Query 040096
Match_columns 212
No_of_seqs 201 out of 1593
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 05:05:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040096.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040096hhsearch_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 9E-39 1.9E-43 262.1 6.6 143 1-143 1-172 (195)
2 cd00265 MADS_MEF2_like MEF2 (m 100.0 2.3E-35 5E-40 208.6 5.1 77 2-80 1-77 (77)
3 cd00266 MADS_SRF_like SRF-like 100.0 8.2E-32 1.8E-36 193.1 5.8 74 2-76 1-74 (83)
4 smart00432 MADS MADS domain. 100.0 2.7E-31 5.8E-36 178.0 5.0 59 2-60 1-59 (59)
5 cd00120 MADS MADS: MCM1, Agamo 100.0 2E-30 4.4E-35 173.8 4.5 59 2-60 1-59 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 3.4E-28 7.4E-33 158.0 2.0 51 9-59 1-51 (51)
7 PF01486 K-box: K-box region; 99.8 5.9E-20 1.3E-24 136.1 8.5 95 71-165 1-99 (100)
8 KOG0015 Regulator of arginine 99.8 1.7E-20 3.7E-25 159.5 2.4 66 2-69 63-128 (338)
9 COG5068 ARG80 Regulator of arg 99.5 5.1E-15 1.1E-19 131.3 3.6 67 1-69 81-147 (412)
10 PF10584 Proteasome_A_N: Prote 88.1 0.11 2.5E-06 28.0 -0.5 14 43-56 3-16 (23)
11 PF06698 DUF1192: Protein of u 86.9 1.2 2.5E-05 29.8 3.7 32 107-138 12-43 (59)
12 PF06005 DUF904: Protein of un 82.1 14 0.0003 25.5 8.3 47 116-163 1-47 (72)
13 smart00338 BRLZ basic region l 81.2 10 0.00022 25.2 6.6 39 130-168 15-53 (65)
14 PRK13169 DNA replication intia 81.1 12 0.00027 28.0 7.5 49 118-167 7-55 (110)
15 PF00170 bZIP_1: bZIP transcri 80.8 12 0.00025 24.8 6.8 39 130-168 15-53 (64)
16 PF06156 DUF972: Protein of un 79.5 15 0.00032 27.4 7.5 49 118-167 7-55 (107)
17 cd07429 Cby_like Chibby, a nuc 77.2 3.1 6.7E-05 31.1 3.3 22 145-166 76-97 (108)
18 PF07716 bZIP_2: Basic region 73.8 21 0.00044 22.9 6.6 38 130-167 14-51 (54)
19 PHA03162 hypothetical protein; 73.1 18 0.00039 28.0 6.5 58 83-140 14-75 (135)
20 PHA03155 hypothetical protein; 72.4 22 0.00047 26.8 6.7 59 82-140 8-66 (115)
21 PF05812 Herpes_BLRF2: Herpesv 71.9 13 0.00029 28.2 5.6 57 84-140 5-65 (118)
22 PRK04098 sec-independent trans 70.3 1.8 3.8E-05 34.6 0.5 30 42-75 14-43 (158)
23 PF07106 TBPIP: Tat binding pr 66.5 17 0.00036 28.9 5.5 53 86-142 83-135 (169)
24 PF07888 CALCOCO1: Calcium bin 60.7 63 0.0014 30.9 8.9 35 31-67 78-119 (546)
25 KOG1962 B-cell receptor-associ 59.5 41 0.00089 28.3 6.7 70 95-164 133-209 (216)
26 TIGR02338 gimC_beta prefoldin, 58.6 65 0.0014 23.7 7.1 12 64-75 5-16 (110)
27 PF08317 Spc7: Spc7 kinetochor 54.1 1E+02 0.0022 27.3 8.7 56 111-166 201-262 (325)
28 COG4467 Regulator of replicati 49.6 1.1E+02 0.0024 23.0 6.9 48 118-166 7-54 (114)
29 TIGR03752 conj_TIGR03752 integ 48.9 1.6E+02 0.0036 27.7 9.4 69 87-164 71-139 (472)
30 KOG0709 CREB/ATF family transc 47.4 30 0.00065 32.3 4.4 55 115-169 233-314 (472)
31 PRK09822 lipopolysaccharide co 47.3 11 0.00023 32.2 1.4 39 21-60 120-161 (269)
32 COG2433 Uncharacterized conser 45.9 1.6E+02 0.0034 28.7 8.9 18 119-136 450-467 (652)
33 PF10623 PilI: Plasmid conjuga 45.9 21 0.00046 25.1 2.5 33 42-75 8-42 (83)
34 KOG4603 TBP-1 interacting prot 45.5 58 0.0013 26.5 5.2 24 115-138 115-138 (201)
35 COG4831 Roadblock/LC7 domain [ 44.6 17 0.00037 26.6 1.9 31 30-61 3-33 (109)
36 smart00787 Spc7 Spc7 kinetocho 44.2 1.7E+02 0.0036 26.0 8.5 46 98-143 181-228 (312)
37 PRK11637 AmiB activator; Provi 44.1 2.5E+02 0.0053 25.7 9.9 72 86-166 51-128 (428)
38 PF14645 Chibby: Chibby family 43.6 30 0.00066 26.1 3.2 22 144-165 74-95 (116)
39 KOG4005 Transcription factor X 42.9 97 0.0021 26.6 6.4 14 48-61 29-42 (292)
40 PF10491 Nrf1_DNA-bind: NLS-bi 42.7 42 0.0009 28.1 4.1 47 26-74 35-88 (214)
41 PF10473 CENP-F_leu_zip: Leuci 42.6 1.6E+02 0.0035 23.0 7.3 39 129-167 72-113 (140)
42 PF10211 Ax_dynein_light: Axon 42.4 1E+02 0.0023 25.1 6.5 10 64-73 93-102 (189)
43 PF13870 DUF4201: Domain of un 41.9 1.8E+02 0.0038 23.1 9.4 75 91-168 15-104 (177)
44 PF10504 DUF2452: Protein of u 40.9 1.9E+02 0.0041 23.2 7.4 49 117-165 28-76 (159)
45 PHA02592 52 DNA topisomerase I 40.9 1.6E+02 0.0035 27.5 8.1 44 24-74 283-326 (439)
46 smart00340 HALZ homeobox assoc 38.8 66 0.0014 19.9 3.5 25 144-168 8-32 (44)
47 PF09755 DUF2046: Uncharacteri 38.0 1.7E+02 0.0037 26.0 7.4 35 124-158 107-152 (310)
48 COG4917 EutP Ethanolamine util 37.8 24 0.00052 27.5 1.9 25 35-59 59-83 (148)
49 PF07888 CALCOCO1: Calcium bin 37.2 2.7E+02 0.0059 26.7 9.1 19 146-164 218-236 (546)
50 PF07851 TMPIT: TMPIT-like pro 36.7 2.4E+02 0.0052 25.3 8.2 57 89-151 4-60 (330)
51 KOG2129 Uncharacterized conser 36.2 1.4E+02 0.0031 27.7 6.8 51 112-165 175-225 (552)
52 KOG1853 LIS1-interacting prote 35.4 2.9E+02 0.0062 24.1 8.1 77 89-165 98-181 (333)
53 PF14009 DUF4228: Domain of un 35.2 36 0.00078 26.4 2.7 35 39-74 12-46 (181)
54 KOG4797 Transcriptional regula 34.7 73 0.0016 23.9 3.9 18 144-161 70-87 (123)
55 PF01502 PRA-CH: Phosphoribosy 33.6 5.8 0.00013 27.7 -1.9 36 19-54 20-64 (75)
56 PF09789 DUF2353: Uncharacteri 32.9 3.6E+02 0.0078 24.1 10.7 20 150-169 191-210 (319)
57 PRK10884 SH3 domain-containing 32.9 2.9E+02 0.0062 22.9 8.0 23 87-109 91-113 (206)
58 KOG3119 Basic region leucine z 32.9 2.3E+02 0.0049 24.5 7.4 52 117-168 191-242 (269)
59 PF14818 DUF4482: Domain of un 32.8 2.4E+02 0.0053 22.1 7.2 46 123-168 2-47 (141)
60 PF09941 DUF2173: Uncharacteri 31.6 32 0.0007 25.7 1.7 27 32-59 3-29 (108)
61 PRK15422 septal ring assembly 31.4 1.9E+02 0.0041 20.4 7.3 42 116-158 1-42 (79)
62 PF07926 TPR_MLP1_2: TPR/MLP1/ 31.2 2.3E+02 0.0051 21.4 8.6 21 144-164 108-128 (132)
63 PF04873 EIN3: Ethylene insens 30.9 16 0.00035 32.9 0.0 37 25-61 53-90 (354)
64 PF09726 Macoilin: Transmembra 30.9 1.8E+02 0.0038 28.8 7.1 83 86-168 457-565 (697)
65 COG0139 HisI Phosphoribosyl-AM 30.6 9.6 0.00021 28.6 -1.3 27 27-53 69-95 (111)
66 PF08614 ATG16: Autophagy prot 30.2 3E+02 0.0064 22.3 8.9 23 144-166 161-183 (194)
67 PF01166 TSC22: TSC-22/dip/bun 30.1 39 0.00084 22.4 1.7 18 144-161 17-34 (59)
68 KOG0183 20S proteasome, regula 29.7 29 0.00063 29.2 1.3 16 41-56 4-19 (249)
69 COG5068 ARG80 Regulator of arg 29.1 31 0.00067 31.7 1.5 60 8-74 18-77 (412)
70 PF02416 MttA_Hcf106: mttA/Hcf 28.4 5.5 0.00012 25.8 -2.6 29 43-75 12-40 (53)
71 KOG0184 20S proteasome, regula 28.3 30 0.00065 29.3 1.1 21 36-56 3-23 (254)
72 PF14263 DUF4354: Domain of un 27.8 10 0.00022 29.1 -1.6 42 11-57 41-82 (124)
73 PF15254 CCDC14: Coiled-coil d 27.3 5.3E+02 0.012 26.0 9.4 24 144-167 458-481 (861)
74 PF06751 EutB: Ethanolamine am 27.1 21 0.00046 32.8 0.0 12 196-207 146-157 (444)
75 COG2877 KdsA 3-deoxy-D-manno-o 26.9 31 0.00068 29.6 1.0 65 12-77 57-160 (279)
76 PF07676 PD40: WD40-like Beta 26.9 42 0.0009 19.3 1.3 20 41-60 9-28 (39)
77 PF08687 ASD2: Apx/Shroom doma 26.8 1.9E+02 0.0042 25.0 5.9 44 125-168 77-120 (264)
78 PRK13729 conjugal transfer pil 26.2 2.6E+02 0.0057 26.3 7.0 22 144-165 100-121 (475)
79 PRK15067 ethanolamine ammonia 26.2 29 0.00064 32.1 0.8 12 196-207 156-167 (461)
80 KOG0971 Microtubule-associated 25.7 6.8E+02 0.015 26.0 9.9 54 84-137 327-389 (1243)
81 PF11629 Mst1_SARAH: C termina 25.6 1E+02 0.0022 19.7 2.9 27 112-138 4-34 (49)
82 KOG4252 GTP-binding protein [S 25.6 37 0.0008 28.1 1.1 29 38-74 90-118 (246)
83 TIGR01478 STEVOR variant surfa 25.4 1.1E+02 0.0025 26.8 4.2 45 7-73 25-69 (295)
84 KOG4571 Activating transcripti 25.4 3.1E+02 0.0067 24.2 6.8 41 131-171 238-278 (294)
85 PF04645 DUF603: Protein of un 25.4 1.6E+02 0.0034 24.0 4.6 24 120-143 139-162 (181)
86 PLN03194 putative disease resi 24.4 59 0.0013 26.7 2.1 29 39-69 79-107 (187)
87 cd02980 TRX_Fd_family Thioredo 23.9 60 0.0013 21.6 1.9 30 39-70 47-76 (77)
88 KOG0977 Nuclear envelope prote 23.9 4.4E+02 0.0096 25.4 8.1 89 57-163 79-177 (546)
89 PF12718 Tropomyosin_1: Tropom 23.8 3.5E+02 0.0076 21.0 7.4 13 146-158 113-125 (143)
90 cd02973 TRX_GRX_like Thioredox 23.8 78 0.0017 20.2 2.4 27 43-74 1-27 (67)
91 smart00415 HSF heat shock fact 23.7 53 0.0011 24.0 1.6 39 37-75 12-51 (105)
92 PRK10884 SH3 domain-containing 23.5 4.3E+02 0.0093 21.9 9.1 20 85-104 96-115 (206)
93 PF07106 TBPIP: Tat binding pr 23.4 3.7E+02 0.0079 21.1 8.3 57 111-167 64-135 (169)
94 PF08702 Fib_alpha: Fibrinogen 22.9 1.3E+02 0.0028 23.6 3.8 28 48-75 7-34 (146)
95 PF04849 HAP1_N: HAP1 N-termin 22.9 1.1E+02 0.0024 27.1 3.7 24 143-166 162-185 (306)
96 PF04566 RNA_pol_Rpb2_4: RNA p 22.9 27 0.00058 23.4 -0.1 31 22-54 23-54 (63)
97 KOG0963 Transcription factor/C 22.8 5.8E+02 0.013 25.0 8.6 80 88-167 120-201 (629)
98 cd08888 SRPBCC_PITPNA-B_like L 22.7 97 0.0021 26.8 3.2 33 104-136 223-257 (258)
99 KOG3612 PHD Zn-finger protein 21.9 7.3E+02 0.016 24.0 10.2 73 35-107 404-478 (588)
100 PF06657 Cep57_MT_bd: Centroso 21.9 2.8E+02 0.0062 19.2 6.4 53 86-142 21-73 (79)
101 PF02183 HALZ: Homeobox associ 21.8 36 0.00078 21.2 0.4 24 84-107 14-37 (45)
102 PF14775 NYD-SP28_assoc: Sperm 21.8 2.5E+02 0.0054 18.5 6.2 45 117-166 14-58 (60)
103 PF09755 DUF2046: Uncharacteri 21.5 5.8E+02 0.013 22.7 9.5 22 145-166 258-279 (310)
104 KOG4637 Adaptor for phosphoino 20.9 63 0.0014 29.6 1.8 41 33-75 367-412 (464)
105 TIGR02231 conserved hypothetic 20.9 2.9E+02 0.0063 25.9 6.4 47 114-164 122-168 (525)
106 PF10662 PduV-EutP: Ethanolami 20.4 83 0.0018 24.6 2.2 26 35-60 58-83 (143)
107 PF13252 DUF4043: Protein of u 20.3 51 0.0011 29.6 1.1 29 31-59 270-299 (341)
108 PRK14860 tatA twin arginine tr 20.2 16 0.00034 24.7 -1.6 37 34-76 8-44 (64)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=100.00 E-value=9e-39 Score=262.06 Aligned_cols=143 Identities=39% Similarity=0.644 Sum_probs=117.8
Q ss_pred CCcccceeEEeCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccccCCCcchhHHHHhhhhhcCCccc
Q 040096 1 MGRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYHRQSGRRLW 80 (212)
Q Consensus 1 MgR~Ki~ik~Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s~~~~~~~ileRY~~~~~~~~~ 80 (212)
|||+||+|++|+|.++|||||+|||+||||||+||||||||+||||||||+|++|+|||++.+|.+|++||...+.....
