Query 018115
Match_columns 360
No_of_seqs 262 out of 1421
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 06:16:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018115.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018115hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0014 MADS box transcription 100.0 5.9E-35 1.3E-39 265.2 4.6 176 1-182 1-183 (195)
2 cd00265 MADS_MEF2_like MEF2 (m 100.0 1.6E-30 3.5E-35 204.0 2.3 73 2-76 1-73 (77)
3 cd00266 MADS_SRF_like SRF-like 99.9 2E-28 4.2E-33 194.8 3.6 79 2-81 1-79 (83)
4 smart00432 MADS MADS domain. 99.9 3.3E-27 7.1E-32 175.6 2.9 58 2-59 1-58 (59)
5 cd00120 MADS MADS: MCM1, Agamo 99.9 1.4E-26 3E-31 172.4 2.4 58 2-59 1-58 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 4.3E-25 9.3E-30 159.4 -3.7 51 9-59 1-51 (51)
7 KOG0015 Regulator of arginine 99.7 6.9E-19 1.5E-23 166.1 1.3 65 2-68 63-127 (338)
8 COG5068 ARG80 Regulator of arg 99.3 3.2E-13 6.9E-18 133.3 1.4 65 1-67 81-145 (412)
9 PF01486 K-box: K-box region; 99.3 4.6E-12 1E-16 104.1 7.8 82 111-192 11-95 (100)
10 PF07106 TBPIP: Tat binding pr 88.9 3.9 8.4E-05 36.4 9.7 60 110-169 107-166 (169)
11 PRK04098 sec-independent trans 84.1 2.7 5.9E-05 37.5 5.8 82 42-159 14-95 (158)
12 PF10584 Proteasome_A_N: Prote 79.6 0.77 1.7E-05 27.8 0.5 14 42-55 2-15 (23)
13 KOG4603 TBP-1 interacting prot 74.0 40 0.00087 30.6 9.9 67 110-177 114-180 (201)
14 PHA03155 hypothetical protein; 70.2 33 0.00072 29.0 8.0 57 112-168 8-65 (115)
15 COG3883 Uncharacterized protei 63.6 37 0.00081 32.8 8.2 55 114-177 54-108 (265)
16 PF05812 Herpes_BLRF2: Herpesv 62.8 52 0.0011 28.0 7.9 57 113-169 4-65 (118)
17 PF11559 ADIP: Afadin- and alp 59.8 1.2E+02 0.0025 26.3 11.4 50 114-171 68-117 (151)
18 PRK01919 tatB sec-independent 59.2 33 0.00071 31.0 6.5 27 43-73 15-41 (169)
19 PF14723 SSFA2_C: Sperm-specif 59.1 29 0.00063 31.4 6.1 19 148-166 159-177 (179)
20 PRK04654 sec-independent trans 58.4 24 0.00052 33.0 5.7 27 43-73 15-41 (214)
21 PHA02592 52 DNA topisomerase I 56.1 1.4E+02 0.0031 31.0 11.4 29 42-74 298-326 (439)
22 PHA03162 hypothetical protein; 53.7 92 0.002 27.0 8.0 58 112-169 13-75 (135)
23 PF09730 BicD: Microtubule-ass 51.2 1.5E+02 0.0033 32.7 11.2 49 113-173 122-177 (717)
24 PF13870 DUF4201: Domain of un 51.0 79 0.0017 28.2 7.7 58 114-171 8-65 (177)
25 PF06008 Laminin_I: Laminin Do 48.3 1.7E+02 0.0037 27.8 10.0 57 112-168 87-143 (264)
26 PF07106 TBPIP: Tat binding pr 45.5 1.7E+02 0.0036 25.9 8.9 28 144-171 108-135 (169)
27 KOG4603 TBP-1 interacting prot 44.6 68 0.0015 29.2 6.1 62 110-171 77-142 (201)
28 TIGR00634 recN DNA repair prot 43.8 1.7E+02 0.0037 31.0 10.2 63 6-75 95-157 (563)
29 KOG0804 Cytoplasmic Zn-finger 43.3 4.1E+02 0.009 27.8 12.3 16 148-163 417-432 (493)
30 COG4575 ElaB Uncharacterized c 42.7 1.2E+02 0.0027 25.2 6.9 51 114-171 10-60 (104)
31 PF07544 Med9: RNA polymerase 41.4 1.3E+02 0.0029 23.6 6.8 27 116-142 25-51 (83)
32 KOG0933 Structural maintenance 40.0 4.4E+02 0.0096 30.5 12.5 52 111-165 707-758 (1174)
33 COG1579 Zn-ribbon protein, pos 39.7 3.4E+02 0.0075 25.9 10.9 53 113-165 53-106 (239)
34 PF15030 DUF4527: Protein of u 37.8 1.8E+02 0.0038 28.0 7.9 25 146-170 45-69 (277)
35 TIGR03545 conserved hypothetic 35.7 2.8E+02 0.006 29.8 10.1 30 26-56 89-120 (555)
36 PF14193 DUF4315: Domain of un 33.7 2.2E+02 0.0048 22.7 6.8 21 115-135 4-24 (83)
37 COG1422 Predicted membrane pro 33.7 1.9E+02 0.0042 26.9 7.4 22 113-134 73-94 (201)
38 PF12252 SidE: Dot/Icm substra 33.0 2.8E+02 0.006 32.2 9.6 60 114-181 1133-1193(1439)
39 PF07888 CALCOCO1: Calcium bin 32.6 6.1E+02 0.013 27.2 11.8 29 31-60 78-113 (546)
40 KOG0994 Extracellular matrix g 32.5 3.1E+02 0.0068 32.2 10.0 60 113-172 1226-1291(1758)
41 COG0139 HisI Phosphoribosyl-AM 32.2 23 0.00051 29.7 1.1 50 15-64 48-106 (111)
42 PRK09039 hypothetical protein; 32.1 2.9E+02 0.0062 27.6 9.0 25 111-135 136-160 (343)
43 PRK09841 cryptic autophosphory 31.5 5.3E+02 0.012 28.3 11.8 34 66-99 248-281 (726)
44 PRK01770 sec-independent trans 31.0 97 0.0021 28.1 4.9 36 34-75 8-43 (171)
45 PF09158 MotCF: Bacteriophage 30.4 22 0.00048 29.5 0.7 54 5-75 19-73 (103)
46 PF08317 Spc7: Spc7 kinetochor 30.3 5.4E+02 0.012 25.3 11.5 16 114-129 211-226 (325)
47 COG1730 GIM5 Predicted prefold 29.5 2.6E+02 0.0057 24.6 7.3 23 112-134 6-28 (145)
48 PRK10722 hypothetical protein; 29.5 2.1E+02 0.0046 27.4 7.1 21 114-134 178-198 (247)
49 PF03233 Cauli_AT: Aphid trans 29.4 2E+02 0.0043 25.9 6.5 25 144-168 134-158 (163)
50 PRK11637 AmiB activator; Provi 29.2 2.6E+02 0.0057 28.5 8.4 20 149-168 104-123 (428)
51 TIGR01478 STEVOR variant surfa 29.0 85 0.0019 30.7 4.5 45 7-73 25-69 (295)
52 COG3853 TelA Uncharacterized p 28.9 6.4E+02 0.014 25.8 10.8 21 56-76 124-144 (386)
53 PF14282 FlxA: FlxA-like prote 28.7 3.3E+02 0.0072 22.4 8.3 51 113-171 20-70 (106)
54 PF01502 PRA-CH: Phosphoribosy 28.6 15 0.00032 28.8 -0.6 38 16-53 17-63 (75)
55 COG2433 Uncharacterized conser 28.4 2.9E+02 0.0064 29.9 8.6 24 113-136 444-467 (652)
56 KOG4672 Uncharacterized conser 27.6 3.2E+02 0.0069 28.3 8.3 30 143-172 65-94 (487)
57 PF06657 Cep57_MT_bd: Centroso 26.8 3.1E+02 0.0067 21.4 8.1 53 116-171 21-73 (79)
58 PF09006 Surfac_D-trimer: Lung 26.7 97 0.0021 22.0 3.3 20 116-135 3-22 (46)
59 PF10211 Ax_dynein_light: Axon 25.9 5E+02 0.011 23.6 12.1 12 63-74 92-103 (189)
60 PF13942 Lipoprotein_20: YfhG 25.9 2.8E+02 0.0061 25.3 6.9 23 113-135 131-153 (179)
61 cd08888 SRPBCC_PITPNA-B_like L 25.8 1.7E+02 0.0037 28.3 5.8 40 127-166 219-258 (258)
62 PRK10869 recombination and rep 25.6 4.4E+02 0.0096 28.1 9.6 12 62-73 140-151 (553)
63 PF02183 HALZ: Homeobox associ 25.5 2.2E+02 0.0048 19.9 5.0 18 115-132 22-39 (45)
64 PF06120 Phage_HK97_TLTM: Tail 24.7 6.9E+02 0.015 24.7 11.2 57 62-135 55-111 (301)
65 PF08172 CASP_C: CASP C termin 24.4 1.8E+02 0.0039 27.8 5.8 26 113-138 108-133 (248)
66 PF15188 CCDC-167: Coiled-coil 24.4 3.7E+02 0.0081 21.5 7.3 50 113-167 6-55 (85)
67 PF06698 DUF1192: Protein of u 24.3 1.9E+02 0.0041 21.6 4.6 28 140-167 15-43 (59)
68 TIGR01062 parC_Gneg DNA topois 24.1 8.7E+02 0.019 27.1 11.7 60 8-75 278-350 (735)
69 PRK09631 DNA topoisomerase IV 24.0 8E+02 0.017 26.9 11.2 62 3-74 247-319 (635)
70 TIGR01005 eps_transp_fam exopo 23.4 8.7E+02 0.019 26.6 11.7 16 144-159 233-248 (754)
71 PRK11519 tyrosine kinase; Prov 23.3 9.5E+02 0.021 26.4 11.9 36 64-99 246-281 (719)
72 TIGR02894 DNA_bind_RsfA transc 23.0 5.6E+02 0.012 23.0 9.7 16 116-131 115-130 (161)
73 PF11336 DUF3138: Protein of u 22.9 4E+02 0.0086 27.9 8.1 60 110-169 23-104 (514)
74 PF11460 DUF3007: Protein of u 22.8 1.8E+02 0.0038 24.3 4.7 22 130-158 82-103 (104)
75 PTZ00108 DNA topoisomerase 2-l 22.6 7E+02 0.015 30.0 11.0 27 44-74 962-988 (1388)
76 TIGR02231 conserved hypothetic 22.4 9E+02 0.019 25.3 11.1 28 144-171 123-150 (525)
77 TIGR03007 pepcterm_ChnLen poly 22.4 6.5E+02 0.014 25.9 10.0 14 147-160 203-216 (498)
78 PF08317 Spc7: Spc7 kinetochor 22.4 7.5E+02 0.016 24.3 10.5 29 143-171 204-232 (325)
79 TIGR03185 DNA_S_dndD DNA sulfu 21.8 3E+02 0.0065 29.8 7.6 24 147-170 261-284 (650)
80 PRK00182 tatB sec-independent 21.7 85 0.0018 28.2 2.8 35 34-74 9-43 (160)
81 PLN03237 DNA topoisomerase 2; 21.6 8.7E+02 0.019 29.4 11.5 27 44-74 988-1014(1465)
82 COG0216 PrfA Protein chain rel 21.6 3.4E+02 0.0074 27.4 7.2 14 62-75 7-20 (363)
83 PF07926 TPR_MLP1_2: TPR/MLP1/ 21.6 5E+02 0.011 21.9 10.4 30 150-179 100-131 (132)
84 PF12537 DUF3735: Protein of u 21.2 1.5E+02 0.0033 22.6 3.8 25 147-171 47-71 (72)
85 KOG0999 Microtubule-associated 21.1 9.8E+02 0.021 26.0 10.6 51 113-171 195-248 (772)
86 cd00187 TOP4c DNA Topoisomeras 21.1 9.5E+02 0.021 25.0 11.8 60 7-75 257-328 (445)
87 KOG1853 LIS1-interacting prote 20.6 8E+02 0.017 23.9 10.2 24 148-171 87-110 (333)
88 PF04645 DUF603: Protein of un 20.0 6.7E+02 0.015 22.8 8.8 67 110-179 103-169 (181)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=100.00 E-value=5.9e-35 Score=265.19 Aligned_cols=176 Identities=29% Similarity=0.450 Sum_probs=121.8
Q ss_pred CCCcccceEEecCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccCCCcchHHHHHHHhhcCHHHHH
Q 018115 1 MGRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQLTPQERA 80 (360)
Q Consensus 1 MGR~Ki~IkrIen~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~s~~er~ 80 (360)
|||+||+|+||||.++|||||+|||+||||||+||||||||+||||||||+||+|+|++++.+|.+|++||.+.+..++.
