Query 026297
Match_columns 240
No_of_seqs 198 out of 423
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 06:09:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026297.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026297hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3149 Transcription initiati 100.0 4.2E-44 9.1E-49 321.0 17.5 231 5-235 3-248 (249)
2 COG5033 TFG3 Transcription ini 100.0 3.2E-39 7E-44 281.5 8.9 198 8-228 4-216 (225)
3 PF03366 YEATS: YEATS family; 100.0 1.9E-36 4.2E-41 231.5 7.7 82 38-119 1-82 (84)
4 PF04977 DivIC: Septum formati 76.3 4.3 9.4E-05 29.2 3.8 36 202-237 18-53 (80)
5 KOG1760 Molecular chaperone Pr 72.8 8.7 0.00019 32.0 5.1 47 190-236 70-116 (131)
6 PF04102 SlyX: SlyX; InterPro 70.2 13 0.00028 27.2 5.1 36 200-235 17-52 (69)
7 PF07334 IFP_35_N: Interferon- 69.7 5.7 0.00012 30.3 3.2 26 212-237 4-29 (76)
8 PF01920 Prefoldin_2: Prefoldi 67.8 12 0.00026 28.3 4.7 45 191-235 52-96 (106)
9 PF04568 IATP: Mitochondrial A 67.4 15 0.00033 29.2 5.3 32 200-231 68-99 (100)
10 PF14193 DUF4315: Domain of un 66.2 13 0.00028 28.6 4.6 31 203-233 3-33 (83)
11 PF05377 FlaC_arch: Flagella a 66.1 18 0.0004 25.9 4.9 35 200-234 6-40 (55)
12 PRK02119 hypothetical protein; 65.2 21 0.00046 26.6 5.5 38 200-237 22-59 (73)
13 PRK00846 hypothetical protein; 64.6 21 0.00046 27.2 5.4 39 200-238 26-64 (77)
14 PF04201 TPD52: Tumour protein 64.3 13 0.00028 32.2 4.6 37 201-237 29-65 (162)
15 PF07106 TBPIP: Tat binding pr 63.9 15 0.00032 30.9 4.9 39 200-238 71-109 (169)
16 PRK02793 phi X174 lysis protei 63.9 24 0.00051 26.2 5.5 38 200-237 21-58 (72)
17 PRK00295 hypothetical protein; 63.0 27 0.00059 25.6 5.6 36 200-235 18-53 (68)
18 PRK00736 hypothetical protein; 62.4 29 0.00063 25.4 5.7 37 200-236 18-54 (68)
19 PRK04325 hypothetical protein; 61.5 28 0.0006 26.0 5.5 38 200-237 22-59 (74)
20 PRK04406 hypothetical protein; 60.3 30 0.00064 26.0 5.5 37 200-236 24-60 (75)
21 PF14723 SSFA2_C: Sperm-specif 53.9 29 0.00063 30.4 5.1 34 198-231 142-175 (179)
22 PLN00172 ubiquitin conjugating 53.1 34 0.00074 28.4 5.3 35 35-69 27-61 (147)
23 cd00632 Prefoldin_beta Prefold 51.8 39 0.00084 26.2 5.1 45 191-235 53-97 (105)
24 PF09154 DUF1939: Domain of un 51.0 8.7 0.00019 27.4 1.2 14 80-93 36-49 (57)
25 TIGR03017 EpsF chain length de 51.0 35 0.00076 32.4 5.7 46 193-238 156-201 (444)
26 TIGR02449 conserved hypothetic 50.6 19 0.00041 26.6 3.0 19 203-221 41-59 (65)
27 TIGR02338 gimC_beta prefoldin, 50.5 41 0.00089 26.4 5.1 35 200-234 73-107 (110)
28 PF07820 TraC: TraC-like prote 49.9 23 0.0005 27.9 3.5 22 210-231 4-25 (92)
29 TIGR01005 eps_transp_fam exopo 49.4 36 0.00077 35.0 5.8 70 134-238 155-224 (754)
30 PF13815 Dzip-like_N: Iguana/D 48.8 41 0.00089 26.8 5.0 37 200-236 79-115 (118)
31 PF04380 BMFP: Membrane fusoge 48.6 41 0.00088 25.3 4.6 30 200-229 49-78 (79)
32 cd00890 Prefoldin Prefoldin is 48.4 40 0.00088 26.3 4.8 44 192-235 78-121 (129)
33 PRK14127 cell division protein 47.8 34 0.00073 27.6 4.3 28 204-231 33-60 (109)
34 PF04508 Pox_A_type_inc: Viral 47.1 23 0.0005 21.2 2.4 19 216-234 2-20 (23)
35 PRK11519 tyrosine kinase; Prov 47.1 40 0.00087 34.8 5.8 49 190-238 249-297 (719)
36 PF07544 Med9: RNA polymerase 46.6 34 0.00074 25.9 3.9 33 204-236 35-80 (83)
37 COG1730 GIM5 Predicted prefold 46.4 47 0.001 28.1 5.1 35 200-234 100-134 (145)
38 PF05524 PEP-utilisers_N: PEP- 45.1 45 0.00098 26.2 4.6 29 199-227 33-61 (123)
39 PF00170 bZIP_1: bZIP transcri 44.5 67 0.0014 22.6 5.0 36 200-235 25-60 (64)
40 PRK13848 conjugal transfer pro 44.0 28 0.00062 27.6 3.2 20 211-230 6-25 (98)
41 PF12329 TMF_DNA_bd: TATA elem 43.6 54 0.0012 24.4 4.5 35 201-235 33-67 (74)
42 PF13600 DUF4140: N-terminal d 43.5 61 0.0013 24.7 5.1 35 200-234 69-103 (104)
43 PRK00888 ftsB cell division pr 42.7 36 0.00078 26.9 3.7 17 205-221 45-61 (105)
44 PRK09841 cryptic autophosphory 42.3 54 0.0012 33.9 5.8 49 190-238 249-297 (726)
45 PRK14127 cell division protein 42.1 70 0.0015 25.8 5.3 36 200-235 36-71 (109)
46 PF02370 M: M protein repeat; 41.7 62 0.0014 19.0 3.6 20 208-227 1-20 (21)
47 PF06305 DUF1049: Protein of u 40.8 47 0.001 23.3 3.8 24 211-234 44-67 (68)
48 KOG4010 Coiled-coil protein TP 40.7 51 0.0011 29.4 4.6 37 201-237 44-80 (208)
49 PF06156 DUF972: Protein of un 38.8 68 0.0015 25.7 4.7 16 201-216 22-37 (107)
50 COG3074 Uncharacterized protei 38.4 71 0.0015 24.3 4.4 37 200-236 24-60 (79)
51 smart00787 Spc7 Spc7 kinetocho 38.3 53 0.0011 30.9 4.7 36 200-235 203-238 (312)
52 PF11629 Mst1_SARAH: C termina 37.7 1.4E+02 0.0031 20.9 5.6 37 194-230 4-41 (49)
53 cd00890 Prefoldin Prefoldin is 37.5 87 0.0019 24.4 5.2 35 200-234 93-127 (129)
54 smart00212 UBCc Ubiquitin-conj 37.2 1.1E+02 0.0024 24.6 5.9 43 36-78 26-70 (145)
55 PRK03947 prefoldin subunit alp 36.8 83 0.0018 25.4 5.1 36 200-235 100-135 (140)
56 smart00338 BRLZ basic region l 36.7 99 0.0021 21.8 4.9 37 200-236 25-61 (65)
57 PF01166 TSC22: TSC-22/dip/bun 36.2 17 0.00038 26.4 0.9 21 215-235 21-41 (59)
58 PF05529 Bap31: B-cell recepto 36.2 39 0.00083 28.9 3.2 27 210-236 156-182 (192)
59 PF12329 TMF_DNA_bd: TATA elem 35.4 96 0.0021 23.0 4.8 36 200-235 18-53 (74)
60 PF08647 BRE1: BRE1 E3 ubiquit 35.0 85 0.0018 24.3 4.6 33 201-233 3-35 (96)
61 KOG4552 Vitamin-D-receptor int 34.5 75 0.0016 29.0 4.8 32 196-227 55-86 (272)
62 PF04977 DivIC: Septum formati 33.4 1E+02 0.0022 21.9 4.6 28 200-227 23-50 (80)
63 TIGR03007 pepcterm_ChnLen poly 32.8 69 0.0015 31.0 4.7 34 204-237 157-190 (498)
64 PF09006 Surfac_D-trimer: Lung 32.8 27 0.00059 24.2 1.3 17 218-234 2-18 (46)
65 PF02996 Prefoldin: Prefoldin 32.0 1E+02 0.0022 23.8 4.7 31 203-233 86-116 (120)
66 PF11461 RILP: Rab interacting 31.2 57 0.0012 23.8 2.8 26 211-236 6-31 (60)
67 cd00584 Prefoldin_alpha Prefol 30.9 1.2E+02 0.0027 23.9 5.2 32 202-233 95-126 (129)
68 PF08317 Spc7: Spc7 kinetochor 30.8 83 0.0018 29.3 4.7 35 200-234 208-242 (325)
69 cd00632 Prefoldin_beta Prefold 30.7 1.3E+02 0.0028 23.2 5.1 35 200-234 69-103 (105)
70 PF12269 zf-CpG_bind_C: CpG bi 30.3 1E+02 0.0022 28.2 5.0 38 200-237 28-65 (236)
71 PF09766 FimP: Fms-interacting 30.2 63 0.0014 30.7 3.8 38 200-237 107-144 (355)
72 PF08826 DMPK_coil: DMPK coile 30.0 1.6E+02 0.0034 21.4 5.0 32 200-231 17-48 (61)
73 PF12958 DUF3847: Protein of u 29.8 1.1E+02 0.0024 23.7 4.5 32 203-234 3-34 (86)
74 PF11932 DUF3450: Protein of u 29.7 1E+02 0.0022 27.5 4.9 32 201-232 63-94 (251)
75 PRK13169 DNA replication intia 29.5 1.2E+02 0.0026 24.5 4.7 6 220-225 48-53 (110)
76 PF02996 Prefoldin: Prefoldin 29.0 91 0.002 24.1 4.0 42 193-234 69-110 (120)
77 PF02403 Seryl_tRNA_N: Seryl-t 29.0 1.5E+02 0.0032 22.8 5.1 39 199-237 27-65 (108)
78 PRK11546 zraP zinc resistance 28.9 1.6E+02 0.0034 25.0 5.6 37 201-237 47-83 (143)
79 PF04111 APG6: Autophagy prote 27.7 1.2E+02 0.0027 28.3 5.2 30 200-229 63-92 (314)
80 TIGR02231 conserved hypothetic 27.5 1.1E+02 0.0025 30.1 5.2 37 200-236 137-173 (525)
81 PF10458 Val_tRNA-synt_C: Valy 26.9 77 0.0017 22.7 3.0 26 200-225 3-28 (66)
82 PF08946 Osmo_CC: Osmosensory 26.7 80 0.0017 21.9 2.8 27 203-229 14-40 (46)
83 TIGR02209 ftsL_broad cell divi 26.6 2E+02 0.0043 20.9 5.3 27 200-226 30-56 (85)
84 PRK13729 conjugal transfer pil 26.2 1E+02 0.0022 31.0 4.5 20 215-234 97-116 (475)
85 TIGR02977 phageshock_pspA phag 25.5 1.3E+02 0.0027 26.5 4.7 37 200-236 98-134 (219)
86 PF12548 DUF3740: Sulfatase pr 25.3 83 0.0018 26.6 3.3 32 203-234 101-132 (145)
87 PF09340 NuA4: Histone acetylt 25.3 1.8E+02 0.0039 22.0 4.8 30 201-230 2-31 (80)
88 TIGR00293 prefoldin, archaeal 25.3 1.8E+02 0.0039 22.8 5.1 33 201-233 93-125 (126)
89 PF05529 Bap31: B-cell recepto 25.1 1.5E+02 0.0032 25.3 4.9 31 200-230 160-190 (192)
90 PF05615 THOC7: Tho complex su 24.3 1.9E+02 0.0041 23.4 5.2 26 204-229 84-109 (139)
91 PF04111 APG6: Autophagy prote 23.9 1.5E+02 0.0032 27.8 5.0 35 200-234 49-83 (314)