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 99999999999999999999999999999999999999999999999999999999999877799999999886543211
Q ss_pred CC---Cc----------------------cchhHHHHHHHhHhHhhhh---hhcccCCCCCCCCCH-HHHHHHHHHHHHh
Q 040096 81 DP---KH----------------------ENLSNEIERIKRENDRMQI---KLRHLNGEDISSLNP-KELIALEDALENG 131 (212)
Q Consensus 81 ~~---~~----------------------e~l~~el~kLkke~~~Lq~---~lR~l~GedL~~Ls~-~eL~~LE~~Le~~ 131 (212)
.. .. .........++...+.+.. ..+++.|+++.+++. .+|..++.+++.+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~ 160 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS 160 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence 10 00 0112233344444555543 377899999999999 9999999999999
Q ss_pred HHHHHHHHHHHH
Q 040096 132 LVSIRDKQSEKM 143 (212)
Q Consensus 132 L~~VR~rK~~ll 143 (212)
+..+|..+...+
T Consensus 161 ~~~~~~~~~~~~ 172 (195)
T KOG0014|consen 161 LHNSRSSKSKPL 172 (195)
T ss_pred hcCCCCCCCcCC
Confidence 999999887665
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=100.00 E-value=2.3e-35 Score=208.59 Aligned_cols=77 Identities=66% Similarity=1.134 Sum_probs=74.7
Q ss_pred CcccceeEEeCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccccCCCcchhHHHHhhhhhcCCccc
Q 040096 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYHRQSGRRLW 80 (212)
Q Consensus 2 gR~Ki~ik~Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s~~~~~~~ileRY~~~~~~~~~ 80 (212)
||+||+|++|||..+|+|||+||+.||||||.||||||||+||+|||||+|++|+|+||+ +++||+||++.++.++|
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s--~~~vl~ry~~~~~~~~~ 77 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPS--MEKIIERYQKTSGSSLW 77 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCC--HHHHHHHHHhccccccC
Confidence 899999999999999999999999999999999999999999999999999999999987 89999999999988776
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=99.97 E-value=8.2e-32 Score=193.10 Aligned_cols=74 Identities=45% Similarity=0.776 Sum_probs=71.1
Q ss_pred CcccceeEEeCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccccCCCcchhHHHHhhhhhcC
Q 040096 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYHRQSG 76 (212)
Q Consensus 2 gR~Ki~ik~Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s~~~~~~~ileRY~~~~~ 76 (212)
||+||+|++|+|..+|+|||+|||.||||||+||||||||+||+|||||+|+.++||+++. +..++++|...+.
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~-~~~~l~~~~~~~~ 74 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSE-VEGVISRFEVLSA 74 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHH-HHHHHHHHhhcCH
Confidence 8999999999999999999999999999999999999999999999999999999999865 9999999988764
No 4
>smart00432 MADS MADS domain.
Probab=99.97 E-value=2.7e-31 Score=177.97 Aligned_cols=59 Identities=64% Similarity=1.097 Sum_probs=58.2
Q ss_pred CcccceeEEeCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccccCC
Q 040096 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSP 60 (212)
Q Consensus 2 gR~Ki~ik~Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s~ 60 (212)
||+||+|++|+|+.+|++||+||+.||+|||+||||||||+||+|||||+|+++.||||
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 89999999999999999999999999999999999999999999999999999999986
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=99.96 E-value=2e-30 Score=173.81 Aligned_cols=59 Identities=63% Similarity=1.063 Sum_probs=58.0
Q ss_pred CcccceeEEeCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccccCC
Q 040096 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSP 60 (212)
Q Consensus 2 gR~Ki~ik~Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s~ 60 (212)
||+||+|++|+|...|++||+||+.||+|||+||||||||+||+|||||+|+++.||+|
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~ 59 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence 89999999999999999999999999999999999999999999999999999999985
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=99.94 E-value=3.4e-28 Score=158.02 Aligned_cols=51 Identities=49% Similarity=0.875 Sum_probs=47.0
Q ss_pred EEeCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccccC
Q 040096 9 KRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCS 59 (212)
Q Consensus 9 k~Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s 59 (212)
|+|+|.+.|++||+|||.||+|||.|||+||||+||+|||||+|++|.|+|
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=99.81 E-value=5.9e-20 Score=136.10 Aligned_cols=95 Identities=42% Similarity=0.751 Sum_probs=91.5
Q ss_pred hhhhcCCcccCCCccchhHHHHHHHhHhHhhhhhhcccCCCCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHH----HHH
Q 040096 71 YHRQSGRRLWDPKHENLSNEIERIKRENDRMQIKLRHLNGEDISSLNPKELIALEDALENGLVSIRDKQSEKM----ETM 146 (212)
Q Consensus 71 Y~~~~~~~~~~~~~e~l~~el~kLkke~~~Lq~~lR~l~GedL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~ll----~~l 146 (212)
|++.++.+.|+..++.++.++.+|+.+++.|+..+|+++|+||++||++||..||++|+.+|.+||+||+++| +.|
T Consensus 1 Y~~~~~~~~~~~~~e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l 80 (100)
T PF01486_consen 1 YQKQSGTDLWDSQHEELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEEL 80 (100)
T ss_pred CCcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 7888999999999999999999999999999999999999999999999999999999999999999999998 799
Q ss_pred HHhhHHHHHHHHHHHHHHH
Q 040096 147 RKNGKMMEEEHNYLKFVLR 165 (212)
Q Consensus 147 ~kk~~~l~een~~L~~~~~ 165 (212)
++|+..|.++|..|+.++.
T Consensus 81 ~~ke~~l~~en~~L~~~~~ 99 (100)
T PF01486_consen 81 KKKERELEEENNQLRQKIE 99 (100)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 9999999999999998764
No 8
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.79 E-value=1.7e-20 Score=159.50 Aligned_cols=66 Identities=38% Similarity=0.648 Sum_probs=62.3
Q ss_pred CcccceeEEeCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccccCCCcchhHHHH
Q 040096 2 GRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILE 69 (212)
Q Consensus 2 gR~Ki~ik~Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s~~~~~~~ile 69 (212)
||.||+|++|||+..|.|||||||.||||||+|||||+|++|-|+|.|.+|-+|.|++|- ++-||.
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpK--Lep~i~ 128 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPK--LEPMIT 128 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEecccc--cccccc
Confidence 799999999999999999999999999999999999999999999999999999999976 666654
No 9
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.52 E-value=5.1e-15 Score=131.29 Aligned_cols=67 Identities=37% Similarity=0.616 Sum_probs=63.1
Q ss_pred CCcccceeEEeCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccccCCCcchhHHHH
Q 040096 1 MGRGKIEIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILE 69 (212)
Q Consensus 1 MgR~Ki~ik~Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s~~~~~~~ile 69 (212)
|||+||.|..|+|+.+|.|||+||+.||+|||.||+||.|.+|.|+|.|.+|+++.|++|. .+.|+.
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~--~e~v~~ 147 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPK--LESVVK 147 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCc--cccccc
Confidence 7899999999999999999999999999999999999999999999999999999999986 555554
No 10
>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=88.08 E-value=0.11 Score=27.97 Aligned_cols=14 Identities=14% Similarity=0.520 Sum_probs=11.3
Q ss_pred eeeEeecCCCCccc
Q 040096 43 VSLIIYASSGKMHD 56 (212)
Q Consensus 43 valivfS~~gk~~~ 56 (212)
-.+.+|||.|+++.
T Consensus 3 ~~~t~FSp~Grl~Q 16 (23)
T PF10584_consen 3 RSITTFSPDGRLFQ 16 (23)
T ss_dssp SSTTSBBTTSSBHH
T ss_pred CCceeECCCCeEEe
Confidence 45678999999974
No 11
>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=86.95 E-value=1.2 Score=29.76 Aligned_cols=32 Identities=31% Similarity=0.342 Sum_probs=27.5
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHHhHHHHHHH
Q 040096 107 HLNGEDISSLNPKELIALEDALENGLVSIRDK 138 (212)
Q Consensus 107 ~l~GedL~~Ls~~eL~~LE~~Le~~L~~VR~r 138 (212)
+..|+||+.||++||..--..|+.-+.+++.-
T Consensus 12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~ 43 (59)
T PF06698_consen 12 HEIGEDLSLLSVEELEERIALLEAEIARLEAA 43 (59)
T ss_pred cccCCCchhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 67899999999999999888888888777754
No 12
>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=82.14 E-value=14 Score=25.52 Aligned_cols=47 Identities=23% Similarity=0.307 Sum_probs=31.5
Q ss_pred CCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 040096 116 LNPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFV 163 (212)
Q Consensus 116 Ls~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~ 163 (212)
++++-+..||..+..++..|..=++++ +.|+.+...|.++|..|...
T Consensus 1 M~~E~l~~LE~ki~~aveti~~Lq~e~-eeLke~n~~L~~e~~~L~~e 47 (72)
T PF06005_consen 1 MSLELLEQLEEKIQQAVETIALLQMEN-EELKEKNNELKEENEELKEE 47 (72)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhHHHHHHHHHHH
Confidence 478889999999999999998776654 44555544444555555443
No 13
>smart00338 BRLZ basic region leucin zipper.
Probab=81.20 E-value=10 Score=25.17 Aligned_cols=39 Identities=15% Similarity=0.296 Sum_probs=33.8
Q ss_pred HhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 040096 130 NGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQE 168 (212)
Q Consensus 130 ~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~~~ 168 (212)
.+-...|.||...+..|..++..|..+|..|...+....
T Consensus 15 ~aA~~~R~rKk~~~~~Le~~~~~L~~en~~L~~~~~~l~ 53 (65)
T smart00338 15 EAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLR 53 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456678999999999999999999999999999886644
No 14
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=81.06 E-value=12 Score=28.02 Aligned_cols=49 Identities=18% Similarity=0.144 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 040096 118 PKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQ 167 (212)
Q Consensus 118 ~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~~ 167 (212)
++.+.+||+++...+..+.+=|.++.+.+.. ...|.-||..|+..+.+.
T Consensus 7 fd~l~~le~~l~~l~~el~~LK~~~~el~EE-N~~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 7 FDALDDLEQNLGVLLKELGALKKQLAELLEE-NTALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHh
Confidence 4678899999999999999888877655554 344788889998888753
No 15
>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=80.84 E-value=12 Score=24.81 Aligned_cols=39 Identities=21% Similarity=0.268 Sum_probs=33.2
Q ss_pred HhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 040096 130 NGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQE 168 (212)
Q Consensus 130 ~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~~~ 168 (212)
.+-...|.||...+..|..++..|..+|..|...+....
T Consensus 15 ~AAr~~R~RKk~~~~~Le~~~~~L~~en~~L~~~~~~L~ 53 (64)
T PF00170_consen 15 EAARRSRQRKKQYIEELEEKVEELESENEELKKELEQLK 53 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356778999999999999999999999999998776543
No 16
>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=79.48 E-value=15 Score=27.39 Aligned_cols=49 Identities=18% Similarity=0.175 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 040096 118 PKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQ 167 (212)
Q Consensus 118 ~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~~ 167 (212)
++.+..||++|...+..|.+-|.++.+.+.. -..|.-||..|+..+.+.
T Consensus 7 ~~~l~~le~~l~~l~~~~~~LK~~~~~l~EE-N~~L~~EN~~Lr~~l~~~ 55 (107)
T PF06156_consen 7 FDRLDQLEQQLGQLLEELEELKKQLQELLEE-NARLRIENEHLRERLEEL 55 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 4667889999999999888888766554444 344777888888877654
No 17
>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=77.21 E-value=3.1 Score=31.14 Aligned_cols=22 Identities=32% Similarity=0.576 Sum_probs=18.4
Q ss_pred HHHHhhHHHHHHHHHHHHHHHH
Q 040096 145 TMRKNGKMMEEEHNYLKFVLRQ 166 (212)
Q Consensus 145 ~l~kk~~~l~een~~L~~~~~~ 166 (212)
.++++...|+|||+.|+.+++-
T Consensus 76 rlkkk~~~LeEENNlLklKiev 97 (108)
T cd07429 76 RLKKKNQQLEEENNLLKLKIEV 97 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4677889999999999988753
No 18
>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=73.84 E-value=21 Score=22.87 Aligned_cols=38 Identities=18% Similarity=0.294 Sum_probs=31.1
Q ss_pred HhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 040096 130 NGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQ 167 (212)
Q Consensus 130 ~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~~ 167 (212)
.+-.+-|.||..-+..+...+..|..+|..|...+...
T Consensus 14 ~AA~r~R~rkk~~~~~le~~~~~L~~en~~L~~~i~~L 51 (54)
T PF07716_consen 14 EAARRSRQRKKQREEELEQEVQELEEENEQLRQEIAQL 51 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566778888888999999999999999998877543
No 19
>PHA03162 hypothetical protein; Provisional
Probab=73.11 E-value=18 Score=27.98 Aligned_cols=58 Identities=24% Similarity=0.309 Sum_probs=46.4
Q ss_pred CccchhHHHHHHHhHhHhhhhhhcccCCCC----CCCCCHHHHHHHHHHHHHhHHHHHHHHH
Q 040096 83 KHENLSNEIERIKRENDRMQIKLRHLNGED----ISSLNPKELIALEDALENGLVSIRDKQS 140 (212)
Q Consensus 83 ~~e~l~~el~kLkke~~~Lq~~lR~l~Ged----L~~Ls~~eL~~LE~~Le~~L~~VR~rK~ 140 (212)
-.|.|..++.+|+-||..|.+.+++-.|.+ =..|+..+=+.+--..-.+|...-.+|.