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 99999999999999999999999999999999999999999999999999999999987444599999999998876654
Q ss_pred HHHHHHHHHHHHH-HhhhhhchhhHHHhccchhhHHHHHHHHHHHHHHHHHHH---HhhhccCCCC-CCCCH-HHHHHHH
Q 018115 81 KRKLESLEALKKT-FKKLDHDVNIQDFLGASTQTVEELTHQVRILQAQLTEVH---QRLSYWSNPG-NIESI-EHLRQME 154 (360)
Q Consensus 81 k~~~e~~e~L~k~-~kKL~~e~~i~~~~~~~~q~vE~L~~ei~~Lq~qle~lq---~rlr~~~g~d-~~LSl-eEL~~LE 154 (360)
+........+... +.++..+...... ....+......+....+.+. ...+.+.+++ ..++. .+|..++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~ 154 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEEL------KLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLE 154 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhc------cchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchh
Confidence 4322222222111 1111100000000 00111222333333333322 2345555665 66777 9999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh-hhhhh
Q 018115 155 NSLRESINQICLHKENFGKQQLM-SLEFA 182 (360)
Q Consensus 155 ~qLe~sL~~IR~RK~qL~~~ql~-~Lq~k 182 (360)
.+|+.++..+|.++...+.+++. .++.+
T Consensus 155 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 183 (195)
T KOG0014|consen 155 SQLESSLHNSRSSKSKPLSDSNFQVLQEK 183 (195)
T ss_pred hHHHHhhcCCCCCCCcCCcchhhhhhccc
Confidence 99999999999999888777665 44333
No 2
>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.96 E-value=1.6e-30 Score=203.97 Aligned_cols=73 Identities=49% Similarity=0.889 Sum_probs=70.5
Q ss_pred CCcccceEEecCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccCCCcchHHHHHHHhhcCH
Q 018115 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQLTP 76 (360)
Q Consensus 2 GR~Ki~IkrIen~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~s~ 76 (360)
||+||+|++|||+.+|+|||+|||.||||||+||||||||+||||||||+|+++.|++ +++++||+||.+.+.
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s--~s~~~vl~ry~~~~~ 73 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSS--PSMEKIIERYQKTSG 73 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecC--CCHHHHHHHHHhccc
Confidence 8999999999999999999999999999999999999999999999999999999987 789999999998765
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=99.94 E-value=2e-28 Score=194.83 Aligned_cols=79 Identities=48% Similarity=0.833 Sum_probs=72.9
Q ss_pred CCcccceEEecCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccCCCcchHHHHHHHhhcCHHHHHH
Q 018115 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQLTPQERAK 81 (360)
Q Consensus 2 GR~Ki~IkrIen~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~s~~er~k 81 (360)
||+||+|++|+|+.+|+|||+|||.||+|||+||||||||+||||||||+|+++.|+++ +++..||+||...+..++.+
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~ 79 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPS-SEVEGVISRFEVLSALERKK 79 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCc-HHHHHHHHHHhhcCHhhhhc
Confidence 89999999999999999999999999999999999999999999999999999998873 33999999999988765543
No 4
>smart00432 MADS MADS domain.
Probab=99.93 E-value=3.3e-27 Score=175.63 Aligned_cols=58 Identities=59% Similarity=0.999 Sum_probs=56.9
Q ss_pred CCcccceEEecCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccC
Q 018115 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHG 59 (360)
Q Consensus 2 GR~Ki~IkrIen~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s 59 (360)
||+||+|++|||...|++||+|||.||+|||+||||||||+||||||||+|+++.|++
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~ 58 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFAS 58 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccC
Confidence 8999999999999999999999999999999999999999999999999999999975
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=99.92 E-value=1.4e-26 Score=172.36 Aligned_cols=58 Identities=53% Similarity=0.952 Sum_probs=56.9
Q ss_pred CCcccceEEecCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccC
Q 018115 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHG 59 (360)
Q Consensus 2 GR~Ki~IkrIen~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s 59 (360)
||+||+|++|+|+..|+|||+|||.||+|||+||||||||+||||||||+|+++.|++
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~ 58 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWS 58 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccC
Confidence 8999999999999999999999999999999999999999999999999999999985
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=99.88 E-value=4.3e-25 Score=159.36 Aligned_cols=51 Identities=51% Similarity=0.914 Sum_probs=46.7
Q ss_pred EEecCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccC
Q 018115 9 KRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHG 59 (360)
Q Consensus 9 krIen~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s 59 (360)
|+|||...|++||+|||.||+|||+|||+||||+||||||||+|+++.|++
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 689999999999999999999999999999999999999999999999974
No 7
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.73 E-value=6.9e-19 Score=166.13 Aligned_cols=65 Identities=45% Similarity=0.664 Sum_probs=61.5
Q ss_pred CCcccceEEecCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccCCCcchHHHH
Q 018115 2 GRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVI 68 (360)
Q Consensus 2 GR~Ki~IkrIen~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~IL 68 (360)
||+||+|++|||+..|.|||||||.||||||+|||||+|.+|-|+|-|.+|-+|.|++ +.++.||
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaT--pKLep~i 127 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT--PKLEPMI 127 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEecc--ccccccc
Confidence 7999999999999999999999999999999999999999999999999999999997 5666555
No 8
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.33 E-value=3.2e-13 Score=133.25 Aligned_cols=65 Identities=37% Similarity=0.558 Sum_probs=60.5
Q ss_pred CCCcccceEEecCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccCCCcchHHH
Q 018115 1 MGRVKLKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEV 67 (360)
Q Consensus 1 MGR~Ki~IkrIen~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~I 67 (360)
|||+||.|..|+|+.+|.|||+||+.||+|||+||+||.+.+|+|+|.|.+|+++.|+. +..+.|
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~t--p~~e~v 145 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTT--PKLESV 145 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecC--Cccccc
Confidence 79999999999999999999999999999999999999999999999999999999987 444433
No 9
>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=99.32 E-value=4.6e-12 Score=104.09 Aligned_cols=82 Identities=17% Similarity=0.236 Sum_probs=74.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhhccCCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcc--cCC
Q 018115 111 TQTVEELTHQVRILQAQLTEVHQRLSYWSNPG-NIESIEHLRQMENSLRESINQICLHKENFGKQQLMSLEFAGQ--SGM 187 (360)
Q Consensus 111 ~q~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d-~~LSleEL~~LE~qLe~sL~~IR~RK~qL~~~ql~~Lq~keq--~~~ 187 (360)
...++.++.++.+|+.+++.++..+|++.|++ +.||++||..||++|+.+|++||+||.+++.++|..|++|+. .+.
T Consensus 11 ~~~~e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~~l~~e 90 (100)
T PF01486_consen 11 DSQHEELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKERELEEE 90 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34577899999999999999999999999999 999999999999999999999999999999999999999976 555
Q ss_pred Cchhh
Q 018115 188 HLPLM 192 (360)
Q Consensus 188 n~~l~ 192 (360)
|..|+
T Consensus 91 n~~L~ 95 (100)
T PF01486_consen 91 NNQLR 95 (100)
T ss_pred HHHHH
Confidence 55554
No 10
>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=88.92 E-value=3.9 Score=36.39 Aligned_cols=60 Identities=20% Similarity=0.238 Sum_probs=51.4
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 110 STQTVEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLHKE 169 (360)
Q Consensus 110 ~~q~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~RK~ 169 (360)
+..+.++|...+..|+.+++.++.++..+.+.....+-+|...+++......+..+.||.
T Consensus 107 ~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~k~w~kRKr 166 (169)
T PF07106_consen 107 SEPTNEELREEIEELEEEIEELEEKLEKLRSGSKPVSPEEKEKLEKEYKKWRKEWKKRKR 166 (169)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344677888999999999999999988777655668999999999999999999999985
No 11
>PRK04098 sec-independent translocase; Provisional
Probab=84.14 E-value=2.7 Score=37.49 Aligned_cols=82 Identities=11% Similarity=0.274 Sum_probs=48.5
Q ss_pred ceeccccCCCCCCccccCCCcchHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHhhhhhchhhHHHhccchhhHHHHHHHH
Q 018115 42 DIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQLTPQERAKRKLESLEALKKTFKKLDHDVNIQDFLGASTQTVEELTHQV 121 (360)
Q Consensus 42 eVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~s~~er~k~~~e~~e~L~k~~kKL~~e~~i~~~~~~~~q~vE~L~~ei 121 (360)
=||||||+| .||.... ..+-+.|.+|++.....+. .+ +.+. .+.+++.+.
