceeeeccCccccccCC
Confidence 3445777775544443
No 67
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=36.17 E-value=1.8e+02 Score=21.55 Aligned_cols=45 Identities=24% Similarity=0.278 Sum_probs=29.6
Q ss_pred chhhhHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCH----HHHHHHHHHHHh
Q 024640 86 ETQSTYQEYLRLKTAVELLQRSQRNLLGEDLDPLST----KELEQLEHQLET 133 (265)
Q Consensus 86 e~q~~~~E~~kLk~kie~Lq~~~R~llGedL~~Ls~----~EL~qLE~qLe~ 133 (265)
+.+....+...||.++...+...+.+-|- +.|+ .+|.+||.++..
T Consensus 22 ~~kd~~~~~~~lk~Klq~ar~~i~~lpgi---~~s~eeq~~~i~~Le~~i~~ 70 (83)
T PF07544_consen 22 SSKDLDTATGSLKHKLQKARAAIRELPGI---DRSVEEQEEEIEELEEQIRK 70 (83)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhCCCc---cCCHHHHHHHHHHHHHHHHH
Confidence 34567778888999999888887777772 2344 345555555443
No 68
>PF04945 YHS: YHS domain; InterPro: IPR007029 This short presumed domain is about 50 amino acid residues long. It often contains two cysteines that may be functionally important. This domain is found in copper transporting ATPases, some phenol hydroxylases and in a set of uncharacterised membrane proteins including Q9CNI0 from SWISSPROT. This domain is named after three of the most conserved amino acids it contains. The domain may be metal binding, possibly copper ions. This domain is duplicated in some copper transporting ATPases.; PDB: 3U52_B 2INN_A 2INP_B 1T0Q_A 2RDB_A 1T0R_A 2IND_A 1T0S_A 2INC_A 3DHI_A ....
Probab=35.66 E-value=24 Score=23.07 Aligned_cols=27 Identities=33% Similarity=0.556 Sum_probs=17.6
Q ss_pred cCcce---eeeeeccCCCcccccCchhHHH
Q 024640 39 CDAEV---ALIIFSNRGKLYEFCSSPSIMK 65 (265)
Q Consensus 39 CdaeV---alIiFS~~Gkl~ef~S~~sm~~ 65 (265)
|+..| +-.-..-.|+.|-|||..+...
T Consensus 6 cg~~v~~~~~~~~~y~G~~Y~FCS~~C~~~ 35 (47)
T PF04945_consen 6 CGMKVPGNAAYSVEYNGRTYYFCSEGCKEK 35 (47)
T ss_dssp GG-BE-----EEEEETTEEEEESSHHHHHH
T ss_pred CCCEEccCccEEEEECCEEEEEcCHHHHHH
Confidence 66666 5555667999999998755443
No 69
>PRK14859 tatA twin arginine translocase protein A; Provisional
Probab=35.21 E-value=11 Score=26.84 Aligned_cols=31 Identities=23% Similarity=0.442 Sum_probs=25.3
Q ss_pred eeeeeeccCCCcccccCchhHHHHHHHHhhcCCC
Q 024640 43 VALIIFSNRGKLYEFCSSPSIMKTLERYHRCSFG 76 (265)
Q Consensus 43 ValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~~~ 76 (265)
|+||||+|. ||++.. .++-+.+..|++....
T Consensus 15 v~LlvfGp~-kLP~l~--r~lGk~i~~frk~~~~ 45 (63)
T PRK14859 15 IVLIVFGAG-KLPEIG--GGLGKSIKNFKKATSE 45 (63)
T ss_pred HHHHHhCch-HHHHHH--HHHHHHHHHHHHHhcc
Confidence 689999987 999987 3688999999887544
No 70
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=34.91 E-value=3.1e+02 Score=24.27 Aligned_cols=10 Identities=10% Similarity=0.431 Sum_probs=5.1
Q ss_pred ccccCchhHHH
Q 024640 55 YEFCSSPSIMK 65 (265)
Q Consensus 55 ~ef~S~~sm~~ 65 (265)
.-||. .++..
T Consensus 11 ~~~C~-~C~~~ 20 (302)
T PF10186_consen 11 RFYCA-NCVNN 20 (302)
T ss_pred CeECH-HHHHH
Confidence 33664 36554
No 71
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=34.82 E-value=1.1e+02 Score=20.64 Aligned_cols=33 Identities=27% Similarity=0.371 Sum_probs=22.7
Q ss_pred chhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 134 SLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 134 sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
|-.+-|.+|. ..+.+|..+...|..+|..|+.+
T Consensus 15 AA~r~R~rkk----~~~~~le~~~~~L~~en~~L~~~ 47 (54)
T PF07716_consen 15 AARRSRQRKK----QREEELEQEVQELEEENEQLRQE 47 (54)
T ss_dssp HHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345555553 34567778888888888888877
No 72
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=34.72 E-value=2.8e+02 Score=25.01 Aligned_cols=10 Identities=20% Similarity=0.654 Sum_probs=6.9
Q ss_pred CCCCCCCCHH
Q 024640 113 GEDLDPLSTK 122 (265)
Q Consensus 113 GedL~~Ls~~ 122 (265)
|.|++.++++
T Consensus 97 GHDvEhiD~e 106 (290)
T COG4026 97 GHDVEHIDVE 106 (290)
T ss_pred CCCccccCHH
Confidence 6777777653
No 73
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=34.55 E-value=3.1e+02 Score=23.79 Aligned_cols=47 Identities=26% Similarity=0.287 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 123 ELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 123 EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
.+..||.+|+..-+..+ |....-...+.+++.....|.++...|..+
T Consensus 140 ki~~Lek~leL~~k~~~-rql~~e~kK~~~~~~~~~~l~~ei~~L~~k 186 (194)
T PF15619_consen 140 KIQELEKQLELENKSFR-RQLASEKKKHKEAQEEVKSLQEEIQRLNQK 186 (194)
T ss_pred HHHHHHHHHHHHhhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555554444333 222333344556666667777777777777
No 74
>PF14968 CCDC84: Coiled coil protein 84
Probab=34.29 E-value=4.1e+02 Score=25.20 Aligned_cols=36 Identities=19% Similarity=0.293 Sum_probs=21.6
Q ss_pred hcccCcceeeeee--ccCCCcccccCchhHHHHHHHHhh
Q 024640 36 SVLCDAEVALIIF--SNRGKLYEFCSSPSIMKTLERYHR 72 (265)
Q Consensus 36 SvLCdaeValIiF--S~~Gkl~ef~S~~sm~~iLeRY~~ 72 (265)
|+-||+||.-.+- --.|-++.++|+.-++ -+.+|..
T Consensus 61 C~fC~~ev~~~~s~~~~~~ai~HLaS~eH~k-~vk~F~w 98 (336)
T PF14968_consen 61 CVFCDCEVREHDSSFACGGAIEHLASPEHRK-NVKKFWW 98 (336)
T ss_pred eeCccchhhhccchhhhccHHhhcCCHHHHH-HHHHHHH
Confidence 7888888864432 2356677788754333 3345543
No 75
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=34.23 E-value=1.6e+02 Score=25.28 Aligned_cols=24 Identities=25% Similarity=0.246 Sum_probs=12.8
Q ss_pred cCCCcccccCchhHHHHHHHHhhcC
Q 024640 50 NRGKLYEFCSSPSIMKTLERYHRCS 74 (265)
Q Consensus 50 ~~Gkl~ef~S~~sm~~iLeRY~~~~ 74 (265)
.+|-|..-.- ..+..+|++|....
T Consensus 81 ERGlLL~rvr-de~~~~l~~y~~l~ 104 (189)
T PF10211_consen 81 ERGLLLLRVR-DEYRMTLDAYQTLY 104 (189)
T ss_pred HHhHHHHHHH-HHHHHHHHHHHHHH
Confidence 3555544221 24667777776653
No 76
>PF14645 Chibby: Chibby family
Probab=34.19 E-value=52 Score=26.25 Aligned_cols=24 Identities=33% Similarity=0.268 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 147 VDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 147 ~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
......++++.+.|.|||+.|+-|
T Consensus 70 ~~~~~~l~~~n~~L~EENN~Lklk 93 (116)
T PF14645_consen 70 GEENQRLRKENQQLEEENNLLKLK 93 (116)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556777888899999999888
No 77
>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.