T Consensus 14 tmEeLaaeL~kLqmENK~LKkkl~~~~~~~~~p~d~~LTp~qKea~I~s~v~~Lts~A~kKI 75 (135)
T PHA03162 14 TMEDLAAEIAKLQLENKALKKKIKEGTDDDPLPGDPILTPAAKEAMIGAATAALTRQAAKKI 75 (135)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467899999999999999999997765554 2348888888888888888887777763
No 20
>PHA03155 hypothetical protein; Provisional
Probab=72.35 E-value=22 Score=26.82 Aligned_cols=59 Identities=24% Similarity=0.323 Sum_probs=48.1
Q ss_pred CCccchhHHHHHHHhHhHhhhhhhcccCCCCCCCCCHHHHHHHHHHHHHhHHHHHHHHH
Q 040096 82 PKHENLSNEIERIKRENDRMQIKLRHLNGEDISSLNPKELIALEDALENGLVSIRDKQS 140 (212)
Q Consensus 82 ~~~e~l~~el~kLkke~~~Lq~~lR~l~GedL~~Ls~~eL~~LE~~Le~~L~~VR~rK~ 140 (212)
...|.|..++.+|+-||..|.+.+++-.+.+=..|+..+=..+--..-.+|...-++|.
T Consensus 8 ~tvEeLaaeL~kL~~ENK~LKkkl~~~~~p~d~~LT~~qKea~I~s~v~~Lt~~A~~KI 66 (115)
T PHA03155 8 ADVEELEKELQKLKIENKALKKKLLQHGNPEDELLTPAQKDAIINSLVNKLTKKAEEKI 66 (115)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHccCCCCccccCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678999999999999999999977555554779999888888888888887777763
No 21
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=71.95 E-value=13 Score=28.19 Aligned_cols=57 Identities=28% Similarity=0.357 Sum_probs=44.0
Q ss_pred ccchhHHHHHHHhHhHhhhhhhcccCC----CCCCCCCHHHHHHHHHHHHHhHHHHHHHHH
Q 040096 84 HENLSNEIERIKRENDRMQIKLRHLNG----EDISSLNPKELIALEDALENGLVSIRDKQS 140 (212)
Q Consensus 84 ~e~l~~el~kLkke~~~Lq~~lR~l~G----edL~~Ls~~eL~~LE~~Le~~L~~VR~rK~ 140 (212)
.|.|..++.+|+-||..|.+.+++-.| .+=..|+..+=..+--..-.+|...-.+|.
T Consensus 5 ~EeLaaeL~kLqmENk~LKkkl~~~~~p~~~p~~~~LTp~qKe~~I~s~~~~Lss~A~~KI 65 (118)
T PF05812_consen 5 MEELAAELQKLQMENKALKKKLRQSVGPGPSPDDEVLTPAQKEAMITSAVSKLSSQASKKI 65 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTT---S-TT--B--HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccCCCCCCCCccccChHHHHHHHHHHHHHHHHHHHHHH
Confidence 467889999999999999999998887 566779999888888888888887777763
No 22
>PRK04098 sec-independent translocase; Provisional
Probab=70.33 E-value=1.8 Score=34.62 Aligned_cols=30 Identities=10% Similarity=0.242 Sum_probs=22.5
Q ss_pred ceeeEeecCCCCcccccCCCcchhHHHHhhhhhc
Q 040096 42 KVSLIIYASSGKMHDYCSPSTSLVDILEQYHRQS 75 (212)
Q Consensus 42 ~valivfS~~gk~~~~~s~~~~~~~ileRY~~~~ 75 (212)
=||||||.| +|++++.- ++-..+-.+++..
T Consensus 14 vVaLlvfGP-~KLP~~~r---~lGk~ir~~K~~~ 43 (158)
T PRK04098 14 VVAIIFLGP-DKLPQAMV---DIAKFFKAVKKTI 43 (158)
T ss_pred HHHHhhcCc-hHHHHHHH---HHHHHHHHHHHHH
Confidence 378899998 58888864 3777777777654
No 23
>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=66.54 E-value=17 Score=28.88 Aligned_cols=53 Identities=23% Similarity=0.345 Sum_probs=30.7
Q ss_pred chhHHHHHHHhHhHhhhhhhcccCCCCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHH
Q 040096 86 NLSNEIERIKRENDRMQIKLRHLNGEDISSLNPKELIALEDALENGLVSIRDKQSEK 142 (212)
Q Consensus 86 ~l~~el~kLkke~~~Lq~~lR~l~GedL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~l 142 (212)
.++.++..++.++..|+.++..+. ..+|.+||...-..|+.-+..+.+|-..+
T Consensus 83 ~L~~el~~l~~~~k~l~~eL~~L~----~~~t~~el~~~i~~l~~e~~~l~~kL~~l 135 (169)
T PF07106_consen 83 ELREELAELKKEVKSLEAELASLS----SEPTNEELREEIEELEEEIEELEEKLEKL 135 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh----cCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444445554444433 35677777777777777777666664443
No 24
>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=60.68 E-value=63 Score=30.93 Aligned_cols=35 Identities=14% Similarity=0.228 Sum_probs=19.8
Q ss_pred hHHhhhhhcCcceeeEeecC-CC------CcccccCCCcchhHH
Q 040096 31 KAKEITVLCDAKVSLIIYAS-SG------KMHDYCSPSTSLVDI 67 (212)
Q Consensus 31 KA~ELsvLCda~valivfS~-~g------k~~~~~s~~~~~~~i 67 (212)
+|+.|.-.- .+--..+|.. .| .+|.|+.|+ .++.+
T Consensus 78 ~ayyLPk~~-~e~YqfcYv~~~g~V~G~S~pFqf~~~~-p~eeL 119 (546)
T PF07888_consen 78 QAYYLPKDD-DEFYQFCYVDQKGEVRGASTPFQFRAPK-PLEEL 119 (546)
T ss_pred CcccCCCCC-CCeEEEEEECCCccEEEecCCcccCCCC-ccccc
Confidence 577777643 3444445443 44 578898774 34443
No 25
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=59.48 E-value=41 Score=28.28 Aligned_cols=70 Identities=20% Similarity=0.213 Sum_probs=35.0
Q ss_pred HhHhHhhhhhhcccCC-CCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHH------HHHHHhhHHHHHHHHHHHHHH
Q 040096 95 KRENDRMQIKLRHLNG-EDISSLNPKELIALEDALENGLVSIRDKQSEKM------ETMRKNGKMMEEEHNYLKFVL 164 (212)
Q Consensus 95 kke~~~Lq~~lR~l~G-edL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~ll------~~l~kk~~~l~een~~L~~~~ 164 (212)
+++++.++.....-.+ +.=.+-...|+..|+..++..-........+.. +.+.+....|-|+|..|+.++
T Consensus 133 ~~~~~~lk~~~~~~~~~~~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i 209 (216)
T KOG1962|consen 133 MKENEALKKQLENSSKLEEENDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQI 209 (216)
T ss_pred HHHHHHHHHhhhcccchhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHH
Confidence 3456655554433222 111123345667777777666555554444332 344445555566666555543
No 26
>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=58.56 E-value=65 Score=23.69 Aligned_cols=12 Identities=17% Similarity=0.241 Sum_probs=9.1
Q ss_pred hhHHHHhhhhhc
Q 040096 64 LVDILEQYHRQS 75 (212)
Q Consensus 64 ~~~ileRY~~~~ 75 (212)
+..++..|+...
T Consensus 5 ~q~~~~~~q~~q 16 (110)
T TIGR02338 5 VQNQLAQLQQLQ 16 (110)
T ss_pred HHHHHHHHHHHH
Confidence 788888887753
No 27
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=54.10 E-value=1e+02 Score=27.27 Aligned_cols=56 Identities=27% Similarity=0.312 Sum_probs=39.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHH------HHHHHhhHHHHHHHHHHHHHHHH
Q 040096 111 EDISSLNPKELIALEDALENGLVSIRDKQSEKM------ETMRKNGKMMEEEHNYLKFVLRQ 166 (212)
Q Consensus 111 edL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~ll------~~l~kk~~~l~een~~L~~~~~~ 166 (212)
.+++.++.++|..+-..|...-..|.++|..+- ..+..++..+.++-..+...+.+
T Consensus 201 ~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e 262 (325)
T PF08317_consen 201 EEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAE 262 (325)
T ss_pred hhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 358899999999999999999999988887664 34444455555555555555444
No 28
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=49.61 E-value=1.1e+02 Score=22.95 Aligned_cols=48 Identities=15% Similarity=0.105 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 040096 118 PKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQ 166 (212)
Q Consensus 118 ~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~ 166 (212)
++.+..||++|-..+..|-.-|.++-+.... ...|.=||..|+..|.+
T Consensus 7 Fd~v~~le~~l~~l~~el~~lK~~l~~lvEE-N~~L~lENe~LR~RL~~ 54 (114)
T COG4467 7 FDQVDNLEEQLGVLLAELGGLKQHLGSLVEE-NTALRLENEKLRERLGE 54 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hHHHHhhHHHHHHHhCC
Confidence 5778899999999998888877766543333 34466777888877765
No 29
>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=48.88 E-value=1.6e+02 Score=27.65 Aligned_cols=69 Identities=13% Similarity=0.289 Sum_probs=35.4
Q ss_pred hhHHHHHHHhHhHhhhhhhcccCCCCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Q 040096 87 LSNEIERIKRENDRMQIKLRHLNGEDISSLNPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVL 164 (212)
Q Consensus 87 l~~el~kLkke~~~Lq~~lR~l~GedL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~ 164 (212)
+..++..+..+|+.|..++..+. .....+.++++.++...|..=.+-.+.|+.....+...-..|..+|
T Consensus 71 ~r~~~~~l~~~N~~l~~eN~~L~---------~r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~l~~~l 139 (472)
T TIGR03752 71 LRKRLAKLISENEALKAENERLQ---------KREQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQGLIDQLQRRL 139 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH---------HhhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555666666666655544332 1234566777777777665433333444444444444444444444
No 30
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=47.43 E-value=30 Score=32.29 Aligned_cols=55 Identities=20% Similarity=0.202 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHHHHHhHHHHHHHH-------------HHHH--------------HHHHHhhHHHHHHHHHHHHHHHHH
Q 040096 115 SLNPKELIALEDALENGLVSIRDKQ-------------SEKM--------------ETMRKNGKMMEEEHNYLKFVLRQQ 167 (212)
Q Consensus 115 ~Ls~~eL~~LE~~Le~~L~~VR~rK-------------~~ll--------------~~l~kk~~~l~een~~L~~~~~~~ 167 (212)
|.++-+..-|-+.=|..|++||.+- .+.+ ..|++|+..|+..|..|..+|+..
T Consensus 233 G~slPs~lPLTKaEEriLKrvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~kkV~~Le~~N~sLl~qL~kl 312 (472)
T KOG0709|consen 233 GYSLPSKLPLTKAEERILKRVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQKKVEELELSNRSLLAQLKKL 312 (472)
T ss_pred cCcCcccCCchHHHHHHHHHHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHHHHHHHHhhccHHHHHHHHHH
Confidence 5555555556666666777776442 2222 378999999999999999999876
Q ss_pred HH
Q 040096 168 EI 169 (212)
Q Consensus 168 ~~ 169 (212)
+.
T Consensus 313 Qt 314 (472)
T KOG0709|consen 313 QT 314 (472)
T ss_pred HH
Confidence 63
No 31
>PRK09822 lipopolysaccharide core biosynthesis protein; Provisional
Probab=47.29 E-value=11 Score=32.23 Aligned_cols=39 Identities=23% Similarity=0.575 Sum_probs=28.9
Q ss_pred hhhhhchHHHhHHhhhhhcCcc---eeeEeecCCCCcccccCC
Q 040096 21 YSKRRNGILKKAKEITVLCDAK---VSLIIYASSGKMHDYCSP 60 (212)
Q Consensus 21 fsKRr~GL~KKA~ELsvLCda~---valivfS~~gk~~~~~s~ 60 (212)
|.+-|.|++||.. +..||..+ |+-|.||+.++..-|+..
T Consensus 120 ~~~~~~~~~~~~~-~~~L~~~~~~l~~~v~fS~~~r~IGFSkD 161 (269)
T PRK09822 120 YRREKGGFLKKIK-FNILKRVHKALLISVPLSKRGRLAGFCKD 161 (269)
T ss_pred hhhccCchhhhhH-HHHHhhhhhhhEEEeeccccCCceeeeec
Confidence 4445888998874 78888655 455669999998888664
No 32
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=45.90 E-value=1.6e+02 Score=28.73 Aligned_cols=18 Identities=33% Similarity=0.383 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHhHHHHH
Q 040096 119 KELIALEDALENGLVSIR 136 (212)
Q Consensus 119 ~eL~~LE~~Le~~L~~VR 136 (212)
.++..|+..|+..-..++
T Consensus 450 ~eie~L~~~l~~~~r~~~ 467 (652)
T COG2433 450 REIEKLESELERFRREVR 467 (652)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455566666666655555
No 33
>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=45.87 E-value=21 Score=25.13 Aligned_cols=33 Identities=9% Similarity=0.220 Sum_probs=25.4
Q ss_pred ceeeEeecCCC--CcccccCCCcchhHHHHhhhhhc
Q 040096 42 KVSLIIYASSG--KMHDYCSPSTSLVDILEQYHRQS 75 (212)
Q Consensus 42 ~valivfS~~g--k~~~~~s~~~~~~~ileRY~~~~ 75 (212)
.+-|+|+|.+| |++.+.++ .+...++.+|+...