92 TIGR02894 DNA_bind_RsfA transc 23.9 1.3E+02 0.0027 26.1 4.2 27 203-229 106-132 (161)
93 PF05103 DivIVA: DivIVA protei 23.8 75 0.0016 24.9 2.6 35 201-235 25-59 (131)
94 TIGR02894 DNA_bind_RsfA transc 23.8 1.7E+02 0.0036 25.4 4.9 31 205-235 101-131 (161)
95 smart00338 BRLZ basic region l 23.7 2.4E+02 0.0052 19.7 5.1 32 200-231 32-63 (65)
96 PF10393 Matrilin_ccoil: Trime 23.3 1.7E+02 0.0038 20.2 4.0 30 205-234 13-42 (47)
97 PF09036 Bcr-Abl_Oligo: Bcr-Ab 23.3 2.8E+02 0.006 21.3 5.4 40 200-239 32-71 (79)
98 PF04822 Takusan: Takusan; In 23.2 1.6E+02 0.0034 22.8 4.2 29 198-226 15-44 (84)
99 PF07195 FliD_C: Flagellar hoo 23.2 1.5E+02 0.0032 26.3 4.6 32 204-235 207-238 (239)
100 PF04568 IATP: Mitochondrial A 23.1 1.3E+02 0.0029 23.9 3.9 25 210-234 67-95 (100)
101 PF14257 DUF4349: Domain of un 23.0 1.6E+02 0.0034 26.3 4.9 18 137-154 97-114 (262)
102 TIGR00293 prefoldin, archaeal 23.0 1.3E+02 0.0028 23.7 3.9 40 194-233 79-118 (126)
103 KOG4797 Transcriptional regula 22.9 97 0.0021 25.4 3.1 21 212-232 64-84 (123)
104 PF04012 PspA_IM30: PspA/IM30 22.8 1.6E+02 0.0034 25.5 4.7 36 200-235 97-132 (221)
105 PF01920 Prefoldin_2: Prefoldi 22.6 2.5E+02 0.0055 20.9 5.3 34 200-233 68-101 (106)
106 PRK10884 SH3 domain-containing 22.6 1.7E+02 0.0037 25.9 4.9 30 206-235 137-166 (206)
107 PF07028 DUF1319: Protein of u 22.5 1.9E+02 0.0042 24.0 4.9 36 200-235 45-80 (126)
108 cd00584 Prefoldin_alpha Prefol 22.5 2E+02 0.0044 22.7 5.0 42 193-234 79-120 (129)
109 PRK09343 prefoldin subunit bet 22.5 2.1E+02 0.0046 22.9 5.1 35 200-234 77-111 (121)
110 KOG4571 Activating transcripti 22.5 1.5E+02 0.0032 28.1 4.6 14 130-143 146-159 (294)
111 PF02344 Myc-LZ: Myc leucine z 22.5 2E+02 0.0044 18.5 3.8 27 211-237 4-30 (32)
112 PF14282 FlxA: FlxA-like prote 22.2 99 0.0021 24.4 3.0 22 201-222 19-40 (106)
113 PF07106 TBPIP: Tat binding pr 22.2 1.3E+02 0.0027 25.2 3.9 26 212-237 113-138 (169)
114 cd00195 UBCc Ubiquitin-conjuga 21.8 2.7E+02 0.0058 22.3 5.6 34 37-70 27-60 (141)
115 PF04880 NUDE_C: NUDE protein, 21.4 44 0.00096 28.9 0.9 34 197-230 20-53 (166)
116 COG2919 Septum formation initi 21.4 1.5E+02 0.0032 23.7 3.9 33 199-231 62-94 (117)
117 PF14193 DUF4315: Domain of un 21.3 1.3E+02 0.0028 23.1 3.4 28 201-228 8-35 (83)
118 PF04799 Fzo_mitofusin: fzo-li 21.3 1.6E+02 0.0035 25.7 4.3 30 206-235 118-147 (171)
119 PF14282 FlxA: FlxA-like prote 21.2 1.6E+02 0.0036 23.1 4.1 20 214-233 50-69 (106)
120 PF06657 Cep57_MT_bd: Centroso 21.2 2.6E+02 0.0056 21.1 5.0 33 206-238 15-47 (79)
121 PF03962 Mnd1: Mnd1 family; I 21.0 1.9E+02 0.0042 25.0 4.9 43 192-235 54-96 (188)
122 PF15188 CCDC-167: Coiled-coil 21.0 1.2E+02 0.0026 23.6 3.1 28 208-235 36-63 (85)
123 PF13600 DUF4140: N-terminal d 20.9 1.8E+02 0.004 22.1 4.3 28 200-227 76-103 (104)
124 PF08549 SWI-SNF_Ssr4: Fungal 20.8 1.4E+02 0.0031 31.1 4.6 36 200-238 362-398 (669)
125 PF13300 DUF4078: Domain of un 20.8 3.1E+02 0.0066 21.3 5.4 35 194-228 38-74 (88)
126 PRK14162 heat shock protein Gr 20.8 3E+02 0.0065 24.3 6.0 31 200-230 38-68 (194)
127 PTZ00454 26S protease regulato 20.8 2.1E+02 0.0045 27.7 5.5 38 201-238 29-66 (398)
128 PF12210 Hrs_helical: Hepatocy 20.7 2.5E+02 0.0055 22.3 5.0 28 200-227 66-93 (96)
129 PF04380 BMFP: Membrane fusoge 20.6 1.1E+02 0.0025 22.8 2.9 24 213-236 55-78 (79)
130 COG2960 Uncharacterized protei 20.6 2.9E+02 0.0063 22.3 5.3 43 190-232 46-90 (103)
131 COG1579 Zn-ribbon protein, pos 20.6 2E+02 0.0044 26.3 5.0 35 200-234 37-71 (239)
132 PF05873 Mt_ATP-synt_D: ATP sy 20.5 1.5E+02 0.0033 25.1 4.0 27 203-229 98-124 (161)
133 PF15205 PLAC9: Placenta-speci 20.2 2.4E+02 0.0052 21.3 4.4 35 201-235 22-56 (74)
134 KOG4552 Vitamin-D-receptor int 20.1 1.8E+02 0.0039 26.6 4.5 31 201-231 74-104 (272)
No 1
>KOG3149 consensus Transcription initiation factor IIF, auxiliary subunit [Transcription]
Probab=100.00 E-value=4.2e-44 Score=320.99 Aligned_cols=231 Identities=36% Similarity=0.577 Sum_probs=187.0
Q ss_pred cccCcceeceEEEEeEEEccceEEcCCCCCCCCeeeEEEEEeCCCCCCcccceeeeEEEeCCCCCCCcceeecCCcEEEe
Q 026297 5 QNLNKKLKDVEISIPIVYGNVAFWLGKKASEYQSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFNNPTRAVESPPFELSE 84 (240)
Q Consensus 5 ~~~~kR~k~~~i~~pivyGn~a~~l~k~~~~~~tH~WtVyVr~~~~edls~~IkkV~F~LH~sf~nP~Rvv~~PPFevtE 84 (240)
.++.+|++.++|+++|+|||.|++++++.++.+||.|+|||||.+++|++.||+||+|+||+||+||+|+|++|||+|+|
T Consensus 3 ~~~~~~~~~~~~~~~iv~G~~a~~~~~~~~~~~th~w~v~v~~~~~ed~~~~V~KV~f~LH~sf~~P~Rvv~~pPf~i~E 82 (249)
T KOG3149|consen 3 TASIKRTKECTISVPIVPGNRAAILGKRLPDGFTHIWEVYVRGPGKEDISAFVDKVVFKLHESFPNPRRVVESPPFEITE 82 (249)
T ss_pred CcCcceeeeeeEEeeeecCccccccCCCCCcccceeeEEEecCcCccccceeeeeeeeecccccccccccccCCCceEEe
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEeEEEEEEEEEeeCCCCCCEEEEEEeecCCCCCC---C-----------CCcCCCCeEEEeee-EEEeeCCCHHHHH
Q 026297 85 SGWGEFEIAITLYFHADVCDKPLNLYHHLKLYPEDES---G-----------SMSTKKPVVVESYD-EIVFPEPSDSFLA 149 (240)
Q Consensus 85 ~GWGeF~I~I~I~F~~~~~ekp~~i~H~L~l~~~~~~---~-----------~~~~~~~v~~e~yd-eivF~~Pse~f~~ 149 (240)
+|||+|+|.|+|||.++.+++++.++|+|.|++++.. . ..+.+.+++++.|+ +++|++|+++++.
T Consensus 83 tGwgeF~i~i~i~f~d~~~~~~v~~~~~l~l~~~~~p~~~~~~~~~~~~~~~~~~~r~~v~~~~~~~e~~f~~~~~~~~~ 162 (249)
T KOG3149|consen 83 TGWGEFEIQIEIFFTDDANEKKVTLYHDLKLHSYGAPPVPHEESTKKTFVNPTISLRIPVVREGVDVEIVFPDPTESTSI 162 (249)
T ss_pred eccccceEEEEEEeccCCCCceeeeeeeEEeeccCCCCccchhhhcccccccchhcccccccccccceeecCCCCccccc
Confidence 9999999999999999999999999999999987431 1 12456789999999 9999999999999
Q ss_pred HHhcCCCccCCCCCCCCCCCCCCCCcccccccCCCCCCCCcchhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026297 150 RVQNHPAVTLPRLPVGFTLPPPVPIEDTSKRKRGDTKDHPLAQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDG 229 (240)
Q Consensus 150 ~L~~~~~~~~~~~p~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~ 229 (240)
.+...+..+....+....++............+..+++.-...+.-...|..+.++++.+.+.++.++.++++++..++.
T Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~e~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (249)
T KOG3149|consen 163 EASSRPVGPGSNLAAVTDLKQVKSKTLPSLLSKESSKDVKTEKSSERPNEIDEVDRLEKKIKELKKEINKVRKDIEKLEG 242 (249)
T ss_pred ccCCCCCcCCccccccccccccccccCcccccccccccccccccccccccchhhhhhhhhhhhhhhHHHHHHHhhhhccc
Confidence 99988754433333222222111111111112222223233344556668999999999999999999999999999998
Q ss_pred hhhhcc
Q 026297 230 QQQQLR 235 (240)
Q Consensus 230 ~~~~~k 235 (240)
+.+-.+
T Consensus 243 ~~~~~~ 248 (249)
T KOG3149|consen 243 EIDLQK 248 (249)
T ss_pred cccccc
Confidence 865443
No 2
>COG5033 TFG3 Transcription initiation factor IIF, auxiliary subunit [Transcription]
Probab=100.00 E-value=3.2e-39 Score=281.53 Aligned_cols=198 Identities=28% Similarity=0.463 Sum_probs=165.0
Q ss_pred CcceeceEEEEeEEEccceEEcCCC--CCCCCeeeEEEEEeCCCCCCcccceeeeEEEeCCCCCCCcceeecCCcEEEee
Q 026297 8 NKKLKDVEISIPIVYGNVAFWLGKK--ASEYQSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFNNPTRAVESPPFELSES 85 (240)
Q Consensus 8 ~kR~k~~~i~~pivyGn~a~~l~k~--~~~~~tH~WtVyVr~~~~edls~~IkkV~F~LH~sf~nP~Rvv~~PPFevtE~ 85 (240)
.+|+.++.++++|++| .|..++.. .+..+||-|.||||++++||+++||+||+|+|||||+||+|++++|||+|.|+
T Consensus 4 ~krt~r~~t~r~Iipg-ea~~~~~e~~~P~r~th~w~v~v~~~g~E~~~~iv~KVifkLH~Tf~NP~Rti~~pPFeI~Et 82 (225)
T COG5033 4 VKRTERLKTQRVIIPG-EAKPLGNEERFPVRHTHIWLVFVRAPGKEDIATIVKKVIFKLHPTFSNPTRTIESPPFEIKET 82 (225)
T ss_pred ceeeEeeeeeceeccC-ccccCCccccCCchhhEEEEEEEeCCCCcchhhhhheeeEEeccccCCCcccccCCCcEEEec
Confidence 7999999999999999 99999864 78889999999999999999999999999999999999999999999999999
Q ss_pred eEEeEEEEEEEEEeeCCCCCCEEEEEEeecCCCCCCCC-------------CcCCCCeEEEeeeEEEeeCCCHHHHHHHh
Q 026297 86 GWGEFEIAITLYFHADVCDKPLNLYHHLKLYPEDESGS-------------MSTKKPVVVESYDEIVFPEPSDSFLARVQ 152 (240)
Q Consensus 86 GWGeF~I~I~I~F~~~~~ekp~~i~H~L~l~~~~~~~~-------------~~~~~~v~~e~ydeivF~~Pse~f~~~L~ 152 (240)
|||||+|.|+|||.++++++.+.++|++.++++....+ .+....|-+..+++++|++|....+++|.