T Consensus 14 vVaLlvfGP-~KLP~~~---r~lGk~ir~~K~~~~~~k~--------~l-------~~Ei-----------~~~elk~e~ 63 (158)
T PRK04098 14 VVAIIFLGP-DKLPQAM---VDIAKFFKAVKKTINDAKS--------TL-------DKEI-----------NIEEIKEEA 63 (158)
T ss_pred HHHHhhcCc-hHHHHHH---HHHHHHHHHHHHHHHHHHH--------HH-------HHHH-----------hhHHHHHHH
Confidence 478999998 5777665 4677777777664432111 11 1111 244667777
Q ss_pred HHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHH
Q 018115 122 RILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRE 159 (360)
Q Consensus 122 ~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~ 159 (360)
.+.+..++.....+| ..+++++|..+-.-+..
T Consensus 64 ~k~k~~l~~~~~~l~------~~~~~eel~~~~~~~~~ 95 (158)
T PRK04098 64 LKYKKEFESAVESLK------KKLKFEELDDLKITAEN 95 (158)
T ss_pred HHHHHHHHHHHHHHH------hccChHHHHHHhhhhhh
Confidence 777777776666665 23677777766444333
No 12
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=79.57 E-value=0.77 Score=27.84 Aligned_cols=14 Identities=43% Similarity=0.619 Sum_probs=11.6
Q ss_pred ceeccccCCCCCCc
Q 018115 42 DIVLLMFSPTGRST 55 (360)
Q Consensus 42 eVaLIIFSp~GKl~ 55 (360)
|-.+.+|||.||++
T Consensus 2 D~~~t~FSp~Grl~ 15 (23)
T PF10584_consen 2 DRSITTFSPDGRLF 15 (23)
T ss_dssp SSSTTSBBTTSSBH
T ss_pred CCCceeECCCCeEE
Confidence 34678999999997
No 13
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=73.98 E-value=40 Score=30.60 Aligned_cols=67 Identities=16% Similarity=0.161 Sum_probs=53.7
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018115 110 STQTVEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLHKENFGKQQLM 177 (360)
Q Consensus 110 ~~q~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~RK~qL~~~ql~ 177 (360)
+..++++++.++..|+.+.....+++..+.......+-+|-.+.++.-+...+.-|.||. ++.+=++
T Consensus 114 s~Lt~eemQe~i~~L~kev~~~~erl~~~k~g~~~vtpedk~~v~~~y~~~~~~wrk~kr-mf~ei~d 180 (201)
T KOG4603|consen 114 SALTTEEMQEEIQELKKEVAGYRERLKNIKAGTNHVTPEDKEQVYREYQKYCKEWRKRKR-MFREIID 180 (201)
T ss_pred HhcChHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence 445788999999999999999999988776555567889999999999999999988887 4443333
No 14
>PHA03155 hypothetical protein; Provisional
Probab=70.25 E-value=33 Score=28.96 Aligned_cols=57 Identities=21% Similarity=0.291 Sum_probs=43.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhccCCCC-CCCCHHHHHHHHHHHHHHHHHHHHHH
Q 018115 112 QTVEELTHQVRILQAQLTEVHQRLSYWSNPG-NIESIEHLRQMENSLRESINQICLHK 168 (360)
Q Consensus 112 q~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d-~~LSleEL~~LE~qLe~sL~~IR~RK 168 (360)
..+|+|..++.+|+-++..|.+.++.-.+++ ..|+-.+=+-+--+.-..|...-++|
T Consensus 8 ~tvEeLaaeL~kL~~ENK~LKkkl~~~~~p~d~~LT~~qKea~I~s~v~~Lt~~A~~K 65 (115)
T PHA03155 8 ADVEELEKELQKLKIENKALKKKLLQHGNPEDELLTPAQKDAIINSLVNKLTKKAEEK 65 (115)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHccCCCCccccCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3589999999999999999999997765555 77888877777766666665555544
No 15
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.60 E-value=37 Score=32.82 Aligned_cols=55 Identities=18% Similarity=0.398 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 018115 114 VEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLHKENFGKQQLM 177 (360)
Q Consensus 114 vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~RK~qL~~~ql~ 177 (360)
++.|..++..+..++.++++++- -+=.++..|+..++..-.+|++|++-| .+++-
T Consensus 54 i~~L~~qi~~~~~k~~~~~~~i~--------~~~~eik~l~~eI~~~~~~I~~r~~~l-~~raR 108 (265)
T COG3883 54 IESLDNQIEEIQSKIDELQKEID--------QSKAEIKKLQKEIAELKENIVERQELL-KKRAR 108 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH
Confidence 44444445555544444444431 234677888999999999999997544 44443
No 16
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=62.76 E-value=52 Score=28.04 Aligned_cols=57 Identities=19% Similarity=0.222 Sum_probs=40.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhccCC----C-CCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 113 TVEELTHQVRILQAQLTEVHQRLSYWSN----P-GNIESIEHLRQMENSLRESINQICLHKE 169 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~rlr~~~g----~-d~~LSleEL~~LE~qLe~sL~~IR~RK~ 169 (360)
.+|+|..++.+|+-++..|.+.++.-.| + +..|+-.+=+-|--+.-.+|...-++|-
T Consensus 4 t~EeLaaeL~kLqmENk~LKkkl~~~~~p~~~p~~~~LTp~qKe~~I~s~~~~Lss~A~~KI 65 (118)
T PF05812_consen 4 TMEELAAELQKLQMENKALKKKLRQSVGPGPSPDDEVLTPAQKEAMITSAVSKLSSQASKKI 65 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTT---S-TT--B--HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCCCccccChHHHHHHHHHHHHHHHHHHHHHH
Confidence 5889999999999999999999988775 3 3778888877777666666665555553
No 17
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=59.84 E-value=1.2e+02 Score=26.30 Aligned_cols=50 Identities=28% Similarity=0.429 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 114 VEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 114 vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
++.|...+.+|+.+++.+++.+. ..-.....++..+......++.-|+++
T Consensus 68 ~~~l~~~~~rL~~~~~~~ere~~--------~~~~~~~~l~~~~~~~~~~~k~~kee~ 117 (151)
T PF11559_consen 68 IERLQNDVERLKEQLEELERELA--------SAEEKERQLQKQLKSLEAKLKQEKEEL 117 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666665542 123344455555555555555555443
No 18
>PRK01919 tatB sec-independent translocase; Provisional
Probab=59.15 E-value=33 Score=30.99 Aligned_cols=27 Identities=15% Similarity=0.301 Sum_probs=16.1
Q ss_pred eeccccCCCCCCccccCCCcchHHHHHHHhh
Q 018115 43 IVLLMFSPTGRSTLFHGQRSNIEEVIARFAQ 73 (360)
Q Consensus 43 VaLIIFSp~GKl~~f~s~~ssme~ILeRY~~ 73 (360)
||||||.| .||.... ..+-..+.++++
T Consensus 15 VALiV~GP-ekLP~~a---RtlGk~i~k~Rr 41 (169)
T PRK01919 15 VALVVIGP-ERLPRVA---RTAGALFGRAQR 41 (169)
T ss_pred HHHheeCc-hHhHHHH---HHHHHHHHHHHH
Confidence 78999998 5555443 244444544443
No 19
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=59.11 E-value=29 Score=31.41 Aligned_cols=19 Identities=21% Similarity=0.352 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 018115 148 EHLRQMENSLRESINQICL 166 (360)
Q Consensus 148 eEL~~LE~qLe~sL~~IR~ 166 (360)
.||+.||.||++.+..||+
T Consensus 159 qElqELE~QL~DRl~~l~e 177 (179)
T PF14723_consen 159 QELQELEFQLEDRLLQLRE 177 (179)
T ss_pred HHHHHHHHHHHHHHHHHHc
Confidence 5899999999999998875
No 20
>PRK04654 sec-independent translocase; Provisional
Probab=58.40 E-value=24 Score=32.95 Aligned_cols=27 Identities=15% Similarity=0.129 Sum_probs=17.6
Q ss_pred eeccccCCCCCCccccCCCcchHHHHHHHhh
Q 018115 43 IVLLMFSPTGRSTLFHGQRSNIEEVIARFAQ 73 (360)
Q Consensus 43 VaLIIFSp~GKl~~f~s~~ssme~ILeRY~~ 73 (360)
||||||.| .||-... ..+-+.|.++++
T Consensus 15 VALlV~GP-erLPe~a---RtlGk~irk~R~ 41 (214)
T PRK04654 15 VALVVLGP-ERLPKAA---RFAGLWVRRARM 41 (214)
T ss_pred HHHHhcCc-hHHHHHH---HHHHHHHHHHHH
Confidence 78999998 5655553 355556666554
No 21
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=56.06 E-value=1.4e+02 Score=31.01 Aligned_cols=29 Identities=17% Similarity=0.481 Sum_probs=24.4
Q ss_pred ceeccccCCCCCCccccCCCcchHHHHHHHhhc
Q 018115 42 DIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQL 74 (360)
Q Consensus 42 eVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~ 74 (360)
-+-+++|.++|++..|. ++++||..|-..