T Consensus 8 rl~VLVv~n~c~~kL~~~~~~-~D~~~i~r~f~Tpd 42 (83)
T PF10623_consen 8 RLQVLVVSNHCERKLFDTKPD-NDPDKIARRFCTPD 42 (83)
T ss_pred eEEEEEEeCCcceeEeecCCC-CCHHHHHhhccCcC
Confidence 46789999998 56666544 68999999998753
No 34
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=45.52 E-value=58 Score=26.52 Aligned_cols=24 Identities=17% Similarity=0.331 Sum_probs=15.4
Q ss_pred CCCHHHHHHHHHHHHHhHHHHHHH
Q 040096 115 SLNPKELIALEDALENGLVSIRDK 138 (212)
Q Consensus 115 ~Ls~~eL~~LE~~Le~~L~~VR~r 138 (212)
-||++|++.=-+.|..-...-|+|
T Consensus 115 ~Lt~eemQe~i~~L~kev~~~~er 138 (201)
T KOG4603|consen 115 ALTTEEMQEEIQELKKEVAGYRER 138 (201)
T ss_pred hcChHHHHHHHHHHHHHHHHHHHH
Confidence 467777776666666665555555
No 35
>COG4831 Roadblock/LC7 domain [Function unknown]
Probab=44.62 E-value=17 Score=26.65 Aligned_cols=31 Identities=16% Similarity=0.233 Sum_probs=22.8
Q ss_pred HhHHhhhhhcCcceeeEeecCCCCcccccCCC
Q 040096 30 KKAKEITVLCDAKVSLIIYASSGKMHDYCSPS 61 (212)
Q Consensus 30 KKA~ELsvLCda~valivfS~~gk~~~~~s~~ 61 (212)
.|-.||--+-+|=+ .=.|||+||+.+|-++-
T Consensus 3 ekLdeLlqi~Gv~A-AGefs~DGkLv~Ykgdm 33 (109)
T COG4831 3 EKLDELLQIKGVMA-AGEFSPDGKLVEYKGDM 33 (109)
T ss_pred hhHHHHhCccceeE-eceeCCCCceEEeeCCC
Confidence 35566766666644 44899999999998864
No 36
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=44.16 E-value=1.7e+02 Score=25.97 Aligned_cols=46 Identities=24% Similarity=0.337 Sum_probs=33.0
Q ss_pred hHhhhhhhcccC--CCCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 040096 98 NDRMQIKLRHLN--GEDISSLNPKELIALEDALENGLVSIRDKQSEKM 143 (212)
Q Consensus 98 ~~~Lq~~lR~l~--GedL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~ll 143 (212)
...|+.+++++. -++++.++.++|..+-..|......|..++..+-
T Consensus 181 ~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~ 228 (312)
T smart00787 181 KDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLE 228 (312)
T ss_pred HHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444332 2478899999999999999988888888877664
No 37
>PRK11637 AmiB activator; Provisional
Probab=44.05 E-value=2.5e+02 Score=25.69 Aligned_cols=72 Identities=13% Similarity=0.160 Sum_probs=36.2
Q ss_pred chhHHHHHHHhHhHhhhhhhcccCCCCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHH------HHHHHhhHHHHHHHHH
Q 040096 86 NLSNEIERIKRENDRMQIKLRHLNGEDISSLNPKELIALEDALENGLVSIRDKQSEKM------ETMRKNGKMMEEEHNY 159 (212)
Q Consensus 86 ~l~~el~kLkke~~~Lq~~lR~l~GedL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~ll------~~l~kk~~~l~een~~ 159 (212)
.++.++..+++++..++.+++. ...+|..++.+|...-..|+....++= ..++.....++++-..
T Consensus 51 ~l~~qi~~~~~~i~~~~~~~~~---------~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~ 121 (428)
T PRK11637 51 SIQQDIAAKEKSVRQQQQQRAS---------LLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAA 121 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555544444443 234566677777766666665543331 3444444444444444
Q ss_pred HHHHHHH
Q 040096 160 LKFVLRQ 166 (212)
Q Consensus 160 L~~~~~~ 166 (212)
++..+..
T Consensus 122 ~~~~l~~ 128 (428)
T PRK11637 122 QERLLAA 128 (428)
T ss_pred HHHHHHH
Confidence 4444443
No 38
>PF14645 Chibby: Chibby family
Probab=43.56 E-value=30 Score=26.10 Aligned_cols=22 Identities=36% Similarity=0.656 Sum_probs=17.9
Q ss_pred HHHHHhhHHHHHHHHHHHHHHH
Q 040096 144 ETMRKNGKMMEEEHNYLKFVLR 165 (212)
Q Consensus 144 ~~l~kk~~~l~een~~L~~~~~ 165 (212)
..++++.+.|+|||+.|+.+++
T Consensus 74 ~~l~~~n~~L~EENN~Lklk~e 95 (116)
T PF14645_consen 74 QRLRKENQQLEEENNLLKLKIE 95 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3477778899999999998764
No 39
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=42.92 E-value=97 Score=26.59 Aligned_cols=14 Identities=29% Similarity=0.413 Sum_probs=7.6
Q ss_pred ecCCCCcccccCCC
Q 040096 48 YASSGKMHDYCSPS 61 (212)
Q Consensus 48 fS~~gk~~~~~s~~ 61 (212)
=||+|.-.-|.+|+
T Consensus 29 g~p~g~s~~~~~~~ 42 (292)
T KOG4005|consen 29 GSPTGSSSGYASSS 42 (292)
T ss_pred CCCCCCCccccCcc
Confidence 34556555565553
No 40
>PF10491 Nrf1_DNA-bind: NLS-binding and DNA-binding and dimerisation domains of Nrf1; InterPro: IPR019525 Nuclear respiratory factor-1 is a transcriptional activator that has been implicated in the nuclear control of respiratory chain expression in vertebrates. The first 26 amino acids of nuclear respiratory factor-1 are required for the binding of dynein light chain. The interaction with dynein light chain is observed for both ewg and Nrf-1, transcription factors that are structurally and functionally similar between humans and Drosophila []. In Drosophila, the erect wing (ewg) protein is required for proper development of the central nervous system and the indirect flight muscles. The fly ewg gene encodes a novel DNA-binding domain that is also found in four genes previously identified in sea urchin, chicken, zebrafish, and human []. The highest level of expression of both ewg and Nrf-1 was found in the central nervous system, somites, first branchial arch, optic vesicle, and otic vesicle. In the mouse Nrf-1 protein, Q8C4C0 from SWISSPROT, there is also an NLS domain at 88-116, and a DNA binding and dimerisation domain at 127-282. Ewg is a site-specific transcriptional activator, and evolutionarily conserved regions of ewg contribute both positively and negatively to transcriptional activity [].
Probab=42.75 E-value=42 Score=28.06 Aligned_cols=47 Identities=13% Similarity=0.227 Sum_probs=37.2
Q ss_pred chHHHh----HHhhhhhcCcceeeEeecCCC---CcccccCCCcchhHHHHhhhhh
Q 040096 26 NGILKK----AKEITVLCDAKVSLIIYASSG---KMHDYCSPSTSLVDILEQYHRQ 74 (212)
Q Consensus 26 ~GL~KK----A~ELsvLCda~valivfS~~g---k~~~~~s~~~~~~~ileRY~~~ 74 (212)
+-|+.| ..|+++=+|-++.|++.+|+- ....|+... ++.|+..|..+
T Consensus 35 ~rllrkl~~~~de~~trvGqqavvl~~~p~kp~~~f~vfGa~p--L~~vv~~~~~~ 88 (214)
T PF10491_consen 35 TRLLRKLRQTIDEYTTRVGQQAVVLCCTPSKPNPVFKVFGAAP--LENVVRNLKPV 88 (214)
T ss_pred HHHHHHHHHHHHHHHHhhhceeEEEEecCCCCCCceeeecchh--HHHHHHHHHHH
Confidence 345555 469999999999999999863 455787755 99999999875
No 41
>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]. There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding
Probab=42.65 E-value=1.6e+02 Score=22.97 Aligned_cols=39 Identities=15% Similarity=0.210 Sum_probs=25.2
Q ss_pred HHhHHHHHHHHHHHH---HHHHHhhHHHHHHHHHHHHHHHHH
Q 040096 129 ENGLVSIRDKQSEKM---ETMRKNGKMMEEEHNYLKFVLRQQ 167 (212)
Q Consensus 129 e~~L~~VR~rK~~ll---~~l~kk~~~l~een~~L~~~~~~~ 167 (212)
+.-|..+|.-|..+. ...+.++..|+--|..+...+...
T Consensus 72 ~~EL~~l~sEk~~L~k~lq~~q~kv~eLE~~~~~~~~~l~~~ 113 (140)
T PF10473_consen 72 ELELDTLRSEKENLDKELQKKQEKVSELESLNSSLENLLQEK 113 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 344556777777776 445555777877777777666543
No 42
>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=42.40 E-value=1e+02 Score=25.08 Aligned_cols=10 Identities=20% Similarity=0.325 Sum_probs=5.0
Q ss_pred hhHHHHhhhh
Q 040096 64 LVDILEQYHR 73 (212)
Q Consensus 64 ~~~ileRY~~ 73 (212)
...++++|+.
T Consensus 93 ~~~~l~~y~~ 102 (189)
T PF10211_consen 93 YRMTLDAYQT 102 (189)
T ss_pred HHHHHHHHHH
Confidence 4445555544
No 43
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=41.90 E-value=1.8e+02 Score=23.13 Aligned_cols=75 Identities=20% Similarity=0.249 Sum_probs=47.6
Q ss_pred HHHHHhHhHhhhhhhcc--cCCCCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHH-------------HHHHHhhHHHHH
Q 040096 91 IERIKRENDRMQIKLRH--LNGEDISSLNPKELIALEDALENGLVSIRDKQSEKM-------------ETMRKNGKMMEE 155 (212)
Q Consensus 91 l~kLkke~~~Lq~~lR~--l~GedL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~ll-------------~~l~kk~~~l~e 155 (212)
...++..+..++..+++ -+|+ +|++-|-.+|.-.-..-..+|.+|-.++. ...+.|...+..
T Consensus 15 ~~~lk~~l~k~~~ql~~ke~lge---~L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~~ 91 (177)
T PF13870_consen 15 NITLKHQLAKLEEQLRQKEELGE---GLHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLSE 91 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcC---cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445555554443 2455 56666666666666666777766655553 467788888888
Q ss_pred HHHHHHHHHHHHH
Q 040096 156 EHNYLKFVLRQQE 168 (212)
Q Consensus 156 en~~L~~~~~~~~ 168 (212)
++..+...+....
T Consensus 92 ~~~~l~~~l~~~~ 104 (177)
T PF13870_consen 92 ELERLKQELKDRE 104 (177)
T ss_pred HHHHHHHHHHHHH
Confidence 8888888775543
No 44
>PF10504 DUF2452: Protein of unknown function (DUF2452); InterPro: IPR019534 This entry contains proteins that have no known function.
Probab=40.95 E-value=1.9e+02 Score=23.19 Aligned_cols=49 Identities=14% Similarity=0.313 Sum_probs=41.5
Q ss_pred CHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 040096 117 NPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLR 165 (212)
Q Consensus 117 s~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~ 165 (212)
+..||..|-++++.+..-+|++=...|..+.+..+.|+++-+.+....+
T Consensus 28 ~~~dlv~la~~iq~Ad~~~~~~t~~kL~~I~eQi~~Lq~QA~~ile~~~ 76 (159)
T PF10504_consen 28 DPFDLVDLAQQIQKADSAMRANTCNKLEVIAEQIRFLQEQARKILEEAE 76 (159)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999999999999999999877787778888888888877766553
No 45
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=40.95 E-value=1.6e+02 Score=27.45 Aligned_cols=44 Identities=14% Similarity=0.280 Sum_probs=30.6
Q ss_pred hhchHHHhHHhhhhhcCcceeeEeecCCCCcccccCCCcchhHHHHhhhhh
Q 040096 24 RRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYHRQ 74 (212)
Q Consensus 24 Rr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s~~~~~~~ileRY~~~ 74 (212)
--++|+|+- .|.+- .-+-+++|+++|++..|.+ +.+||..|-.+
T Consensus 283 ~~~~L~k~~-~L~~~--~~~Nm~~~d~~g~~~~~~~----~~~Il~~f~~~ 326 (439)
T PHA02592 283 THEKIMKDF-GLIER--VSQNITVINENGKLKVYEN----AEDLIRDFVEI 326 (439)
T ss_pred HHHHHHHhc-Cchhe--eeeeEEEEecCCeeeecCC----HHHHHHHHHHH
Confidence 345777653 33222 2366788999999999954 99999988664
No 46
>smart00340 HALZ homeobox associated leucin zipper.
Probab=38.76 E-value=66 Score=19.93 Aligned_cols=25 Identities=16% Similarity=0.271 Sum_probs=20.1
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHH
Q 040096 144 ETMRKNGKMMEEEHNYLKFVLRQQE 168 (212)
Q Consensus 144 ~~l~kk~~~l~een~~L~~~~~~~~ 168 (212)
+.|++=-..|.+||+.|+..+.+..
T Consensus 8 e~LKrcce~LteeNrRL~ke~~eLr 32 (44)
T smart00340 8 ELLKRCCESLTEENRRLQKEVQELR 32 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777889999999999887653
No 47
>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain.
Probab=38.02 E-value=1.7e+02 Score=25.99 Aligned_cols=35 Identities=23% Similarity=0.361 Sum_probs=20.5
Q ss_pred HHHHHHHhHHHHHHHHHHHH-----------HHHHHhhHHHHHHHH
Q 040096 124 LEDALENGLVSIRDKQSEKM-----------ETMRKNGKMMEEEHN 158 (212)
Q Consensus 124 LE~~Le~~L~~VR~rK~~ll-----------~~l~kk~~~l~een~ 158 (212)
|-..|...|..+|.-|.++= ..|.++...|+.+-.
T Consensus 107 ltn~L~rkl~qLr~EK~~lE~~Le~EqE~~V~kL~k~i~~Le~e~~ 152 (310)
T PF09755_consen 107 LTNDLSRKLNQLRQEKVELENQLEQEQEYLVNKLQKKIERLEKEKS 152 (310)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 44566667777777765442 356666666654433
No 48
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=37.83 E-value=24 Score=27.54 Aligned_cols=25 Identities=28% Similarity=0.323 Sum_probs=21.4
Q ss_pred hhhhcCcceeeEeecCCCCcccccC
Q 040096 35 ITVLCDAKVSLIIYASSGKMHDYCS 59 (212)
Q Consensus 35 LsvLCda~valivfS~~gk~~~~~s 59 (212)
++++|||||-++|-|-+.+..-|++
T Consensus 59 ~tt~~dadvi~~v~~and~~s~f~p 83 (148)
T COG4917 59 ITTLQDADVIIYVHAANDPESRFPP 83 (148)
T ss_pred HHHhhccceeeeeecccCccccCCc
Confidence 6789999999999999988777754
No 49
>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=37.18 E-value=2.7e+02 Score=26.74 Aligned_cols=19 Identities=21% Similarity=0.150 Sum_probs=8.9
Q ss_pred HHHhhHHHHHHHHHHHHHH
Q 040096 146 MRKNGKMMEEEHNYLKFVL 164 (212)
Q Consensus 146 l~kk~~~l~een~~L~~~~ 164 (212)
+..++..|+++...|..+.
T Consensus 218 ~~~ri~~LEedi~~l~qk~ 236 (546)
T PF07888_consen 218 ARQRIRELEEDIKTLTQKE 236 (546)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444445555555444443
No 50
>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=36.71 E-value=2.4e+02 Score=25.32 Aligned_cols=57 Identities=19% Similarity=0.302 Sum_probs=34.2
Q ss_pred HHHHHHHhHhHhhhhhhcccCCCCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhH
Q 040096 89 NEIERIKRENDRMQIKLRHLNGEDISSLNPKELIALEDALENGLVSIRDKQSEKMETMRKNGK 151 (212)
Q Consensus 89 ~el~kLkke~~~Lq~~lR~l~GedL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~ 151 (212)
+|.+.|.++-..|+...+.+.. .++|+..+...--.++++-+.|=..+..++++-..