T Consensus 83 GWGEF~i~I~iff~~~age~~~~fyl~f~~~~Y~v~~~v~~~~~~~~l~~elsk~geve~~~~~~~~~nep~i~~~k~~~ 162 (225)
T COG5033 83 GWGEFDIQIKIFFAEKAGEKTIHFYLHFGDEPYAVDEPVDIPVNRPDLTSELSKSGEVESVYKREKRFNEPNIQALKLLN 162 (225)
T ss_pred ccccceEEEEEEEecCCCceEeehhhhcccccccccccccccccccchhhhhhhcCcccceeeeeecccCchhHHHHhhh
Confidence 99999999999999999998777777777777542111 12234566777999999999999999998
Q ss_pred cCCCccCCCCCCCCCCCCCCCCcccccccCCCCCCCCcchhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 153 NHPAVTLPRLPVGFTLPPPVPIEDTSKRKRGDTKDHPLAQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLID 228 (240)
Q Consensus 153 ~~~~~~~~~~p~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e 228 (240)
..+.. .++.|+.. .+.+ ..|+.+.++++++++..+.+++...|+.++.....|-
T Consensus 163 ~~~~~------~a~gl~~~------------~edd----~~~v~Ql~~d~~~~v~~~ie~~~~~id~y~~~~~~L~ 216 (225)
T COG5033 163 GAKMK------LAIGLHKL------------REDD----LVFVVQLVQDPIMAVLNLIEKGEFKIDLYKLPSDLLH 216 (225)
T ss_pred cCccc------ccccCccc------------cccc----ceeeEecCcCHHHHHHhccccCceEeeehhCchhhhh
Confidence 77631 12233321 1122 4588999999999999999999999999887666543
No 3
>PF03366 YEATS: YEATS family; InterPro: IPR005033 Named the YEATS family, after `YNK7', `ENL', `AF-9', and `TFIIF small subunit', this family also contains the GAS41 protein. All these proteins are thought to have a transcription stimulatory activity.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3QRL_A 2L7E_A 3FK3_C 3RLS_A.
Probab=100.00 E-value=1.9e-36 Score=231.51 Aligned_cols=82 Identities=54% Similarity=1.007 Sum_probs=70.5
Q ss_pred eeeEEEEEeCCCCCCcccceeeeEEEeCCCCCCCcceeecCCcEEEeeeEEeEEEEEEEEEeeCCCCCCEEEEEEeecCC
Q 026297 38 SHKWTVYVRGATNEDLGVVIKRAVFQLHSSFNNPTRAVESPPFELSESGWGEFEIAITLYFHADVCDKPLNLYHHLKLYP 117 (240)
Q Consensus 38 tH~WtVyVr~~~~edls~~IkkV~F~LH~sf~nP~Rvv~~PPFevtE~GWGeF~I~I~I~F~~~~~ekp~~i~H~L~l~~ 117 (240)
||+|+||||+.+++|++++|+||+|+|||||+||+|++++|||+|+|+|||||+|.|+|+|+++++++++++.|+|+|++
T Consensus 1 th~W~v~Vr~~~~~d~~~~i~kV~f~LHpsF~~p~r~v~~pPFevte~GWGeF~i~I~i~f~~~~~~~~~~~~h~L~l~~ 80 (84)
T PF03366_consen 1 THKWTVYVRGLDNEDLSYFIKKVTFKLHPSFPNPVRVVTKPPFEVTETGWGEFEIPIKIHFKDPSNEKPVTIQHDLKLHQ 80 (84)
T ss_dssp -EEEEEEEEECCCT--TTTEEEEEEES-TTSSS-EEECSSTTEEEEEEESS--EEEEEEECCCGGCTCEEEEEEE--SSS
T ss_pred CcEEEEEEEeCCCCCccceEEEEEEECCCCCCCCceEecCCCCEEEEeEeccEEEEEEEEEeCCCCCCcEEEEEEEEcCC
Confidence 79999999999999999999999999999999999999999999999999999999999999877899999999999998
Q ss_pred CC
Q 026297 118 ED 119 (240)
Q Consensus 118 ~~ 119 (240)
++
T Consensus 81 ~~ 82 (84)
T PF03366_consen 81 DG 82 (84)
T ss_dssp CE
T ss_pred CC
Confidence 64
No 4
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=76.35 E-value=4.3 Score=29.22 Aligned_cols=36 Identities=19% Similarity=0.323 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 202 ELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 202 el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
.+.++....+.++.++++++++...++.+++.|+.+
T Consensus 18 ~~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~ 53 (80)
T PF04977_consen 18 RYYQLNQEIAELQKEIEELKKENEELKEEIERLKND 53 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 344555566666666667776666777776666443
No 5
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=72.78 E-value=8.7 Score=31.97 Aligned_cols=47 Identities=15% Similarity=0.302 Sum_probs=41.5
Q ss_pred cchhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Q 026297 190 LAQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 190 ~~~~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
++..|....-....+.|..+...+.++|+.|..++.....++++||.
T Consensus 70 vGdvF~~~~~~~~~~~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~ 116 (131)
T KOG1760|consen 70 VGDVFIHVKLDKLQDQLEEKKETLEKEIEELESELESISARMDELKK 116 (131)
T ss_pred hhhhheeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567777777888999999999999999999999999999999985
No 6
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=70.16 E-value=13 Score=27.22 Aligned_cols=36 Identities=25% Similarity=0.431 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
.+.++.|..+...=+.+|++|+++++.+...+..+.
T Consensus 17 e~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 17 EDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 466888999988999999999999999999998887
No 7
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=69.73 E-value=5.7 Score=30.25 Aligned_cols=26 Identities=27% Similarity=0.418 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 212 QVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 212 ~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
.++++.++|+++|+++|.+||+++..
T Consensus 4 ei~eEn~~Lk~eiqkle~ELq~~~~~ 29 (76)
T PF07334_consen 4 EIQEENARLKEEIQKLEAELQQNKRE 29 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 46677788888888888888777654
No 8
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=67.83 E-value=12 Score=28.31 Aligned_cols=45 Identities=16% Similarity=0.417 Sum_probs=36.7
Q ss_pred chhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 191 AQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 191 ~~~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
|.-|...+-.+-+..|..-...+..+|++++++++.++.+++.++
T Consensus 52 G~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~ 96 (106)
T PF01920_consen 52 GKMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELK 96 (106)
T ss_dssp TTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445777777777888888999999999999999998888877665
No 9
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=67.37 E-value=15 Score=29.21 Aligned_cols=32 Identities=16% Similarity=0.296 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQ 231 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~ 231 (240)
+.|.++|..-++++.++|+..+++|+.+|..+
T Consensus 68 ~~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 68 KKEKEQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56677888888888888888888888888765
No 10
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=66.16 E-value=13 Score=28.62 Aligned_cols=31 Identities=19% Similarity=0.390 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 026297 203 LLQLAAARQQVQAHIAKLKRQISLIDGQQQQ 233 (240)
Q Consensus 203 l~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~ 233 (240)
++||.+=+.|+.+.|+.+..+|+.||.+..+
T Consensus 3 leKi~~eieK~k~Kiae~Q~rlK~Le~qk~E 33 (83)
T PF14193_consen 3 LEKIRAEIEKTKEKIAELQARLKELEAQKTE 33 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888888999999999999999876543
No 11
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=66.06 E-value=18 Score=25.93 Aligned_cols=35 Identities=14% Similarity=0.304 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
..++.+|......|+.+++++++.+.++++..+.|
T Consensus 6 En~~~~~~~~i~tvk~en~~i~~~ve~i~envk~l 40 (55)
T PF05377_consen 6 ENELPRIESSINTVKKENEEISESVEKIEENVKDL 40 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688999999999999999999999988776543
No 12
>PRK02119 hypothetical protein; Provisional
Probab=65.22 E-value=21 Score=26.56 Aligned_cols=38 Identities=18% Similarity=0.250 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
.+.++.|..+..+=+++|+.|+++|+.+-.++..+.++
T Consensus 22 E~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~~~ 59 (73)
T PRK02119 22 ENLLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQPS 59 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 46788999999999999999999999998888776644
No 13
>PRK00846 hypothetical protein; Provisional
Probab=64.57 E-value=21 Score=27.16 Aligned_cols=39 Identities=21% Similarity=0.141 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCC
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 238 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~~ 238 (240)
.+.++.|..+..+-+.+|++|+.+++.+-.++..+.++.
T Consensus 26 e~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~~s~ 64 (77)
T PRK00846 26 EQALTELSEALADARLTGARNAELIRHLLEDLGKVRSTL 64 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 467888889988889999999999999888888777553
No 14
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=64.28 E-value=13 Score=32.16 Aligned_cols=37 Identities=16% Similarity=0.289 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
+|-+.|..-..||.+||.-||+-|..+|.....||+-
T Consensus 29 eE~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrk 65 (162)
T PF04201_consen 29 EEREELRSELAKVEEEIQTLRQVLAAKERHCAELKRK 65 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 4556677788999999999999999999999888863
No 15
>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=63.95 E-value=15 Score=30.88 Aligned_cols=39 Identities=23% Similarity=0.456 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCC
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 238 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~~ 238 (240)
.+|+..|+.-...+++++..++.+++.++.+++.|.+.+
T Consensus 71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~ 109 (169)
T PF07106_consen 71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSSEP 109 (169)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 467788888888888888888888888888888777654
No 16
>PRK02793 phi X174 lysis protein; Provisional
Probab=63.92 E-value=24 Score=26.23 Aligned_cols=38 Identities=13% Similarity=0.232 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
.+.++.|..+..+-+++|+.|+++|+.+-.++..+.++
T Consensus 21 e~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~~ 58 (72)
T PRK02793 21 EITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQPS 58 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 46788899999999999999999999998888777654
No 17
>PRK00295 hypothetical protein; Provisional
Probab=63.01 E-value=27 Score=25.61 Aligned_cols=36 Identities=19% Similarity=0.250 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
.+.++.|..+..+=+++|+.|+++|+.+-+++..+.
T Consensus 18 E~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 18 DDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 467888888888889999999999999988877665
No 18
>PRK00736 hypothetical protein; Provisional
Probab=62.38 E-value=29 Score=25.44 Aligned_cols=37 Identities=5% Similarity=0.197 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
.+.++.|..+..+=+++|+.|+++|+.+-.++..+.+
T Consensus 18 e~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~~ 54 (68)
T PRK00736 18 EKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLEE 54 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4667888888888899999999999999888776654
No 19
>PRK04325 hypothetical protein; Provisional
Probab=61.51 E-value=28 Score=25.98 Aligned_cols=38 Identities=21% Similarity=0.209 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
.+.++.|..+..+=+.+|+.|+++|+.+-.++..+..+
T Consensus 22 E~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~~~ 59 (74)
T PRK04325 22 EDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDANPD 59 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 56788999999999999999999999998877766543
No 20
>PRK04406 hypothetical protein; Provisional
Probab=60.29 E-value=30 Score=25.98 Aligned_cols=37 Identities=24% Similarity=0.343 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
.+.++.|..+...=+++|+.|+++|+.+-+++..+.+
T Consensus 24 E~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~~ 60 (75)
T PRK04406 24 EQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMDS 60 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4677888888888899999999999999888776654
No 21
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=53.90 E-value=29 Score=30.39 Aligned_cols=34 Identities=26% Similarity=0.193 Sum_probs=28.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 026297 198 SEADELLQLAAARQQVQAHIAKLKRQISLIDGQQ 231 (240)
Q Consensus 198 ~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~ 231 (240)
.|..|.+.|..-|+.|++|.++|..||...-.++
T Consensus 142 eER~EaeQLQsLR~avRqElqELE~QL~DRl~~l 175 (179)
T PF14723_consen 142 EEREEAEQLQSLRSAVRQELQELEFQLEDRLLQL 175 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3588999999999999999999998887655443
No 22
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=53.10 E-value=34 Score=28.35 Aligned_cols=35 Identities=9% Similarity=0.198 Sum_probs=25.9
Q ss_pred CCCeeeEEEEEeCCCCCCcccceeeeEEEeCCCCC
Q 026297 35 EYQSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFN 69 (240)
Q Consensus 35 ~~~tH~WtVyVr~~~~edls~~IkkV~F~LH~sf~ 69 (240)
+++.+.|.+.+.|+.+..-..-+=++.+.+.+.|+
T Consensus 27 ~~nl~~w~~~i~GP~~tpyegg~f~~~i~fp~~YP 61 (147)
T PLN00172 27 DENLFRWTASIIGPSDSPYAGGVFFLSILFPPDYP 61 (147)
T ss_pred CCChheEEEEEECCCCCCCCCCEEEEEEECCcccC
Confidence 35799999999998765543334467788888886
No 23
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=51.85 E-value=39 Score=26.23 Aligned_cols=45 Identities=13% Similarity=0.248 Sum_probs=28.1
Q ss_pred chhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 191 AQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 191 ~~~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
|..|-..+-.+-+..|..-...+..+|+++..+++.++.+++.+|
T Consensus 53 G~vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk 97 (105)
T cd00632 53 GNVLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKELQ 97 (105)
T ss_pred hhHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555566666666666666666666666666665554
No 24
>PF09154 DUF1939: Domain of unknown function (DUF1939); InterPro: IPR015237 This entry represents a C-terminal domain associated with prokaryotic alpha-amylases. It adopts a secondary structure consisting of an eight-stranded antiparallel beta-sheet containing a Greek key motif. Its exact function has not, as yet, been determined []. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 1MXD_A 1MWO_A 1MXG_A 1W9X_A 2DIE_A 1VJS_A 1BPL_B 1BLI_A 1OB0_A 1E3Z_A ....