Probab=34.18 E-value=36 Score=24.02 Aligned_cols=31 Identities=13% Similarity=0.410 Sum_probs=23.8
Q ss_pred cCcceeeeeeccCCCcccccCchhHHHHHHHH
Q 024640 39 CDAEVALIIFSNRGKLYEFCSSPSIMKTLERY 70 (265)
Q Consensus 39 CdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY 70 (265)
|+..-.|+|. |.|..|...++..+.+||+++
T Consensus 47 C~~~P~v~i~-~~~~~y~~v~~~~~~~il~~~ 77 (77)
T cd02980 47 CGLAPVVVVY-PDGVWYGRVTPEDVEEIVEEL 77 (77)
T ss_pred ccCCCEEEEe-CCCeEEccCCHHHHHHHHHhC
Confidence 7766666666 688899988877899998763
No 78
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=33.78 E-value=1e+02 Score=21.31 Aligned_cols=31 Identities=26% Similarity=0.414 Sum_probs=20.9
Q ss_pred hhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 136 KHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 136 ~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
...|.||.+ .+.+|+.+...|..+|..|+..
T Consensus 18 r~~R~RKk~----~~~~Le~~~~~L~~en~~L~~~ 48 (64)
T PF00170_consen 18 RRSRQRKKQ----YIEELEEKVEELESENEELKKE 48 (64)
T ss_dssp HHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHh----hHHHHHHHHHHHHHHHHHHHHH
Confidence 455666643 4467777777777777777766
No 79
>PF09158 MotCF: Bacteriophage T4 MotA, C-terminal; InterPro: IPR015241 Transcription factor MotA is required for the activation of middle promoters in Bacteriophage T4, in addition to phage T4 co-activator AsiA, and sigma-70-containing Escherichia coli RNA polymerase. Phage T4 middle promoters have the sigma70 -10 DNA element, but not the -35 element; instead, they have a MotA box at -30 to which the transcription factor MotA binds []. MotA and AsiA interact with the C-terminal of sigma70 (region 4), which normally binds the -35 element and the beta-flap, thereby diverting sigma70 away from host promoters that require -35 element-binding to phage T4 middle promoters. Transcription factor MotA has two domains: an N-terminal domain required for binding to sigma70, and a C-terminal domain required for binding to the -30 MotA box element in the phage T4 middle promoter. This entry represents the C-terminal domain of MotA factors, which adopts a compact alpha/beta structure comprising three alpha-helices and six beta-strands in the order: alpha1-beta1-beta2-beta3-beta4-alpha2-beta5-beta6-alpha3. In this architecture, the domain's hydrophobic core is at the sheet-helix interface, and the second surface of the beta-sheet is completely exposed. It contains a DNA-binding motif, with a consensus sequence containing nine base pairs (5'-TTTGCTTTA-3'), that appears to bind to various mot boxes, allowing access to the minor groove towards the 5'-end of this sequence and the major groove towards the 3'-end [].; PDB: 1KAF_B.
Probab=33.53 E-value=15 Score=28.87 Aligned_cols=55 Identities=20% Similarity=0.422 Sum_probs=36.7
Q ss_pred ccceeeee-ccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccCchhHHHHHHHHhhcC
Q 024640 4 GRVELKRI-ENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKTLERYHRCS 74 (265)
Q Consensus 4 ~Kv~ikrI-en~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~ 74 (265)
.+|++|.+ +|.+|=.|+|.||-.|+-+ +=...+|.+=.|+-. -.+++++.|...-
T Consensus 18 ~~ie~K~~~~~RSN~~i~f~KRt~Girq---------------fEi~n~G~~RI~gYk-~se~~~~~f~slG 73 (103)
T PF09158_consen 18 DKIEVKEIVIDRSNYEIRFKKRTKGIRQ---------------FEIRNKGEFRIFGYK-MSEEIIKKFTSLG 73 (103)
T ss_dssp HT--EEEEEEETTEEEEEEEEEETTEEE---------------EEEETTSEEEEEEES---HHHHHHHHHTT
T ss_pred cceeeeeeEeeccceEEeeecccCceeE---------------EEEecCCcEEEEEEc-CCHHHHHHHHhcC
Confidence 35788887 7889999999999999622 223578876666532 3577888887653
No 80
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=33.17 E-value=25 Score=34.03 Aligned_cols=60 Identities=17% Similarity=0.247 Sum_probs=49.4
Q ss_pred eeeeccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccCchhHHHHHHHHhhc
Q 024640 8 LKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKTLERYHRC 73 (265)
Q Consensus 8 ikrIen~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~ 73 (265)
|+++-++..-..||.+|+.| ||+++||+.+-+.||...--...|+++.-+.+.-.-|++.
T Consensus 18 i~~~~d~~~ps~~~~~~~~~------~~~~~~~g~~~~~~~~~~~~~~~~~~~~~i~q~~a~~q~~ 77 (412)
T COG5068 18 IQGDSDANIPSNTINRLSPG------ELSQQNDGKFDVMIFDSKHSVRVYSNEEPIEQTKAQLQKF 77 (412)
T ss_pred cccccccCCccccccccCcc------cchhhccCCcccccccccccccccCCcccccccHHHHhhh
Confidence 78888888889999999999 9999999999999998777777787665566666656554
No 81
>PRK00191 tatA twin arginine translocase protein A; Provisional
Probab=33.10 E-value=11 Score=28.47 Aligned_cols=37 Identities=16% Similarity=0.356 Sum_probs=28.0
Q ss_pred hhhcccCcceeeeeeccCCCcccccCchhHHHHHHHHhhcCC
Q 024640 34 ELSVLCDAEVALIIFSNRGKLYEFCSSPSIMKTLERYHRCSF 75 (265)
Q Consensus 34 ELSvLCdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~~ 75 (265)
||-|+. =|+||||+|. ||+++. .++.+.+..|++...
T Consensus 7 ElliI~--vI~lllFGp~-KLP~~~--r~lGk~ir~FK~~~~ 43 (84)
T PRK00191 7 EIGIIV--LLIIVLFGAK-KLPDAA--RSIGRSMRIFKSEVK 43 (84)
T ss_pred HHHHHH--HHHHHHhcch-HHHHHH--HHHHHHHHHHHHHHh
Confidence 555554 3689999998 999997 368999988987543
No 82
>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=31.86 E-value=3.2e+02 Score=23.19 Aligned_cols=55 Identities=20% Similarity=0.254 Sum_probs=40.7
Q ss_pred CCCCCHHHHHHHHHHHHhchhhhhhh--hhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 116 LDPLSTKELEQLEHQLETSLKHVRST--KTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 116 L~~Ls~~EL~qLE~qLe~sL~~IRsr--K~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
...|++++....-+.+.........- -++-+.+++..|+.+...|+.+|..|.++
T Consensus 77 ~~~ltl~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~ 133 (161)
T TIGR02894 77 AGSLTLQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQR 133 (161)
T ss_pred cccCCHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47799999888888887653333221 23456788889999999999999988887
No 83
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=30.88 E-value=1.9e+02 Score=21.53 Aligned_cols=26 Identities=27% Similarity=0.316 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 145 CMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 145 lm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
.+..+|+.|.++...+.+.-..++.+
T Consensus 73 ~~~~~i~~l~~~~~~l~~~l~~~~~~ 98 (106)
T PF01920_consen 73 KLEKEIKKLEKQLKYLEKKLKELKKK 98 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666665555555
No 84
>PHA01750 hypothetical protein
Probab=30.83 E-value=2.1e+02 Score=20.74 Aligned_cols=21 Identities=14% Similarity=0.363 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHhHHHHHh
Q 024640 150 LSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 150 i~~LqkKe~~L~eeN~~L~~k 170 (265)
|++++.|...|++.-+.+++|
T Consensus 51 i~~~kikqDnl~~qv~eik~k 71 (75)
T PHA01750 51 IEELKIKQDELSRQVEEIKRK 71 (75)
T ss_pred HHHHHHhHHHHHHHHHHHHHh
Confidence 333334444444444444444
No 85
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=30.18 E-value=50 Score=26.15 Aligned_cols=27 Identities=37% Similarity=0.331 Sum_probs=21.2
Q ss_pred hhhhhcccCcceeeeeeccCCCcccccC
Q 024640 32 AYELSVLCDAEVALIIFSNRGKLYEFCS 59 (265)
Q Consensus 32 A~ELSvLCdaeValIiFS~~Gkl~ef~S 59 (265)
-.+|-.|-+| +|...||++|++.+|-.