T Consensus 4 eEW~eL~~efq~Lqethr~Y~q------Kleel~~lQ~~C~ssI~~QkkrLk~L~~sLk~~~~ 60 (330)
T PF07851_consen 4 EEWEELQKEFQELQETHRSYKQ------KLEELSKLQDKCSSSISHQKKRLKELKKSLKRCKK 60 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4555666666666665554432 46677777777777777666554455566665533
No 51
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=36.21 E-value=1.4e+02 Score=27.71 Aligned_cols=51 Identities=24% Similarity=0.236 Sum_probs=27.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 040096 112 DISSLNPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLR 165 (212)
Q Consensus 112 dL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~ 165 (212)
++...++++|+.=--+|++.|.. ....|...|=|+...|+.|.++|..++.
T Consensus 175 ~~kq~~leQLRre~V~lentlEQ---EqEalvN~LwKrmdkLe~ekr~Lq~KlD 225 (552)
T KOG2129|consen 175 LLKQNTLEQLRREAVQLENTLEQ---EQEALVNSLWKRMDKLEQEKRYLQKKLD 225 (552)
T ss_pred HHhhhhHHHHHHHHHHHhhHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455566665544444444431 2223335566666677777777777663
No 52
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=35.36 E-value=2.9e+02 Score=24.09 Aligned_cols=77 Identities=16% Similarity=0.216 Sum_probs=39.1
Q ss_pred HHHHHHHhHhHhhhhhhcccCC--CCCCC---CCHHHHHHHHHHHHHhHHHHHHHHHHHH--HHHHHhhHHHHHHHHHHH
Q 040096 89 NEIERIKRENDRMQIKLRHLNG--EDISS---LNPKELIALEDALENGLVSIRDKQSEKM--ETMRKNGKMMEEEHNYLK 161 (212)
Q Consensus 89 ~el~kLkke~~~Lq~~lR~l~G--edL~~---Ls~~eL~~LE~~Le~~L~~VR~rK~~ll--~~l~kk~~~l~een~~L~ 161 (212)
.++..++...+.+++.+|.+.- ++|+- -++=-|.++|+.|..++.++-----+|- +.+-..+..|.+|-+.|+
T Consensus 98 ddlsqt~aikeql~kyiReLEQaNDdLErakRati~sleDfeqrLnqAIErnAfLESELdEke~llesvqRLkdEardlr 177 (333)
T KOG1853|consen 98 DDLSQTHAIKEQLRKYIRELEQANDDLERAKRATIYSLEDFEQRLNQAIERNAFLESELDEKEVLLESVQRLKDEARDLR 177 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555555421 23321 2333456677777777765432222222 233344555777777777
Q ss_pred HHHH
Q 040096 162 FVLR 165 (212)
Q Consensus 162 ~~~~ 165 (212)
..|.
T Consensus 178 qela 181 (333)
T KOG1853|consen 178 QELA 181 (333)
T ss_pred HHHH
Confidence 7653
No 53
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=35.21 E-value=36 Score=26.42 Aligned_cols=35 Identities=9% Similarity=0.330 Sum_probs=26.0
Q ss_pred cCcceeeEeecCCCCcccccCCCcchhHHHHhhhhh
Q 040096 39 CDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYHRQ 74 (212)
Q Consensus 39 Cda~valivfS~~gk~~~~~s~~~~~~~ileRY~~~ 74 (212)
|+...++-|..++|++-+|..| .++.+|+..|=.+
T Consensus 12 ~~~~~~vkvv~~~G~v~~~~~p-v~a~evm~~~P~h 46 (181)
T PF14009_consen 12 SSSAATVKVVHPDGKVEEFKRP-VTAAEVMLENPGH 46 (181)
T ss_pred cCCCceEEEEcCCCcEEEeCCC-cCHHHHHHHCCCC
Confidence 3444455555589999999887 8999999988544
No 54
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=34.65 E-value=73 Score=23.91 Aligned_cols=18 Identities=22% Similarity=0.422 Sum_probs=8.0
Q ss_pred HHHHHhhHHHHHHHHHHH
Q 040096 144 ETMRKNGKMMEEEHNYLK 161 (212)
Q Consensus 144 ~~l~kk~~~l~een~~L~ 161 (212)
+.|+.+++.|++.|..|.
T Consensus 70 e~Lk~qI~eL~er~~~Le 87 (123)
T KOG4797|consen 70 EVLKEQIRELEERNSALE 87 (123)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444444444443
No 55
>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=33.60 E-value=5.8 Score=27.72 Aligned_cols=36 Identities=31% Similarity=0.475 Sum_probs=27.2
Q ss_pred hhhhhhhchHHH---------hHHhhhhhcCcceeeEeecCCCCc
Q 040096 19 VTYSKRRNGILK---------KAKEITVLCDAKVSLIIYASSGKM 54 (212)
Q Consensus 19 vtfsKRr~GL~K---------KA~ELsvLCda~valivfS~~gk~ 54 (212)
+-||+-|++|-. ++.|+.+-||.|+-|+.+-|.|..
T Consensus 20 ~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~a 64 (75)
T PF01502_consen 20 TYYSRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGPA 64 (75)
T ss_dssp EEEETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-S
T ss_pred EEEEccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCCC
Confidence 336777777744 567899999999999999999983
No 56
>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=32.93 E-value=3.6e+02 Score=24.08 Aligned_cols=20 Identities=30% Similarity=0.242 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 040096 150 GKMMEEEHNYLKFVLRQQEI 169 (212)
Q Consensus 150 ~~~l~een~~L~~~~~~~~~ 169 (212)
+..|--||++|...+.+.+.
T Consensus 191 IDaLi~ENRyL~erl~q~qe 210 (319)
T PF09789_consen 191 IDALIMENRYLKERLKQLQE 210 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 55678889999888876553
No 57
>PRK10884 SH3 domain-containing protein; Provisional
Probab=32.86 E-value=2.9e+02 Score=22.94 Aligned_cols=23 Identities=13% Similarity=0.346 Sum_probs=13.5
Q ss_pred hhHHHHHHHhHhHhhhhhhcccC
Q 040096 87 LSNEIERIKRENDRMQIKLRHLN 109 (212)
Q Consensus 87 l~~el~kLkke~~~Lq~~lR~l~ 109 (212)
+...+..++.+++.++.++..+.
T Consensus 91 ~~~rlp~le~el~~l~~~l~~~~ 113 (206)
T PRK10884 91 LRTRVPDLENQVKTLTDKLNNID 113 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666666555443
No 58
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=32.85 E-value=2.3e+02 Score=24.49 Aligned_cols=52 Identities=19% Similarity=0.213 Sum_probs=40.3
Q ss_pred CHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 040096 117 NPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQE 168 (212)
Q Consensus 117 s~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~~~ 168 (212)
.-++-......=..++.+=|.+..+....+..++..|+.||..|+..+.+..
T Consensus 191 ~~~~y~err~rNN~A~~kSR~~~k~~~~e~~~r~~~leken~~lr~~v~~l~ 242 (269)
T KOG3119|consen 191 KDPEYKERRRRNNEAVRKSRDKRKQKEDEMAHRVAELEKENEALRTQVEQLK 242 (269)
T ss_pred CCHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666777777777777778899999999999999999987754
No 59
>PF14818 DUF4482: Domain of unknown function (DUF4482)
Probab=32.81 E-value=2.4e+02 Score=22.09 Aligned_cols=46 Identities=11% Similarity=0.149 Sum_probs=36.2
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 040096 123 ALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQE 168 (212)
Q Consensus 123 ~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~~~ 168 (212)
+|..+|+.+=+.=..-|++||+.+.+.-+..+..-+.|.+++++.+
T Consensus 2 DL~~ql~~~EknW~rEk~ELLdrfd~ER~eWE~Q~kemq~kieql~ 47 (141)
T PF14818_consen 2 DLRWQLQHSEKNWSREKMELLDRFDRERQEWEQQWKEMQRKIEQLQ 47 (141)
T ss_pred cHhHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667787777777788899998888877777777788888887754
No 60
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=31.55 E-value=32 Score=25.72 Aligned_cols=27 Identities=15% Similarity=0.224 Sum_probs=21.2
Q ss_pred HHhhhhhcCcceeeEeecCCCCcccccC
Q 040096 32 AKEITVLCDAKVSLIIYASSGKMHDYCS 59 (212)
Q Consensus 32 A~ELsvLCda~valivfS~~gk~~~~~s 59 (212)
-.+|..|-||-+ ...||++|++.+|-.
T Consensus 3 l~~Lm~lpGv~A-Ag~Fs~~G~l~e~~G 29 (108)
T PF09941_consen 3 LDKLMKLPGVVA-AGEFSDDGKLVEYKG 29 (108)
T ss_pred HHHhhcCCCeEE-EEEECCCCeEEeeec
Confidence 456777778754 558999999999876
No 61
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=31.41 E-value=1.9e+02 Score=20.40 Aligned_cols=42 Identities=17% Similarity=0.247 Sum_probs=27.7
Q ss_pred CCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHH
Q 040096 116 LNPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHN 158 (212)
Q Consensus 116 Ls~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~ 158 (212)
+|++=|..||..+..++..|--=++++ +.|+.+-..|.+++.
T Consensus 1 MS~EvleqLE~KIqqAvdtI~LLqmEi-eELKekn~~L~~e~~ 42 (79)
T PRK15422 1 MSLEVFEKLEAKVQQAIDTITLLQMEI-EELKEKNNSLSQEVQ 42 (79)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence 477888999999999999887666543 444444444444333
No 62
>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=31.23 E-value=2.3e+02 Score=21.40 Aligned_cols=21 Identities=14% Similarity=0.199 Sum_probs=12.9
Q ss_pred HHHHHhhHHHHHHHHHHHHHH
Q 040096 144 ETMRKNGKMMEEEHNYLKFVL 164 (212)
Q Consensus 144 ~~l~kk~~~l~een~~L~~~~ 164 (212)
..++++...|...|..|..+|
T Consensus 108 ~~~~~r~~dL~~QN~lLh~Ql 128 (132)
T PF07926_consen 108 SELEQRIEDLNEQNKLLHDQL 128 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666665554
No 63
>PF04873 EIN3: Ethylene insensitive 3; InterPro: IPR006957 Ethylene insensitive 3 (EIN3) proteins are a family of plant DNA-binding proteins that regulate transcription in response to the gaseous plant hormone ethylene, and are essential for ethylene-mediated responses. In the presence of ethylene, dark-grown dicotyledonous seedlings undergo dramatic morphological changes collectively known as the 'triple response'. In Arabidopsis, these changes consist of a radial swelling of the hypocotyl, an exaggeration in the curvature of the apical hook, and the inhibition of cell elongation in the hypocotyl and root.; GO: 0005634 nucleus; PDB: 1WIJ_A.
Probab=30.92 E-value=16 Score=32.94 Aligned_cols=37 Identities=41% Similarity=0.444 Sum_probs=0.0
Q ss_pred hchHHHhHHhhhhhcCcceee-EeecCCCCcccccCCC
Q 040096 25 RNGILKKAKEITVLCDAKVSL-IIYASSGKMHDYCSPS 61 (212)
Q Consensus 25 r~GL~KKA~ELsvLCda~val-ivfS~~gk~~~~~s~~ 61 (212)
-.||+|=+.=..-||+|..++ =+.|++||+.+|+|++
T Consensus 53 qd~ilkym~~~m~~~n~~gfvy~~~~~~~k~~~~~s~s 90 (354)
T PF04873_consen 53 QDGILKYMFPEMELCNAPGFVYTIISSSGKPVEGVSPS 90 (354)
T ss_dssp --------------------------------------
T ss_pred hhHHHHhhccccccccCceeeecCCCCCCCccCCcCCc
Confidence 357777777789999999999 8899999999999987
No 64
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=30.89 E-value=1.8e+02 Score=28.84 Aligned_cols=83 Identities=29% Similarity=0.431 Sum_probs=46.1
Q ss_pred chhHHHHHHHhHhHhhhhhhcccCC---CC---CCCC--CHHHHHHHHHHHHHhHHHHHHHHHHH---------------
Q 040096 86 NLSNEIERIKRENDRMQIKLRHLNG---ED---ISSL--NPKELIALEDALENGLVSIRDKQSEK--------------- 142 (212)
Q Consensus 86 ~l~~el~kLkke~~~Lq~~lR~l~G---ed---L~~L--s~~eL~~LE~~Le~~L~~VR~rK~~l--------------- 142 (212)
.+..++..++.+++.|+..+-.+.- .| +..| .+.|.+..-..+|.-|..-|..|.+-
T Consensus 457 ~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~~~R~~lEkQL~eErk~r~~ee~~aar~~~~~~~~r 536 (697)
T PF09726_consen 457 SLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEERRQRASLEKQLQEERKARKEEEEKAARALAQAQATR 536 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhccccchhcc
Confidence 4555667777777777665432210 01 1111 13333444444556666666443221
Q ss_pred ---HHHHHHhhHHHHHHHHHHHHHHHHHH
Q 040096 143 ---METMRKNGKMMEEEHNYLKFVLRQQE 168 (212)
Q Consensus 143 ---l~~l~kk~~~l~een~~L~~~~~~~~ 168 (212)
=+.++.+.+.|+.|-..|+..+...+
T Consensus 537 ~e~~e~~r~r~~~lE~E~~~lr~elk~ke 565 (697)
T PF09726_consen 537 QECAESCRQRRRQLESELKKLRRELKQKE 565 (697)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 14688888999999999998875543
No 65
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=30.60 E-value=9.6 Score=28.60 Aligned_cols=27 Identities=30% Similarity=0.482 Sum_probs=22.4
Q ss_pred hHHHhHHhhhhhcCcceeeEeecCCCC
Q 040096 27 GILKKAKEITVLCDAKVSLIIYASSGK 53 (212)
Q Consensus 27 GL~KKA~ELsvLCda~valivfS~~gk 53 (212)
|=+-|+.|+.+=||.|+-++++.+.|.
T Consensus 69 G~~q~v~~i~~DCD~Dall~~V~q~gg 95 (111)
T COG0139 69 GHTQKVVEIRLDCDGDALLLLVEQIGG 95 (111)
T ss_pred CceEEEEEEEcCCCCCEEEEEEEeCCC
Confidence 445567899999999999999999663
No 66
>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=30.18 E-value=3e+02 Score=22.26 Aligned_cols=23 Identities=22% Similarity=0.169 Sum_probs=17.2
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHH
Q 040096 144 ETMRKNGKMMEEEHNYLKFVLRQ 166 (212)
Q Consensus 144 ~~l~kk~~~l~een~~L~~~~~~ 166 (212)
..+..+...|++||..|-..+..