Probab=50.97 E-value=8.7 Score=27.41 Aligned_cols=14 Identities=43% Similarity=1.149 Sum_probs=10.2
Q ss_pred cEEEeeeEEeEEEE
Q 026297 80 FELSESGWGEFEIA 93 (240)
Q Consensus 80 FevtE~GWGeF~I~ 93 (240)
-.+.|.|||+|.++
T Consensus 36 vtid~dG~~~f~v~ 49 (57)
T PF09154_consen 36 VTIDEDGWGEFPVP 49 (57)
T ss_dssp EEE-TTSEEEEEE-
T ss_pred EEECCCeEEEEEEC
Confidence 35789999999985
No 25
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=50.96 E-value=35 Score=32.41 Aligned_cols=46 Identities=9% Similarity=0.084 Sum_probs=36.5
Q ss_pred hhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCC
Q 026297 193 WFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 238 (240)
Q Consensus 193 ~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~~ 238 (240)
.|....-..-.+....+...++.++++++++|...|..++.+|...
T Consensus 156 ~y~~~~~~~~~~~~~~~~~fl~~ql~~~~~~l~~ae~~l~~fr~~~ 201 (444)
T TIGR03017 156 AYIDTNIELKVEPAQKAALWFVQQIAALREDLARAQSKLSAYQQEK 201 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3444444555667778899999999999999999999998887644
No 26
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=50.63 E-value=19 Score=26.59 Aligned_cols=19 Identities=47% Similarity=0.553 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 026297 203 LLQLAAARQQVQAHIAKLK 221 (240)
Q Consensus 203 l~~l~~a~~~V~~~i~~lk 221 (240)
+++...|+.+|.++|..|+
T Consensus 41 ~ekne~Ar~rvEamI~RLk 59 (65)
T TIGR02449 41 LEKNEQARQKVEAMITRLK 59 (65)
T ss_pred HHHHHHHHHHHHHHHHhhh
Confidence 4889999999999999876
No 27
>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=50.46 E-value=41 Score=26.43 Aligned_cols=35 Identities=14% Similarity=0.202 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
.+.++.|+.+.+.+.+.++.++++++.+++.++++
T Consensus 73 ~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~ 107 (110)
T TIGR02338 73 KEKKETLELRVKTLQRQEERLREQLKELQEKIQEA 107 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667778888888888888888888888877654
No 28
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=49.87 E-value=23 Score=27.93 Aligned_cols=22 Identities=18% Similarity=0.419 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 026297 210 RQQVQAHIAKLKRQISLIDGQQ 231 (240)
Q Consensus 210 ~~~V~~~i~~lk~~l~~~e~~~ 231 (240)
..+++++|++|+++|+.++...
T Consensus 4 ~s~I~~eIekLqe~lk~~e~ke 25 (92)
T PF07820_consen 4 SSKIREEIEKLQEQLKQAETKE 25 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4678899999999999888553
No 29
>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=49.39 E-value=36 Score=35.04 Aligned_cols=70 Identities=19% Similarity=0.166 Sum_probs=52.8
Q ss_pred eeeEEEeeCCCHHHHHHHhcCCCccCCCCCCCCCCCCCCCCcccccccCCCCCCCCcchhhcCccHHHHHHHHHHHHHHH
Q 026297 134 SYDEIVFPEPSDSFLARVQNHPAVTLPRLPVGFTLPPPVPIEDTSKRKRGDTKDHPLAQWFMNFSEADELLQLAAARQQV 213 (240)
Q Consensus 134 ~ydeivF~~Pse~f~~~L~~~~~~~~~~~p~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~f~~~~e~~el~~l~~a~~~V 213 (240)
..-+|.|..+.+.+-..+.+. +.+.|....-..-.+....|.+.+
T Consensus 155 ~ii~Is~~~~dP~~Aa~iaN~-----------------------------------la~~Y~~~~~~~k~~~~~~a~~~L 199 (754)
T TIGR01005 155 RIIAIEFRSEDPKLAAAIPDA-----------------------------------IAAAYIAGQGAAKSESNTAAADFL 199 (754)
T ss_pred EEEEEEEecCCHHHHHHHHHH-----------------------------------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345777888888777766643 234455554455566778899999
Q ss_pred HHHHHHHHHHHHHHHhhhhhcccCC
Q 026297 214 QAHIAKLKRQISLIDGQQQQLRSTS 238 (240)
Q Consensus 214 ~~~i~~lk~~l~~~e~~~~~~k~~~ 238 (240)
.+++.+++++|...|.++++.|...
T Consensus 200 ~~ql~~l~~~l~~aE~~l~~fk~~~ 224 (754)
T TIGR01005 200 APEIADLSKQSRDAEAEVAAYRAQS 224 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 9999999999999999999888654
No 30
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=48.83 E-value=41 Score=26.84 Aligned_cols=37 Identities=27% Similarity=0.390 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
...+..+....+...+++++++.+++..+.++..||.
T Consensus 79 ~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk~ 115 (118)
T PF13815_consen 79 SSQLEQLEERLQELQQEIEKLKQKLKKQKEEIKKLKK 115 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667888888888888888898888888888888775
No 31
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=48.63 E-value=41 Score=25.29 Aligned_cols=30 Identities=10% Similarity=0.251 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDG 229 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~ 229 (240)
.+|++-..+.-.+.++.|+.|..++..+|.
T Consensus 49 REEFd~q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 49 REEFDAQKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 788888777777777777777777777764
No 32
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=48.41 E-value=40 Score=26.28 Aligned_cols=44 Identities=18% Similarity=0.283 Sum_probs=25.0
Q ss_pred hhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 192 QWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 192 ~~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
..|-..+-.+-++.|+.....++.+++++.+++..+..++++++
T Consensus 78 ~~~ve~~~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~ 121 (129)
T cd00890 78 GVYVEKSLEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITELQ 121 (129)
T ss_pred CEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555666666666666666666665555555443
No 33
>PRK14127 cell division protein GpsB; Provisional
Probab=47.84 E-value=34 Score=27.64 Aligned_cols=28 Identities=14% Similarity=0.177 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 026297 204 LQLAAARQQVQAHIAKLKRQISLIDGQQ 231 (240)
Q Consensus 204 ~~l~~a~~~V~~~i~~lk~~l~~~e~~~ 231 (240)
+.+..-...+.+++..|++++..++.++
T Consensus 33 d~V~~dye~l~~e~~~Lk~e~~~l~~~l 60 (109)
T PRK14127 33 DDVIKDYEAFQKEIEELQQENARLKAQV 60 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444444444444
No 34
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=47.14 E-value=23 Score=21.17 Aligned_cols=19 Identities=21% Similarity=0.387 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHhhhhhc
Q 026297 216 HIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 216 ~i~~lk~~l~~~e~~~~~~ 234 (240)
||..+|.++..||.+|..-
T Consensus 2 E~~rlr~rI~dLer~L~~C 20 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLSEC 20 (23)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 6778888888888887653
No 35
>PRK11519 tyrosine kinase; Provisional
Probab=47.10 E-value=40 Score=34.81 Aligned_cols=49 Identities=2% Similarity=0.182 Sum_probs=37.7
Q ss_pred cchhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCC
Q 026297 190 LAQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 238 (240)
Q Consensus 190 ~~~~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~~ 238 (240)
+.+.|.+..-..-.+....+...+++++.+++++|...|..++.+|...
T Consensus 249 l~~~Yi~~~~~~k~~~a~~a~~fL~~ql~~l~~~L~~aE~~l~~fr~~~ 297 (719)
T PRK11519 249 ITRNYLEQNIERKSEEASKSLAFLAQQLPEVRSRLDVAENKLNAFRQDK 297 (719)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3444555555555556667888999999999999999999999888654
No 36
>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=46.58 E-value=34 Score=25.87 Aligned_cols=33 Identities=24% Similarity=0.332 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHH-------------HHHHHHHHHHHHHhhhhhccc
Q 026297 204 LQLAAARQQVQA-------------HIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 204 ~~l~~a~~~V~~-------------~i~~lk~~l~~~e~~~~~~k~ 236 (240)
-||..||+.|.. +|+.|++++..+.+-++.+|.
T Consensus 35 ~Klq~ar~~i~~lpgi~~s~eeq~~~i~~Le~~i~~k~~~L~~~~~ 80 (83)
T PF07544_consen 35 HKLQKARAAIRELPGIDRSVEEQEEEIEELEEQIRKKREVLQKFKE 80 (83)
T ss_pred HHHHHHHHHHHhCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888877765 677777777777777777764
No 37
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=46.41 E-value=47 Score=28.11 Aligned_cols=35 Identities=26% Similarity=0.415 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
.+.++.|..+++++++.|++|-+++..++++++++
T Consensus 100 ~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~ 134 (145)
T COG1730 100 KKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQL 134 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56678889999999999999999888888887654
No 38
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=45.12 E-value=45 Score=26.19 Aligned_cols=29 Identities=14% Similarity=0.189 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 199 EADELLQLAAARQQVQAHIAKLKRQISLI 227 (240)
Q Consensus 199 e~~el~~l~~a~~~V~~~i~~lk~~l~~~ 227 (240)
-..|+.||..|..++.+++..+.+++...
T Consensus 33 ~~~E~~rl~~Al~~~~~eL~~l~~~~~~~ 61 (123)
T PF05524_consen 33 IEAEIERLEQALEKAREELEQLAERAESK 61 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 36799999999999999999999886543
No 39
>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=44.54 E-value=67 Score=22.65 Aligned_cols=36 Identities=14% Similarity=0.303 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
...+..|..-...+..+...|+.++..+..+.+.|+
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~ 60 (64)
T PF00170_consen 25 KQYIEELEEKVEELESENEELKKELEQLKKEIQSLK 60 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666667777777777777777766665
No 40
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=43.96 E-value=28 Score=27.62 Aligned_cols=20 Identities=25% Similarity=0.476 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 026297 211 QQVQAHIAKLKRQISLIDGQ 230 (240)
Q Consensus 211 ~~V~~~i~~lk~~l~~~e~~ 230 (240)
.++++||++|+++|+.++..
T Consensus 6 s~I~~eI~kLqe~lk~~e~k 25 (98)
T PRK13848 6 SKIREEIAKLQEQLKQAETR 25 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 46788899999999888754
No 41
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=43.65 E-value=54 Score=24.39 Aligned_cols=35 Identities=17% Similarity=0.401 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
..+.+|.+..+....+|..+++++...+..++.|+
T Consensus 33 ~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~ 67 (74)
T PF12329_consen 33 NTIKKLRAKIKELEKQIKELKKKLEELEKELESLE 67 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555555555555555555554443
No 42
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=43.47 E-value=61 Score=24.75 Aligned_cols=35 Identities=23% Similarity=0.356 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
..++.+|.+..+.++.+++.+++++..++.+++-|
T Consensus 69 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~L 103 (104)
T PF13600_consen 69 SPELKELEEELEALEDELAALQDEIQALEAQIAFL 103 (104)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 46778888888888888888888888888777654
No 43
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=42.75 E-value=36 Score=26.94 Aligned_cols=17 Identities=41% Similarity=0.475 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 026297 205 QLAAARQQVQAHIAKLK 221 (240)
Q Consensus 205 ~l~~a~~~V~~~i~~lk 221 (240)
+++.-++.+..+|+.|+
T Consensus 45 ~l~~~n~~L~~eI~~L~ 61 (105)
T PRK00888 45 KLKARNDQLFAEIDDLK 61 (105)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 33333333333333333
No 44
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=42.31 E-value=54 Score=33.93 Aligned_cols=49 Identities=10% Similarity=0.189 Sum_probs=38.3
Q ss_pred cchhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCC
Q 026297 190 LAQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 238 (240)
Q Consensus 190 ~~~~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~~ 238 (240)
+.+.|.++.-.+-.+....|...+++++..++++|...|.+++.+|...
T Consensus 249 la~~Yi~~~l~~k~~~a~~a~~fL~~qL~~l~~~L~~aE~~l~~fr~~~ 297 (726)
T PRK09841 249 IANNYLQQNIARQAAQDSQSLEFLQRQLPEVRSELDQAEEKLNVYRQQR 297 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4455555554555666777889999999999999999999999988754
No 45
>PRK14127 cell division protein GpsB; Provisional
Probab=42.06 E-value=70 Score=25.81 Aligned_cols=36 Identities=17% Similarity=0.146 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
.++++.+..-....+++++.|+.+|..++.+.....