T Consensus 3 l~~Lm~lpGv-~AAg~Fs~~G~l~e~~G 29 (108)
T PF09941_consen 3 LDKLMKLPGV-VAAGEFSDDGKLVEYKG 29 (108)
T ss_pred HHHhhcCCCe-EEEEEECCCCeEEeeec
Confidence 3567777776 46688999999999875
No 86
>PRK11637 AmiB activator; Provisional
Probab=30.16 E-value=3.8e+02 Score=25.74 Aligned_cols=18 Identities=11% Similarity=0.283 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 024640 146 MVDQLSDLQKREQVLLEL 163 (265)
Q Consensus 146 m~~qi~~LqkKe~~L~ee 163 (265)
+..+|.+++++...+.+.
T Consensus 108 l~~eI~~~q~~l~~~~~~ 125 (428)
T PRK11637 108 LNASIAKLEQQQAAQERL 125 (428)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455556666655444444
No 87
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=30.00 E-value=3.5e+02 Score=23.05 Aligned_cols=21 Identities=29% Similarity=0.352 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHhHHHHHh
Q 024640 150 LSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 150 i~~LqkKe~~L~eeN~~L~~k 170 (265)
...+..|-..|+++|..|-.+
T Consensus 160 ~~~~e~k~~~l~~En~~Lv~R 180 (194)
T PF08614_consen 160 LNMLEEKLRKLEEENRELVER 180 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344556777888888888776
No 88
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.84 E-value=1.3e+02 Score=28.04 Aligned_cols=40 Identities=25% Similarity=0.354 Sum_probs=28.4
Q ss_pred CCCCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHh
Q 024640 116 LDPLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELN 164 (265)
Q Consensus 116 L~~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN 164 (265)
-.+||..|-..|+ +||.||.|| .++|+.|+.......++-
T Consensus 8 p~~Ls~~E~~eL~--------~ir~rk~qL-~deIq~Lk~Ei~ev~~ei 47 (395)
T KOG0930|consen 8 PNDLSEEERMELE--------NIRRRKQEL-LDEIQRLKDEIAEVMEEI 47 (395)
T ss_pred CCCCCHHHHHhHH--------HHHHHHHHH-HHHHHHHHHHHHHHHHHh
Confidence 3567877776665 789888877 577888887766655443
No 89
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=29.02 E-value=75 Score=27.07 Aligned_cols=42 Identities=21% Similarity=0.383 Sum_probs=15.2
Q ss_pred HHHHHHHHHhchhhhhhhhhhhHHHHH---HHHHHHHHHHHHHhHHHHHh
Q 024640 124 LEQLEHQLETSLKHVRSTKTQCMVDQL---SDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 124 L~qLE~qLe~sL~~IRsrK~qlm~~qi---~~LqkKe~~L~eeN~~L~~k 170 (265)
|..+|..+..++.+-- +|..+| +.|+-+.+.|.+|-+.|+..
T Consensus 2 LeD~EsklN~AIERna-----lLE~ELdEKE~L~~~~QRLkDE~RDLKqE 46 (166)
T PF04880_consen 2 LEDFESKLNQAIERNA-----LLESELDEKENLREEVQRLKDELRDLKQE 46 (166)
T ss_dssp HHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCH-------------
T ss_pred HHHHHHHHHHHHHHhH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667777776665432 333333 34444555566666666555
No 90
>cd03064 TRX_Fd_NuoE TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes. It is a multisubunit complex with at least 14 core subunits. It catalyzes the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane, providing the proton motive force required for energy-consuming processes. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE core subunit, also called the 24 kD subunit of Complex 1. This subfamily also include formate dehydrogenases, NiFe hydrogenases and NAD-reducing hydrogenases, that contain a NuoE domain. A subset of these proteins contain both NuoE and NuoF in a single chain. NuoF, also called the 51 kD subunit of Complex 1, contains one [4Fe-4S] clu
Probab=28.56 E-value=43 Score=24.18 Aligned_cols=30 Identities=20% Similarity=0.379 Sum_probs=23.3
Q ss_pred ccCcceeeeeeccCCCcccccCchhHHHHHHHH
Q 024640 38 LCDAEVALIIFSNRGKLYEFCSSPSIMKTLERY 70 (265)
Q Consensus 38 LCdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY 70 (265)
.|+-..+++| .|.+|...++..+.+|+++|
T Consensus 51 ~C~~gP~v~v---~g~~y~~vt~~~i~~i~~~~ 80 (80)
T cd03064 51 ACDLAPVMMI---NDDVYGRLTPEKVDAILEAL 80 (80)
T ss_pred cCCCCCEEEE---CCEEECCCCHHHHHHHHHhC
Confidence 3877777777 38899988877899998764
No 91
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=28.33 E-value=3.8e+02 Score=24.97 Aligned_cols=15 Identities=40% Similarity=0.443 Sum_probs=6.5
Q ss_pred HHHHHHHHHHhchhh
Q 024640 123 ELEQLEHQLETSLKH 137 (265)
Q Consensus 123 EL~qLE~qLe~sL~~ 137 (265)
||..||+.-+.....
T Consensus 65 eL~~LE~e~~~l~~e 79 (314)
T PF04111_consen 65 ELEELEKEREELDQE 79 (314)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 444444443333333
No 92
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=28.13 E-value=2.2e+02 Score=22.08 Aligned_cols=53 Identities=15% Similarity=0.076 Sum_probs=27.9
Q ss_pred CCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 118 PLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 118 ~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+++++|+.++=...+..-..+-..-..++.+++..+.++.+.|++.-+.|..+
T Consensus 56 G~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~ 108 (116)
T cd04769 56 GFTLAELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQLLARLDAF 108 (116)
T ss_pred CCCHHHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 38888888876655433111111123455555555555555555555555444
No 93
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=27.97 E-value=2.9e+02 Score=21.51 Aligned_cols=18 Identities=39% Similarity=0.344 Sum_probs=15.7
Q ss_pred hhhhHHHHHHHHHHHHHH
Q 024640 87 TQSTYQEYLRLKTAVELL 104 (265)
Q Consensus 87 ~q~~~~E~~kLk~kie~L 104 (265)
-+.|..||.-||++++.|
T Consensus 7 Wq~w~aEYe~LKEEi~~l 24 (99)
T PF13758_consen 7 WQTWEAEYEGLKEEIEAL 24 (99)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 357888999999999998
No 94
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=27.80 E-value=50 Score=26.99 Aligned_cols=33 Identities=15% Similarity=0.181 Sum_probs=26.1
Q ss_pred CcceeeeeeccCCCcccccCchhHHHHHHHHhhc
Q 024640 40 DAEVALIIFSNRGKLYEFCSSPSIMKTLERYHRC 73 (265)
Q Consensus 40 daeValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~ 73 (265)
+..++-||+ ++|++-+|..+-.+.+|+..|=.+
T Consensus 14 ~~~~vkvv~-~~G~v~~~~~pv~a~evm~~~P~h 46 (181)
T PF14009_consen 14 SAATVKVVH-PDGKVEEFKRPVTAAEVMLENPGH 46 (181)
T ss_pred CCceEEEEc-CCCcEEEeCCCcCHHHHHHHCCCC
Confidence 556666666 799999998666899999998766
No 95
>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain. Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.