T Consensus 298 ~~Nm~~~d~~g~~~~~~----~~~~Il~~f~~~ 326 (439)
T PHA02592 298 SQNITVINENGKLKVYE----NAEDLIRDFVEI 326 (439)
T ss_pred eeeEEEEecCCeeeecC----CHHHHHHHHHHH
Confidence 47789999999998883 689999999764
No 22
>PHA03162 hypothetical protein; Provisional
Probab=53.70 E-value=92 Score=27.02 Aligned_cols=58 Identities=14% Similarity=0.168 Sum_probs=42.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhccCCC-----CCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 112 QTVEELTHQVRILQAQLTEVHQRLSYWSNP-----GNIESIEHLRQMENSLRESINQICLHKE 169 (360)
Q Consensus 112 q~vE~L~~ei~~Lq~qle~lq~rlr~~~g~-----d~~LSleEL~~LE~qLe~sL~~IR~RK~ 169 (360)
.++|+|..++.+|+-++..|.++++.-.++ |.+|+-.+=+-|--+.-..|...-++|-
T Consensus 13 ~tmEeLaaeL~kLqmENK~LKkkl~~~~~~~~~p~d~~LTp~qKea~I~s~v~~Lts~A~kKI 75 (135)
T PHA03162 13 PTMEDLAAEIAKLQLENKALKKKIKEGTDDDPLPGDPILTPAAKEAMIGAATAALTRQAAKKI 75 (135)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368999999999999999999999765433 3568887777776666666666555553
No 23
>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []. Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus
Probab=51.17 E-value=1.5e+02 Score=32.74 Aligned_cols=49 Identities=20% Similarity=0.436 Sum_probs=30.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHH----HHHHHHHHHHH---HHHHHHHHH
Q 018115 113 TVEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQM----ENSLRESINQI---CLHKENFGK 173 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~L----E~qLe~sL~~I---R~RK~qL~~ 173 (360)
++|.++.+|++|..+++.+... ++|+..| |+||+++|.-+ |+.|..|-+
T Consensus 122 efE~~Khei~rl~Ee~~~l~~q------------lee~~rLk~iae~qleEALesl~~EReqk~~Lrk 177 (717)
T PF09730_consen 122 EFEGLKHEIKRLEEEIELLNSQ------------LEEAARLKEIAEKQLEEALESLKSEREQKNALRK 177 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666777777777666655544 3333332 78888887666 666666543
No 24
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=50.97 E-value=79 Score=28.17 Aligned_cols=58 Identities=14% Similarity=0.158 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 114 VEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 114 vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
+++++-....++.++..++.+++......++|.+-|..+|.-.-.....+|.+|-.+|
T Consensus 8 i~~~Rl~~~~lk~~l~k~~~ql~~ke~lge~L~~iDFeqLkien~~l~~kIeERn~eL 65 (177)
T PF13870_consen 8 ISKLRLKNITLKHQLAKLEEQLRQKEELGEGLHLIDFEQLKIENQQLNEKIEERNKEL 65 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555556666666666666655544456777777777666666666666665554
No 25
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=48.31 E-value=1.7e+02 Score=27.77 Aligned_cols=57 Identities=14% Similarity=0.247 Sum_probs=44.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 018115 112 QTVEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLHK 168 (360)
Q Consensus 112 q~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~RK 168 (360)
.....|...+..+...+.++-.....+...+..++-.+|..+=...+.-|..||.|-
T Consensus 87 ~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r~ 143 (264)
T PF06008_consen 87 QRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKRD 143 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhcc
Confidence 356677778888888888877777666554567788899988888888899999884
No 26
>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=45.49 E-value=1.7e+02 Score=25.85 Aligned_cols=28 Identities=25% Similarity=0.275 Sum_probs=19.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 144 IESIEHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 144 ~LSleEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
.++.+||...-.+|+.-+..+.+|-..|
T Consensus 108 ~~t~~el~~~i~~l~~e~~~l~~kL~~l 135 (169)
T PF07106_consen 108 EPTNEELREEIEELEEEIEELEEKLEKL 135 (169)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578888887777777777776665544
No 27
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=44.59 E-value=68 Score=29.18 Aligned_cols=62 Identities=15% Similarity=0.199 Sum_probs=43.6
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHhhhccCCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 110 STQTVEELTHQVRILQAQLTEVHQRLSYWSNPG----NIESIEHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 110 ~~q~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d----~~LSleEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
++-++..|..++.+|.+++..+++..+....+. ..|+++|++.--+.|..-.+--|+|-..+
T Consensus 77 ~~eel~~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~ 142 (201)
T KOG4603|consen 77 SDEELQVLDGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNI 142 (201)
T ss_pred ChHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444556667788888888888888777665443 45789999888888877766666665443
No 28
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=43.77 E-value=1.7e+02 Score=31.04 Aligned_cols=63 Identities=16% Similarity=0.214 Sum_probs=29.9
Q ss_pred cceEEecCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccCCCcchHHHHHHHhhcC
Q 018115 6 LKIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQLT 75 (360)
Q Consensus 6 i~IkrIen~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~s 75 (360)
+-|+|.-+...|...|---+.==.+...+|.- ..|.|.+-......+.. ..--++||+|....
T Consensus 95 ~ii~R~i~~~grs~~~iNg~~v~~~~l~~l~~-----~li~i~gQ~~~~~l~~~--~~~~~lLD~~~~~~ 157 (563)
T TIGR00634 95 VILRRSISRDGRSRAYLNGKPVSASSLLEFTS-----ELLDLHGQHDQQLLFRP--DEQRQLLDTFAGAN 157 (563)
T ss_pred EEEEEEEcCCCceEEEECCEEccHHHHHHHhc-----CeEEEECchHHHHhcCH--HHHHHHHHHhcCch
Confidence 44555555555555443333322333334421 22333333333444432 56778889998753
No 29
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=43.25 E-value=4.1e+02 Score=27.81 Aligned_cols=16 Identities=19% Similarity=0.486 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 018115 148 EHLRQMENSLRESINQ 163 (360)
Q Consensus 148 eEL~~LE~qLe~sL~~ 163 (360)
..|..+|.++.+.+..
T Consensus 417 ~kl~~~~e~~~~~~~s 432 (493)
T KOG0804|consen 417 GKLKELEEREKEALGS 432 (493)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4444454444444443
No 30
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=42.67 E-value=1.2e+02 Score=25.21 Aligned_cols=51 Identities=10% Similarity=0.119 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 114 VEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 114 vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
++++..+++.|-..++++-+. | ...+-+|+..|-..++..|+++|.|-...
T Consensus 10 ~~~l~~el~~L~d~lEevL~s---s----g~~a~~e~~~lR~r~~~~Lk~~r~rl~~~ 60 (104)
T COG4575 10 IDQLLAELQELLDTLEEVLKS---S----GSLAGDEAEELRSKAESALKEARDRLGDT 60 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHh---c----ccchhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 356666666666655554332 2 24578899999999999999998886554
No 31
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=41.39 E-value=1.3e+02 Score=23.58 Aligned_cols=27 Identities=11% Similarity=0.153 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccCCCC
Q 018115 116 ELTHQVRILQAQLTEVHQRLSYWSNPG 142 (360)
Q Consensus 116 ~L~~ei~~Lq~qle~lq~rlr~~~g~d 142 (360)
++......|+.++.....-++-+.|.+
T Consensus 25 d~~~~~~~lk~Klq~ar~~i~~lpgi~ 51 (83)
T PF07544_consen 25 DLDTATGSLKHKLQKARAAIRELPGID 51 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 444445555555555555555555544
No 32
>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=40.02 E-value=4.4e+02 Score=30.45 Aligned_cols=52 Identities=21% Similarity=0.293 Sum_probs=24.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q 018115 111 TQTVEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQIC 165 (360)
Q Consensus 111 ~q~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR 165 (360)
++....|++++.....++..+.+++..- + ..-.++++..+...++++-.+|.
T Consensus 707 ~~kf~~l~~ql~l~~~~l~l~~~r~~~~--e-~~~~~~~~~~~~e~v~e~~~~Ik 758 (1174)
T KOG0933|consen 707 SQKFRDLKQQLELKLHELALLEKRLEQN--E-FHKLLDDLKELLEEVEESEQQIK 758 (1174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcC--h-HhhHHHHHHHHHHHHHHHHHHHH
Confidence 3345566666666666666665555321 0 01234444444444444444443
No 33
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=39.70 E-value=3.4e+02 Score=25.88 Aligned_cols=53 Identities=19% Similarity=0.366 Sum_probs=24.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhccCCC-CCCCCHHHHHHHHHHHHHHHHHHH
Q 018115 113 TVEELTHQVRILQAQLTEVHQRLSYWSNP-GNIESIEHLRQMENSLRESINQIC 165 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~rlr~~~g~-d~~LSleEL~~LE~qLe~sL~~IR 165 (360)
+++++..++..++.++.++.+++.-.... ....+.+++..|...+..+-.+++
T Consensus 53 e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~ 106 (239)
T COG1579 53 ELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERIN 106 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHH
Confidence 35555555555555555554443211000 123456666666655544444333
No 34
>PF15030 DUF4527: Protein of unknown function (DUF4527)
Probab=37.79 E-value=1.8e+02 Score=28.02 Aligned_cols=25 Identities=8% Similarity=0.292 Sum_probs=12.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 146 SIEHLRQMENSLRESINQICLHKEN 170 (360)
Q Consensus 146 SleEL~~LE~qLe~sL~~IR~RK~q 170 (360)
+.+|-..|..+|...|.-++.++.+
T Consensus 45 s~dEa~~L~~~L~~kl~eLqkk~~E 69 (277)
T PF15030_consen 45 SRDEATRLQDELQGKLEELQKKQHE 69 (277)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3445555555555555555444444
No 35
>TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.
Probab=35.72 E-value=2.8e+02 Score=29.76 Aligned_cols=30 Identities=7% Similarity=0.067 Sum_probs=16.5
Q ss_pred cchhhhhhhhh--cccCcceeccccCCCCCCcc
Q 018115 26 NGILKKARELS--ILCDIDIVLLMFSPTGRSTL 56 (360)
Q Consensus 26 ~GL~KKA~ELS--vLCDaeVaLIIFSp~GKl~~ 56 (360)
.-|++++-++. +|-++.|.+.... .|+.++
T Consensus 89 ~pLL~~~vvI~~l~l~g~~v~l~R~~-~G~~~~ 120 (555)
T TIGR03545 89 DALLRGKVVIEELAIEGLAFGTERST-SGAVPE 120 (555)
T ss_pred HHHhcCCcEEeEEEEecCEEEEEEcc-CCCCCC
Confidence 34566655554 3346666666555 466553
No 36
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=33.70 E-value=2.2e+02 Score=22.67 Aligned_cols=21 Identities=19% Similarity=0.476 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 018115 115 EELTHQVRILQAQLTEVHQRL 135 (360)
Q Consensus 115 E~L~~ei~~Lq~qle~lq~rl 135 (360)
+.+..+|.+.+.++.++|.++
T Consensus 4 eKi~~eieK~k~Kiae~Q~rl 24 (83)
T PF14193_consen 4 EKIRAEIEKTKEKIAELQARL 24 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 445555666666666665553
No 37
>COG1422 Predicted membrane protein [Function unknown]
Probab=33.66 E-value=1.9e+02 Score=26.86 Aligned_cols=22 Identities=18% Similarity=0.394 Sum_probs=14.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh
Q 018115 113 TVEELTHQVRILQAQLTEVHQR 134 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~r 134 (360)
++++++.+.+.+|++.++.+++
T Consensus 73 km~~~qk~m~efq~e~~eA~~~ 94 (201)
T COG1422 73 KMKELQKMMKEFQKEFREAQES 94 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4556666677677666666554
No 38
>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria. There is little literature describing the family.
Probab=32.97 E-value=2.8e+02 Score=32.21 Aligned_cols=60 Identities=13% Similarity=0.296 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhhhhhh
Q 018115 114 VEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLH-KENFGKQQLMSLEF 181 (360)
Q Consensus 114 vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~R-K~qL~~~ql~~Lq~ 181 (360)
++.|++|++.|+. ++.|+..|-+. ..+.+++.||++|...-..+-.- -.++ ..||+.|+.