T Consensus 36 ~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~~~ 71 (109)
T PRK14127 36 IKDYEAFQKEIEELQQENARLKAQVDELTKQVSVGA 71 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 677888888888999999999999999988776554
No 46
>PF02370 M: M protein repeat; InterPro: IPR003345 This short repeat is found in multiple copies in bacterial M proteins. The M proteins bind to IgA and are closely associated with virulence. The M protein has been postulated to be a major group A streptococcal (GAS) virulence factor because of its contribution to the bacterial resistance to opsonophagocytosis [].; PDB: 2KK9_A.
Probab=41.74 E-value=62 Score=18.96 Aligned_cols=20 Identities=25% Similarity=0.365 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 026297 208 AARQQVQAHIAKLKRQISLI 227 (240)
Q Consensus 208 ~a~~~V~~~i~~lk~~l~~~ 227 (240)
+|++++.++.++|..+...+
T Consensus 1 ~akk~lEa~~qkLe~e~q~~ 20 (21)
T PF02370_consen 1 EAKKQLEADHQKLEAEKQIS 20 (21)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHhhc
Confidence 46777777777776655543
No 47
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=40.78 E-value=47 Score=23.29 Aligned_cols=24 Identities=17% Similarity=0.475 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 211 QQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 211 ~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
-+.+.++.+++++++.+|++++++
T Consensus 44 ~~~r~~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 44 LRLRRRIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445666777777777777777765
No 48
>KOG4010 consensus Coiled-coil protein TPD52 [General function prediction only]
Probab=40.74 E-value=51 Score=29.42 Aligned_cols=37 Identities=16% Similarity=0.308 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
+|-+-|..-..+|.+||.-||+-|..+|+-+.+||+-
T Consensus 44 ~Ekeelr~EL~kvEeEI~TLrqVLaAKerH~~ELKRK 80 (208)
T KOG4010|consen 44 EEKEELRTELAKVEEEIVTLRQVLAAKERHAAELKRK 80 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344566667789999999999999999999888864
No 49
>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=38.82 E-value=68 Score=25.65 Aligned_cols=16 Identities=25% Similarity=0.314 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 026297 201 DELLQLAAARQQVQAH 216 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~ 216 (240)
+++..|+.....+-+|
T Consensus 22 ~~~~~LK~~~~~l~EE 37 (107)
T PF06156_consen 22 EELEELKKQLQELLEE 37 (107)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444443
No 50
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.37 E-value=71 Score=24.26 Aligned_cols=37 Identities=14% Similarity=0.279 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
+-|++-|++-.+.+.++...++.....++++.++||.
T Consensus 24 QmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~ 60 (79)
T COG3074 24 QMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKE 60 (79)
T ss_pred HHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666677777777777777777777777664
No 51
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=38.28 E-value=53 Score=30.89 Aligned_cols=36 Identities=14% Similarity=0.187 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
++|++++.+....+..+|...++++..++.+++.++
T Consensus 203 ~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~ 238 (312)
T smart00787 203 PTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELE 238 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678888888888888888888888888887776654
No 52
>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=37.75 E-value=1.4e+02 Score=20.94 Aligned_cols=37 Identities=22% Similarity=0.400 Sum_probs=26.9
Q ss_pred hcCccHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 026297 194 FMNFSEADEL-LQLAAARQQVQAHIAKLKRQISLIDGQ 230 (240)
Q Consensus 194 f~~~~e~~el-~~l~~a~~~V~~~i~~lk~~l~~~e~~ 230 (240)
|.++.-.+|| .+|..--....+||+++++++..+-+-
T Consensus 4 fLk~ls~~eL~~rl~~LD~~ME~Eieelr~RY~~KRqP 41 (49)
T PF11629_consen 4 FLKFLSYEELQQRLASLDPEMEQEIEELRQRYQAKRQP 41 (49)
T ss_dssp GGGGS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhCCHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhcc
Confidence 4455555666 566666778899999999999887654
No 53
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=37.48 E-value=87 Score=24.37 Aligned_cols=35 Identities=26% Similarity=0.375 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
.+-++.|.....++.++++++++++..++..++++
T Consensus 93 ~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~ 127 (129)
T cd00890 93 KKRLETLEKQIEKLEKQLEKLQDQITELQEELQQL 127 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45567777888888888888888888888877654
No 54
>smart00212 UBCc Ubiquitin-conjugating enzyme E2, catalytic domain homologues. Proteins destined for proteasome-mediated degradation may be ubiquitinated. Ubiquitination follows conjugation of ubiquitin to a conserved cysteine residue of UBC homologues. This pathway functions in regulating many fundamental processes required for cell viability.TSG101 is one of several UBC homologues that lacks this active site cysteine.
Probab=37.23 E-value=1.1e+02 Score=24.63 Aligned_cols=43 Identities=12% Similarity=0.144 Sum_probs=28.0
Q ss_pred CCeeeEEEEEeCCCCCCcccceeeeEEEeCCCCCC--CcceeecC
Q 026297 36 YQSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFNN--PTRAVESP 78 (240)
Q Consensus 36 ~~tH~WtVyVr~~~~edls~~IkkV~F~LH~sf~n--P~Rvv~~P 78 (240)
+....|.+.+.|+.+.....-+=++++.|.+.|+. |.-.+..+
T Consensus 26 ~~~~~w~~~i~gp~~~~y~g~~f~~~l~~p~~yP~~pP~v~f~~~ 70 (145)
T smart00212 26 DNLLEWTGTIVGPPGTPYEGGIFKLTIEFPPDYPFKPPKVKFITK 70 (145)
T ss_pred CChheEEEEEEcCCCCCcCCcEEEEEEECCcccCCCCCEEEEeCC
Confidence 37889999999876543322233788888898874 44444443
No 55
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=36.82 E-value=83 Score=25.41 Aligned_cols=36 Identities=22% Similarity=0.315 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
.+-++.|.....++.+.++++++++..+...++++.
T Consensus 100 ~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~ 135 (140)
T PRK03947 100 DKRKEELEKALEKLEEALQKLASRIAQLAQELQQLQ 135 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566677777777777777777777777776653
No 56
>smart00338 BRLZ basic region leucin zipper.
Probab=36.75 E-value=99 Score=21.77 Aligned_cols=37 Identities=24% Similarity=0.393 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
...+..|..-...+..+...|+.++..++.+++.||.
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~ 61 (65)
T smart00338 25 KAEIEELERKVEQLEAENERLKKEIERLRRELEKLKS 61 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455556666666666677777777777766666653
No 57
>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=36.24 E-value=17 Score=26.40 Aligned_cols=21 Identities=24% Similarity=0.423 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHhhhhhcc
Q 026297 215 AHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 215 ~~i~~lk~~l~~~e~~~~~~k 235 (240)
..|++|.++...+|.+-+-||
T Consensus 21 ~~I~eL~~~n~~Le~EN~~Lk 41 (59)
T PF01166_consen 21 EQIAELEERNSQLEEENNLLK 41 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555554444443
No 58
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=36.20 E-value=39 Score=28.88 Aligned_cols=27 Identities=19% Similarity=0.409 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhccc
Q 026297 210 RQQVQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 210 ~~~V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
.++..+||++++++|+..+.+.+.||.
T Consensus 156 ~~~~~~ei~~lk~el~~~~~~~~~Lkk 182 (192)
T PF05529_consen 156 NKKLSEEIEKLKKELEKKEKEIEALKK 182 (192)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345567888888888888877777664
No 59
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=35.41 E-value=96 Score=23.03 Aligned_cols=36 Identities=22% Similarity=0.346 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
.+|.++|.....+-..-|.+||.+.+++|.++..++
T Consensus 18 ~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~ 53 (74)
T PF12329_consen 18 MEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELK 53 (74)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 466778888888888888888888888888877665
No 60
>PF08647 BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR013956 BRE1 is an E3 ubiquitin ligase that has been shown to act as a transcriptional activator through direct activator interactions [].
Probab=35.05 E-value=85 Score=24.25 Aligned_cols=33 Identities=12% Similarity=0.355 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQ 233 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~ 233 (240)
.||.+|..|..++...+.....++..+|+....
T Consensus 3 ~EL~~~~~a~~~~~~~~~~k~~~~~~lE~k~~r 35 (96)
T PF08647_consen 3 TELVSMEQAFKELSEQADKKVKELTILEQKKLR 35 (96)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888888888888887777777765543
No 61
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=34.50 E-value=75 Score=28.97 Aligned_cols=32 Identities=22% Similarity=0.258 Sum_probs=13.8
Q ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 196 NFSEADELLQLAAARQQVQAHIAKLKRQISLI 227 (240)
Q Consensus 196 ~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~ 227 (240)
+..|-.++-+|..-.+++.+.|..|+......
T Consensus 55 kd~ef~~llkla~eq~k~e~~m~~Lea~VEkr 86 (272)
T KOG4552|consen 55 KDDEFKTLLKLAPEQQKREQLMRTLEAHVEKR 86 (272)
T ss_pred ccHHHHHHHHHhHhHHHHHHHHHHHHHHHHHh
Confidence 33444444444444444444444444333333
No 62
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=33.37 E-value=1e+02 Score=21.92 Aligned_cols=28 Identities=18% Similarity=0.331 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLI 227 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~ 227 (240)
..++..|..-.+++++++++|+++++.+
T Consensus 23 ~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 23 NQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6778888888888888888888888887
No 63
>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=32.81 E-value=69 Score=31.03 Aligned_cols=34 Identities=6% Similarity=0.249 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 204 LQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 204 ~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
.....+.+.+++++.+++++|...|..++.+|..
T Consensus 157 ~~~~~~~~fl~~ql~~~~~~L~~ae~~l~~f~~~ 190 (498)
T TIGR03007 157 QDSDSAQRFIDEQIKTYEKKLEAAENRLKAFKQE 190 (498)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4556688888999999999999999888877654
No 64
>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=32.76 E-value=27 Score=24.21 Aligned_cols=17 Identities=35% Similarity=0.628 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHhhhhhc
Q 026297 218 AKLKRQISLIDGQQQQL 234 (240)
Q Consensus 218 ~~lk~~l~~~e~~~~~~ 234 (240)
+.||+|+..|+++++.|
T Consensus 2 ~aLrqQv~aL~~qv~~L 18 (46)
T PF09006_consen 2 NALRQQVEALQGQVQRL 18 (46)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 44555555555555444
No 65
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=31.98 E-value=1e+02 Score=23.84 Aligned_cols=31 Identities=23% Similarity=0.384 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 026297 203 LLQLAAARQQVQAHIAKLKRQISLIDGQQQQ 233 (240)
Q Consensus 203 l~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~ 233 (240)
++.|.....++.++++++++++..++..+++
T Consensus 86 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~ 116 (120)
T PF02996_consen 86 IKELEEQLEKLEKELAELQAQIEQLEQTLQQ 116 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555555555555554443
No 66
>PF11461 RILP: Rab interacting lysosomal protein; InterPro: IPR021563 RILP contains a domain which contains two coiled-coil regions and is found mainly in the cytosol. RILP is recruited onto late endosomal and lysosomal membranes by Rab7 and acts as a downstream effector of Rab7. This recruitment process is important for phagosome maturation and fusion with late endosomes and lysosomes. ; PDB: 1YHN_B.
Probab=31.24 E-value=57 Score=23.79 Aligned_cols=26 Identities=19% Similarity=0.308 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhccc
Q 026297 211 QQVQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 211 ~~V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
..|..|-.+||.++-.++.+|+..|+
T Consensus 6 r~VL~ERNeLK~~v~~leEEL~~yk~ 31 (60)
T PF11461_consen 6 REVLQERNELKARVFLLEEELAYYKS 31 (60)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35777888889999999988887775
No 67
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=30.91 E-value=1.2e+02 Score=23.90 Aligned_cols=32 Identities=28% Similarity=0.462 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 026297 202 ELLQLAAARQQVQAHIAKLKRQISLIDGQQQQ 233 (240)
Q Consensus 202 el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~ 233 (240)
-++.|.....++.+.+.++++++..++..+++
T Consensus 95 r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~ 126 (129)
T cd00584 95 KIEELTKQIEKLQKELAKLKDQINTLEAELQE 126 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555555555443
No 68
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=30.76 E-value=83 Score=29.34 Aligned_cols=35 Identities=17% Similarity=0.293 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
+++|..+.........+|+..|++|..++++++.+
T Consensus 208 ~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l 242 (325)
T PF08317_consen 208 QEELEALRQELAEQKEEIEAKKKELAELQEELEEL 242 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555555555555555555444433
No 69
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=30.73 E-value=1.3e+02 Score=23.22 Aligned_cols=35 Identities=11% Similarity=0.208 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
.+.++.|.....++.+.++.+.++++.++..+..+
T Consensus 69 e~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~ 103 (105)
T cd00632 69 KERLETIELRIKRLERQEEDLQEKLKELQEKIQQA 103 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677777777777777777777777766554
No 70
>PF12269 zf-CpG_bind_C: CpG binding protein zinc finger C terminal domain; InterPro: IPR022056 This domain family is found in eukaryotes, and is approximately 240 amino acids in length. This domain is the zinc finger domain of a CpG binding DNA methyltransferase protein. It contains a CxxC motif which forms the zinc finger and binds to DNA.