Probab=27.64 E-value=1.6e+02 Score=25.71 Aligned_cols=30 Identities=27% Similarity=0.321 Sum_probs=23.1
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 141 TKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 141 rK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
|+-|....+|..|+.--+.|+++|+.|+.-
T Consensus 48 rrlQ~hl~EIR~LKe~NqkLqedNqELRdL 77 (195)
T PF10226_consen 48 RRLQQHLNEIRGLKEVNQKLQEDNQELRDL 77 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566667777778888888888888888765
No 96
>PF01093 Clusterin: Clusterin; InterPro: IPR000753 Clusterin is a vertebrate glycoprotein [], the exact function of which is not yet clear. Clusterin expression is complex, appearing as different forms in different cell compartments. One set of proteins is directed for secretion, and other clusterin species are expressed in the cytoplasm and nucleus. The secretory form of the clusterin protein (sCLU) is targeted to the ER by an initial leader peptide. This ~60kDa pre-sCLU protein is further glycosylated and proteolytically cleaved into alpha- and beta-subunits, held together by disulphide bonds. External sCLU is an 80kDa protein and may act as a molecular chaperone, scavenging denatured proteins outside cells following specific stress-induced injury such as heat shock. sCLU possesses nonspecific binding activity to hydrophobic domains of various proteins in vitro []. A specific nuclear form of CLU (nCLU) acts as a pro-death signal, inhibiting cell growth and survival. The nCLU protein has two coiled-coil domains, one at its N terminus that is unable to bind Ku70, and a C-terminal coiled-coil domain that is uniquely able to associate with Ku70 and is minimally required for cell death. Clusterin is synthesized as a precursor polypeptide of about 400 amino acids which is post-translationally cleaved to form two subunits of about 200 amino acids each. The two subunits are linked by five disulphide bonds to form an antiparallel ladder-like structure []. In each of the mature subunits the five cysteines that are involved in disulphide bonds are clustered in domains of about 30 amino acids located in the central part of the subunits. This entry represents the clusterin precursor and related proteins.; GO: 0008219 cell death
Probab=27.47 E-value=56 Score=32.06 Aligned_cols=55 Identities=18% Similarity=0.344 Sum_probs=26.4
Q ss_pred CCCCCHHHHHHHHHHHHhchhhhhh---------hhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 116 LDPLSTKELEQLEHQLETSLKHVRS---------TKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 116 L~~Ls~~EL~qLE~qLe~sL~~IRs---------rK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
|..||..--.-+..+++.||.-|.. .+.+-|+..++..+++-+.....-+....|
T Consensus 3 Lk~lS~~GekyvdeEik~Al~GvKqMK~~Mek~eeeh~~Lm~tL~k~kk~KeeAl~l~~e~e~k 66 (436)
T PF01093_consen 3 LKELSEQGEKYVDEEIKNALNGVKQMKTMMEKTEEEHKELMKTLEKSKKEKEEALKLANEVEEK 66 (436)
T ss_pred hHHHhHhCchhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444455566666655533 333445555555555433333333444555
No 97
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=27.29 E-value=2.3e+02 Score=24.01 Aligned_cols=49 Identities=27% Similarity=0.348 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHhchhhhhhh----------hhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 122 KELEQLEHQLETSLKHVRST----------KTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 122 ~EL~qLE~qLe~sL~~IRsr----------K~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
.+|..+|..++..-++..+. +..-..+++++|+++....+.+...|+++
T Consensus 125 ~~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ 183 (192)
T PF05529_consen 125 KELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALKKQ 183 (192)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666676666666654322 33455677777777777777777777777
No 98
>PF09798 LCD1: DNA damage checkpoint protein; InterPro: IPR018622 This is a family of proteins which regulate checkpoint kinases. In Schizosaccharomyces pombe (Fission yeast) this protein is called Rad26 and in Saccharomyces cerevisiae (Baker's yeast) it is called LCD1 [].
Probab=27.05 E-value=1.6e+02 Score=30.51 Aligned_cols=48 Identities=21% Similarity=0.270 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhchhhhhhhhhhh---HHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 123 ELEQLEHQLETSLKHVRSTKTQC---MVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 123 EL~qLE~qLe~sL~~IRsrK~ql---m~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+|.+|+++-+.-+...+.+++.+ ..++++.||.-.+.|++|++.|.-.
T Consensus 5 kL~~Lq~ek~~E~~~l~~~~~~lk~~~~~el~~Lk~~vqkLEDEKKFL~nE 55 (654)
T PF09798_consen 5 KLELLQQEKQKERQALKSSVEELKESHEEELNKLKSEVQKLEDEKKFLNNE 55 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35555555555555555555443 4677888888888899998888665
No 99
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=26.59 E-value=1.4e+02 Score=22.99 Aligned_cols=43 Identities=23% Similarity=0.192 Sum_probs=32.9
Q ss_pred CCCCCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 115 DLDPLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 115 dL~~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
...+++.+++ |++.-......+++.|+.+-..+..+|..|...
T Consensus 60 ~~~~l~P~~~-------------i~a~l~~~~~~~~~~L~~~l~~l~~eN~~L~~~ 102 (109)
T PF03980_consen 60 WRHSLTPEED-------------IRAHLAPYKKKEREQLNARLQELEEENEALAEE 102 (109)
T ss_pred CCCCCChHHH-------------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456777654 444555566788899999999999999999988
No 100
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=26.08 E-value=1.6e+02 Score=28.05 Aligned_cols=16 Identities=25% Similarity=0.173 Sum_probs=7.5
Q ss_pred hHHHHHHHHHHHHHHH
Q 024640 90 TYQEYLRLKTAVELLQ 105 (265)
Q Consensus 90 ~~~E~~kLk~kie~Lq 105 (265)
++.|+..|+++++..+
T Consensus 99 L~~Ev~EL~eEl~~~~ 114 (388)
T PF04912_consen 99 LRREVEELKEELEKRK 114 (388)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3444444555444443
No 101
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=25.78 E-value=1.2e+02 Score=21.40 Aligned_cols=26 Identities=23% Similarity=0.366 Sum_probs=20.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 145 CMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 145 lm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
-+..++.+|+++...+.++|..|+.+
T Consensus 21 ~~~~ei~~l~~~i~~l~~e~~~L~~e 46 (80)
T PF04977_consen 21 QLNQEIAELQKEIEELKKENEELKEE 46 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567788888888888888888887
No 102
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=25.75 E-value=4.1e+02 Score=25.07 Aligned_cols=35 Identities=20% Similarity=0.240 Sum_probs=28.6
Q ss_pred hhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 135 LKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 135 L~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
|...|.+ +.-+..+++.|+.+...++..++.||.+
T Consensus 74 L~~sre~-Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~ 108 (319)
T PF09789_consen 74 LSESREQ-NKKLKEEVEELRQKLNEAQGDIKLLREK 108 (319)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHhchHHHHHHH
Confidence 4555654 4566889999999999999999999997
No 103
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=25.66 E-value=3.7e+02 Score=21.94 Aligned_cols=50 Identities=20% Similarity=0.287 Sum_probs=37.1
Q ss_pred CHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 120 STKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 120 s~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
.+.|++.+-.-.|..+++..+. .+.--.+|..|+++...+...|+.|.++
T Consensus 81 ~~~e~qsli~~yE~~~~kLe~e-~~~Kdsei~~Lr~~L~~~~~~n~~Lekr 130 (131)
T PF04859_consen 81 EIQEQQSLIKTYEIVVKKLEAE-LRAKDSEIDRLREKLDELNRANKSLEKR 130 (131)