T Consensus 1133 lnnlqqElklLRn------EK~Rmh~~~dk-VDFSDIEkLE~qLq~~~~kL~dAyl~ei-tKqIsaLe~ 1193 (1439)
T PF12252_consen 1133 LNNLQQELKLLRN------EKIRMHSGTDK-VDFSDIEKLEKQLQVIHTKLYDAYLVEI-TKQISALEK 1193 (1439)
T ss_pred HHHHHHHHHHHHh------HHHhhccCCCc-ccHHHHHHHHHHHHHhhhhhHHHHHHHH-HHHHHHHHh
Confidence 3345555555543 24566666665 78899999999988775544221 1112 236666664
No 39
>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=32.58 E-value=6.1e+02 Score=27.23 Aligned_cols=29 Identities=14% Similarity=0.085 Sum_probs=17.9
Q ss_pred hhhhhhcccCcceeccccCC-CC------CCccccCC
Q 018115 31 KARELSILCDIDIVLLMFSP-TG------RSTLFHGQ 60 (360)
Q Consensus 31 KA~ELSvLCDaeVaLIIFSp-~G------Kl~~f~s~ 60 (360)
+||.|---- .+-...+|.. .| .||.|..+
T Consensus 78 ~ayyLPk~~-~e~YqfcYv~~~g~V~G~S~pFqf~~~ 113 (546)
T PF07888_consen 78 QAYYLPKDD-DEFYQFCYVDQKGEVRGASTPFQFRAP 113 (546)
T ss_pred CcccCCCCC-CCeEEEEEECCCccEEEecCCcccCCC
Confidence 688887643 3445555554 34 68888864
No 40
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=32.50 E-value=3.1e+02 Score=32.22 Aligned_cols=60 Identities=12% Similarity=0.113 Sum_probs=36.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhccCC----CC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 113 TVEELTHQVRILQAQLTEVHQRLSYWSN----PG--NIESIEHLRQMENSLRESINQICLHKENFG 172 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~rlr~~~g----~d--~~LSleEL~~LE~qLe~sL~~IR~RK~qL~ 172 (360)
.+++|-..+..|+++|..+..+|..... .- ..++-+||..|++..+..++-+++.++++.
T Consensus 1226 ~i~~l~~~~~~lr~~l~~~~e~L~~~E~~Lsdi~~~~~~a~~~LesLq~~~~~l~~~~keL~e~~~ 1291 (1758)
T KOG0994|consen 1226 DIAQLASATESLRRQLQALTEDLPQEEETLSDITNSLPLAGKDLESLQREFNGLLTTYKELREQLE 1291 (1758)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555566666666555555432211 11 134568999999888888877777777653
No 41
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=32.19 E-value=23 Score=29.72 Aligned_cols=50 Identities=28% Similarity=0.463 Sum_probs=35.2
Q ss_pred CCcceeecccccchhhhh---------hhhhcccCcceeccccCCCCCCccccCCCcch
Q 018115 15 SNRQVTYSKRRNGILKKA---------RELSILCDIDIVLLMFSPTGRSTLFHGQRSNI 64 (360)
Q Consensus 15 ~~RqvTFsKRr~GL~KKA---------~ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssm 64 (360)
+.+-.-||+-|+-|.+|- .|+.+=||.|.-||+.-+.|.+.---+.++++
T Consensus 48 Tg~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~gg~aCHtG~~SCF 106 (111)
T COG0139 48 TGEAHYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQIGGPACHTGTRSCF 106 (111)
T ss_pred cCeEEEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeCCCCcccCCCcccc
Confidence 344455688888677764 59999999999999999977655333333443
No 42
>PRK09039 hypothetical protein; Validated
Probab=32.11 E-value=2.9e+02 Score=27.63 Aligned_cols=25 Identities=32% Similarity=0.406 Sum_probs=14.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhh
Q 018115 111 TQTVEELTHQVRILQAQLTEVHQRL 135 (360)
Q Consensus 111 ~q~vE~L~~ei~~Lq~qle~lq~rl 135 (360)
...+..|+.+|..|+.++..++..+
T Consensus 136 ~~~V~~L~~qI~aLr~Qla~le~~L 160 (343)
T PRK09039 136 LAQVELLNQQIAALRRQLAALEAAL 160 (343)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666666666665555443
No 43
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=31.47 E-value=5.3e+02 Score=28.34 Aligned_cols=34 Identities=18% Similarity=0.299 Sum_probs=15.9
Q ss_pred HHHHHHhhcCHHHHHHHHHHHHHHHHHHHhhhhh
Q 018115 66 EVIARFAQLTPQERAKRKLESLEALKKTFKKLDH 99 (360)
Q Consensus 66 ~ILeRY~~~s~~er~k~~~e~~e~L~k~~kKL~~ 99 (360)
.+++.|....-..+........++|.+++.+++.
T Consensus 248 ~la~~Yi~~~l~~k~~~a~~a~~fL~~qL~~l~~ 281 (726)
T PRK09841 248 SIANNYLQQNIARQAAQDSQSLEFLQRQLPEVRS 281 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666544333333333334555555555443
No 44
>PRK01770 sec-independent translocase; Provisional
Probab=30.99 E-value=97 Score=28.08 Aligned_cols=36 Identities=22% Similarity=0.307 Sum_probs=22.1
Q ss_pred hhhcccCcceeccccCCCCCCccccCCCcchHHHHHHHhhcC
Q 018115 34 ELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQLT 75 (360)
Q Consensus 34 ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~s 75 (360)
||-|++ =||||||+| .||-... ..+-..|.+++++.
T Consensus 8 ELllI~--vVaLlV~GP-erLP~~~---r~lg~~i~~~R~~~ 43 (171)
T PRK01770 8 ELLLVF--VIGLVVLGP-QRLPVAV---KTVAGWIRALRSLA 43 (171)
T ss_pred HHHHHH--HHHHHhcCc-hHHHHHH---HHHHHHHHHHHHHH
Confidence 444443 378999998 5655553 35666666666543
No 45
>PF09158 MotCF: Bacteriophage T4 MotA, C-terminal; InterPro: IPR015241 Transcription factor MotA is required for the activation of middle promoters in Bacteriophage T4, in addition to phage T4 co-activator AsiA, and sigma-70-containing Escherichia coli RNA polymerase. Phage T4 middle promoters have the sigma70 -10 DNA element, but not the -35 element; instead, they have a MotA box at -30 to which the transcription factor MotA binds []. MotA and AsiA interact with the C-terminal of sigma70 (region 4), which normally binds the -35 element and the beta-flap, thereby diverting sigma70 away from host promoters that require -35 element-binding to phage T4 middle promoters. Transcription factor MotA has two domains: an N-terminal domain required for binding to sigma70, and a C-terminal domain required for binding to the -30 MotA box element in the phage T4 middle promoter. This entry represents the C-terminal domain of MotA factors, which adopts a compact alpha/beta structure comprising three alpha-helices and six beta-strands in the order: alpha1-beta1-beta2-beta3-beta4-alpha2-beta5-beta6-alpha3. In this architecture, the domain's hydrophobic core is at the sheet-helix interface, and the second surface of the beta-sheet is completely exposed. It contains a DNA-binding motif, with a consensus sequence containing nine base pairs (5'-TTTGCTTTA-3'), that appears to bind to various mot boxes, allowing access to the minor groove towards the 5'-end of this sequence and the major groove towards the 3'-end [].; PDB: 1KAF_B.
Probab=30.43 E-value=22 Score=29.48 Aligned_cols=54 Identities=30% Similarity=0.527 Sum_probs=36.4
Q ss_pred ccceEEe-cCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccCCCcchHHHHHHHhhcC
Q 018115 5 KLKIKRL-ESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQLT 75 (360)
Q Consensus 5 Ki~IkrI-en~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~s 75 (360)
+|++|.+ ++.+|=.|+|.||-.|+-+ .|| ..+|+.=.|+. .-.++++..|..+-
T Consensus 19 ~ie~K~~~~~RSN~~i~f~KRt~Girq----------fEi-----~n~G~~RI~gY--k~se~~~~~f~slG 73 (103)
T PF09158_consen 19 KIEVKEIVIDRSNYEIRFKKRTKGIRQ----------FEI-----RNKGEFRIFGY--KMSEEIIKKFTSLG 73 (103)
T ss_dssp T--EEEEEEETTEEEEEEEEEETTEEE----------EEE-----ETTSEEEEEEE--S--HHHHHHHHHTT
T ss_pred ceeeeeeEeeccceEEeeecccCceeE----------EEE-----ecCCcEEEEEE--cCCHHHHHHHHhcC
Confidence 5788887 8899999999999999842 222 25777666764 45677788887643
No 46
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=30.33 E-value=5.4e+02 Score=25.30 Aligned_cols=16 Identities=13% Similarity=0.312 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 018115 114 VEELTHQVRILQAQLT 129 (360)
Q Consensus 114 vE~L~~ei~~Lq~qle 129 (360)
++.++.++..+..+++
T Consensus 211 L~~lr~eL~~~~~~i~ 226 (325)
T PF08317_consen 211 LEALRQELAEQKEEIE 226 (325)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444433
No 47
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=29.54 E-value=2.6e+02 Score=24.57 Aligned_cols=23 Identities=39% Similarity=0.625 Sum_probs=17.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHh
Q 018115 112 QTVEELTHQVRILQAQLTEVHQR 134 (360)
Q Consensus 112 q~vE~L~~ei~~Lq~qle~lq~r 134 (360)
+++++|..++..++.+++.++..