Probab=30.33 E-value=1e+02 Score=28.18 Aligned_cols=38 Identities=11% Similarity=0.237 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
...|++|..-+.+|+.++.+|-++.+.++.-+++.|..
T Consensus 28 r~~Le~Ir~kq~~v~~~l~eLe~~~~el~~~i~~~k~~ 65 (236)
T PF12269_consen 28 RKLLEEIRKKQQKVRNRLQELEKRFKELEAIIARAKQF 65 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45567777778888888888888888888877776654
No 71
>PF09766 FimP: Fms-interacting protein; InterPro: IPR019163 This entry represents Thoc5 which is one of the subunits of the THO complex, which additionally contains: HPR1, Thoc2, Thoc6 and Thoc7. The evolutionarily conserved multisubunit THO complex, which is recruited to actively transcribed genes is required for the efficient expression of genes that have internal tandem repeats. It is suggested that the THO complex functions to rectify aberrant structures that arise during transcription [, ] and is required for cell proliferation and for proper export of heat-shock mRNAs under heat stress []. This entry also identifies the crucial 144 N-terminal residues of the FmiP protein, which is essential for the binding of the protein to the cytoplasmic domain of activated Fms-molecules in M-CSF induced haematopoietic differentiation of macrophages. The C terminus contains a putative nuclear localisation sequence and a leucine zipper which suggest further, as yet unknown, nuclear functions. The level of FMIP expression might form a threshold that determines whether cells differentiate into macrophages or into granulocytes [].
Probab=30.22 E-value=63 Score=30.73 Aligned_cols=38 Identities=18% Similarity=0.306 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
.++++.|...++++.++|++.++.|..+...|..|+.+
T Consensus 107 ~~~~~el~~~k~~l~~~~~~k~~~L~~l~~~L~~l~~a 144 (355)
T PF09766_consen 107 EEQLKELEQRKKKLQQENKKKKKFLDSLPPQLKSLKKA 144 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 56778888999999999999999999999888777654
No 72
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=30.02 E-value=1.6e+02 Score=21.41 Aligned_cols=32 Identities=9% Similarity=0.249 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQ 231 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~ 231 (240)
.+||.+...+.......+.+-..+-..++.++
T Consensus 17 ~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei 48 (61)
T PF08826_consen 17 QEELTKVKSANLAFESKLQEAEKRNRELEQEI 48 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45565555555444444444333333333333
No 73
>PF12958 DUF3847: Protein of unknown function (DUF3847); InterPro: IPR024215 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=29.81 E-value=1.1e+02 Score=23.70 Aligned_cols=32 Identities=16% Similarity=0.384 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 203 LLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 203 l~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
|+.|.+-..++.++|+....+++.++.+...|
T Consensus 3 Le~l~~e~e~~~~kl~q~e~~~k~L~nr~k~l 34 (86)
T PF12958_consen 3 LEELQAEIEKAEKKLEQAEHKIKQLENRKKKL 34 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666666666666666666666666555444
No 74
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=29.75 E-value=1e+02 Score=27.46 Aligned_cols=32 Identities=16% Similarity=0.334 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQ 232 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~ 232 (240)
.|++.|.....+++..++.+++++..++++++
T Consensus 63 ~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~ 94 (251)
T PF11932_consen 63 REIENLEVYNEQLERQVASQEQELASLEQQIE 94 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444444444443
No 75
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=29.46 E-value=1.2e+02 Score=24.51 Aligned_cols=6 Identities=17% Similarity=0.645 Sum_probs=2.1
Q ss_pred HHHHHH
Q 026297 220 LKRQIS 225 (240)
Q Consensus 220 lk~~l~ 225 (240)
||++|.
T Consensus 48 Lr~~l~ 53 (110)
T PRK13169 48 LRERLE 53 (110)
T ss_pred HHHHHH
Confidence 333333
No 76
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=29.02 E-value=91 Score=24.09 Aligned_cols=42 Identities=17% Similarity=0.406 Sum_probs=29.3
Q ss_pred hhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 193 WFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 193 ~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
+|...+-.+-++-+..-...+++.++++.+++..+..+++.+
T Consensus 69 ~~vE~s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~ 110 (120)
T PF02996_consen 69 YYVEMSLEEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQL 110 (120)
T ss_dssp EEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred eEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555566666777777777778888888888777776554
No 77
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=29.01 E-value=1.5e+02 Score=22.80 Aligned_cols=39 Identities=18% Similarity=0.445 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 199 EADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 199 e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
..+++..|...+.+.+.+++.|+.+-..+-.++.++|..
T Consensus 27 ~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~ 65 (108)
T PF02403_consen 27 DVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKA 65 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHT
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhC
Confidence 356666666666667777777766666666666555543
No 78
>PRK11546 zraP zinc resistance protein; Provisional
Probab=28.93 E-value=1.6e+02 Score=24.97 Aligned_cols=37 Identities=11% Similarity=0.112 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
+..+.++.-.++-..+++.||++|-.+..+++.|=.+
T Consensus 47 EQQa~~q~I~~~f~~~t~~LRqqL~aKr~ELnALl~~ 83 (143)
T PRK11546 47 EQQAAWQKIHNDFYAQTSALRQQLVSKRYEYNALLTA 83 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4445555666677777888888888777777666433
No 79
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=27.65 E-value=1.2e+02 Score=28.32 Aligned_cols=30 Identities=20% Similarity=0.435 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDG 229 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~ 229 (240)
.+||..|...+..+.++++.++.++..++.
T Consensus 63 ~~eL~~LE~e~~~l~~el~~le~e~~~l~~ 92 (314)
T PF04111_consen 63 LQELEELEKEREELDQELEELEEELEELDE 92 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555555555443
No 80
>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=27.47 E-value=1.1e+02 Score=30.12 Aligned_cols=37 Identities=19% Similarity=0.358 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
.+++..|..++.....++++++++|..++.+++.+-+
T Consensus 137 ~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~ 173 (525)
T TIGR02231 137 GSEIERLLTEDREAERRIRELEKQLSELQNELNALLT 173 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 5667788888888888888888888888888876643
No 81
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=26.93 E-value=77 Score=22.69 Aligned_cols=26 Identities=19% Similarity=0.437 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQIS 225 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~ 225 (240)
..|+.||..-..+++.+|+.+..+|.
T Consensus 3 ~~E~~rL~Kel~kl~~~i~~~~~kL~ 28 (66)
T PF10458_consen 3 EAEIERLEKELEKLEKEIERLEKKLS 28 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 35667777777777777766665553
No 82
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=26.73 E-value=80 Score=21.91 Aligned_cols=27 Identities=11% Similarity=0.170 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026297 203 LLQLAAARQQVQAHIAKLKRQISLIDG 229 (240)
Q Consensus 203 l~~l~~a~~~V~~~i~~lk~~l~~~e~ 229 (240)
-+.|..-...|+++|++|.++-+.|-.
T Consensus 14 ~d~IEqkiedid~qIaeLe~KR~~Lv~ 40 (46)
T PF08946_consen 14 YDNIEQKIEDIDEQIAELEAKRQRLVD 40 (46)
T ss_dssp -THHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 345666666677777777665555443
No 83
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=26.59 E-value=2e+02 Score=20.91 Aligned_cols=27 Identities=19% Similarity=0.261 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISL 226 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~ 226 (240)
..++.++.....+.+++.++|+.+...
T Consensus 30 ~~~~~~~~~~~~~l~~en~~L~~ei~~ 56 (85)
T TIGR02209 30 NNELQKLQLEIDKLQKEWRDLQLEVAE 56 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444443
No 84
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=26.21 E-value=1e+02 Score=31.02 Aligned_cols=20 Identities=15% Similarity=0.207 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHhhhhhc
Q 026297 215 AHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 215 ~~i~~lk~~l~~~e~~~~~~ 234 (240)
++.+++.++|+++|.++++|
T Consensus 97 aq~~dle~KIkeLEaE~~~L 116 (475)
T PRK13729 97 KQRGDDQRRIEKLGQDNAAL 116 (475)
T ss_pred hhhhhHHHHHHHHHHHHHHH
Confidence 44444444455555554444
No 85
>TIGR02977 phageshock_pspA phage shock protein A. Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.
Probab=25.52 E-value=1.3e+02 Score=26.46 Aligned_cols=37 Identities=19% Similarity=0.267 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
...+.+|..........+++|+.+|..++..++.+|.
T Consensus 98 ~~~~~~l~~~~~~~~~~v~~l~~~l~~L~~ki~~~k~ 134 (219)
T TIGR02977 98 QELAEALERELAAVEETLAKLQEDIAKLQAKLAEARA 134 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556677777777777777787877777777766553
No 86
>PF12548 DUF3740: Sulfatase protein; InterPro: IPR024609 This uncharacterised domain is found in the C-terminal region of extracellular sulphatase proteins.
Probab=25.33 E-value=83 Score=26.58 Aligned_cols=32 Identities=16% Similarity=0.203 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 203 LLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 203 l~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
.+.-..-+..|+.+|+.|+++|+.|...--.|
T Consensus 101 ~~aWk~hr~~ID~eIe~Lq~Ki~~LKeiR~hL 132 (145)
T PF12548_consen 101 PKAWKDHRLHIDHEIETLQDKIKNLKEIRGHL 132 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556778999999999999998877543333
No 87
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=25.28 E-value=1.8e+02 Score=21.96 Aligned_cols=30 Identities=23% Similarity=0.360 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQ 230 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~ 230 (240)
.+|..|.+-++++..+++.+.+++=.+|+.
T Consensus 2 ~~L~~l~~~k~~Le~~L~~lE~qIy~~Et~ 31 (80)
T PF09340_consen 2 KELKELLQKKKKLEKDLAALEKQIYDKETS 31 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467888889999999999999999988876
No 88
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=25.27 E-value=1.8e+02 Score=22.85 Aligned_cols=33 Identities=21% Similarity=0.341 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQ 233 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~ 233 (240)
+.++.|.....++.+.++.+++++..+...+++
T Consensus 93 ~~~~~l~~~~~~l~~~l~~l~~~~~~i~~~l~~ 125 (126)
T TIGR00293 93 KRIEELEKAIEKLQEALAELASRAQQLEQEAQQ 125 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344555566666666666666666666665543
No 89
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=25.14 E-value=1.5e+02 Score=25.29 Aligned_cols=31 Identities=19% Similarity=0.298 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQ 230 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~ 230 (240)
.+|+++|..-..+.+.+++.||+|.+.++.+
T Consensus 160 ~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~e 190 (192)
T PF05529_consen 160 SEEIEKLKKELEKKEKEIEALKKQSEGLQKE 190 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4566666666666666666677666665543
No 90
>PF05615 THOC7: Tho complex subunit 7; InterPro: IPR008501 The Tho complex (THOC) is involved in transcription elongation and mRNA export from the nucleus []. This entry represents the subunit THOC7, which is found in higher eukaryotes, and the non-homologous subunit Mft1p found in yeast. The funtions of these subunits are unknown, and it is not known if these subunits are functionally equivalent.
Probab=24.26 E-value=1.9e+02 Score=23.37 Aligned_cols=26 Identities=15% Similarity=0.239 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026297 204 LQLAAARQQVQAHIAKLKRQISLIDG 229 (240)
Q Consensus 204 ~~l~~a~~~V~~~i~~lk~~l~~~e~ 229 (240)
.+|......++++|+.||.+|.....
T Consensus 84 ~~i~~~i~~~k~~ie~lk~~L~~ak~ 109 (139)
T PF05615_consen 84 EEIEQEIEQAKKEIEELKEELEEAKR 109 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555566666666555443
No 91
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=23.87 E-value=1.5e+02 Score=27.78 Aligned_cols=35 Identities=17% Similarity=0.378 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
.+|++.|........+++.+|.++...+++++..+
T Consensus 49 ~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~l 83 (314)
T PF04111_consen 49 EEELEKLEQEEEELLQELEELEKEREELDQELEEL 83 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556666655555555555555555555554433
No 92
>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=23.86 E-value=1.3e+02 Score=26.10 Aligned_cols=27 Identities=11% Similarity=0.201 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026297 203 LLQLAAARQQVQAHIAKLKRQISLIDG 229 (240)
Q Consensus 203 l~~l~~a~~~V~~~i~~lk~~l~~~e~ 229 (240)
..+|..-..+++++++.|..++..+++
T Consensus 106 ~~~l~~e~~~l~~~~e~Le~e~~~L~~ 132 (161)
T TIGR02894 106 NERLKNQNESLQKRNEELEKELEKLRQ 132 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333444444444444444433
No 93
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=23.79 E-value=75 Score=24.92 Aligned_cols=35 Identities=34% Similarity=0.412 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
+-|+.|......+..+++.|+.++..+..++..++
T Consensus 25 ~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~ 59 (131)
T PF05103_consen 25 DFLDELAEELERLQRENAELKEEIEELQAQLEELR 59 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCCCCT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence 33577777778888888888888888877776654
No 94
>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=23.76 E-value=1.7e+02 Score=25.38 Aligned_cols=31 Identities=13% Similarity=0.312 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 205 QLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 205 ~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
.+....+..+.++++|+.+++.|+.+++.|+
T Consensus 101 ~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~ 131 (161)
T TIGR02894 101 ALQKENERLKNQNESLQKRNEELEKELEKLR 131 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555556666666666666666665554
No 95
>smart00338 BRLZ basic region leucin zipper.