T ss_pred chHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 3577777777777766665432 3344678889999999999999998876
No 104
>PF04566 RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; InterPro: IPR007646 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 4, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=25.35 E-value=26 Score=24.85 Aligned_cols=31 Identities=35% Similarity=0.583 Sum_probs=23.0
Q ss_pred hhhccchhhhhhhhhcccC-cceeeeeeccCCCc
Q 024640 22 AKRRNGLLKKAYELSVLCD-AEVALIIFSNRGKL 54 (265)
Q Consensus 22 sKRr~GL~KKA~ELSvLCd-aeValIiFS~~Gkl 54 (265)
..||.|.+.+ |.||-+| .+=.+-|+|..|++
T Consensus 23 ~~RR~g~i~~--~vsi~~~~~~~ei~I~tD~GR~ 54 (63)
T PF04566_consen 23 NLRRSGKISK--EVSIVYDIREKEIRINTDAGRL 54 (63)
T ss_dssp HHHHTTSS-T--TSEEEEETTTTEEEEE-SSCEE
T ss_pred HHhhccCCcc--eeEEEEeccCCEEEEEccCCcc
Confidence 4688887666 8899887 45688899999975
No 105
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=25.34 E-value=1.5e+02 Score=28.22 Aligned_cols=36 Identities=19% Similarity=0.253 Sum_probs=26.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHH
Q 024640 113 GEDLDPLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVL 160 (265)
Q Consensus 113 GedL~~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L 160 (265)
...|++.|++|+..|-+. +.-+..++++|+.|...|
T Consensus 23 ~~~~~~~~~~e~~aLr~E------------N~~LKkEN~~Lk~eVerL 58 (420)
T PF07407_consen 23 NHELEGVSIDENFALRME------------NHSLKKENNDLKIEVERL 58 (420)
T ss_pred cccccccchhhhhhHHHH------------hHHHHHHHHHHHHHHHHH
Confidence 346788899988888543 445666777888887777
No 106
>PTZ00370 STEVOR; Provisional
Probab=25.32 E-value=83 Score=29.21 Aligned_cols=27 Identities=7% Similarity=0.399 Sum_probs=20.1
Q ss_pred cccCcceeeeeeccCCCcccccCchhHHHHHHHHhh
Q 024640 37 VLCDAEVALIIFSNRGKLYEFCSSPSIMKTLERYHR 72 (265)
Q Consensus 37 vLCdaeValIiFS~~Gkl~ef~S~~sm~~iLeRY~~ 72 (265)
.||..|. ++| .|-++|.|++|++.|.+
T Consensus 42 ~L~Ecel----~~p-----~YdNDpemK~i~d~~n~ 68 (296)
T PTZ00370 42 LLAQTQN----HNP-----HYHNDPELKEIIDKMNE 68 (296)
T ss_pred ehhhhhc----CCC-----CCCCcHHHHHHHHHHhH
Confidence 4677663 444 47778899999999875
No 107
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=25.05 E-value=3.8e+02 Score=28.18 Aligned_cols=39 Identities=28% Similarity=0.467 Sum_probs=26.2
Q ss_pred HHhchh--hhhhhhhhhHHHHHHHHH-----------HHHHHHHHHhHHHHHh
Q 024640 131 LETSLK--HVRSTKTQCMVDQLSDLQ-----------KREQVLLELNKGLRKK 170 (265)
Q Consensus 131 Le~sL~--~IRsrK~qlm~~qi~~Lq-----------kKe~~L~eeN~~L~~k 170 (265)
.++.|+ ..|.+ .+.+..++++|+ ++|.++.++|..|.++
T Consensus 569 k~nrlkQdear~~-~~~lvqqv~dLR~~L~~~Eq~aarrEd~~R~Ei~~LqrR 620 (961)
T KOG4673|consen 569 KENRLKQDEARER-ESMLVQQVEDLRQTLSKKEQQAARREDMFRGEIEDLQRR 620 (961)
T ss_pred HHhhhhhhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444 33433 345667777776 4578889999999999
No 108
>smart00340 HALZ homeobox associated leucin zipper.
Probab=24.85 E-value=1.1e+02 Score=20.19 Aligned_cols=21 Identities=29% Similarity=0.276 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHhHHHHHh
Q 024640 150 LSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 150 i~~LqkKe~~L~eeN~~L~~k 170 (265)
-+.|++==..|-++|+.|++.
T Consensus 7 Ce~LKrcce~LteeNrRL~ke 27 (44)
T smart00340 7 CELLKRCCESLTEENRRLQKE 27 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 356777778899999999999
No 109
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=24.48 E-value=2.3e+02 Score=26.09 Aligned_cols=25 Identities=32% Similarity=0.336 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHhchhhhhhhhhhh
Q 024640 121 TKELEQLEHQLETSLKHVRSTKTQC 145 (265)
Q Consensus 121 ~~EL~qLE~qLe~sL~~IRsrK~ql 145 (265)
.-+-.+-+.+|+.-|.+.++.|.++
T Consensus 86 ~~q~y~q~s~Leddlsqt~aikeql 110 (333)
T KOG1853|consen 86 RVQFYQQESQLEDDLSQTHAIKEQL 110 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566777888888888777654
No 110
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=24.30 E-value=1.1e+02 Score=24.24 Aligned_cols=26 Identities=27% Similarity=0.413 Sum_probs=22.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 145 CMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 145 lm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
.+..+++.|++....|.|||..|+-.
T Consensus 19 ~l~~el~~lK~~l~~lvEEN~~L~lE 44 (114)
T COG4467 19 VLLAELGGLKQHLGSLVEENTALRLE 44 (114)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHhh
Confidence 35678999999999999999999876
No 111
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=24.12 E-value=4.2e+02 Score=23.31 Aligned_cols=15 Identities=20% Similarity=0.516 Sum_probs=13.2
Q ss_pred cCcceeeeeeccCCC
Q 024640 39 CDAEVALIIFSNRGK 53 (265)
Q Consensus 39 CdaeValIiFS~~Gk 53 (265)
-||.+||+|||.+++
T Consensus 91 rgaqa~vLVFSTTDr 105 (246)
T KOG4252|consen 91 RGAQASVLVFSTTDR 105 (246)
T ss_pred ccccceEEEEecccH
Confidence 589999999999876
No 112
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=24.06 E-value=46 Score=27.52 Aligned_cols=25 Identities=20% Similarity=0.279 Sum_probs=21.3
Q ss_pred hhhcccCcceeeeeeccCCCccccc
Q 024640 34 ELSVLCDAEVALIIFSNRGKLYEFC 58 (265)
Q Consensus 34 ELSvLCdaeValIiFS~~Gkl~ef~ 58 (265)
=+.++|||||-++|-|.+.+-.-||
T Consensus 58 L~tt~~dadvi~~v~~and~~s~f~ 82 (148)
T COG4917 58 LITTLQDADVIIYVHAANDPESRFP 82 (148)
T ss_pred HHHHhhccceeeeeecccCccccCC
Confidence 3678999999999999998877776
No 113
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=24.04 E-value=5.4e+02 Score=26.14 Aligned_cols=25 Identities=32% Similarity=0.352 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 146 MVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 146 m~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+..+..++..+...|.+....|..+
T Consensus 211 L~~q~~e~~~ri~~LEedi~~l~qk 235 (546)
T PF07888_consen 211 LKEQLAEARQRIRELEEDIKTLTQK 235 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444455555555555555444
No 114
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located 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 N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=23.85 E-value=3.4e+02 Score=20.83 Aligned_cols=52 Identities=13% Similarity=0.148 Sum_probs=31.1
Q ss_pred CCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 118 PLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 118 ~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
++|++|+.++-......-..+.. ...++.+++..|..+...|...-..|..+
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~~-~~~~l~~~~~~l~~~i~~l~~~~~~l~~~ 108 (113)
T cd01109 57 GMSIKDIKEYAELRREGDSTIPE-RLELLEEHREELEEQIAELQETLAYLDYK 108 (113)
T ss_pred CCCHHHHHHHHHHHccCCccHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 38899988875544322212222 23566777777777777776666666555
No 115
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=23.39 E-value=39 Score=30.07 Aligned_cols=18 Identities=33% Similarity=0.722 Sum_probs=14.9
Q ss_pred cceeeeeeccCCCccc--cc
Q 024640 41 AEVALIIFSNRGKLYE--FC 58 (265)
Q Consensus 41 aeValIiFS~~Gkl~e--f~ 58 (265)
-|-||-||||+|.|+. |+
T Consensus 4 ydraltvFSPDGhL~QVEYA 23 (249)
T KOG0183|consen 4 YDRALTVFSPDGHLFQVEYA 23 (249)
T ss_pred cccceEEECCCCCEEeeHhH
Confidence 3678999999999986 65
No 116
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=23.35 E-value=5.1e+02 Score=22.67 Aligned_cols=82 Identities=20% Similarity=0.210 Sum_probs=44.6
Q ss_pred ccCchhHHHHHHHHhhcCCCc---------cc-CCCCCcchhhhHHHHHHHHHHHHHHHHhhhhh--c---CCCCCCCCH
Q 024640 57 FCSSPSIMKTLERYHRCSFGA---------HE-ANRPPIETQSTYQEYLRLKTAVELLQRSQRNL--L---GEDLDPLST 121 (265)
Q Consensus 57 f~S~~sm~~iLeRY~~~~~~~---------~~-~~~~~~e~q~~~~E~~kLk~kie~Lq~~~R~l--l---GedL~~Ls~ 121 (265)
|.| +-|..=++|+.+..... .. ......+...|..-+.+.+..++.+.....+| + |.+.--...