T Consensus 161 ~~~e~k~~~l~~En~~Lv~Rwm~ 183 (194)
T PF08614_consen 161 NMLEEKLRKLEEENRELVERWMQ 183 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888899999888765543
No 67
>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=30.13 E-value=39 Score=22.44 Aligned_cols=18 Identities=22% Similarity=0.374 Sum_probs=11.3
Q ss_pred HHHHHhhHHHHHHHHHHH
Q 040096 144 ETMRKNGKMMEEEHNYLK 161 (212)
Q Consensus 144 ~~l~kk~~~l~een~~L~ 161 (212)
+.|+.++..|++.|..|.
T Consensus 17 evLK~~I~eL~~~n~~Le 34 (59)
T PF01166_consen 17 EVLKEQIAELEERNSQLE 34 (59)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 566666666666666554
No 68
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=29.72 E-value=29 Score=29.23 Aligned_cols=16 Identities=13% Similarity=0.455 Sum_probs=13.5
Q ss_pred cceeeEeecCCCCccc
Q 040096 41 AKVSLIIYASSGKMHD 56 (212)
Q Consensus 41 a~valivfS~~gk~~~ 56 (212)
-|-||-||||+|.++.
T Consensus 4 ydraltvFSPDGhL~Q 19 (249)
T KOG0183|consen 4 YDRALTVFSPDGHLFQ 19 (249)
T ss_pred cccceEEECCCCCEEe
Confidence 4678999999999874
No 69
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=29.13 E-value=31 Score=31.65 Aligned_cols=60 Identities=18% Similarity=0.260 Sum_probs=47.2
Q ss_pred eEEeCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccccCCCcchhHHHHhhhhh
Q 040096 8 IKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYHRQ 74 (212)
Q Consensus 8 ik~Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s~~~~~~~ileRY~~~ 74 (212)
|+++-+...-..||.+|+.| ||+++||+.+-+.||....-...|.++ ..+.+.-+-|+..
T Consensus 18 i~~~~d~~~ps~~~~~~~~~------~~~~~~~g~~~~~~~~~~~~~~~~~~~-~~i~q~~a~~q~~ 77 (412)
T COG5068 18 IQGDSDANIPSNTINRLSPG------ELSQQNDGKFDVMIFDSKHSVRVYSNE-EPIEQTKAQLQKF 77 (412)
T ss_pred cccccccCCccccccccCcc------cchhhccCCcccccccccccccccCCc-ccccccHHHHhhh
Confidence 77888888888999999999 999999999999888877777777665 3455555555554
No 70
>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=28.36 E-value=5.5 Score=25.78 Aligned_cols=29 Identities=17% Similarity=0.470 Sum_probs=21.3
Q ss_pred eeeEeecCCCCcccccCCCcchhHHHHhhhhhc
Q 040096 43 VSLIIYASSGKMHDYCSPSTSLVDILEQYHRQS 75 (212)
Q Consensus 43 valivfS~~gk~~~~~s~~~~~~~ileRY~~~~ 75 (212)
|++|||.| +|++++.. ++-+.+..|++..
T Consensus 12 valllfGp-~kLP~~~r---~lG~~ir~fk~~~ 40 (53)
T PF02416_consen 12 VALLLFGP-KKLPELAR---SLGKAIREFKKAI 40 (53)
T ss_dssp HHHHHS-T-TTHHHHHH---HHHHHHHHHHHHH
T ss_pred HHHHHhCc-hHHHHHHH---HHHHHHHHHHHHH
Confidence 67788998 78998864 3777788887754
No 71
>KOG0184 consensus 20S proteasome, regulatory subunit alpha type PSMA3/PRE10 [Posttranslational modification, protein turnover, chaperones]
Probab=28.28 E-value=30 Score=29.31 Aligned_cols=21 Identities=10% Similarity=0.276 Sum_probs=17.5
Q ss_pred hhhcCcceeeEeecCCCCccc
Q 040096 36 TVLCDAKVSLIIYASSGKMHD 56 (212)
Q Consensus 36 svLCda~valivfS~~gk~~~ 56 (212)
||=.|-|.|.-+|||+|++|+
T Consensus 3 sIGtGyDls~s~fSpdGrvfQ 23 (254)
T KOG0184|consen 3 SIGTGYDLSASTFSPDGRVFQ 23 (254)
T ss_pred cccccccccceeeCCCCceeh
Confidence 455678899999999999884
No 72
>PF14263 DUF4354: Domain of unknown function (DUF4354); PDB: 3NRF_B 3SB3_A.
Probab=27.80 E-value=10 Score=29.09 Aligned_cols=42 Identities=17% Similarity=0.326 Sum_probs=29.9
Q ss_pred eCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccc
Q 040096 11 IENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDY 57 (212)
Q Consensus 11 Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~ 57 (212)
|.++.....||-=.-..+.++.-+|+-+| ++.|+|.||.+-.
T Consensus 41 v~~k~~ytktF~V~vaN~s~~~idLsk~C-----f~a~~~~gk~f~l 82 (124)
T PF14263_consen 41 VGGKSFYTKTFDVTVANLSDKDIDLSKMC-----FKAYSPDGKEFKL 82 (124)
T ss_dssp ETTEEEEEEEEEEEEEE-SSS-EE-TT-E-----EEEEETTS-EEEE
T ss_pred ecCccceEEEEEEEEecCCCCccccccch-----hhhccccCCEEEe
Confidence 45666677778778888888989999986 9999999997765
No 73
>PF15254 CCDC14: Coiled-coil domain-containing protein 14
Probab=27.26 E-value=5.3e+02 Score=26.04 Aligned_cols=24 Identities=21% Similarity=0.264 Sum_probs=14.4
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHH
Q 040096 144 ETMRKNGKMMEEEHNYLKFVLRQQ 167 (212)
Q Consensus 144 ~~l~kk~~~l~een~~L~~~~~~~ 167 (212)
+.|-|-...+.+||+.|...+.+.
T Consensus 458 eellk~~e~q~~Enk~~~~~~~ek 481 (861)
T PF15254_consen 458 EELLKVIENQKEENKRLRKMFQEK 481 (861)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555666667777776665443
No 74
>PF06751 EutB: Ethanolamine ammonia lyase large subunit (EutB); InterPro: IPR010628 This family consists of several bacterial ethanolamine ammonia lyase large subunit (EutB) proteins. Ethanolamine ammonia-lyase is a bacterial enzyme that catalyses the adenosylcobalamin-dependent conversion of certain vicinal amino alcohols to oxo compounds and ammonia. The enzyme is a heterodimer composed of subunits of Mr approximately 55,000 (EutB) and 35,000 (EutC) [].; GO: 0008851 ethanolamine ammonia-lyase activity, 0006520 cellular amino acid metabolic process; PDB: 3ABQ_C 3ABS_C 3AO0_A 3ABR_A 3ABO_C 3ANY_A 2QEZ_B.
Probab=27.11 E-value=21 Score=32.85 Aligned_cols=12 Identities=25% Similarity=0.503 Sum_probs=5.5
Q ss_pred ccccccCCCCCC
Q 040096 196 DYAYHVQPIQPN 207 (212)
Q Consensus 196 ~~~f~~qp~qpn 207 (212)
.++.|+||+||-
T Consensus 146 ~ls~RlQPNhPT 157 (444)
T PF06751_consen 146 RLSSRLQPNHPT 157 (444)
T ss_dssp B-EEEE----TT
T ss_pred eeeeecCCCCCC
Confidence 369999999993
No 75
>COG2877 KdsA 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]
Probab=26.91 E-value=31 Score=29.63 Aligned_cols=65 Identities=22% Similarity=0.377 Sum_probs=47.1
Q ss_pred CCCccchhhhhhhhchH---------HHhHHhhhhhcCc----------ceeeEee---------------cCCCC----
Q 040096 12 ENASNRQVTYSKRRNGI---------LKKAKEITVLCDA----------KVSLIIY---------------ASSGK---- 53 (212)
Q Consensus 12 en~~~RqvtfsKRr~GL---------~KKA~ELsvLCda----------~valivf---------------S~~gk---- 53 (212)
=|+.||..-.|.|..|| +|+-.-+-||+|+ +||=|+= ..||+
T Consensus 57 fDKANRsSi~s~RGpGLeeglki~~~vK~efgv~ilTDVHe~~q~~~vA~VvDilQiPAFLcRQTDLl~A~AkTg~~vNi 136 (279)
T COG2877 57 FDKANRSSIHSYRGPGLEEGLKILQEVKEEFGVPILTDVHEPSQAQPVAEVVDVLQIPAFLCRQTDLLVAAAKTGAVVNV 136 (279)
T ss_pred cccccccccccccCCCHHHHHHHHHHHHHHcCCceeeccCChhhcchHHhhhhhhcchHHHhhhHHHHHHHHHhCCeEee
Confidence 47889999999999998 4555556788874 4443332 33664
Q ss_pred -cccccCCCcchhHHHHhhhhhcCC
Q 040096 54 -MHDYCSPSTSLVDILEQYHRQSGR 77 (212)
Q Consensus 54 -~~~~~s~~~~~~~ileRY~~~~~~ 77 (212)
-..|-+| +.|+.|++++...-..
T Consensus 137 KKgQFLaP-wdMknvv~K~~~~gn~ 160 (279)
T COG2877 137 KKGQFLAP-WDMKNIVEKFLETGNN 160 (279)
T ss_pred ccccccCh-hHhhhHHHHHHhcCCC
Confidence 4588888 7999999999876543
No 76
>PF07676 PD40: WD40-like Beta Propeller Repeat; InterPro: IPR011659 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This region appears to be related to the IPR001680 from INTERPRO repeat. This model is likely to miss copies within a sequence.; PDB: 2HQS_D 1C5K_A 2IVZ_A 2W8B_D 3IAX_A 1CRZ_A 1N6F_D 1N6D_C 1N6E_C 1K32_A ....
Probab=26.86 E-value=42 Score=19.30 Aligned_cols=20 Identities=15% Similarity=0.162 Sum_probs=14.7
Q ss_pred cceeeEeecCCCCcccccCC
Q 040096 41 AKVSLIIYASSGKMHDYCSP 60 (212)
Q Consensus 41 a~valivfS~~gk~~~~~s~ 60 (212)
..-.-..|||+|+-..|+|.
T Consensus 9 ~~~~~p~~SpDGk~i~f~s~ 28 (39)
T PF07676_consen 9 GDDGSPAWSPDGKYIYFTSN 28 (39)
T ss_dssp SSEEEEEE-TTSSEEEEEEE
T ss_pred ccccCEEEecCCCEEEEEec
Confidence 34556789999999999874
No 77
>PF08687 ASD2: Apx/Shroom domain ASD2; InterPro: IPR014799 Cell shape changes require the coordination of actin and microtubule cytoskeletons. The Shroom family is a small group of related proteins that are defined by sequence similarity and in most cases by some link to the actin cytoskeleton. The Shroom (Shrm) protein family is found only in animals. Proteins of this family are predicted to be utilised in multiple morphogenic and developmental processes across animal phyla to regulate cells shape or intracellular architecture in an actin and myosin-dependent manner []. While the founding member of the Shrm family is Shrm1 (formerly Apx), it appears that this protein is found only in Xenopus []. In mice and humans, the Shrm family of proteins consists of: Shrm2 (formerly Apxl), a protein involved in the morphogenesis, maintenance, and/or function of vascular endothelial cells. Shrm3 (formerly Shroom), a protein necessary for neural tube closure in vertebrate development as deficiency in Shrm results in spina bifida. Shrm3 is also conserved in some invertebrates, as orthologues can be found in sea urchins. Shrm4, a regulator of cyto-skeletal architecture that may play an important role in vertebrate development. It is implicated in X-linked mental retardation in humans. This protein family is based on the conservation of a specific arrangement of an N-terminal PDZ domain, a centrally positioned sequence motif termed ASD1 (Apx/Shrm Domain 1) and a C-terminal motif termed ASD2 [, , ]. Shrm2 and Shrm3 contain all three domains, while Shrm4 contains the PDZ and ASD2 domains, but lacks a discernible ASD1 element. To date, the ASD1 and ASD2 elements have only been found in Shrm-related proteins and do not appear in combination with other conserved domains. ASD1 is required for targeting actin, while ASD2 is capable of eliciting an actomyosin based constriction event [, ]. ASD2 is the most highly conserved sequence element shared by Shrm1, Shrm2, Shrm3, and Shrm4. It possesses a well conserved series of leucine residues that exhibit spacing consistent with that of a leucine zipper motif []. Shroom2 is both necessary and sufficient to govern the localization of pigment granules at the apical surface of epithelial cells. Shroom2 is a central regulator of RPE pigmentation. Despite their diverse biological roles, Shroom family proteins share a common activity. Since the locus encoding human SHROOM2 lies within the critical region for two distinct forms of ocular albinism, it is possible that SHROOM2 mutations may contribute to human visual system disorders [].; GO: 0000902 cell morphogenesis, 0005737 cytoplasm; PDB: 3THF_B.
Probab=26.84 E-value=1.9e+02 Score=25.04 Aligned_cols=44 Identities=20% Similarity=0.309 Sum_probs=30.0
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 040096 125 EDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQE 168 (212)
Q Consensus 125 E~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~~~ 168 (212)
+.........|..+|.+++..+.+|...|+++...|...+..+.