Probab=23.72 E-value=2.4e+02 Score=19.73 Aligned_cols=32 Identities=19% Similarity=0.421 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQ 231 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~ 231 (240)
..++..|......+..+++.|+.++..+..++
T Consensus 32 e~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 32 ERKVEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45566666777777777777777776666554
No 96
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=23.30 E-value=1.7e+02 Score=20.20 Aligned_cols=30 Identities=17% Similarity=0.352 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 205 QLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 205 ~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
.|.+=+.+|...++.|-.+|..+.+.++.|
T Consensus 13 slv~FQ~~v~~~lq~Lt~kL~~vs~RLe~L 42 (47)
T PF10393_consen 13 SLVAFQNKVTSALQSLTQKLDAVSKRLEAL 42 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555566666666666666666666666554
No 97
>PF09036 Bcr-Abl_Oligo: Bcr-Abl oncoprotein oligomerisation domain; InterPro: IPR015123 This entry represents the oligomerisation domain of the breakpoint cluster region oncoprotein Bcr, and the Bcr/Abl (Abelson-leukemia-virus) fusion protein created by a reciprocal (9;22) fusion []. Brc displays serine/threonine protein kinase activity (2.7.11.1 from EC), acting as a GTPase-activating protein for RAC1 and CDC42. Brc promotes the exchange of RAC or CDC42-bound GDP by GTP, thereby activating them []. The Bcr/Abl fusion protein loses some of the regulatory function of Bcr with regards to small Rho-like GTPases with negative consequences on cell motility, in particular on the capacity to adhere to endothelial cells []. The Bcr, Bcr/Abl oncoprotein oligomerisation domain consists of a short N-terminal helix (alpha-1), a flexible loop and a long C-terminal helix (alpha-2). Together these form an N-shaped structure, with the loop allowing the two helices to assume a parallel orientation. The monomeric domains associate into a dimer through the formation of an antiparallel coiled coil between the alpha-2 helices and domain swapping of two alpha-1 helices, where one alpha-1 helix swings back and packs against the alpha-2 helix from the second monomer. Two dimers then associate into a tetramer. The oligomerisation domain is essential for the oncogenicity of the Bcr-Abl protein []. ; GO: 0004674 protein serine/threonine kinase activity, 0005096 GTPase activator activity, 0006468 protein phosphorylation, 0007165 signal transduction; PDB: 1K1F_C.
Probab=23.28 E-value=2.8e+02 Score=21.28 Aligned_cols=40 Identities=15% Similarity=0.210 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCCC
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTSD 239 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~~~ 239 (240)
..||++-.+....+++++.+-|=+..=|+..|++=|.|+|
T Consensus 32 e~eLerCK~sirrLeqevnkERFrmiYLQTlLAkErksyd 71 (79)
T PF09036_consen 32 EQELERCKASIRRLEQEVNKERFRMIYLQTLLAKERKSYD 71 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcch
Confidence 5789999999999999999999888889998888877765
No 98
>PF04822 Takusan: Takusan; InterPro: IPR006907 This family includes several uncharacterised muridae (mouse and rat) proteins.
Probab=23.19 E-value=1.6e+02 Score=22.77 Aligned_cols=29 Identities=21% Similarity=0.290 Sum_probs=25.6
Q ss_pred cHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 198 SEA-DELLQLAAARQQVQAHIAKLKRQISL 226 (240)
Q Consensus 198 ~e~-~el~~l~~a~~~V~~~i~~lk~~l~~ 226 (240)
... +++++|..+.++|..|-.+|++.|..
T Consensus 15 e~~~k~lE~L~~eL~~it~ERnELr~~L~~ 44 (84)
T PF04822_consen 15 EKKMKELERLKFELQKITKERNELRDILAL 44 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344 78999999999999999999999874
No 99
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=23.18 E-value=1.5e+02 Score=26.25 Aligned_cols=32 Identities=19% Similarity=0.357 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 204 LQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 204 ~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
++|.....++....+.|+.|+..+|..+.+|+
T Consensus 207 ~~i~~~~~rl~~~~~~l~~qf~~me~~i~~ln 238 (239)
T PF07195_consen 207 KQIEDLEERLESKEERLRKQFSAMESLISQLN 238 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455555566666667777777777777765
No 100
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=23.08 E-value=1.3e+02 Score=23.88 Aligned_cols=25 Identities=20% Similarity=0.349 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHH----HHhhhhhc
Q 026297 210 RQQVQAHIAKLKRQISL----IDGQQQQL 234 (240)
Q Consensus 210 ~~~V~~~i~~lk~~l~~----~e~~~~~~ 234 (240)
+++=++++++||++|++ .+++++.|
T Consensus 67 r~~EkEqL~~Lk~kl~~e~~~~~k~i~~l 95 (100)
T PF04568_consen 67 RKKEKEQLKKLKEKLKEEIEHHRKEIDEL 95 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445677777777777 66666554
No 101
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=23.02 E-value=1.6e+02 Score=26.28 Aligned_cols=18 Identities=17% Similarity=0.322 Sum_probs=13.8
Q ss_pred EEEeeCCCHHHHHHHhcC
Q 026297 137 EIVFPEPSDSFLARVQNH 154 (240)
Q Consensus 137 eivF~~Pse~f~~~L~~~ 154 (240)
.|++.=|.+.|-..|..-
T Consensus 97 ~ltiRVP~~~~~~~l~~l 114 (262)
T PF14257_consen 97 SLTIRVPADKFDSFLDEL 114 (262)
T ss_pred EEEEEECHHHHHHHHHHH
Confidence 789999988877766543
No 102
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=23.01 E-value=1.3e+02 Score=23.69 Aligned_cols=40 Identities=15% Similarity=0.288 Sum_probs=22.0
Q ss_pred hcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 026297 194 FMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQ 233 (240)
Q Consensus 194 f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~ 233 (240)
|-..+-.+-++-|+.-...+.+.++++.+.+..+..+...
T Consensus 79 ~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~ 118 (126)
T TIGR00293 79 YVEKDAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQ 118 (126)
T ss_pred EEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333334445555555566666666666666666655544
No 103
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=22.91 E-value=97 Score=25.42 Aligned_cols=21 Identities=24% Similarity=0.396 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 026297 212 QVQAHIAKLKRQISLIDGQQQ 232 (240)
Q Consensus 212 ~V~~~i~~lk~~l~~~e~~~~ 232 (240)
.|++|.+-||+++++++....
T Consensus 64 AVREEVe~Lk~qI~eL~er~~ 84 (123)
T KOG4797|consen 64 AVREEVEVLKEQIRELEERNS 84 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666666664443
No 104
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=22.82 E-value=1.6e+02 Score=25.52 Aligned_cols=36 Identities=22% Similarity=0.419 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
..++..+..........+++|+.+|..++..++.+|
T Consensus 97 e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k 132 (221)
T PF04012_consen 97 EEQAERLEQQLDQAEAQVEKLKEQLEELEAKLEELK 132 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555556666666666666666666666655554
No 105
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=22.65 E-value=2.5e+02 Score=20.88 Aligned_cols=34 Identities=6% Similarity=0.247 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQ 233 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~ 233 (240)
.+.++.+..-..++...++.+.++++.++..+..
T Consensus 68 ~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~ 101 (106)
T PF01920_consen 68 EERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYE 101 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666667777777777776666543
No 106
>PRK10884 SH3 domain-containing protein; Provisional
Probab=22.59 E-value=1.7e+02 Score=25.92 Aligned_cols=30 Identities=10% Similarity=0.211 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 206 LAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 206 l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
|+.-.++..++++.++.++..++.++..++
T Consensus 137 L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~ 166 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKKVDAANLQLDDKQ 166 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555555555544443
No 107
>PF07028 DUF1319: Protein of unknown function (DUF1319); InterPro: IPR010746 This entry is represented by Commelina yellow mottle virus, Orf1. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains a number of viral proteins of unknown function approximately 200 residues long. Family members seem to be restricted to badnaviruses.
Probab=22.55 E-value=1.9e+02 Score=24.03 Aligned_cols=36 Identities=22% Similarity=0.456 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
.+++..+......-+++|++++.++..+..+++.|+
T Consensus 45 ~~~lk~~~ki~~~Qr~~l~~l~~~l~~l~~eL~~Lr 80 (126)
T PF07028_consen 45 LEELKNLSKIQESQRSELKELKQELDVLSKELQALR 80 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555567777777777777776664
No 108
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=22.53 E-value=2e+02 Score=22.66 Aligned_cols=42 Identities=14% Similarity=0.323 Sum_probs=30.4
Q ss_pred hhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 193 WFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 193 ~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
+|...+-.+-++-+......+.+.++++.+++..+..+++.+
T Consensus 79 ~~vE~~~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~ 120 (129)
T cd00584 79 YYVEKDLEEAIEFLDKKIEELTKQIEKLQKELAKLKDQINTL 120 (129)
T ss_pred EEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555566667777778888888888888888877776554
No 109
>PRK09343 prefoldin subunit beta; Provisional
Probab=22.50 E-value=2.1e+02 Score=22.95 Aligned_cols=35 Identities=9% Similarity=0.209 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
.+.++.|....+.+....+.++++++.++..++++
T Consensus 77 ~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~l 111 (121)
T PRK09343 77 KERKELLELRSRTLEKQEKKLREKLKELQAKINEM 111 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 110
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=22.49 E-value=1.5e+02 Score=28.09 Aligned_cols=14 Identities=29% Similarity=0.211 Sum_probs=9.4
Q ss_pred eEEEeeeEEEeeCC
Q 026297 130 VVVESYDEIVFPEP 143 (240)
Q Consensus 130 v~~e~ydeivF~~P 143 (240)
...+..++++|..|
T Consensus 146 ~s~~~~~e~~~~~~ 159 (294)
T KOG4571|consen 146 CSLELVHERCSMEP 159 (294)
T ss_pred cccCCCcccccccc
Confidence 33455678888777
No 111
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=22.47 E-value=2e+02 Score=18.49 Aligned_cols=27 Identities=22% Similarity=0.389 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 211 QQVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 211 ~~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
++...+.+.||++-..+...+++|..|
T Consensus 4 qkL~sekeqLrrr~eqLK~kLeqlrnS 30 (32)
T PF02344_consen 4 QKLISEKEQLRRRREQLKHKLEQLRNS 30 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 344555666666666666666666554
No 112
>PF14282 FlxA: FlxA-like protein
Probab=22.19 E-value=99 Score=24.36 Aligned_cols=22 Identities=23% Similarity=0.380 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 026297 201 DELLQLAAARQQVQAHIAKLKR 222 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~ 222 (240)
..+.+|..=++.++++|..|..
T Consensus 19 ~~I~~L~~Qi~~Lq~ql~~l~~ 40 (106)
T PF14282_consen 19 SQIEQLQKQIKQLQEQLQELSQ 40 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc
Confidence 4455555555555555554443
No 113
>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=22.16 E-value=1.3e+02 Score=25.18 Aligned_cols=26 Identities=23% Similarity=0.474 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcccC
Q 026297 212 QVQAHIAKLKRQISLIDGQQQQLRST 237 (240)
Q Consensus 212 ~V~~~i~~lk~~l~~~e~~~~~~k~~ 237 (240)
.+..+|+.|+.++..++..++.|+++
T Consensus 113 el~~~i~~l~~e~~~l~~kL~~l~~~ 138 (169)
T PF07106_consen 113 ELREEIEELEEEIEELEEKLEKLRSG 138 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 44566667777777777777777664
No 114
>cd00195 UBCc Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin protein ligase enzymes, E3. This pathway regulates many fundamental cellular processes. There are also other E2s which form thiol-ester linkages without the use of E3s as well as several UBC homologs (TSG101, Mms2, Croc-1 and similar proteins) which lack the active site cysteine essential for ubiquitination and appear to function in DNA repair pathways which were omitted from the scope of this CD.
Probab=21.80 E-value=2.7e+02 Score=22.29 Aligned_cols=34 Identities=12% Similarity=0.199 Sum_probs=22.0
Q ss_pred CeeeEEEEEeCCCCCCcccceeeeEEEeCCCCCC
Q 026297 37 QSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFNN 70 (240)
Q Consensus 37 ~tH~WtVyVr~~~~edls~~IkkV~F~LH~sf~n 70 (240)
....|.+-+.|+.+.....=+=++.+.+++.|+.