T Consensus 60 ~~t-~~l~~E~~R~~~~~~~~~lD~sRY~l~~p~~~~~~d~~~w~~al~na~a~lehq~~R~~NLeLl~~~g~naW~~~n 138 (221)
T PF05700_consen 60 FET-PLLQAELERVASGEPMQGLDMSRYELPPPPSGKSNDVEAWKEALDNAYAQLEHQRLRLENLELLSKYGENAWLIHN 138 (221)
T ss_pred ccc-hhHHHHHHHHHcCCCCCccCHHhcCCCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 443 46777788887652110 00 00011123467777777766666654444432 2 555444556
Q ss_pred HHHHHHHHHHHhchhhhh
Q 024640 122 KELEQLEHQLETSLKHVR 139 (265)
Q Consensus 122 ~EL~qLE~qLe~sL~~IR 139 (265)
..|..+...|+..|..+|
T Consensus 139 ~~Le~~~~~le~~l~~~k 156 (221)
T PF05700_consen 139 EQLEAMLKRLEKELAKLK 156 (221)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 777777777777776664
No 117
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR. SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur cluster activates SoxR. The physiological role in E. coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In E. coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.
Probab=23.24 E-value=3e+02 Score=22.44 Aligned_cols=53 Identities=11% Similarity=0.024 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 118 PLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 118 ~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
++|++|+..+-..+...-...-.....++.+++..+..+...|.+.-..|...
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~ki~~L~~~~~~L~~~ 109 (142)
T TIGR01950 57 GIPLATIGEALAVLPEGRTPTADDWARLSSQWREELDERIDQLNALRDQLDGC 109 (142)
T ss_pred CCCHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 49999999887655432211112223466677777777777777777777666
No 118
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=22.96 E-value=1.6e+02 Score=22.85 Aligned_cols=25 Identities=24% Similarity=0.207 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 146 MVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 146 m~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+..++.+++++...|+++|..|+.+
T Consensus 32 l~~q~~~~~~e~~~l~~~n~~L~~e 56 (105)
T PRK00888 32 VNDQVAAQQQTNAKLKARNDQLFAE 56 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455556666666666666666666
No 119
>PF03428 RP-C: Replication protein C N-terminal domain; InterPro: IPR005090 Proteins in this group have homology with the RepC protein of Agrobacterium Ri and Ti plasmids []. They may be involved in plasmid replication and stabilisation functions.
Probab=22.87 E-value=85 Score=26.92 Aligned_cols=64 Identities=25% Similarity=0.302 Sum_probs=39.4
Q ss_pred cceeeeee--ccCCCcccccCch---------hHHHHHHHHhhcCCCcccCCCCCcchhhhHHHHHHHHHHHHHHHHhhh
Q 024640 41 AEVALIIF--SNRGKLYEFCSSP---------SIMKTLERYHRCSFGAHEANRPPIETQSTYQEYLRLKTAVELLQRSQR 109 (265)
Q Consensus 41 aeValIiF--S~~Gkl~ef~S~~---------sm~~iLeRY~~~~~~~~~~~~~~~e~q~~~~E~~kLk~kie~Lq~~~R 109 (265)
+|.+||+. ||+||=|-.-... ++..++.||....... .....-..+...|+.++..+.+..+
T Consensus 96 veaGLI~rrDS~NgkRy~~R~~~G~I~~A~GfdLsPL~~R~~El~~~a-------~~~~~~~~~~r~lr~~it~~rR~i~ 168 (177)
T PF03428_consen 96 VEAGLIVRRDSPNGKRYARRDRGGRIVEAFGFDLSPLIARAEELAALA-------EAARAERRALRRLRRRITLLRRDIR 168 (177)
T ss_pred HHCCCeeeccCCCCCccCccCCCCCEEeEeCcCHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788988 7899877643221 4678888887653211 1112344455667777777766665
Q ss_pred hh
Q 024640 110 NL 111 (265)
Q Consensus 110 ~l 111 (265)
.+
T Consensus 169 ~l 170 (177)
T PF03428_consen 169 KL 170 (177)
T ss_pred HH
Confidence 54
No 120
>PF15254 CCDC14: Coiled-coil domain-containing protein 14
Probab=22.68 E-value=7.3e+02 Score=26.45 Aligned_cols=77 Identities=29% Similarity=0.284 Sum_probs=35.5
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhhhc------CCCCCCCCHHHHHH----HHHHHHhchhhhhhhhhhhHHHHHHHHHHHH
Q 024640 88 QSTYQEYLRLKTAVELLQRSQRNLL------GEDLDPLSTKELEQ----LEHQLETSLKHVRSTKTQCMVDQLSDLQKRE 157 (265)
Q Consensus 88 q~~~~E~~kLk~kie~Lq~~~R~ll------GedL~~Ls~~EL~q----LE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe 157 (265)
|-++.|-..|+.++..|....|.-. |..=-++-+--|+. |+.||..+++..- ++...-++|-+-.
T Consensus 390 QplrsENaqLrRrLrilnqqlreqe~~~k~~~~~~~n~El~sLqSlN~~Lq~ql~es~k~~e-----~lq~kneellk~~ 464 (861)
T PF15254_consen 390 QPLRSENAQLRRRLRILNQQLREQEKAEKTSGSQDCNLELFSLQSLNMSLQNQLQESLKSQE-----LLQSKNEELLKVI 464 (861)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHhhcccCCCcccchhhHHHHHHHHHHHHHHHHHHHhHH-----HHHHhHHHHHHHH
Confidence 4556666666666666655444311 11101233344444 4455554444322 3333344444444
Q ss_pred HHHHHHhHHHHH
Q 024640 158 QVLLELNKGLRK 169 (265)
Q Consensus 158 ~~L~eeN~~L~~ 169 (265)
..+.+||+.|++
T Consensus 465 e~q~~Enk~~~~ 476 (861)
T PF15254_consen 465 ENQKEENKRLRK 476 (861)
T ss_pred HHHHHHHHHHHH
Confidence 455555555544
No 121
>PHA03155 hypothetical protein; Provisional
Probab=22.67 E-value=1.1e+02 Score=24.54 Aligned_cols=22 Identities=45% Similarity=0.504 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhHHHHHhhhcCCcccCCCCCCccc
Q 024640 150 LSDLQKREQVLLELNKGLRKKAFLGNYTCLTTPPFTQL 187 (265)
Q Consensus 150 i~~LqkKe~~L~eeN~~L~~k~~~~~~~~~~~~~~~~l 187 (265)
+++|..+...|+=||+.|+++ |
T Consensus 10 vEeLaaeL~kL~~ENK~LKkk----------------l 31 (115)
T PHA03155 10 VEELEKELQKLKIENKALKKK----------------L 31 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHH----------------H
No 122
>KOG0182 consensus 20S proteasome, regulatory subunit alpha type PSMA6/SCL1 [Posttranslational modification, protein turnover, chaperones]
Probab=22.45 E-value=39 Score=30.02 Aligned_cols=17 Identities=35% Similarity=0.694 Sum_probs=14.2
Q ss_pred CcceeeeeeccCCCccc
Q 024640 40 DAEVALIIFSNRGKLYE 56 (265)
Q Consensus 40 daeValIiFS~~Gkl~e 56 (265)
+-|--+.||||.|+||.