T Consensus 6 ~~le~l~a~lq~l~~qie~L~~~ 28 (145)
T COG1730 6 QELEELAAQLQILQSQIESLQAQ 28 (145)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Confidence 45778888888888888877665
No 48
>PRK10722 hypothetical protein; Provisional
Probab=29.47 E-value=2.1e+02 Score=27.40 Aligned_cols=21 Identities=29% Similarity=0.351 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 018115 114 VEELTHQVRILQAQLTEVHQR 134 (360)
Q Consensus 114 vE~L~~ei~~Lq~qle~lq~r 134 (360)
++.|+++...|+.++....++
T Consensus 178 lD~lrqq~~~Lq~~L~~t~rK 198 (247)
T PRK10722 178 LDALRQQQQRLQYQLELTTRK 198 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444443333
No 49
>PF03233 Cauli_AT: Aphid transmission protein; InterPro: IPR004917 This protein is found in various caulimoviruses. It codes for an 18 kDa protein (PII), which is dispensable for infection but which is required for aphid transmission of the virus []. This protein interacts with the PIII protein []. ; GO: 0019089 transmission of virus
Probab=29.40 E-value=2e+02 Score=25.92 Aligned_cols=25 Identities=12% Similarity=0.178 Sum_probs=20.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHH
Q 018115 144 IESIEHLRQMENSLRESINQICLHK 168 (360)
Q Consensus 144 ~LSleEL~~LE~qLe~sL~~IR~RK 168 (360)
..+.+++..+-+.+++.|+.||+--
T Consensus 134 Iv~~~~i~e~IKd~de~L~~I~d~i 158 (163)
T PF03233_consen 134 IVTEKLIEELIKDFDERLKEIRDKI 158 (163)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888899999999999998753
No 50
>PRK11637 AmiB activator; Provisional
Probab=29.15 E-value=2.6e+02 Score=28.49 Aligned_cols=20 Identities=10% Similarity=0.215 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 018115 149 HLRQMENSLRESINQICLHK 168 (360)
Q Consensus 149 EL~~LE~qLe~sL~~IR~RK 168 (360)
++..++.+|...-.+|..++
T Consensus 104 ei~~l~~eI~~~q~~l~~~~ 123 (428)
T PRK11637 104 QIDELNASIAKLEQQQAAQE 123 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444443
No 51
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=29.03 E-value=85 Score=30.74 Aligned_cols=45 Identities=18% Similarity=0.460 Sum_probs=31.1
Q ss_pred ceEEecCCCCcceeecccccchhhhhhhhhcccCcceeccccCCCCCCccccCCCcchHHHHHHHhh
Q 018115 7 KIKRLESTSNRQVTYSKRRNGILKKARELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQ 73 (360)
Q Consensus 7 ~IkrIen~~~RqvTFsKRr~GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~ 73 (360)
.|..|.|.+.|..+ +-| .||..|++ +.| .|-. +|.|++|+++|..
T Consensus 25 n~~li~n~tqr~t~-~sR------------~L~Ecel~---~~p-----~Y~n-DpEmK~iid~~n~ 69 (295)
T TIGR01478 25 NVSYIQNNTQMTST-KSR------------LLAEIQRP---KNP-----HYHN-DPELKEIIDKLNE 69 (295)
T ss_pred ceecccCccccccc-cce------------ehhhhccc---cCC-----CCCC-cHHHHHHHHHHhH
Confidence 45677887777665 323 47888875 444 4655 6999999999863
No 52
>COG3853 TelA Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]
Probab=28.92 E-value=6.4e+02 Score=25.84 Aligned_cols=21 Identities=19% Similarity=0.596 Sum_probs=16.0
Q ss_pred cccCCCcchHHHHHHHhhcCH
Q 018115 56 LFHGQRSNIEEVIARFAQLTP 76 (360)
Q Consensus 56 ~f~s~~ssme~ILeRY~~~s~ 76 (360)
.|....+++.+++.||++...
T Consensus 124 if~r~~~siqe~~~kYQt~~~ 144 (386)
T COG3853 124 IFGRSKSSIQEIFSKYQTIGA 144 (386)
T ss_pred HHhhhhhHHHHHHHHHHHHHH
Confidence 444435799999999998764
No 53
>PF14282 FlxA: FlxA-like protein
Probab=28.73 E-value=3.3e+02 Score=22.35 Aligned_cols=51 Identities=27% Similarity=0.332 Sum_probs=28.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 113 TVEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
.++.|+.+|..|+.+|..+... ..++-++-...-+.|..-|..|...-.++
T Consensus 20 ~I~~L~~Qi~~Lq~ql~~l~~~--------~~~~~e~k~~q~q~Lq~QI~~LqaQI~ql 70 (106)
T PF14282_consen 20 QIEQLQKQIKQLQEQLQELSQD--------SDLDAEQKQQQIQLLQAQIQQLQAQIAQL 70 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHcc--------cCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566667777777666655432 24566665555555555555554444433
No 54
>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=28.60 E-value=15 Score=28.83 Aligned_cols=38 Identities=32% Similarity=0.568 Sum_probs=29.3
Q ss_pred Ccceeecccccchhhhhh---------hhhcccCcceeccccCCCCC
Q 018115 16 NRQVTYSKRRNGILKKAR---------ELSILCDIDIVLLMFSPTGR 53 (360)
Q Consensus 16 ~RqvTFsKRr~GL~KKA~---------ELSvLCDaeVaLIIFSp~GK 53 (360)
.+-+-||+-|++|..|.. |+.+=||.|.-|+..-|.|-
T Consensus 17 g~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~ 63 (75)
T PF01502_consen 17 GRATYYSRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGP 63 (75)
T ss_dssp SB-EEEETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-
T ss_pred CcEEEEEccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCC
Confidence 344556999989987754 89999999999999988886
No 55
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=28.38 E-value=2.9e+02 Score=29.94 Aligned_cols=24 Identities=21% Similarity=0.469 Sum_probs=16.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhh
Q 018115 113 TVEELTHQVRILQAQLTEVHQRLS 136 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~rlr 136 (360)
.+++++.++.+|+.+++.+.++.+
T Consensus 444 ~~ee~k~eie~L~~~l~~~~r~~~ 467 (652)
T COG2433 444 ELEELKREIEKLESELERFRREVR 467 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777777777766654
No 56
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=27.59 E-value=3.2e+02 Score=28.31 Aligned_cols=30 Identities=23% Similarity=0.075 Sum_probs=21.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 143 NIESIEHLRQMENSLRESINQICLHKENFG 172 (360)
Q Consensus 143 ~~LSleEL~~LE~qLe~sL~~IR~RK~qL~ 172 (360)
...-.+-++..|+.|....++.|+.=++.+
T Consensus 65 ~p~q~~~~~lnEkvLkdkrKK~rEtfer~~ 94 (487)
T KOG4672|consen 65 NPFQIDVLRLNEKVLKDKRKKRRETFERGK 94 (487)
T ss_pred CccccchhhhHHHHHHHHHHHHHHHHHHHH
Confidence 344456788889999999888887665544
No 57
>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=26.83 E-value=3.1e+02 Score=21.43 Aligned_cols=53 Identities=11% Similarity=0.183 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 116 ELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 116 ~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
.|+.|+.-++-+..+++..++. .+..++...-..|+..|+..++++-.+-.|+
T Consensus 21 ~LqDE~~hm~~e~~~L~~~~~~---~d~s~~~~~R~~L~~~l~~lv~~mE~K~dQI 73 (79)
T PF06657_consen 21 ALQDEFGHMKMEHQELQDEYKQ---MDPSLGRRKRRDLEQELEELVKRMEAKADQI 73 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh---cccccChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444432 2335677888889999999999887664443
No 58
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=26.66 E-value=97 Score=22.02 Aligned_cols=20 Identities=30% Similarity=0.451 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 018115 116 ELTHQVRILQAQLTEVHQRL 135 (360)
Q Consensus 116 ~L~~ei~~Lq~qle~lq~rl 135 (360)
.|++++..|+.++..++..+
T Consensus 3 aLrqQv~aL~~qv~~Lq~~f 22 (46)
T PF09006_consen 3 ALRQQVEALQGQVQRLQAAF 22 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444554444444443
No 59
>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=25.95 E-value=5e+02 Score=23.56 Aligned_cols=12 Identities=8% Similarity=0.263 Sum_probs=6.5
Q ss_pred chHHHHHHHhhc
Q 018115 63 NIEEVIARFAQL 74 (360)
Q Consensus 63 sme~ILeRY~~~ 74 (360)
.+..+|++|..+
T Consensus 92 e~~~~l~~y~~l 103 (189)
T PF10211_consen 92 EYRMTLDAYQTL 103 (189)
T ss_pred HHHHHHHHHHHH
Confidence 455555665544
No 60
>PF13942 Lipoprotein_20: YfhG lipoprotein
Probab=25.95 E-value=2.8e+02 Score=25.25 Aligned_cols=23 Identities=30% Similarity=0.417 Sum_probs=14.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Q 018115 113 TVEELTHQVRILQAQLTEVHQRL 135 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~rl 135 (360)
+++.|+++-..|+.+|+...+++
T Consensus 131 ~lD~Lr~qq~~Lq~qL~~T~RKL 153 (179)
T PF13942_consen 131 ELDALRQQQQRLQYQLDTTTRKL 153 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666666666776666655553
No 61
>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=25.82 E-value=1.7e+02 Score=28.29 Aligned_cols=40 Identities=15% Similarity=0.405 Sum_probs=33.1
Q ss_pred HHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 018115 127 QLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICL 166 (360)
Q Consensus 127 qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~ 166 (360)
=+-..+++...|.++=-+||+++++.+|.+....|+.+|.
T Consensus 219 ~fl~~HRq~fcW~DeW~gltmedIR~~E~~t~~~l~~~~~ 258 (258)
T cd08888 219 LFTNFHRQVFCWLDKWHGLTMDDIRRMEDETKKELDEMRE 258 (258)
T ss_pred HHHHHHHHHhhhHHHHcCCCHHHHHHHHHHHHHHHHHhhC
Confidence 3445677777888776789999999999999999999873
No 62
>PRK10869 recombination and repair protein; Provisional
Probab=25.55 E-value=4.4e+02 Score=28.06 Aligned_cols=12 Identities=8% Similarity=0.349 Sum_probs=7.4
Q ss_pred cchHHHHHHHhh
Q 018115 62 SNIEEVIARFAQ 73 (360)
Q Consensus 62 ssme~ILeRY~~ 73 (360)
..--.+||+|..
T Consensus 140 ~~~~~lLD~~~~ 151 (553)
T PRK10869 140 EHQKTLLDAYAN 151 (553)
T ss_pred HHHHHHHHHhcc
Confidence 455566677665
No 63
>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=25.49 E-value=2.2e+02 Score=19.92 Aligned_cols=18 Identities=22% Similarity=0.423 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 018115 115 EELTHQVRILQAQLTEVH 132 (360)
Q Consensus 115 E~L~~ei~~Lq~qle~lq 132 (360)
+.|..+...|++++..+.
T Consensus 22 ~~L~~E~~~L~aev~~L~ 39 (45)
T PF02183_consen 22 DSLKKENEKLRAEVQELK 39 (45)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344555555555544443
No 64
>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12).