T Consensus 27 ~~~~w~~~i~g~~~t~y~g~~~~~~~~~p~~yP~ 60 (141)
T cd00195 27 NLLEWHGTIRGPPDTPYEGGIFKLDIEFPEDYPF 60 (141)
T ss_pred ChhEEEEEEecCCCCCccCCEEEEEEECCCccCC
Confidence 6788999998874433322344566777777763
No 115
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=21.41 E-value=44 Score=28.89 Aligned_cols=34 Identities=24% Similarity=0.274 Sum_probs=10.3
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 026297 197 FSEADELLQLAAARQQVQAHIAKLKRQISLIDGQ 230 (240)
Q Consensus 197 ~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~ 230 (240)
..|-+|-+.|.+-.|.++.|+.+||.+|...|..
T Consensus 20 E~ELdEKE~L~~~~QRLkDE~RDLKqEl~V~ek~ 53 (166)
T PF04880_consen 20 ESELDEKENLREEVQRLKDELRDLKQELIVQEKL 53 (166)
T ss_dssp HHHHHHHHHHHHCH--------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3456777888888888888888888888554443
No 116
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=21.40 E-value=1.5e+02 Score=23.72 Aligned_cols=33 Identities=27% Similarity=0.366 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 026297 199 EADELLQLAAARQQVQAHIAKLKRQISLIDGQQ 231 (240)
Q Consensus 199 e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~ 231 (240)
.+.|+++|.+-+..+.++|++|++....++...
T Consensus 62 ~~~e~~~L~~~~~~l~~ei~~L~dg~~~i~e~A 94 (117)
T COG2919 62 QQAELEKLSARNTALEAEIKDLKDGRDYIEERA 94 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHH
No 117
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=21.34 E-value=1.3e+02 Score=23.14 Aligned_cols=28 Identities=18% Similarity=0.224 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLID 228 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e 228 (240)
.|+++-.+=+...++.+..|..+..++|
T Consensus 8 ~eieK~k~Kiae~Q~rlK~Le~qk~E~E 35 (83)
T PF14193_consen 8 AEIEKTKEKIAELQARLKELEAQKTEAE 35 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444455555556666666655
No 118
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=21.34 E-value=1.6e+02 Score=25.69 Aligned_cols=30 Identities=13% Similarity=0.391 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 206 LAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 206 l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
.+.+.+.++.||++|.+++..+|+...++|
T Consensus 118 Vd~~~~eL~~eI~~L~~~i~~le~~~~~~k 147 (171)
T PF04799_consen 118 VDQTKNELEDEIKQLEKEIQRLEEIQSKSK 147 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566677777777777777776654444
No 119
>PF14282 FlxA: FlxA-like protein
Probab=21.24 E-value=1.6e+02 Score=23.10 Aligned_cols=20 Identities=35% Similarity=0.386 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHhhhhh
Q 026297 214 QAHIAKLKRQISLIDGQQQQ 233 (240)
Q Consensus 214 ~~~i~~lk~~l~~~e~~~~~ 233 (240)
+..+..|..+|.+|+.++++
T Consensus 50 ~~q~q~Lq~QI~~LqaQI~q 69 (106)
T PF14282_consen 50 QQQIQLLQAQIQQLQAQIAQ 69 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555443
No 120
>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=21.20 E-value=2.6e+02 Score=21.06 Aligned_cols=33 Identities=12% Similarity=0.229 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCC
Q 026297 206 LAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 238 (240)
Q Consensus 206 l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~~ 238 (240)
|..-.+.++.|+..++.++..+..++.++.++.
T Consensus 15 Ls~vl~~LqDE~~hm~~e~~~L~~~~~~~d~s~ 47 (79)
T PF06657_consen 15 LSEVLKALQDEFGHMKMEHQELQDEYKQMDPSL 47 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 334444445555555555555555555444443
No 121
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=21.05 E-value=1.9e+02 Score=25.03 Aligned_cols=43 Identities=12% Similarity=0.340 Sum_probs=20.0
Q ss_pred hhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 192 QWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 192 ~~f~~~~e~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
.||=.|.- ++..++.....++++++++++.++..++..++..|
T Consensus 54 n~YWsFps-~~~~~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~ 96 (188)
T PF03962_consen 54 NYYWSFPS-QAKQKRQNKLEKLQKEIEELEKKIEELEEKIEEAK 96 (188)
T ss_pred eEEEecCh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444443 22334444444555555555555555555544443
No 122
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=21.04 E-value=1.2e+02 Score=23.56 Aligned_cols=28 Identities=21% Similarity=0.389 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 208 AARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 208 ~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
++|....+|...++.++...|.+++.|.
T Consensus 36 e~R~~lE~E~~~l~~~l~~~E~eL~~Lr 63 (85)
T PF15188_consen 36 EARRSLEKELNELKEKLENNEKELKLLR 63 (85)
T ss_pred HHHHHHHHHHHHHHHHhhccHHHHHHHH
Confidence 3566677888888888888888877764
No 123
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=20.90 E-value=1.8e+02 Score=22.06 Aligned_cols=28 Identities=29% Similarity=0.401 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLI 227 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~ 227 (240)
.++++.|...+..++.+++-++.+++.+
T Consensus 76 ~~~l~~l~~~~~~~~~~~~~~~~~~~~L 103 (104)
T PF13600_consen 76 EEELEALEDELAALQDEIQALEAQIAFL 103 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5667777777777777777777777654
No 124
>PF08549 SWI-SNF_Ssr4: Fungal domain of unknown function (DUF1750); InterPro: IPR013859 This is a fungal protein of unknown function.
Probab=20.83 E-value=1.4e+02 Score=31.15 Aligned_cols=36 Identities=22% Similarity=0.351 Sum_probs=22.8
Q ss_pred HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCC
Q 026297 200 ADEL-LQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 238 (240)
Q Consensus 200 ~~el-~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~~ 238 (240)
++|+ +|..+-...+++||+++|++-. +.++++|..|
T Consensus 362 aeeF~kRV~~~ia~~~AEIekmK~~Ha---k~m~k~k~~s 398 (669)
T PF08549_consen 362 AEEFRKRVAKKIADMNAEIEKMKARHA---KRMAKFKRNS 398 (669)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhhcc
Confidence 4554 5666666777788888876543 3456666554
No 125
>PF13300 DUF4078: Domain of unknown function (DUF4078)
Probab=20.79 E-value=3.1e+02 Score=21.30 Aligned_cols=35 Identities=14% Similarity=0.190 Sum_probs=23.0
Q ss_pred hcCccH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 194 FMNFSE--ADELLQLAAARQQVQAHIAKLKRQISLID 228 (240)
Q Consensus 194 f~~~~e--~~el~~l~~a~~~V~~~i~~lk~~l~~~e 228 (240)
||...+ +.+++.|..++......-++.......-+
T Consensus 38 FS~Dee~R~~qme~L~~~R~eTe~~R~~re~~k~~R~ 74 (88)
T PF13300_consen 38 FSKDEEERQEQMEELEELRKETEEQRKKREELKEKRE 74 (88)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 665554 78888898888877776665554443333
No 126
>PRK14162 heat shock protein GrpE; Provisional
Probab=20.79 E-value=3e+02 Score=24.29 Aligned_cols=31 Identities=10% Similarity=0.105 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQ 230 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~ 230 (240)
..++..|..-....+++++++++++.-+..+
T Consensus 38 ~~e~~~l~~~l~~l~~e~~elkd~~lR~~AE 68 (194)
T PRK14162 38 QNPVEDLEKEIADLKAKNKDLEDKYLRSQAE 68 (194)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444445444455555555555555444433
No 127
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=20.76 E-value=2.1e+02 Score=27.67 Aligned_cols=38 Identities=18% Similarity=0.271 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCC
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 238 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k~~~ 238 (240)
.+++.|..-...+..++..+++++..++.++.+|+..+
T Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 (398)
T PTZ00454 29 KELEFLDIQEEYIKEEQKNLKRELIRAKEEVKRIQSVP 66 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 56677777777788888888888888888888887654
No 128
>PF12210 Hrs_helical: Hepatocyte growth factor-regulated tyrosine kinase substrate; InterPro: IPR024641 This domain comprises the helical region of hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). It is approximately 100 amino acids in length. Hrs, together with signal transducing adaptor molecule (STAM), forms the ESCRT-0 complex, which sorts ubiquitinated cell surface receptors to lysosomes for degradation []. ; PDB: 3F1I_H.
Probab=20.68 E-value=2.5e+02 Score=22.32 Aligned_cols=28 Identities=21% Similarity=0.281 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLI 227 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~ 227 (240)
++-|..|.+||+.+++.-++.+.+|...
T Consensus 66 QdkL~qi~eAR~AlDalR~eH~~klrr~ 93 (96)
T PF12210_consen 66 QDKLAQIKEARAALDALREEHREKLRRQ 93 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6778888889888888888888877743
No 129
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=20.62 E-value=1.1e+02 Score=22.84 Aligned_cols=24 Identities=13% Similarity=0.340 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHhhhhhccc
Q 026297 213 VQAHIAKLKRQISLIDGQQQQLRS 236 (240)
Q Consensus 213 V~~~i~~lk~~l~~~e~~~~~~k~ 236 (240)
..+.+.+++++|..||.+++.|..
T Consensus 55 q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 55 QKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 456788889999999999888753
No 130
>COG2960 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.61 E-value=2.9e+02 Score=22.25 Aligned_cols=43 Identities=12% Similarity=0.162 Sum_probs=31.0
Q ss_pred cchhhcCccH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 026297 190 LAQWFMNFSE--ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQ 232 (240)
Q Consensus 190 ~~~~f~~~~e--~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~ 232 (240)
++.||++-+- .+|.+-....-.+.+++.+.|..++.+||..+.
T Consensus 46 ~q~~lnkLDlVsREEFdvq~qvl~rtR~kl~~Leari~~LEarl~ 90 (103)
T COG2960 46 LQRQLNKLDLVSREEFDVQRQVLLRTREKLAALEARIEELEARLA 90 (103)
T ss_pred HHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3455666553 677776666666678888888888888888876
No 131
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=20.61 E-value=2e+02 Score=26.27 Aligned_cols=35 Identities=23% Similarity=0.383 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 026297 200 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 234 (240)
Q Consensus 200 ~~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~ 234 (240)
+.|+.++..+...++.++++++++.+.++.+++.+
T Consensus 37 ~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~ 71 (239)
T COG1579 37 KAELEALNKALEALEIELEDLENQVSQLESEIQEI 71 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677777777777777788877777777766544
No 132
>PF05873 Mt_ATP-synt_D: ATP synthase D chain, mitochondrial (ATP5H); InterPro: IPR008689 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit D from the F0 complex in F-ATPases found in mitochondria. The D subunit is part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit D in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2CLY_E 2WSS_U.
Probab=20.45 E-value=1.5e+02 Score=25.13 Aligned_cols=27 Identities=15% Similarity=0.326 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026297 203 LLQLAAARQQVQAHIAKLKRQISLIDG 229 (240)
Q Consensus 203 l~~l~~a~~~V~~~i~~lk~~l~~~e~ 229 (240)
+.++++..+.++++|++|+++|+.++.
T Consensus 98 ~~~~~~~~~~s~~~i~~l~keL~~i~~ 124 (161)
T PF05873_consen 98 IKEAKEFEAESKKRIAELEKELANIES 124 (161)
T ss_dssp HHCHHHHHHHHHHHHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 344555566666666666666666554
No 133
>PF15205 PLAC9: Placenta-specific protein 9
Probab=20.19 E-value=2.4e+02 Score=21.31 Aligned_cols=35 Identities=14% Similarity=0.217 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 235 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~~~~k 235 (240)
+--.||+...++|.+-.+-|..+++.+-++++++-
T Consensus 22 av~~RLdviEe~veKTVEhLeaEvk~LLg~leela 56 (74)
T PF15205_consen 22 AVHSRLDVIEETVEKTVEHLEAEVKGLLGLLEELA 56 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34468999999999999999999999999888764
No 134
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=20.12 E-value=1.8e+02 Score=26.62 Aligned_cols=31 Identities=13% Similarity=0.137 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 026297 201 DELLQLAAARQQVQAHIAKLKRQISLIDGQQ 231 (240)
Q Consensus 201 ~el~~l~~a~~~V~~~i~~lk~~l~~~e~~~ 231 (240)
.+++.|.+--.+-+..|.+|.++|+..|..|
T Consensus 74 ~~m~~Lea~VEkrD~~IQqLqk~LK~aE~iL 104 (272)
T KOG4552|consen 74 QLMRTLEAHVEKRDEVIQQLQKNLKSAEVIL 104 (272)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 3456666666677788999999999988654
Done!