T Consensus 8 gfDrhitIFspeGrLyQ 24 (246)
T KOG0182|consen 8 GFDRHITIFSPEGRLYQ 24 (246)
T ss_pred CccceEEEECCCceEEe
Confidence 44667899999999987
No 123
>PRK03625 tatE twin arginine translocase protein E; Validated
Probab=21.32 E-value=27 Score=25.28 Aligned_cols=29 Identities=10% Similarity=0.416 Sum_probs=23.0
Q ss_pred eeeeeeccCCCcccccCchhHHHHHHHHhhcC
Q 024640 43 VALIIFSNRGKLYEFCSSPSIMKTLERYHRCS 74 (265)
Q Consensus 43 ValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~ 74 (265)
||||||+|+ ||++... ++.+.+.-|++..
T Consensus 15 I~lllFGpk-KLp~lg~--~lGk~i~~Fk~~~ 43 (67)
T PRK03625 15 LVVLLFGTK-KLRTLGG--DLGAAIKGFKKAM 43 (67)
T ss_pred HHHHHcCcc-HHHHHHH--HHHHHHHHHHHHh
Confidence 688999976 9988873 6888888888753
No 124
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=21.20 E-value=3.1e+02 Score=26.01 Aligned_cols=43 Identities=23% Similarity=0.389 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHhhhhhcCCCCCCCCHHHHHHHHHHHHhchhhhh
Q 024640 91 YQEYLRLKTAVELLQRSQRNLLGEDLDPLSTKELEQLEHQLETSLKHVR 139 (265)
Q Consensus 91 ~~E~~kLk~kie~Lq~~~R~llGedL~~Ls~~EL~qLE~qLe~sL~~IR 139 (265)
.+|...|.++.+.||...+.+. -.++|+..+...--.++++=|
T Consensus 3 ~eEW~eL~~efq~Lqethr~Y~------qKleel~~lQ~~C~ssI~~Qk 45 (330)
T PF07851_consen 3 EEEWEELQKEFQELQETHRSYK------QKLEELSKLQDKCSSSISHQK 45 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHH
Confidence 3466677777777777777655 234455555555444444433
No 125
>COG1826 TatA Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]
Probab=21.10 E-value=31 Score=26.32 Aligned_cols=29 Identities=28% Similarity=0.470 Sum_probs=24.6
Q ss_pred eeeeeeccCCCcccccCchhHHHHHHHHhhcC
Q 024640 43 VALIIFSNRGKLYEFCSSPSIMKTLERYHRCS 74 (265)
Q Consensus 43 ValIiFS~~Gkl~ef~S~~sm~~iLeRY~~~~ 74 (265)
|+||||+ ..||++.. .++.+.|..|++..
T Consensus 15 V~lllfG-pkKLP~l~--r~~G~~i~~fKk~~ 43 (94)
T COG1826 15 VALLVFG-PKKLPEAG--RDLGKAIREFKKAA 43 (94)
T ss_pred HHHHhcC-cchhHHHH--HHHHHHHHHHHHHH
Confidence 7899999 78999987 37999999999853
No 126
>smart00782 PhnA_Zn_Ribbon PhnA Zinc-Ribbon. This protein family includes an uncharacterised member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterised phosphonoacetate hydrolase designated PhnA.
Probab=20.91 E-value=48 Score=22.20 Aligned_cols=21 Identities=24% Similarity=0.610 Sum_probs=16.8
Q ss_pred hhhhhhhhhcccCcceeeeee
Q 024640 28 LLKKAYELSVLCDAEVALIIF 48 (265)
Q Consensus 28 L~KKA~ELSvLCdaeValIiF 48 (265)
|++.+..-+=||+++..|.||
T Consensus 2 L~~Rs~~kCELC~a~~~L~vy 22 (47)
T smart00782 2 LLARCESKCELCGSDSPLVVY 22 (47)
T ss_pred hhHHcCCcccCcCCCCCceEE
Confidence 455566678899999999988
No 127
>PF14263 DUF4354: Domain of unknown function (DUF4354); PDB: 3NRF_B 3SB3_A.
Probab=20.71 E-value=28 Score=28.26 Aligned_cols=44 Identities=25% Similarity=0.363 Sum_probs=31.8
Q ss_pred eccCCCcceehhhhccchhhhhhhhhcccCcceeeeeeccCCCcccccC
Q 024640 11 IENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 59 (265)
Q Consensus 11 Ien~~~RqvTfsKRr~GL~KKA~ELSvLCdaeValIiFS~~Gkl~ef~S 59 (265)
|.++.....||-=.-+.|.++.-+|+-+| ++.|++.||-|-.-+
T Consensus 41 v~~k~~ytktF~V~vaN~s~~~idLsk~C-----f~a~~~~gk~f~ldT 84 (124)
T PF14263_consen 41 VGGKSFYTKTFDVTVANLSDKDIDLSKMC-----FKAYSPDGKEFKLDT 84 (124)
T ss_dssp ETTEEEEEEEEEEEEEE-SSS-EE-TT-E-----EEEEETTS-EEEEEE
T ss_pred ecCccceEEEEEEEEecCCCCccccccch-----hhhccccCCEEEecc
Confidence 45667777888888899999999999886 899999999876643
No 128
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=20.71 E-value=5.3e+02 Score=22.56 Aligned_cols=19 Identities=21% Similarity=0.254 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHhchhhhhh
Q 024640 122 KELEQLEHQLETSLKHVRS 140 (265)
Q Consensus 122 ~EL~qLE~qLe~sL~~IRs 140 (265)
.+|..||......+.++-.
T Consensus 175 ~~L~~Le~~W~~~v~kn~e 193 (221)
T PF05700_consen 175 EELRYLEQRWKELVSKNLE 193 (221)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4677777776666655543
No 129
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=20.62 E-value=78 Score=30.53 Aligned_cols=46 Identities=26% Similarity=0.328 Sum_probs=31.4
Q ss_pred hhhhhcccCcce--eeeeeccCCCcccccC--chhHHHHHHHHhhcCCCc
Q 024640 32 AYELSVLCDAEV--ALIIFSNRGKLYEFCS--SPSIMKTLERYHRCSFGA 77 (265)
Q Consensus 32 A~ELSvLCdaeV--alIiFS~~Gkl~ef~S--~~sm~~iLeRY~~~~~~~ 77 (265)
-+=|||+||-+| |||--..+|==|.-|- -+++++++.-|...+-..
T Consensus 366 ~yalSV~~~~~V~HClIy~tatG~GFa~pyn~y~tlk~lV~hY~h~SLe~ 415 (464)
T KOG4637|consen 366 CYALSVVHDGEVKHCLIYQTATGFGFAEPYNLYSTLKELVLHYQHTSLEQ 415 (464)
T ss_pred ceEEEEEECCceeeeEEeeccccccccchhHHHHHHHHHHHHHhhhhHHh
Confidence 467999999999 6666566774333221 136899999998776443
No 130
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=20.52 E-value=2.4e+02 Score=21.08 Aligned_cols=30 Identities=30% Similarity=0.326 Sum_probs=26.5
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 141 TKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 141 rK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
.|.|-..|.|.-||.....|.+.|..|...