T Consensus 77 ~~~~~e~~~~l~~Kk~eLi~~l~~kl~~L~~eqe~l~ee~~~n~ 120 (264)
T PF08687_consen 77 SDSDDENDNDLNAKKVELIESLSKKLEVLQEEQEALQEEIQANE 120 (264)
T ss_dssp ---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445556778889999999999999999999998888775543
No 78
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=26.23 E-value=2.6e+02 Score=26.35 Aligned_cols=22 Identities=5% Similarity=0.060 Sum_probs=18.5
Q ss_pred HHHHHhhHHHHHHHHHHHHHHH
Q 040096 144 ETMRKNGKMMEEEHNYLKFVLR 165 (212)
Q Consensus 144 ~~l~kk~~~l~een~~L~~~~~ 165 (212)
..+..+.+.++.||..|+.+++
T Consensus 100 ~dle~KIkeLEaE~~~Lk~Ql~ 121 (475)
T PRK13729 100 GDDQRRIEKLGQDNAALAEQVK 121 (475)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 5677888899999999998874
No 79
>PRK15067 ethanolamine ammonia lyase large subunit; Provisional
Probab=26.23 E-value=29 Score=32.14 Aligned_cols=12 Identities=25% Similarity=0.504 Sum_probs=10.1
Q ss_pred ccccccCCCCCC
Q 040096 196 DYAYHVQPIQPN 207 (212)
Q Consensus 196 ~~~f~~qp~qpn 207 (212)
.++.|+||+||-
T Consensus 156 ~ls~RlQPNhPT 167 (461)
T PRK15067 156 TLSARLQPNHPT 167 (461)
T ss_pred eeeeecCCCCCC
Confidence 368999999993
No 80
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=25.72 E-value=6.8e+02 Score=26.00 Aligned_cols=54 Identities=31% Similarity=0.509 Sum_probs=35.2
Q ss_pred ccchhHHHHHHHhHhHhhhhhhccc------CCCCCCCCCHHHHHHHHH---HHHHhHHHHHH
Q 040096 84 HENLSNEIERIKRENDRMQIKLRHL------NGEDISSLNPKELIALED---ALENGLVSIRD 137 (212)
Q Consensus 84 ~e~l~~el~kLkke~~~Lq~~lR~l------~GedL~~Ls~~eL~~LE~---~Le~~L~~VR~ 137 (212)
.+.||.|+..+++.++.|..++.-+ .|-+-...|.=++.+||+ .|-.+|-+.|.
T Consensus 327 aesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRD 389 (1243)
T KOG0971|consen 327 AESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRD 389 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 4568888888888888876654322 355655566556666665 46677776664
No 81
>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=25.60 E-value=1e+02 Score=19.72 Aligned_cols=27 Identities=22% Similarity=0.354 Sum_probs=14.5
Q ss_pred CCCCCCHHHHHH----HHHHHHHhHHHHHHH
Q 040096 112 DISSLNPKELIA----LEDALENGLVSIRDK 138 (212)
Q Consensus 112 dL~~Ls~~eL~~----LE~~Le~~L~~VR~r 138 (212)
-|..+|++||+. |...+|.-+..+|.|
T Consensus 4 fLk~ls~~eL~~rl~~LD~~ME~Eieelr~R 34 (49)
T PF11629_consen 4 FLKFLSYEELQQRLASLDPEMEQEIEELRQR 34 (49)
T ss_dssp GGGGS-HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhCCHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 356778888765 444444444444444
No 82
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=25.56 E-value=37 Score=28.15 Aligned_cols=29 Identities=21% Similarity=0.462 Sum_probs=20.1
Q ss_pred hcCcceeeEeecCCCCcccccCCCcchhHHHHhhhhh
Q 040096 38 LCDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYHRQ 74 (212)
Q Consensus 38 LCda~valivfS~~gk~~~~~s~~~~~~~ileRY~~~ 74 (212)
--||++|++|||.+... |.+.+++=|.+.
T Consensus 90 yrgaqa~vLVFSTTDr~--------SFea~~~w~~kv 118 (246)
T KOG4252|consen 90 YRGAQASVLVFSTTDRY--------SFEATLEWYNKV 118 (246)
T ss_pred hccccceEEEEecccHH--------HHHHHHHHHHHH
Confidence 35899999999998752 255555555443
No 83
>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=25.42 E-value=1.1e+02 Score=26.81 Aligned_cols=45 Identities=18% Similarity=0.352 Sum_probs=31.7
Q ss_pred eeEEeCCCccchhhhhhhhchHHHhHHhhhhhcCcceeeEeecCCCCcccccCCCcchhHHHHhhhh
Q 040096 7 EIKRIENASNRQVTYSKRRNGILKKAKEITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYHR 73 (212)
Q Consensus 7 ~ik~Ien~~~RqvtfsKRr~GL~KKA~ELsvLCda~valivfS~~gk~~~~~s~~~~~~~ileRY~~ 73 (212)
.+..|.|.+.|..+=|+ +||..|.+ +.| .|-+. ..|++|++.|..
T Consensus 25 n~~li~n~tqr~t~~sR-------------~L~Ecel~---~~p-----~Y~nD-pEmK~iid~~n~ 69 (295)
T TIGR01478 25 NVSYIQNNTQMTSTKSR-------------LLAEIQRP---KNP-----HYHND-PELKEIIDKLNE 69 (295)
T ss_pred ceecccCccccccccce-------------ehhhhccc---cCC-----CCCCc-HHHHHHHHHHhH
Confidence 46788898888776332 58888876 333 44443 569999998865
No 84
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=25.39 E-value=3.1e+02 Score=24.16 Aligned_cols=41 Identities=17% Similarity=0.102 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 040096 131 GLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQQEIAR 171 (212)
Q Consensus 131 ~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~~~~~~ 171 (212)
+-++-|.||..-++.+--....|+.+|..|+.++.+.+.++
T Consensus 238 AAtRYRqKkRae~E~l~ge~~~Le~rN~~LK~qa~~lerEI 278 (294)
T KOG4571|consen 238 AATRYRQKKRAEKEALLGELEGLEKRNEELKDQASELEREI 278 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67778888888888888888889999999998887655433
No 85
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=25.39 E-value=1.6e+02 Score=24.00 Aligned_cols=24 Identities=17% Similarity=0.183 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHH
Q 040096 120 ELIALEDALENGLVSIRDKQSEKM 143 (212)
Q Consensus 120 eL~~LE~~Le~~L~~VR~rK~~ll 143 (212)
++..|+..|......--.++++|+
T Consensus 139 ~i~slk~EL~d~iKe~e~~emeLy 162 (181)
T PF04645_consen 139 EIESLKSELNDLIKEREIREMELY 162 (181)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777777776666666666666
No 86
>PLN03194 putative disease resistance protein; Provisional
Probab=24.38 E-value=59 Score=26.73 Aligned_cols=29 Identities=21% Similarity=0.350 Sum_probs=18.0
Q ss_pred cCcceeeEeecCCCCcccccCCCcchhHHHH
Q 040096 39 CDAKVSLIIYASSGKMHDYCSPSTSLVDILE 69 (212)
Q Consensus 39 Cda~valivfS~~gk~~~~~s~~~~~~~ile 69 (212)
=.+.++|+|||++=--..||-. .+..|++
T Consensus 79 eeSri~IvVfS~~Ya~S~WCLd--EL~~I~e 107 (187)
T PLN03194 79 RNCKVGVAVFSPRYCESYFCLH--ELALIME 107 (187)
T ss_pred HhCeEEEEEECCCcccchhHHH--HHHHHHH
Confidence 3678999999996444444432 2444544
No 87
>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=23.94 E-value=60 Score=21.58 Aligned_cols=30 Identities=20% Similarity=0.524 Sum_probs=20.2
Q ss_pred cCcceeeEeecCCCCcccccCCCcchhHHHHh
Q 040096 39 CDAKVSLIIYASSGKMHDYCSPSTSLVDILEQ 70 (212)
Q Consensus 39 Cda~valivfS~~gk~~~~~s~~~~~~~ileR 70 (212)
|+.--.++|. |.|..|...++ ..+.+|++.
T Consensus 47 C~~~P~v~i~-~~~~~y~~v~~-~~~~~il~~ 76 (77)
T cd02980 47 CGLAPVVVVY-PDGVWYGRVTP-EDVEEIVEE 76 (77)
T ss_pred ccCCCEEEEe-CCCeEEccCCH-HHHHHHHHh
Confidence 5444444444 67888888776 678888875
No 88
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=23.93 E-value=4.4e+02 Score=25.37 Aligned_cols=89 Identities=19% Similarity=0.258 Sum_probs=0.0
Q ss_pred ccCCCcchhHHHHhhhhhcCCcccCCCccchhHHHHHHHhHhHhhhhhhcccCCCCCCCCCHHHHHHHHHHHHHhHHHHH
Q 040096 57 YCSPSTSLVDILEQYHRQSGRRLWDPKHENLSNEIERIKRENDRMQIKLRHLNGEDISSLNPKELIALEDALENGLVSIR 136 (212)
Q Consensus 57 ~~s~~~~~~~ileRY~~~~~~~~~~~~~e~l~~el~kLkke~~~Lq~~lR~l~GedL~~Ls~~eL~~LE~~Le~~L~~VR 136 (212)
|..+.++++.+++ ...-....-++.-.++..+++.+++.+.. .+++|...-...+..+..+|
T Consensus 79 ~~~~ts~ik~~ye------------~El~~ar~~l~e~~~~ra~~e~ei~kl~~------e~~elr~~~~~~~k~~~~~r 140 (546)
T KOG0977|consen 79 VGRETSGIKAKYE------------AELATARKLLDETARERAKLEIEITKLRE------ELKELRKKLEKAEKERRGAR 140 (546)
T ss_pred ccCCCcchhHHhh------------hhHHHHHHHHHHHHHHHHHHHHHHHHhHH------HHHHHHHHHHHHHHHHhhhH
Q ss_pred HHHHHHH----------HHHHHhhHHHHHHHHHHHHH
Q 040096 137 DKQSEKM----------ETMRKNGKMMEEEHNYLKFV 163 (212)
Q Consensus 137 ~rK~~ll----------~~l~kk~~~l~een~~L~~~ 163 (212)
+.....+ ..++...+.++++...|+..
T Consensus 141 e~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~e 177 (546)
T KOG0977|consen 141 EKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAE 177 (546)
T ss_pred HHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
No 89
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=23.78 E-value=3.5e+02 Score=20.95 Aligned_cols=13 Identities=23% Similarity=0.493 Sum_probs=4.9
Q ss_pred HHHhhHHHHHHHH
Q 040096 146 MRKNGKMMEEEHN 158 (212)
Q Consensus 146 l~kk~~~l~een~ 158 (212)
+.+++..|+.+..
T Consensus 113 ~eRkv~~le~~~~ 125 (143)
T PF12718_consen 113 FERKVKALEQERD 125 (143)
T ss_pred HHHHHHHHHhhHH
Confidence 3333333333333
No 90
>cd02973 TRX_GRX_like Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All members contain a redox-active CXXC motif and may function as PDOs. The archaeal proteins Mj0307 and Mt807 show structures more similar to GRX, but activities more similar to TRX. Some members of the family are similar to PfPDO in that they contain a second CXXC motif located in a second TRX-fold subdomain at the N-terminus; the superimposable N- and C-terminal TRX subdomains form a compact structure. PfPDO is postulated to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI). The C-terminal CXXC motif of PfPDO is required for its oxidase, reductase and isomerase activities. Also included in the family is the C-terminal TRX-fold subdomain of the N-terminal domain (NTD) of bacteri
Probab=23.76 E-value=78 Score=20.20 Aligned_cols=27 Identities=15% Similarity=0.282 Sum_probs=20.6
Q ss_pred eeeEeecCCCCcccccCCCcchhHHHHhhhhh
Q 040096 43 VSLIIYASSGKMHDYCSPSTSLVDILEQYHRQ 74 (212)
Q Consensus 43 valivfS~~gk~~~~~s~~~~~~~ileRY~~~ 74 (212)
|.+++|+.. ||+++..++.+++.+...
T Consensus 1 ~~v~~f~~~-----~C~~C~~~~~~l~~l~~~ 27 (67)
T cd02973 1 VNIEVFVSP-----TCPYCPDAVQAANRIAAL 27 (67)
T ss_pred CEEEEEECC-----CCCCcHHHHHHHHHHHHh
Confidence 567888875 688777899999888543
No 91
>smart00415 HSF heat shock factor.
Probab=23.74 E-value=53 Score=23.96 Aligned_cols=39 Identities=21% Similarity=0.409 Sum_probs=28.6
Q ss_pred hhcCccee-eEeecCCCCcccccCCCcchhHHHHhhhhhc
Q 040096 37 VLCDAKVS-LIIYASSGKMHDYCSPSTSLVDILEQYHRQS 75 (212)
Q Consensus 37 vLCda~va-livfS~~gk~~~~~s~~~~~~~ileRY~~~~ 75 (212)
+|.|.+.. +|-.|++|+.+....+..-.+.|+.+|=+.+
T Consensus 12 ~l~~~~~~~iI~W~~~G~~f~I~d~~~f~~~vLp~~Fk~~ 51 (105)
T smart00415 12 LVEDPSTDKIISWSPSGKSFVIWDPEEFAKNLLPRYFKHN 51 (105)
T ss_pred HHhCCCCCCEEEECCCCCEEEEcCHHHHHHHHHHHhcCCC
Confidence 56777776 8889999998877666445677888875543
No 92
>PRK10884 SH3 domain-containing protein; Provisional
Probab=23.54 E-value=4.3e+02 Score=21.90 Aligned_cols=20 Identities=10% Similarity=0.326 Sum_probs=10.2
Q ss_pred cchhHHHHHHHhHhHhhhhh
Q 040096 85 ENLSNEIERIKRENDRMQIK 104 (212)
Q Consensus 85 e~l~~el~kLkke~~~Lq~~ 104 (212)
..++.++..++.+.+.+..+
T Consensus 96 p~le~el~~l~~~l~~~~~~ 115 (206)
T PRK10884 96 PDLENQVKTLTDKLNNIDNT 115 (206)
T ss_pred HHHHHHHHHHHHHHHHHHhH
Confidence 34555555555555555443
No 93
>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=23.38 E-value=3.7e+02 Score=21.07 Aligned_cols=57 Identities=21% Similarity=0.299 Sum_probs=36.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHH----------H-----HHHHHhhHHHHHHHHHHHHHHHHH
Q 040096 111 EDISSLNPKELIALEDALENGLVSIRDKQSEK----------M-----ETMRKNGKMMEEEHNYLKFVLRQQ 167 (212)
Q Consensus 111 edL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~l----------l-----~~l~kk~~~l~een~~L~~~~~~~ 167 (212)
+.++.++.+++..+...+...-..+..-+.++ . +.|...+..|.+++..|...|...
T Consensus 64 ~~~~~~s~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l 135 (169)
T PF07106_consen 64 DELEVPSPEELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKL 135 (169)
T ss_pred cccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666777777776655554444444333222 1 577888888888888888877654
No 94
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=22.89 E-value=1.3e+02 Score=23.57 Aligned_cols=28 Identities=21% Similarity=0.597 Sum_probs=21.0
Q ss_pred ecCCCCcccccCCCcchhHHHHhhhhhc
Q 040096 48 YASSGKMHDYCSPSTSLVDILEQYHRQS 75 (212)
Q Consensus 48 fS~~gk~~~~~s~~~~~~~ileRY~~~~ 75 (212)
|..++.+=.|||+.-.|...|.+|....