Probab=24.66 E-value=6.9e+02 Score=24.69 Aligned_cols=57 Identities=12% Similarity=0.339 Sum_probs=30.6
Q ss_pred cchHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHhhhhhchhhHHHhccchhhHHHHHHHHHHHHHHHHHHHHhh
Q 018115 62 SNIEEVIARFAQLTPQERAKRKLESLEALKKTFKKLDHDVNIQDFLGASTQTVEELTHQVRILQAQLTEVHQRL 135 (360)
Q Consensus 62 ssme~ILeRY~~~s~~er~k~~~e~~e~L~k~~kKL~~e~~i~~~~~~~~q~vE~L~~ei~~Lq~qle~lq~rl 135 (360)
.++++|.+++..++..+.....- .+...+.. ....+++++.++..|+.++...+..+
T Consensus 55 ~~ld~~~~kl~~Ms~~ql~~~~~----k~~~si~~-------------q~~~i~~l~~~i~~l~~~i~~y~~~~ 111 (301)
T PF06120_consen 55 DSLDELKEKLKEMSSTQLRANIA----KAEESIAA-------------QKRAIEDLQKKIDSLKDQIKNYQQQL 111 (301)
T ss_pred HhhHHHHHHHHhcCHHHHHHHHH----HHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37888899999888754322111 11111111 11235666777777777666554443
No 65
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=24.38 E-value=1.8e+02 Score=27.78 Aligned_cols=26 Identities=23% Similarity=0.447 Sum_probs=20.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhcc
Q 018115 113 TVEELTHQVRILQAQLTEVHQRLSYW 138 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~rlr~~ 138 (360)
++..|+.|+.+|++.+-.|=++.|++
T Consensus 108 ~~~~L~~Ev~~L~~DN~kLYEKiRyl 133 (248)
T PF08172_consen 108 TISSLRREVESLRADNVKLYEKIRYL 133 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788899999998887777777765
No 66
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=24.38 E-value=3.7e+02 Score=21.53 Aligned_cols=50 Identities=22% Similarity=0.248 Sum_probs=35.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 018115 113 TVEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLH 167 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~R 167 (360)
+++.+...+...+.+++.+..+++- ..+|-++-..||+.+..-.+++..-
T Consensus 6 eId~lEekl~~cr~~le~ve~rL~~-----~eLs~e~R~~lE~E~~~l~~~l~~~ 55 (85)
T PF15188_consen 6 EIDGLEEKLAQCRRRLEAVESRLRR-----RELSPEARRSLEKELNELKEKLENN 55 (85)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHcc-----cCCChHHHHHHHHHHHHHHHHhhcc
Confidence 3556666777788888888888762 2478888888887776666665543
No 67
>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=24.30 E-value=1.9e+02 Score=21.62 Aligned_cols=28 Identities=18% Similarity=0.205 Sum_probs=20.4
Q ss_pred CCC-CCCCHHHHHHHHHHHHHHHHHHHHH
Q 018115 140 NPG-NIESIEHLRQMENSLRESINQICLH 167 (360)
Q Consensus 140 g~d-~~LSleEL~~LE~qLe~sL~~IR~R 167 (360)
|.| +.||++||..--..|+.-+.|++..
T Consensus 15 g~dLs~lSv~EL~~RIa~L~aEI~R~~~~ 43 (59)
T PF06698_consen 15 GEDLSLLSVEELEERIALLEAEIARLEAA 43 (59)
T ss_pred CCCchhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 444 6788888888777777777777553
No 68
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit, proteobacterial. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=24.14 E-value=8.7e+02 Score=27.08 Aligned_cols=60 Identities=10% Similarity=0.252 Sum_probs=31.6
Q ss_pred eEEecCCCCcc--e----eeccccc-------chhhhhhhhhcccCcceeccccCCCCCCccccCCCcchHHHHHHHhhc
Q 018115 8 IKRLESTSNRQ--V----TYSKRRN-------GILKKARELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQL 74 (360)
Q Consensus 8 IkrIen~~~Rq--v----TFsKRr~-------GL~KKA~ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~ 74 (360)
|.-|.+.+.+. | +..+|+. .|+|+ ..|-+-..+-.-+|.| +|+|-.+ ++.+||..|..+
T Consensus 278 i~d~~Des~~~~~vr~vi~~k~~~~~~~~~~~~L~~~-t~L~~~~~~n~~~i~~--~~~p~~~-----~l~~il~~~~~~ 349 (735)
T TIGR01062 278 ISDIRDESDHENPIRVVIVPRSNRVDPDIVMEHLFAT-TDLEKSYRLNMNMIGL--DNVPAVK-----NLLEILQEWLVF 349 (735)
T ss_pred eeehhhcCCCcCcEEEEEEECCCCCCHHHHHHHHHHh-cCCeeeecccEEEEEe--CCeeeEC-----CHHHHHHHHHHH
Confidence 66777776653 2 3332333 33332 2233333333334434 5666554 689999998764
Q ss_pred C
Q 018115 75 T 75 (360)
Q Consensus 75 s 75 (360)
-
T Consensus 350 R 350 (735)
T TIGR01062 350 R 350 (735)
T ss_pred H
Confidence 3
No 69
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=24.01 E-value=8e+02 Score=26.89 Aligned_cols=62 Identities=18% Similarity=0.282 Sum_probs=36.6
Q ss_pred CcccceEEecCCCCcceeec---cccc-------chhhhhh-hhhcccCcceeccccCCCCCCccccCCCcchHHHHHHH
Q 018115 3 RVKLKIKRLESTSNRQVTYS---KRRN-------GILKKAR-ELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARF 71 (360)
Q Consensus 3 R~Ki~IkrIen~~~RqvTFs---KRr~-------GL~KKA~-ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY 71 (360)
.+||+|+.|.+.+.+.|.|- ||-. +|+|+.. |-|+-| -. +++|. |+|.. -++.+||..|
T Consensus 247 ~~ki~I~~i~D~s~~~v~i~i~l~~~~~~~~~~~~Lyk~t~lq~s~~~--n~-~~i~~--~~p~~-----~~l~~il~~~ 316 (635)
T PRK09631 247 KGKIKISSINDYTAENVEIEIKLPRGVYASEVIEALYAYTDCEVSISV--NL-LVIKD--RYPVI-----YTVTDIIKFH 316 (635)
T ss_pred cCCCccceeEeCCCCcEEEEEEECCCCCHHHHHHHHHHhcCceeEeee--eE-EEEEC--CcCcC-----CCHHHHHHHH
Confidence 35788999998888887663 3322 4554432 222222 22 33443 45544 3789999998
Q ss_pred hhc
Q 018115 72 AQL 74 (360)
Q Consensus 72 ~~~ 74 (360)
...
T Consensus 317 ~~~ 319 (635)
T PRK09631 317 AEH 319 (635)
T ss_pred HHH
Confidence 854
No 70
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=23.44 E-value=8.7e+02 Score=26.60 Aligned_cols=16 Identities=13% Similarity=0.287 Sum_probs=9.4
Q ss_pred CCCHHHHHHHHHHHHH
Q 018115 144 IESIEHLRQMENSLRE 159 (360)
Q Consensus 144 ~LSleEL~~LE~qLe~ 159 (360)
.+.-.+|..|+.+|..
T Consensus 233 ~~~~~~L~~l~~ql~~ 248 (754)
T TIGR01005 233 TLATQQLAELNTELSR 248 (754)
T ss_pred cchHHHHHHHHHHHHH
Confidence 3444667777666554
No 71
>PRK11519 tyrosine kinase; Provisional
Probab=23.33 E-value=9.5e+02 Score=26.37 Aligned_cols=36 Identities=8% Similarity=0.253 Sum_probs=17.7
Q ss_pred hHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHhhhhh
Q 018115 64 IEEVIARFAQLTPQERAKRKLESLEALKKTFKKLDH 99 (360)
Q Consensus 64 me~ILeRY~~~s~~er~k~~~e~~e~L~k~~kKL~~ 99 (360)
+..+.+.|.+..-..+........++|.+++.+++.
T Consensus 246 aN~l~~~Yi~~~~~~k~~~a~~a~~fL~~ql~~l~~ 281 (719)
T PRK11519 246 LNSITRNYLEQNIERKSEEASKSLAFLAQQLPEVRS 281 (719)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566676655443333333344555555554433
No 72
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=23.04 E-value=5.6e+02 Score=23.04 Aligned_cols=16 Identities=19% Similarity=0.329 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 018115 116 ELTHQVRILQAQLTEV 131 (360)
Q Consensus 116 ~L~~ei~~Lq~qle~l 131 (360)
+|+.++..|+.+++.+
T Consensus 115 ~l~~~~e~Le~e~~~L 130 (161)
T TIGR02894 115 SLQKRNEELEKELEKL 130 (161)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444443333
No 73
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=22.94 E-value=4e+02 Score=27.88 Aligned_cols=60 Identities=15% Similarity=0.238 Sum_probs=39.7
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHhhhccCC------------------C----CCCCCHHHHHHHHHHHHHHHHHHHHH
Q 018115 110 STQTVEELTHQVRILQAQLTEVHQRLSYWSN------------------P----GNIESIEHLRQMENSLRESINQICLH 167 (360)
Q Consensus 110 ~~q~vE~L~~ei~~Lq~qle~lq~rlr~~~g------------------~----d~~LSleEL~~LE~qLe~sL~~IR~R 167 (360)
...+++.|+.|++.||.++.+|+..+.--.. | --.|+-+|+.++.+++-..--+|.+-
T Consensus 23 ~a~~i~~L~~ql~aLq~~v~eL~~~laa~~~aa~~gA~~~~~~~a~~~aP~~~a~~~~T~d~~~~~~qqiAn~~lKv~~l 102 (514)
T PF11336_consen 23 TADQIKALQAQLQALQDQVNELRAKLAAKPAAAPGGAAIGPAATAAAAAPSSDAQAGLTNDDATEMRQQIANAQLKVESL 102 (514)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCccccccccccccccCCCcccccccChHHHHHHHHHHHhhhhhHHHH
Confidence 4556788888888899888888888742111 1 02367889988877777655554444
Q ss_pred HH
Q 018115 168 KE 169 (360)
Q Consensus 168 K~ 169 (360)
++
T Consensus 103 ~d 104 (514)
T PF11336_consen 103 ED 104 (514)
T ss_pred hh
Confidence 43
No 74
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=22.81 E-value=1.8e+02 Score=24.30 Aligned_cols=22 Identities=27% Similarity=0.409 Sum_probs=16.9
Q ss_pred HHHHhhhccCCCCCCCCHHHHHHHHHHHH
Q 018115 130 EVHQRLSYWSNPGNIESIEHLRQMENSLR 158 (360)
Q Consensus 130 ~lq~rlr~~~g~d~~LSleEL~~LE~qLe 158 (360)
++++|+. .|+.+|++.|..+++
T Consensus 82 ~lqkRle-------~l~~eE~~~L~~eie 103 (104)
T PF11460_consen 82 ELQKRLE-------ELSPEELEALQAEIE 103 (104)
T ss_pred HHHHHHH-------hCCHHHHHHHHHHhc
Confidence 5666653 689999999988876
No 75
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=22.62 E-value=7e+02 Score=29.97 Aligned_cols=27 Identities=11% Similarity=0.437 Sum_probs=21.9
Q ss_pred eccccCCCCCCccccCCCcchHHHHHHHhhc
Q 018115 44 VLLMFSPTGRSTLFHGQRSNIEEVIARFAQL 74 (360)
Q Consensus 44 aLIIFSp~GKl~~f~s~~ssme~ILeRY~~~ 74 (360)
-+++|.+.|++..|. ++.+||+.|-.+
T Consensus 962 Nm~~~d~~g~i~~~~----~~~~Il~~f~~~ 988 (1388)
T PTZ00108 962 NMVLFDENGKIKKYS----DALDILKEFYLV 988 (1388)
T ss_pred eEEEEeCCCCcceeC----CHHHHHHHHHHH
Confidence 578899999988884 688999988753
No 76
>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=22.42 E-value=9e+02 Score=25.29 Aligned_cols=28 Identities=7% Similarity=-0.021 Sum_probs=16.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 144 IESIEHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 144 ~LSleEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
..++.++..+-..+...+..++.++..+
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 150 (525)
T TIGR02231 123 EPDLKEWFQAFDFNGSEIERLLTEDREA 150 (525)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467777776666666665555555443
No 77
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=22.41 E-value=6.5e+02 Score=25.91 Aligned_cols=14 Identities=7% Similarity=0.283 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHH
Q 018115 147 IEHLRQMENSLRES 160 (360)
Q Consensus 147 leEL~~LE~qLe~s 160 (360)
..+|..+++++...