T Consensus 11 ~KIqqAvdtI~LLqmEieELKekn~~L~~e 40 (79)
T PRK15422 11 AKVQQAIDTITLLQMEIEELKEKNNSLSQE 40 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367777899999999999999999999987
No 131
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=20.46 E-value=1.9e+02 Score=19.67 Aligned_cols=17 Identities=41% Similarity=0.380 Sum_probs=10.3
Q ss_pred CCCCCHHHHHHHHHHHH
Q 024640 116 LDPLSTKELEQLEHQLE 132 (265)
Q Consensus 116 L~~Ls~~EL~qLE~qLe 132 (265)
|..+|++||++.-..||
T Consensus 5 Lk~ls~~eL~~rl~~LD 21 (49)
T PF11629_consen 5 LKFLSYEELQQRLASLD 21 (49)
T ss_dssp GGGS-HHHHHHHHHHHH
T ss_pred HhhCCHHHHHHHHHhCC
Confidence 56688888877544443
No 132
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=20.40 E-value=3.8e+02 Score=21.67 Aligned_cols=53 Identities=11% Similarity=0.188 Sum_probs=30.5
Q ss_pred CCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 118 PLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 118 ~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
++|++|+..+-......-...-.....++.+++.+++++...|.+....|...
T Consensus 58 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~ 110 (140)
T PRK09514 58 GFTLEEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQHMRRSLQRL 110 (140)
T ss_pred CCCHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48888888875432111011011223566777777777777777666666555
No 133
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=20.18 E-value=5.7e+02 Score=25.47 Aligned_cols=69 Identities=17% Similarity=0.297 Sum_probs=35.2
Q ss_pred hhHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCHHHHHHHHHHHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHH
Q 024640 89 STYQEYLRLKTAVELLQRSQRNLLGEDLDPLSTKELEQLEHQLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLR 168 (265)
Q Consensus 89 ~~~~E~~kLk~kie~Lq~~~R~llGedL~~Ls~~EL~qLE~qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~ 168 (265)
.+..++..|..+++.|..++..|. +....+..+++.++...| +-+.++.+.|+.....++..-..|.
T Consensus 70 ~~r~~~~~l~~~N~~l~~eN~~L~---------~r~~~id~~i~~av~~~~----~~~~~~~~ql~~~~~~~~~~l~~l~ 136 (472)
T TIGR03752 70 ELRKRLAKLISENEALKAENERLQ---------KREQSIDQQIQQAVQSET----QELTKEIEQLKSERQQLQGLIDQLQ 136 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---------HhhhhHHHHHHHHHHhhh----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555544443321 122334555555555544 3344566666666666666666666
Q ss_pred Hh
Q 024640 169 KK 170 (265)
Q Consensus 169 ~k 170 (265)
++
T Consensus 137 ~~ 138 (472)
T TIGR03752 137 RR 138 (472)
T ss_pred HH
Confidence 65
No 134
>PF12925 APP_E2: E2 domain of amyloid precursor protein; InterPro: IPR024329 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. The E2 domain is the largest of the conserved domains in the amyloidogenic glycoproteins. The structure of E2 consists of two coiled-coil sub-structures connected through a continuous helix, and bears an unexpected resemblance to the spectrin family of protein structures. E2 can reversibly dimerise in solution, and the dimerisation occurs along the longest dimension of the molecule in an antiparallel orientation, which enables the N-terminal substructure of one monomer to pack against the C-terminal substructure of a second monomer. The high degree of conservation of residues at the putative dimer interface suggests that the E2 dimer observed in the crystal could be physiologically relevant. Heparin sulphate proteoglycans, the putative ligands for the precursor present in extracellular matrix, bind to E2 at a conserved and positively charged site near the dimer interface [].; PDB: 3K6B_A 3K66_A 1TKN_A 3NYL_A 3NYJ_A 3UMH_A 3UMK_A 3UMI_A 3QMK_B 3PMR_B ....
Probab=20.17 E-value=5.9e+02 Score=22.23 Aligned_cols=89 Identities=18% Similarity=0.196 Sum_probs=52.7
Q ss_pred hHHHHHHHHhhcCCCcccCCCCCcchhhhHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCHHHHHHHHHHHHhchhhhhhh
Q 024640 62 SIMKTLERYHRCSFGAHEANRPPIETQSTYQEYLRLKTAVELLQRSQRNLLGEDLDPLSTKELEQLEHQLETSLKHVRST 141 (265)
Q Consensus 62 sm~~iLeRY~~~~~~~~~~~~~~~e~q~~~~E~~kLk~kie~Lq~~~R~llGedL~~Ls~~EL~qLE~qLe~sL~~IRsr 141 (265)
....++|.|....... .+ .+.|.+.+.+++.-.+..-.-+ ++|...+|.+.. .|...--.
T Consensus 7 ~~~~~~D~Y~~~~~~~-------~E----h~~f~~Ak~rLe~~hr~r~~~V--------mkeW~eaE~~~~-~l~~~DPk 66 (193)
T PF12925_consen 7 PTSDAVDPYFEHPDPE-------NE----HQRFKEAKERLEEKHRERMTKV--------MKEWSEAEERYK-ELPKADPK 66 (193)
T ss_dssp ----HHHHHHHSSTTS-------TH----HHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHTTT-TSHHHHHH
T ss_pred CCCCCCChHhhcCCCC-------ch----HHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHH-hchhhhhh
Confidence 3557789999875432 12 2344455555554433322211 467777877766 44554445
Q ss_pred hhhhHHHH-HHHHHHHHHHHHHHhHHHHHh
Q 024640 142 KTQCMVDQ-LSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 142 K~qlm~~q-i~~LqkKe~~L~eeN~~L~~k 170 (265)
+.+.+... +...|++...|++++..-++.
T Consensus 67 ~Ae~~k~~m~~rFQ~~v~aLE~e~~~er~q 96 (193)
T PF12925_consen 67 KAEQFKKEMTQRFQKTVQALEQEAAAERQQ 96 (193)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555444 457888999999999999988
No 135
>KOG0837 consensus Transcriptional activator of the JUN family [Transcription]
Probab=20.12 E-value=2.1e+02 Score=26.27 Aligned_cols=48 Identities=23% Similarity=0.315 Sum_probs=31.4
Q ss_pred HHHHHHHHH-HHHhchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 121 TKELEQLEH-QLETSLKHVRSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 121 ~~EL~qLE~-qLe~sL~~IRsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
..|+..||+ .+......-++|| ..++.|..|++|...|.-.|..|-.-
T Consensus 201 ~qe~~kleRkrlrnreaa~Kcr~--rkLdrisrLEdkv~~lk~~n~~L~~~ 249 (279)
T KOG0837|consen 201 DQEKIKLERKRLRNREAASKCRK--RKLDRISRLEDKVKTLKIYNRDLASE 249 (279)
T ss_pred hHHHHHHHHHHhhhHHHHHHHHH--HHHHHHHHHHhhhhhhhhhhhhHHHH
Confidence 355666665 2333333333333 45899999999999998888877655
No 136
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=20.05 E-value=72 Score=19.64 Aligned_cols=24 Identities=21% Similarity=0.443 Sum_probs=17.7
Q ss_pred hhcccCcceeeeeeccCCCccccc
Q 024640 35 LSVLCDAEVALIIFSNRGKLYEFC 58 (265)
Q Consensus 35 LSvLCdaeValIiFS~~Gkl~ef~ 58 (265)
|+--|++-|-+-||...|.+-.|-
T Consensus 3 lcpkcgvgvl~pvy~~kgeikvfr 26 (36)
T PF09151_consen 3 LCPKCGVGVLEPVYNQKGEIKVFR 26 (36)
T ss_dssp B-TTTSSSBEEEEE-TTS-EEEEE
T ss_pred cCCccCceEEEEeecCCCcEEEEE
Confidence 567799999999999999876653
No 137
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=20.01 E-value=3.9e+02 Score=24.41 Aligned_cols=32 Identities=22% Similarity=0.267 Sum_probs=24.5
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHh
Q 024640 139 RSTKTQCMVDQLSDLQKREQVLLELNKGLRKK 170 (265)
Q Consensus 139 RsrK~qlm~~qi~~LqkKe~~L~eeN~~L~~k 170 (265)
+.+.++.|..+|...+.-+..|.++...|+..
T Consensus 184 ~~~~N~~m~kei~~~re~i~el~e~I~~L~~e 215 (258)
T PF15397_consen 184 RTLENQVMQKEIVQFREEIDELEEEIPQLRAE 215 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567777788877777778888888888887
Done!