T Consensus 7 ~~~de~~G~~CPTgC~i~~~L~k~~~~v 34 (146)
T PF08702_consen 7 CCADEDFGSYCPTGCGIQDFLDKYERDV 34 (146)
T ss_dssp ECSSTTTTEEEE-HHHHHHHHHHHHHHH
T ss_pred cccCccccCCCCCcchHHHHHHHHccch
Confidence 4456667788887668999999998754
No 95
>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=22.87 E-value=1.1e+02 Score=27.07 Aligned_cols=24 Identities=29% Similarity=0.390 Sum_probs=0.0
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHH
Q 040096 143 METMRKNGKMMEEEHNYLKFVLRQ 166 (212)
Q Consensus 143 l~~l~kk~~~l~een~~L~~~~~~ 166 (212)
++.|++|.+.|++||..|+....+
T Consensus 162 le~Lq~Klk~LEeEN~~LR~Ea~~ 185 (306)
T PF04849_consen 162 LEALQEKLKSLEEENEQLRSEASQ 185 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
No 96
>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=22.87 E-value=27 Score=23.37 Aligned_cols=31 Identities=26% Similarity=0.575 Sum_probs=22.7
Q ss_pred hhhhchHHHhHHhhhhhcC-cceeeEeecCCCCc
Q 040096 22 SKRRNGILKKAKEITVLCD-AKVSLIIYASSGKM 54 (212)
Q Consensus 22 sKRr~GL~KKA~ELsvLCd-a~valivfS~~gk~ 54 (212)
..||.|.+.+ |.|+-+| .+=.+-|+|..|++
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 3688887666 8899886 57788889998864
No 97
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=22.81 E-value=5.8e+02 Score=24.98 Aligned_cols=80 Identities=23% Similarity=0.278 Sum_probs=42.9
Q ss_pred hHHHHHHHhHhHhhhhhhcccCCCCCCCCCH-HHHHHHHHHHHHhHHHHHHHHHHHH-HHHHHhhHHHHHHHHHHHHHHH
Q 040096 88 SNEIERIKRENDRMQIKLRHLNGEDISSLNP-KELIALEDALENGLVSIRDKQSEKM-ETMRKNGKMMEEEHNYLKFVLR 165 (212)
Q Consensus 88 ~~el~kLkke~~~Lq~~lR~l~GedL~~Ls~-~eL~~LE~~Le~~L~~VR~rK~~ll-~~l~kk~~~l~een~~L~~~~~ 165 (212)
..|..+|+.+.+.+..++..+.+.+..-..+ +.|..++..++.....+-.-+.+.. .....++..|.+++..+..++.
T Consensus 120 ~~e~~~lk~~lee~~~el~~~k~qq~~v~~l~e~l~k~~~~~~~~ie~~a~~~e~~~~q~~~e~e~~L~~~~~~~~~q~~ 199 (629)
T KOG0963|consen 120 SEENEELKEELEEVNNELADLKTQQVTVRNLKERLRKLEQLLEIFIENAANETEEKLEQEWAEREAGLKDEEQNLQEQLE 199 (629)
T ss_pred hhhHHHHHHHHHHHHHHHhhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666666666655554443322222 3445566666665554444443333 4555566666666666666654
Q ss_pred HH
Q 040096 166 QQ 167 (212)
Q Consensus 166 ~~ 167 (212)
..
T Consensus 200 ~l 201 (629)
T KOG0963|consen 200 EL 201 (629)
T ss_pred HH
Confidence 43
No 98
>cd08888 SRPBCC_PITPNA-B_like Lipid-binding SRPBCC domain of mammalian PITPNA, -B, and related proteins (Class I PITPs). This subgroup includes the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of mammalian Class 1 phosphatidylinositol transfer proteins (PITPs), PITPNA/PITPalpha and PITPNB/PITPbeta, Drosophila vibrator, and related proteins. These are single domain proteins belonging to the PITP family of lipid transfer proteins, and to the SRPBCC domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. In vitro, PITPs bind phosphatidylinositol (PtdIns), as well as phosphatidylcholine (PtdCho) but with a lower affinity. They transfer these lipids from one membrane compartment to another. The cellular roles of PITPs include inositol lipid signaling, PtdIns metabolism, and membrane trafficking. In addition, PITPNB transfers sphingomyelin in vitro, with a low affinity. PITPNA is found chiefly in the nucleus and cy
Probab=22.65 E-value=97 Score=26.79 Aligned_cols=33 Identities=18% Similarity=0.240 Sum_probs=27.3
Q ss_pred hhcccCC--CCCCCCCHHHHHHHHHHHHHhHHHHH
Q 040096 104 KLRHLNG--EDISSLNPKELIALEDALENGLVSIR 136 (212)
Q Consensus 104 ~lR~l~G--edL~~Ls~~eL~~LE~~Le~~L~~VR 136 (212)
-.|+... +.--+||++|++.+|......|.++|
T Consensus 223 ~HRq~fcW~DeW~gltmedIR~~E~~t~~~l~~~~ 257 (258)
T cd08888 223 FHRQVFCWLDKWHGLTMDDIRRMEDETKKELDEMR 257 (258)
T ss_pred HHHHHhhhHHHHcCCCHHHHHHHHHHHHHHHHHhh
Confidence 3455443 57889999999999999999999887
No 99
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=21.94 E-value=7.3e+02 Score=23.98 Aligned_cols=73 Identities=10% Similarity=0.090 Sum_probs=40.6
Q ss_pred hhhhcCcceeeEeecCCCCcccccCCC--cchhHHHHhhhhhcCCcccCCCccchhHHHHHHHhHhHhhhhhhcc
Q 040096 35 ITVLCDAKVSLIIYASSGKMHDYCSPS--TSLVDILEQYHRQSGRRLWDPKHENLSNEIERIKRENDRMQIKLRH 107 (212)
Q Consensus 35 LsvLCda~valivfS~~gk~~~~~s~~--~~~~~ileRY~~~~~~~~~~~~~e~l~~el~kLkke~~~Lq~~lR~ 107 (212)
..+.|+-.+|-+.+|..--.+.+...- ..|.++|--++....++........+...+.+|+.+++.++...+.
T Consensus 404 ~~t~v~~~la~~~~st~~~~~~~d~~~~~~km~~~i~~~~~~~~sd~~~~rer~l~a~t~kL~~E~e~~q~~~~~ 478 (588)
T KOG3612|consen 404 KLTQVSKMLADLHYSTQLGGVHADPTVVEDKMKDAIIDLQESTLSDYSGSRERSLVAATEKLRQEFEELQQTSRR 478 (588)
T ss_pred hhcccchhhhhcccccccCCcccchHHHHHHHHHHHHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHHHHhh
Confidence 455677677756666543322222210 1255555444444333433334456778889999999888776554
No 100
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=21.86 E-value=2.8e+02 Score=19.24 Aligned_cols=53 Identities=23% Similarity=0.339 Sum_probs=36.7
Q ss_pred chhHHHHHHHhHhHhhhhhhcccCCCCCCCCCHHHHHHHHHHHHHhHHHHHHHHHHH
Q 040096 86 NLSNEIERIKRENDRMQIKLRHLNGEDISSLNPKELIALEDALENGLVSIRDKQSEK 142 (212)
Q Consensus 86 ~l~~el~kLkke~~~Lq~~lR~l~GedL~~Ls~~eL~~LE~~Le~~L~~VR~rK~~l 142 (212)
.|+.|+..++.+...|+...+++.. +++...-..|+..|+..+..+-.+=.||
T Consensus 21 ~LqDE~~hm~~e~~~L~~~~~~~d~----s~~~~~R~~L~~~l~~lv~~mE~K~dQI 73 (79)
T PF06657_consen 21 ALQDEFGHMKMEHQELQDEYKQMDP----SLGRRKRRDLEQELEELVKRMEAKADQI 73 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccc----ccChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677777777777666666542 5677777888888888888777665554
No 101
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=21.83 E-value=36 Score=21.24 Aligned_cols=24 Identities=21% Similarity=0.563 Sum_probs=14.5
Q ss_pred ccchhHHHHHHHhHhHhhhhhhcc
Q 040096 84 HENLSNEIERIKRENDRMQIKLRH 107 (212)
Q Consensus 84 ~e~l~~el~kLkke~~~Lq~~lR~ 107 (212)
++.|..+.+.|.++++.|+.++..
T Consensus 14 yd~Lk~~~~~L~~E~~~L~aev~~ 37 (45)
T PF02183_consen 14 YDSLKAEYDSLKKENEKLRAEVQE 37 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566666666666666665543
No 102
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=21.81 E-value=2.5e+02 Score=18.51 Aligned_cols=45 Identities=20% Similarity=0.250 Sum_probs=28.7
Q ss_pred CHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 040096 117 NPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVLRQ 166 (212)
Q Consensus 117 s~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~~~ 166 (212)
.++.-..|+..++.-......|. .+-.....|+.+|..|+..|++
T Consensus 14 ~~~~W~~L~~~l~rY~~vL~~R~-----~l~~e~~~L~~qN~eLr~lLkq 58 (60)
T PF14775_consen 14 KIRLWDALENFLKRYNKVLLDRA-----ALIQEKESLEQQNEELRSLLKQ 58 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHh
Confidence 34444556666655555554443 3555567899999999887764
No 103
>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain.
Probab=21.53 E-value=5.8e+02 Score=22.70 Aligned_cols=22 Identities=23% Similarity=0.271 Sum_probs=18.1
Q ss_pred HHHHhhHHHHHHHHHHHHHHHH
Q 040096 145 TMRKNGKMMEEEHNYLKFVLRQ 166 (212)
Q Consensus 145 ~l~kk~~~l~een~~L~~~~~~ 166 (212)
.+-..++.+.++|..|+..|..
T Consensus 258 ~~~~eek~ireEN~rLqr~L~~ 279 (310)
T PF09755_consen 258 QYLQEEKEIREENRRLQRKLQR 279 (310)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4556789999999999998853
No 104
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=20.94 E-value=63 Score=29.55 Aligned_cols=41 Identities=24% Similarity=0.509 Sum_probs=27.4
Q ss_pred HhhhhhcCcce--eeEeecCCCCcccccCCC---cchhHHHHhhhhhc
Q 040096 33 KEITVLCDAKV--SLIIYASSGKMHDYCSPS---TSLVDILEQYHRQS 75 (212)
Q Consensus 33 ~ELsvLCda~v--alivfS~~gk~~~~~s~~---~~~~~ileRY~~~~ 75 (212)
+-|||+||-+| |||--..+|= -|..|. +++++++.-|+..|
T Consensus 367 yalSV~~~~~V~HClIy~tatG~--GFa~pyn~y~tlk~lV~hY~h~S 412 (464)
T KOG4637|consen 367 YALSVVHDGEVKHCLIYQTATGF--GFAEPYNLYSTLKELVLHYQHTS 412 (464)
T ss_pred eEEEEEECCceeeeEEeeccccc--cccchhHHHHHHHHHHHHHhhhh
Confidence 45899998777 6655556662 222221 25999999998876
No 105
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=20.92 E-value=2.9e+02 Score=25.94 Aligned_cols=47 Identities=15% Similarity=0.094 Sum_probs=30.0
Q ss_pred CCCCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Q 040096 114 SSLNPKELIALEDALENGLVSIRDKQSEKMETMRKNGKMMEEEHNYLKFVL 164 (212)
Q Consensus 114 ~~Ls~~eL~~LE~~Le~~L~~VR~rK~~ll~~l~kk~~~l~een~~L~~~~ 164 (212)
+..++.++.++-..+...+..++.+...+- .+.+.++++-..|+.++
T Consensus 122 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~l~~l~~~l 168 (525)
T TIGR02231 122 NEPDLKEWFQAFDFNGSEIERLLTEDREAE----RRIRELEKQLSELQNEL 168 (525)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence 356888888888888888888887765443 33333444444444443
No 106
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=20.37 E-value=83 Score=24.62 Aligned_cols=26 Identities=19% Similarity=0.197 Sum_probs=21.8
Q ss_pred hhhhcCcceeeEeecCCCCcccccCC
Q 040096 35 ITVLCDAKVSLIIYASSGKMHDYCSP 60 (212)
Q Consensus 35 LsvLCda~valivfS~~gk~~~~~s~ 60 (212)
+++-|||++-+++.+.+.+...|++.
T Consensus 58 i~ta~dad~V~ll~dat~~~~~~pP~ 83 (143)
T PF10662_consen 58 IVTAQDADVVLLLQDATEPRSVFPPG 83 (143)
T ss_pred HHHHhhCCEEEEEecCCCCCccCCch
Confidence 68889999999999999887777553
No 107
>PF13252 DUF4043: Protein of unknown function (DUF4043)
Probab=20.28 E-value=51 Score=29.63 Aligned_cols=29 Identities=21% Similarity=0.222 Sum_probs=20.2
Q ss_pred hHHhhhhhcCcceeeEeecCC-CCcccccC
Q 040096 31 KAKEITVLCDAKVSLIIYASS-GKMHDYCS 59 (212)
Q Consensus 31 KA~ELsvLCda~valivfS~~-gk~~~~~s 59 (212)
.+-.-++||||+++++.|+.+ |...-+|+
T Consensus 270 ~~v~ralLlGaQA~~~A~G~~~~~~~~~w~ 299 (341)
T PF13252_consen 270 VAVARALLLGAQALVIAFGKSGSGMRFFWV 299 (341)
T ss_pred cceeeeeeechhheeeeeeccCCCcccccc
Confidence 344567999999999999983 33333333
No 108
>PRK14860 tatA twin arginine translocase protein A; Provisional
Probab=20.22 E-value=16 Score=24.73 Aligned_cols=37 Identities=16% Similarity=0.434 Sum_probs=27.3
Q ss_pred hhhhhcCcceeeEeecCCCCcccccCCCcchhHHHHhhhhhcC
Q 040096 34 EITVLCDAKVSLIIYASSGKMHDYCSPSTSLVDILEQYHRQSG 76 (212)
Q Consensus 34 ELsvLCda~valivfS~~gk~~~~~s~~~~~~~ileRY~~~~~ 76 (212)
||-|++= |+||||.|. |++++... +-..+-.|++...
T Consensus 8 ElliI~v--IalllfGp~-kLP~l~r~---lGk~ir~fkk~~~ 44 (64)
T PRK14860 8 ELIVILV--IALVVFGPA-KLPQLGQA---LGGAIRNFKKASN 44 (64)
T ss_pred HHHHHHH--HHHhhcCch-HHHHHHHH---HHHHHHHHHHHcc
Confidence 5555543 789999986 99988643 8888888887654
Done!