T Consensus 203 ~~~l~~l~~~l~~~ 216 (498)
T TIGR03007 203 YSEISEAQEELEAA 216 (498)
T ss_pred HHHHHHHHHHHHHH
Confidence 45555555554444
No 78
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=22.38 E-value=7.5e+02 Score=24.28 Aligned_cols=29 Identities=21% Similarity=0.259 Sum_probs=18.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 143 NIESIEHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 143 ~~LSleEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
+..+-++|..+...|...-..|.++|..+
T Consensus 204 ~~~D~~eL~~lr~eL~~~~~~i~~~k~~l 232 (325)
T PF08317_consen 204 ESCDQEELEALRQELAEQKEEIEAKKKEL 232 (325)
T ss_pred hhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566777777777776666666555544
No 79
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=21.84 E-value=3e+02 Score=29.78 Aligned_cols=24 Identities=21% Similarity=0.228 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 147 IEHLRQMENSLRESINQICLHKEN 170 (360)
Q Consensus 147 leEL~~LE~qLe~sL~~IR~RK~q 170 (360)
.++...||.+++........++.+
T Consensus 261 ~~~r~~Le~ei~~le~e~~e~~~~ 284 (650)
T TIGR03185 261 FEEREQLERQLKEIEAARKANRAQ 284 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455556665555554444444433
No 80
>PRK00182 tatB sec-independent translocase; Provisional
Probab=21.71 E-value=85 Score=28.16 Aligned_cols=35 Identities=14% Similarity=0.244 Sum_probs=22.4
Q ss_pred hhhcccCcceeccccCCCCCCccccCCCcchHHHHHHHhhc
Q 018115 34 ELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQL 74 (360)
Q Consensus 34 ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~ 74 (360)
||-|++ =||||||.| .||-... ..+-..|.++++.
T Consensus 9 EllvIl--vIaLlVfGP-erLP~~~---r~lg~~ir~~R~~ 43 (160)
T PRK00182 9 EILLLL--IVGLIVIGP-ERLPRLI---EDVRAALLAARTA 43 (160)
T ss_pred HHHHHH--HHHHHhcCc-hHHHHHH---HHHHHHHHHHHHH
Confidence 454443 378999998 6776665 3566666666554
No 81
>PLN03237 DNA topoisomerase 2; Provisional
Probab=21.62 E-value=8.7e+02 Score=29.38 Aligned_cols=27 Identities=19% Similarity=0.437 Sum_probs=21.8
Q ss_pred eccccCCCCCCccccCCCcchHHHHHHHhhc
Q 018115 44 VLLMFSPTGRSTLFHGQRSNIEEVIARFAQL 74 (360)
Q Consensus 44 aLIIFSp~GKl~~f~s~~ssme~ILeRY~~~ 74 (360)
-+++|.+.|++..| .++++||..|..+
T Consensus 988 nm~l~d~~G~i~k~----~~~~~Il~~F~~~ 1014 (1465)
T PLN03237 988 NMHLFDSKGVIKKY----DTPEQILEEFFHL 1014 (1465)
T ss_pred EEEEEcCCCCccee----CCHHHHHHHHHHH
Confidence 56789999998888 4689999888753
No 82
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=21.58 E-value=3.4e+02 Score=27.40 Aligned_cols=14 Identities=21% Similarity=0.658 Sum_probs=10.1
Q ss_pred cchHHHHHHHhhcC
Q 018115 62 SNIEEVIARFAQLT 75 (360)
Q Consensus 62 ssme~ILeRY~~~s 75 (360)
..++.|.+||..+.
T Consensus 7 ~kl~~~~~r~~el~ 20 (363)
T COG0216 7 EKLESLLERYEELE 20 (363)
T ss_pred HHHHHHHHHHHHHH
Confidence 35778888888754
No 83
>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=21.55 E-value=5e+02 Score=21.94 Aligned_cols=30 Identities=33% Similarity=0.263 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHhhhhh
Q 018115 150 LRQMENSLRESINQICLHKE--NFGKQQLMSL 179 (360)
Q Consensus 150 L~~LE~qLe~sL~~IR~RK~--qL~~~ql~~L 179 (360)
-..|+..+...-.+|-.-.. .|+.+||..+
T Consensus 100 k~~le~e~~~~~~r~~dL~~QN~lLh~QlE~l 131 (132)
T PF07926_consen 100 KEQLEKELSELEQRIEDLNEQNKLLHDQLESL 131 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34455555555555544433 3777777643
No 84
>PF12537 DUF3735: Protein of unknown function (DUF3735); InterPro: IPR022535 This conserved domain is found in a subunit of a voltage dependent anion channel required for acidification and functions of the Golgi apparatus; it may function in counter-ion conductance. It belongs to the Golgi pH regulator (1.A.38 from TC) family
Probab=21.16 E-value=1.5e+02 Score=22.57 Aligned_cols=25 Identities=12% Similarity=0.203 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 147 IEHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 147 leEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
-.++..+|+.|......+.+||.++
T Consensus 47 ~~~i~~~~~~l~~t~~~l~~Kk~~l 71 (72)
T PF12537_consen 47 ESDINNAERRLWHTRDMLVEKKKRL 71 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5688999999999999999999775
No 85
>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.13 E-value=9.8e+02 Score=25.96 Aligned_cols=51 Identities=18% Similarity=0.360 Sum_probs=29.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHH---HHHHHHH
Q 018115 113 TVEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQI---CLHKENF 171 (360)
Q Consensus 113 ~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~I---R~RK~qL 171 (360)
++|.|+.+|++|..+++.+...+. +...++++ -|+||+++|.-. |+.|..|
T Consensus 195 EyEglkheikRleEe~elln~q~e------e~~~Lk~I--AekQlEEALeTlq~EReqk~al 248 (772)
T KOG0999|consen 195 EYEGLKHEIKRLEEETELLNSQLE------EAIRLKEI--AEKQLEEALETLQQEREQKNAL 248 (772)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHH------HHHHHHHH--HHHHHHHHHHHHHhHHHHHHHH
Confidence 567778888888777766544421 11123322 267888876554 5555444
No 86
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=21.06 E-value=9.5e+02 Score=24.99 Aligned_cols=60 Identities=25% Similarity=0.516 Sum_probs=37.8
Q ss_pred ceEEecCCCCc-ceee---cccc-------cchhhhhh-hhhcccCcceeccccCCCCCCccccCCCcchHHHHHHHhhc
Q 018115 7 KIKRLESTSNR-QVTY---SKRR-------NGILKKAR-ELSILCDIDIVLLMFSPTGRSTLFHGQRSNIEEVIARFAQL 74 (360)
Q Consensus 7 ~IkrIen~~~R-qvTF---sKRr-------~GL~KKA~-ELSvLCDaeVaLIIFSp~GKl~~f~s~~ssme~ILeRY~~~ 74 (360)
.|+-|.+.+.| .|.| -||. ++|+|+.. +-++-| -+++|.+.|+|..| ++.+||..|...
T Consensus 257 ~I~~~~D~s~~~~vrivI~lk~~~~~~~~~~~L~k~t~L~~s~~~----Nm~~~~~~g~p~~~-----~l~~iL~~f~~~ 327 (445)
T cd00187 257 GISDVRDESDREGIRFVIELKRGAMAEVVLNGLYKVTKLQTTFGI----NMVAFDPNGRPKKL-----NLKEILQEFLDH 327 (445)
T ss_pred ccceeeeccCCCceEEEEEECCCccHHHHHHHHHHhcCCceeeee----eEEEEecCCeeEEe-----CHHHHHHHHHHH
Confidence 46777777666 3444 2333 25554433 222223 67888899999888 389999999865
Q ss_pred C
Q 018115 75 T 75 (360)
Q Consensus 75 s 75 (360)
-
T Consensus 328 R 328 (445)
T cd00187 328 R 328 (445)
T ss_pred H
Confidence 3
No 87
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=20.57 E-value=8e+02 Score=23.90 Aligned_cols=24 Identities=25% Similarity=0.336 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 018115 148 EHLRQMENSLRESINQICLHKENF 171 (360)
Q Consensus 148 eEL~~LE~qLe~sL~~IR~RK~qL 171 (360)
-+--+-+.+|+.-|.+.++.|+++
T Consensus 87 ~q~y~q~s~Leddlsqt~aikeql 110 (333)
T KOG1853|consen 87 VQFYQQESQLEDDLSQTHAIKEQL 110 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455677777778888877776
No 88
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=20.04 E-value=6.7e+02 Score=22.85 Aligned_cols=67 Identities=9% Similarity=0.245 Sum_probs=43.5
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 018115 110 STQTVEELTHQVRILQAQLTEVHQRLSYWSNPGNIESIEHLRQMENSLRESINQICLHKENFGKQQLMSL 179 (360)
Q Consensus 110 ~~q~vE~L~~ei~~Lq~qle~lq~rlr~~~g~d~~LSleEL~~LE~qLe~sL~~IR~RK~qL~~~ql~~L 179 (360)
.+.++.....++..|+.+|..++....- .+.--.-++++.|+..|.+.++.=-.|+..|..+-+-.|
T Consensus 103 ~~leL~s~~~ei~~L~~kI~~L~~~in~---~~k~~~n~~i~slk~EL~d~iKe~e~~emeLyyecMkkL 169 (181)
T PF04645_consen 103 KNLELKSIKKEIEILRLKISSLQKEINK---NKKKDLNEEIESLKSELNDLIKEREIREMELYYECMKKL 169 (181)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHhhh---hhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445566677777777777777665431 111111247889999999988887777878876665555
Done!